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October 18, 2019 05:41
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| $ sudo fmriprep-docker -i poldracklab/fmriprep:latest -u 12218:12218 -w /louis/temp-151rc1 /louis/raw_bids /louis/derivatives-151rc1 participant --fs-license-file=/usr/local/freesurfer/license.txt --ignore slicetiming --output-spaces MNI152NLin2009cAsym:res-2 T1w fsaverage5 --participant-label 12345 | |
| [sudo] password for louis: | |
| RUNNING: docker run --rm -it -e DOCKER_VERSION_8395080871=18.09.7 -u 12218:12218 -v /usr/local/freesurfer/license.txt:/opt/freesurfer/license.txt:ro -v /louis/raw_bids:/data:ro -v /louis/derivatives-151rc1:/out -v /louis/temp-151rc1:/scratch poldracklab/fmriprep:latest /data /out participant --ignore slicetiming --output-spaces MNI152NLin2009cAsym:res-2 T1w fsaverage5 --participant-label 12345 -w /scratch | |
| Making sure the input data is BIDS compliant (warnings can be ignored in most cases). | |
| 1: [WARN] The recommended file /README is missing. See Section 03 (Modality agnostic files) of the BIDS specification. (code: 101 - README_FILE_MISSING) | |
| Please visit https://neurostars.org/search?q=README_FILE_MISSING for existing conversations about this issue. | |
| Summary: Available Tasks: Available Modalities: | |
| 24 Files, 1.48GB reapp T1w | |
| 1 - Subject pass bold | |
| 1 - Session rest fieldmap | |
| If you have any questions, please post on https://neurostars.org/tags/bids. | |
| 191017-04:27:32,935 nipype.workflow IMPORTANT: | |
| Running fMRIPREP version 1.5.1rc1: | |
| * BIDS dataset path: /data. | |
| * Participant list: ['ochsAging2337']. | |
| * Run identifier: 20191017-042732_133eb3b2-6fb4-4d58-bf80-12bc29af847b. | |
| 191017-04:27:33,443 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:27:38,517 nipype.workflow IMPORTANT: | |
| Creating bold processing workflow for "/data/12345/func/12345_task-pass_run-01_bold.nii.gz" (0.15 GB / 176 TRs). Memory resampled/largemem=0.60/0.86 GB. | |
| 191017-04:27:38,531 nipype.workflow IMPORTANT: | |
| No single-band-reference found for 12345_task-pass_run-01_bold.nii.gz | |
| 191017-04:27:40,58 nipype.workflow IMPORTANT: | |
| SDC: fieldmap estimation of type "epi" intended for /data/12345/func/12345_task-pass_run-01_bold.nii.gz found. | |
| 191017-04:27:41,580 nipype.workflow IMPORTANT: | |
| Creating BOLD surface-sampling workflow. | |
| 191017-04:27:45,454 nipype.workflow IMPORTANT: | |
| Creating bold processing workflow for "/data/12345/func/12345_task-pass_run-02_bold.nii.gz" (0.15 GB / 176 TRs). Memory resampled/largemem=0.59/0.86 GB. | |
| 191017-04:27:45,468 nipype.workflow IMPORTANT: | |
| No single-band-reference found for 12345_task-pass_run-02_bold.nii.gz | |
| 191017-04:27:46,771 nipype.workflow IMPORTANT: | |
| SDC: fieldmap estimation of type "epi" intended for /data/12345/func/12345_task-pass_run-02_bold.nii.gz found. | |
| 191017-04:27:48,261 nipype.workflow IMPORTANT: | |
| Creating BOLD surface-sampling workflow. | |
| 191017-04:27:52,101 nipype.workflow IMPORTANT: | |
| Creating bold processing workflow for "/data/12345/func/12345_task-reapp_run-01_bold.nii.gz" (0.17 GB / 196 TRs). Memory resampled/largemem=0.67/1.00 GB. | |
| 191017-04:27:52,114 nipype.workflow IMPORTANT: | |
| No single-band-reference found for 12345_task-reapp_run-01_bold.nii.gz | |
| 191017-04:27:53,549 nipype.workflow IMPORTANT: | |
| SDC: fieldmap estimation of type "epi" intended for /data/12345/func/12345_task-reapp_run-01_bold.nii.gz found. | |
| 191017-04:27:55,43 nipype.workflow IMPORTANT: | |
| Creating BOLD surface-sampling workflow. | |
| 191017-04:27:58,765 nipype.workflow IMPORTANT: | |
| Creating bold processing workflow for "/data/12345/func/12345_task-reapp_run-02_bold.nii.gz" (0.17 GB / 196 TRs). Memory resampled/largemem=0.67/1.00 GB. | |
| 191017-04:27:58,778 nipype.workflow IMPORTANT: | |
| No single-band-reference found for 12345_task-reapp_run-02_bold.nii.gz | |
| 191017-04:28:00,243 nipype.workflow IMPORTANT: | |
| SDC: fieldmap estimation of type "epi" intended for /data/12345/func/12345_task-reapp_run-02_bold.nii.gz found. | |
| 191017-04:28:01,733 nipype.workflow IMPORTANT: | |
| Creating BOLD surface-sampling workflow. | |
| 191017-04:28:05,489 nipype.workflow IMPORTANT: | |
| Creating bold processing workflow for "/data/12345/func/12345_task-reapp_run-03_bold.nii.gz" (0.17 GB / 196 TRs). Memory resampled/largemem=0.67/1.00 GB. | |
| 191017-04:28:05,503 nipype.workflow IMPORTANT: | |
| No single-band-reference found for 12345_task-reapp_run-03_bold.nii.gz | |
| 191017-04:28:06,807 nipype.workflow IMPORTANT: | |
| SDC: fieldmap estimation of type "epi" intended for /data/12345/func/12345_task-reapp_run-03_bold.nii.gz found. | |
| 191017-04:28:08,515 nipype.workflow IMPORTANT: | |
| Creating BOLD surface-sampling workflow. | |
| 191017-04:28:12,303 nipype.workflow IMPORTANT: | |
| Creating bold processing workflow for "/data/12345/func/12345_task-reapp_run-04_bold.nii.gz" (0.17 GB / 196 TRs). Memory resampled/largemem=0.67/0.99 GB. | |
| 191017-04:28:12,316 nipype.workflow IMPORTANT: | |
| No single-band-reference found for 12345_task-reapp_run-04_bold.nii.gz | |
| 191017-04:28:13,611 nipype.workflow IMPORTANT: | |
| SDC: fieldmap estimation of type "epi" intended for /data/12345/func/12345_task-reapp_run-04_bold.nii.gz found. | |
| 191017-04:28:15,113 nipype.workflow IMPORTANT: | |
| Creating BOLD surface-sampling workflow. | |
| 191017-04:28:18,927 nipype.workflow IMPORTANT: | |
| Creating bold processing workflow for "/data/12345/func/12345_task-reapp_run-05_bold.nii.gz" (0.17 GB / 196 TRs). Memory resampled/largemem=0.67/0.99 GB. | |
| 191017-04:28:18,940 nipype.workflow IMPORTANT: | |
| No single-band-reference found for 12345_task-reapp_run-05_bold.nii.gz | |
| 191017-04:28:20,233 nipype.workflow IMPORTANT: | |
| SDC: fieldmap estimation of type "epi" intended for /data/12345/func/12345_task-reapp_run-05_bold.nii.gz found. | |
| 191017-04:28:22,0 nipype.workflow IMPORTANT: | |
| Creating BOLD surface-sampling workflow. | |
| 191017-04:28:25,847 nipype.workflow IMPORTANT: | |
| Creating bold processing workflow for "/data/12345/func/12345_task-reapp_run-06_bold.nii.gz" (0.17 GB / 196 TRs). Memory resampled/largemem=0.66/0.99 GB. | |
| 191017-04:28:25,860 nipype.workflow IMPORTANT: | |
| No single-band-reference found for 12345_task-reapp_run-06_bold.nii.gz | |
| 191017-04:28:27,176 nipype.workflow IMPORTANT: | |
| SDC: fieldmap estimation of type "epi" intended for /data/12345/func/12345_task-reapp_run-06_bold.nii.gz found. | |
| 191017-04:28:28,663 nipype.workflow IMPORTANT: | |
| Creating BOLD surface-sampling workflow. | |
| 191017-04:28:32,537 nipype.workflow IMPORTANT: | |
| Creating bold processing workflow for "/data/12345/func/12345_task-rest_run-01_bold.nii.gz" (0.16 GB / 285 TRs). Memory resampled/largemem=0.64/1.09 GB. | |
| 191017-04:28:32,550 nipype.workflow IMPORTANT: | |
| No single-band-reference found for 12345_task-rest_run-01_bold.nii.gz | |
| 191017-04:28:33,844 nipype.workflow IMPORTANT: | |
| SDC: fieldmap estimation of type "epi" intended for /data/12345/func/12345_task-rest_run-01_bold.nii.gz found. | |
| 191017-04:28:35,333 nipype.workflow IMPORTANT: | |
| Creating BOLD surface-sampling workflow. | |
| 191017-04:28:46,639 nipype.workflow IMPORTANT: | |
| Works derived from this fMRIPrep execution should include the following boilerplate: | |
| Results included in this manuscript come from preprocessing | |
| performed using *fMRIPrep* 1.5.1rc1 | |
| (@fmriprep1; @fmriprep2; RRID:SCR_016216), | |
| which is based on *Nipype* 1.3.0-rc1 | |
| (@nipype1; @nipype2; RRID:SCR_002502). | |
| Anatomical data preprocessing | |
| : The T1-weighted (T1w) image was corrected for intensity non-uniformity (INU) | |
| with `N4BiasFieldCorrection` [@n4], distributed with ANTs 2.2.0 [@ants, RRID:SCR_004757], and used as T1w-reference throughout the workflow. | |
| The T1w-reference was then skull-stripped with a *Nipype* implementation of | |
| the `antsBrainExtraction.sh` workflow (from ANTs), using OASIS30ANTs | |
| as target template. | |
| Brain tissue segmentation of cerebrospinal fluid (CSF), | |
| white-matter (WM) and gray-matter (GM) was performed on | |
| the brain-extracted T1w using `fast` [FSL 5.0.9, RRID:SCR_002823, | |
| @fsl_fast]. | |
| Brain surfaces were reconstructed using `recon-all` [FreeSurfer 6.0.1, | |
| RRID:SCR_001847, @fs_reconall], and the brain mask estimated | |
| previously was refined with a custom variation of the method to reconcile | |
| ANTs-derived and FreeSurfer-derived segmentations of the cortical | |
| gray-matter of Mindboggle [RRID:SCR_002438, @mindboggle]. | |
| Volume-based spatial normalization to one standard space (MNI152NLin2009cAsym) was performed through | |
| nonlinear registration with `antsRegistration` (ANTs 2.2.0), | |
| using brain-extracted versions of both T1w reference and the T1w template. | |
| The following template was selected for spatial normalization: | |
| *ICBM 152 Nonlinear Asymmetrical template version 2009c* [@mni152nlin2009casym, RRID:SCR_008796; TemplateFlow ID: MNI152NLin2009cAsym]. | |
| Functional data preprocessing | |
| : For each of the 9 BOLD runs found per subject (across all | |
| tasks and sessions), the following preprocessing was performed. | |
| First, a reference volume and its skull-stripped version were generated | |
| using a custom methodology of *fMRIPrep*. | |
| A deformation field to correct for susceptibility distortions was estimated | |
| based on two echo-planar imaging (EPI) references with opposing phase-encoding | |
| directions, using `3dQwarp` @afni (AFNI 20160207). | |
| Based on the estimated susceptibility distortion, an | |
| unwarped BOLD reference was calculated for a more accurate | |
| co-registration with the anatomical reference. | |
| The BOLD reference was then co-registered to the T1w reference using | |
| `bbregister` (FreeSurfer) which implements boundary-based registration [@bbr]. | |
| Co-registration was configured with six degrees of freedom. | |
| Head-motion parameters with respect to the BOLD reference | |
| (transformation matrices, and six corresponding rotation and translation | |
| parameters) are estimated before any spatiotemporal filtering using | |
| `mcflirt` [FSL 5.0.9, @mcflirt]. | |
| The BOLD time-series, were resampled to surfaces on the following | |
| spaces: *fsaverage5*. | |
| The BOLD time-series (including slice-timing correction when applied) | |
| were resampled onto their original, native space by applying | |
| a single, composite transform to correct for head-motion and | |
| susceptibility distortions. | |
| These resampled BOLD time-series will be referred to as *preprocessed | |
| BOLD in original space*, or just *preprocessed BOLD*. | |
| The BOLD time-series were resampled into standard space, | |
| generating a *preprocessed BOLD run in ['MNI152NLin2009cAsym'] space*. | |
| First, a reference volume and its skull-stripped version were generated | |
| using a custom methodology of *fMRIPrep*. | |
| Several confounding time-series were calculated based on the | |
| *preprocessed BOLD*: framewise displacement (FD), DVARS and | |
| three region-wise global signals. | |
| FD and DVARS are calculated for each functional run, both using their | |
| implementations in *Nipype* [following the definitions by @power_fd_dvars]. | |
| The three global signals are extracted within the CSF, the WM, and | |
| the whole-brain masks. | |
| Additionally, a set of physiological regressors were extracted to | |
| allow for component-based noise correction [*CompCor*, @compcor]. | |
| Principal components are estimated after high-pass filtering the | |
| *preprocessed BOLD* time-series (using a discrete cosine filter with | |
| 128s cut-off) for the two *CompCor* variants: temporal (tCompCor) | |
| and anatomical (aCompCor). | |
| tCompCor components are then calculated from the top 5% variable | |
| voxels within a mask covering the subcortical regions. | |
| This subcortical mask is obtained by heavily eroding the brain mask, | |
| which ensures it does not include cortical GM regions. | |
| For aCompCor, components are calculated within the intersection of | |
| the aforementioned mask and the union of CSF and WM masks calculated | |
| in T1w space, after their projection to the native space of each | |
| functional run (using the inverse BOLD-to-T1w transformation). Components | |
| are also calculated separately within the WM and CSF masks. | |
| For each CompCor decomposition, the *k* components with the largest singular | |
| values are retained, such that the retained components' time series are | |
| sufficient to explain 50 percent of variance across the nuisance mask (CSF, | |
| WM, combined, or temporal). The remaining components are dropped from | |
| consideration. | |
| The head-motion estimates calculated in the correction step were also | |
| placed within the corresponding confounds file. | |
| The confound time series derived from head motion estimates and global | |
| signals were expanded with the inclusion of temporal derivatives and | |
| quadratic terms for each [@confounds_satterthwaite_2013]. | |
| Frames that exceeded a threshold of 0.5 mm FD or 1.5 standardised DVARS | |
| were annotated as motion outliers. | |
| All resamplings can be performed with *a single interpolation | |
| step* by composing all the pertinent transformations (i.e. head-motion | |
| transform matrices, susceptibility distortion correction when available, | |
| and co-registrations to anatomical and output spaces). | |
| Gridded (volumetric) resamplings were performed using `antsApplyTransforms` (ANTs), | |
| configured with Lanczos interpolation to minimize the smoothing | |
| effects of other kernels [@lanczos]. | |
| Non-gridded (surface) resamplings were performed using `mri_vol2surf` | |
| (FreeSurfer). | |
| Many internal operations of *fMRIPrep* use | |
| *Nilearn* 0.5.2 [@nilearn, RRID:SCR_001362], | |
| mostly within the functional processing workflow. | |
| For more details of the pipeline, see [the section corresponding | |
| to workflows in *fMRIPrep*'s documentation](https://fmriprep.readthedocs.io/en/latest/workflows.html "FMRIPrep's documentation"). | |
| ### Copyright Waiver | |
| The above boilerplate text was automatically generated by fMRIPrep | |
| with the express intention that users should copy and paste this | |
| text into their manuscripts *unchanged*. | |
| It is released under the [CC0](https://creativecommons.org/publicdomain/zero/1.0/) license. | |
| ### References | |
| 191017-04:30:19,580 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.func_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/func_derivatives_wf/raw_sources". | |
| 191017-04:30:19,584 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-04:30:19,593 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.func_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/func_derivatives_wf/raw_sources". | |
| 191017-04:30:19,593 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.func_derivatives_wf.raw_sources". | |
| 191017-04:30:19,596 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-04:30:19,604 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.func_derivatives_wf.raw_sources". | |
| 191017-04:30:19,633 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.func_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/func_derivatives_wf/raw_sources". | |
| 191017-04:30:19,638 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-04:30:19,647 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.func_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/func_derivatives_wf/raw_sources". | |
| 191017-04:30:19,647 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.func_derivatives_wf.raw_sources". | |
| 191017-04:30:19,651 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-04:30:19,660 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.func_derivatives_wf.raw_sources". | |
| 191017-04:30:19,677 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.func_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/func_derivatives_wf/raw_sources". | |
| 191017-04:30:19,681 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-04:30:19,691 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.func_derivatives_wf.raw_sources". | |
| 191017-04:30:19,691 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.func_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/func_derivatives_wf/raw_sources". | |
| 191017-04:30:19,694 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.func_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/func_derivatives_wf/raw_sources". | |
| 191017-04:30:19,695 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-04:30:19,698 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-04:30:19,704 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.func_derivatives_wf.raw_sources". | |
| 191017-04:30:19,706 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.func_derivatives_wf.raw_sources". | |
| 191017-04:30:19,709 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.func_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/func_derivatives_wf/raw_sources". | |
| 191017-04:30:19,713 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-04:30:19,717 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.func_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/func_derivatives_wf/raw_sources". | |
| 191017-04:30:19,720 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-04:30:19,722 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.func_derivatives_wf.raw_sources". | |
| 191017-04:30:19,726 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.func_derivatives_wf.raw_sources". | |
| 191017-04:30:19,778 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split". | |
| 191017-04:30:19,783 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0". | |
| 191017-04:30:19,785 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-AP_epi.nii.gz -t | |
| 191017-04:30:19,810 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split". | |
| 191017-04:30:19,816 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0". | |
| 191017-04:30:19,818 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-PA_epi.nii.gz -t | |
| 191017-04:30:19,851 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split".191017-04:30:19,851 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split". | |
| 191017-04:30:19,852 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split". | |
| 191017-04:30:19,857 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split". | |
| 191017-04:30:19,860 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0".191017-04:30:19,860 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0". | |
| 191017-04:30:19,860 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0". | |
| 191017-04:30:19,863 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0". | |
| 191017-04:30:19,863 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-AP_epi.nii.gz -t191017-04:30:19,863 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-PA_epi.nii.gz -t191017-04:30:19,863 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-PA_epi.nii.gz -t | |
| 191017-04:30:19,865 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-PA_epi.nii.gz -t | |
| 191017-04:30:19,888 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split". | |
| 191017-04:30:19,893 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split". | |
| 191017-04:30:19,896 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0". | |
| 191017-04:30:19,900 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-PA_epi.nii.gz -t | |
| 191017-04:30:19,901 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0". | |
| 191017-04:30:19,905 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-AP_epi.nii.gz -t | |
| 191017-04:30:19,905 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split". | |
| 191017-04:30:19,911 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split". | |
| 191017-04:30:19,911 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0". | |
| 191017-04:30:19,914 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-AP_epi.nii.gz -t | |
| 191017-04:30:19,916 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split". | |
| 191017-04:30:19,919 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0". | |
| 191017-04:30:19,923 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-AP_epi.nii.gz -t | |
| 191017-04:30:19,924 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0". | |
| 191017-04:30:19,925 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split". | |
| 191017-04:30:19,927 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split". | |
| 191017-04:30:19,928 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-AP_epi.nii.gz -t | |
| 191017-04:30:19,932 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0". | |
| 191017-04:30:19,935 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-PA_epi.nii.gz -t | |
| 191017-04:30:19,935 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0". | |
| 191017-04:30:19,939 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-PA_epi.nii.gz -t | |
| 191017-04:30:19,947 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split". | |
| 191017-04:30:19,950 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split". | |
| 191017-04:30:19,956 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0". | |
| 191017-04:30:19,959 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0". | |
| 191017-04:30:19,960 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-PA_epi.nii.gz -t | |
| 191017-04:30:19,963 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-AP_epi.nii.gz -t | |
| 191017-04:30:19,963 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split". | |
| 191017-04:30:19,963 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split". | |
| 191017-04:30:19,970 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0". | |
| 191017-04:30:19,971 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0". | |
| 191017-04:30:19,973 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-PA_epi.nii.gz -t | |
| 191017-04:30:19,975 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-AP_epi.nii.gz -t | |
| 191017-04:30:19,976 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split". | |
| 191017-04:30:19,981 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0". | |
| 191017-04:30:19,984 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-AP_epi.nii.gz -t | |
| 191017-04:30:21,990 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191017-04:30:21,992 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split". | |
| 191017-04:30:22,150 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191017-04:30:22,150 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191017-04:30:22,152 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split". | |
| 191017-04:30:22,152 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split". | |
| 191017-04:30:22,168 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191017-04:30:22,170 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split". | |
| 191017-04:30:22,201 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191017-04:30:22,203 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split". | |
| 191017-04:30:22,221 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191017-04:30:22,223 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split". | |
| 191017-04:30:22,344 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191017-04:30:22,347 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split". | |
| 191017-04:30:22,412 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191017-04:30:22,415 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split". | |
| 191017-04:30:22,437 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191017-04:30:22,440 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split". | |
| 191017-04:30:22,452 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191017-04:30:22,453 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split". | |
| 191017-04:30:22,465 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191017-04:30:22,468 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split". | |
| 191017-04:30:22,499 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191017-04:30:22,501 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split". | |
| 191017-04:30:22,518 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191017-04:30:22,521 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split". | |
| 191017-04:30:22,555 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191017-04:30:22,558 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split". | |
| 191017-04:30:22,740 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191017-04:30:22,742 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split". | |
| 191017-04:30:22,768 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191017-04:30:22,770 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191017-04:30:22,770 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191017-04:30:22,771 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split". | |
| 191017-04:30:22,772 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split". | |
| 191017-04:30:22,773 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split". | |
| 191017-04:30:23,57 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.lap_tmpl" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/lap_tmpl". | |
| 191017-04:30:23,60 nipype.workflow INFO: | |
| [Node] Running "lap_tmpl" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: | |
| ImageMath 3 tpl-OASIS30ANTs_res-01_T1w_maths.nii.gz Laplacian /home/fmriprep/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz 1.5 1 | |
| 191017-04:30:23,124 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/validate". | |
| 191017-04:30:23,127 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191017-04:30:23,235 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/validate". | |
| 191017-04:30:23,237 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191017-04:30:23,258 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:30:23,586 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/validate". | |
| 191017-04:30:23,590 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191017-04:30:23,685 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.validate". | |
| 191017-04:30:23,700 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/validate". | |
| 191017-04:30:23,701 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/validate". | |
| 191017-04:30:23,703 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191017-04:30:23,704 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191017-04:30:23,729 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/validate". | |
| 191017-04:30:23,732 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191017-04:30:23,772 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.res_tmpl" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/res_tmpl". | |
| 191017-04:30:23,775 nipype.workflow INFO: | |
| [Node] Running "res_tmpl" ("niworkflows.interfaces.ants.ResampleImageBySpacing"), a CommandLine Interface with command: | |
| ResampleImageBySpacing 3 /home/fmriprep/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz tpl-OASIS30ANTs_res-01_T1w_resampled.nii.gz 4 4 4 1 | |
| 191017-04:30:23,820 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/validate". | |
| 191017-04:30:23,823 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191017-04:30:23,983 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:30:23,991 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/validate". | |
| 191017-04:30:23,995 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191017-04:30:24,144 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/validate". | |
| 191017-04:30:24,148 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191017-04:30:24,572 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.bidssrc" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/bidssrc". | |
| 191017-04:30:24,575 nipype.workflow INFO: | |
| [Node] Running "bidssrc" ("niworkflows.interfaces.bids.BIDSDataGrabber") | |
| 191017-04:30:24,577 nipype.interface WARNING: | |
| No "t2w" images found for sub-<undefined> | |
| 191017-04:30:24,577 nipype.interface WARNING: | |
| No "flair" images found for sub-<undefined> | |
| 191017-04:30:24,577 nipype.interface WARNING: | |
| No "sbref" images found for sub-<undefined> | |
| 191017-04:30:24,577 nipype.interface WARNING: | |
| No "roi" images found for sub-<undefined> | |
| 191017-04:30:24,582 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.bidssrc". | |
| 191017-04:30:25,901 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_split". | |
| 191017-04:30:26,942 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.res_tmpl". | |
| 191017-04:30:27,248 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge". | |
| 191017-04:30:27,278 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191017-04:30:27,496 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge". | |
| 191017-04:30:27,504 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191017-04:30:27,772 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge". | |
| 191017-04:30:27,780 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191017-04:30:27,780 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge". | |
| 191017-04:30:27,788 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191017-04:30:28,4 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge". | |
| 191017-04:30:28,12 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191017-04:30:28,275 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge". | |
| 191017-04:30:28,283 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191017-04:30:28,284 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge". | |
| 191017-04:30:28,292 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191017-04:30:28,480 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge". | |
| 191017-04:30:28,485 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge". | |
| 191017-04:30:28,488 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191017-04:30:28,490 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191017-04:30:28,646 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge". | |
| 191017-04:30:28,654 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191017-04:30:28,664 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge". | |
| 191017-04:30:28,670 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge". | |
| 191017-04:30:28,671 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191017-04:30:28,678 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191017-04:30:28,831 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge". | |
| 191017-04:30:28,839 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191017-04:30:28,841 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge". | |
| 191017-04:30:28,844 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge". | |
| 191017-04:30:28,846 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge". | |
| 191017-04:30:28,848 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191017-04:30:28,851 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191017-04:30:28,855 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191017-04:30:29,15 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge". | |
| 191017-04:30:29,24 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191017-04:30:29,610 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge". | |
| 191017-04:30:29,618 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191017-04:30:30,122 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/gen_ref". | |
| 191017-04:30:30,134 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191017-04:30:30,380 nipype.workflow INFO: | |
| [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/func/12345_task-rest_run-01_bold.nii.gz -t | |
| 191017-04:30:30,719 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_template_wf.t1_template_dimensions" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/anat_template_wf/t1_template_dimensions". | |
| 191017-04:30:31,65 nipype.workflow INFO: | |
| [Node] Running "t1_template_dimensions" ("niworkflows.interfaces.images.TemplateDimensions") | |
| 191017-04:30:31,225 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.gen_ref". | |
| 191017-04:30:31,581 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_template_wf.t1_template_dimensions". | |
| 191017-04:30:31,705 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.bids_info" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/bids_info". | |
| 191017-04:30:31,710 nipype.workflow INFO: | |
| [Node] Running "bids_info" ("niworkflows.interfaces.bids.BIDSInfo") | |
| 191017-04:30:31,848 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_hmc_wf.mcflirt" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_hmc_wf/mcflirt". | |
| 191017-04:30:32,366 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.bids_info". | |
| 191017-04:30:35,224 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.validate". | |
| 191017-04:30:35,252 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/anat_derivatives_wf/raw_sources". | |
| 191017-04:30:35,253 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_derivatives_wf.t1_name" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/anat_derivatives_wf/t1_name". | |
| 191017-04:30:36,5 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_split". | |
| 191017-04:30:36,191 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.lap_tmpl". | |
| 191017-04:30:36,217 nipype.workflow INFO: | |
| [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: | |
| mcflirt -in /data/12345/func/12345_task-rest_run-01_bold.nii.gz -out /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_hmc_wf/mcflirt/12345_task-rest_run-01_bold_mcf.nii.gz -reffile /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots | |
| 191017-04:30:36,588 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:30:36,596 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:30:36,834 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.validate". | |
| 191017-04:30:36,993 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:30:37,232 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.validate". | |
| 191017-04:30:37,655 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.validate". | |
| 191017-04:30:38,22 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.validate". | |
| 191017-04:30:38,33 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_split". | |
| 191017-04:30:38,73 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.validate". | |
| 191017-04:30:38,90 nipype.workflow INFO: | |
| [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/validate/12345_task-pass_run-01_bold_valid.nii.gz -t | |
| 191017-04:30:38,690 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.validate". | |
| 191017-04:30:38,706 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/gen_ref". | |
| 191017-04:30:38,728 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191017-04:30:39,367 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/gen_ref". | |
| 191017-04:30:39,388 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191017-04:30:39,741 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-04:30:39,746 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_derivatives_wf.raw_sources". | |
| 191017-04:30:39,750 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_template_wf.t1_conform" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/anat_template_wf/t1_conform". | |
| 191017-04:30:39,756 nipype.workflow INFO: | |
| [Node] Setting-up "_t1_conform0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/anat_template_wf/t1_conform/mapflow/_t1_conform0". | |
| 191017-04:30:39,759 nipype.workflow INFO: | |
| [Node] Running "_t1_conform0" ("niworkflows.interfaces.images.Conform") | |
| 191017-04:30:39,767 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.validate". | |
| 191017-04:30:39,952 nipype.workflow INFO: | |
| [Node] Finished "_t1_conform0". | |
| 191017-04:30:39,954 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_template_wf.t1_conform". | |
| 191017-04:30:40,49 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_split". | |
| 191017-04:30:40,105 nipype.workflow INFO: | |
| [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/validate/12345_task-reapp_run-02_bold_valid.nii.gz -t | |
| 191017-04:30:40,196 nipype.workflow INFO: | |
| [Node] Running "t1_name" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-04:30:40,202 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_derivatives_wf.t1_name". | |
| 191017-04:30:40,710 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/gen_ref". | |
| 191017-04:30:40,713 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_split".191017-04:30:40,714 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191017-04:30:40,733 nipype.workflow INFO: | |
| [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/validate/12345_task-reapp_run-03_bold_valid.nii.gz -t | |
| 191017-04:30:40,793 nipype.workflow INFO: | |
| [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/validate/12345_task-pass_run-02_bold_valid.nii.gz -t | |
| 191017-04:30:41,423 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/gen_ref". | |
| 191017-04:30:41,428 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191017-04:30:42,121 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:30:42,168 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_split". | |
| 191017-04:30:42,190 nipype.workflow INFO: | |
| [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/validate/12345_task-reapp_run-01_bold_valid.nii.gz -t | |
| 191017-04:30:42,214 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.214614:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191017-04:30:42,215 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.214614:++ Authored by: RW Cox | |
| 191017-04:30:42,215 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.215927:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191017-04:30:42,216 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.215927: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191017-04:30:42,216 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.215927: or viewing/combining it with volumes of differing obliquity, | |
| 191017-04:30:42,216 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.215927: you should consider running: | |
| 191017-04:30:42,216 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.215927: 3dWarp -deoblique | |
| 191017-04:30:42,216 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.215927: on this and other oblique datasets in the same session. | |
| 191017-04:30:42,216 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.215927: See 3dWarp -help for details. | |
| 191017-04:30:42,216 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.216792:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191017-04:30:42,217 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.217028:++ Coarse del was 10, replaced with 7 | |
| 191017-04:30:42,489 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.gen_ref". | |
| 191017-04:30:42,631 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.631515:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191017-04:30:42,632 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.631515:++ Authored by: RW Cox | |
| 191017-04:30:42,633 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.633242:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191017-04:30:42,633 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.633242: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191017-04:30:42,634 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.633242: or viewing/combining it with volumes of differing obliquity, | |
| 191017-04:30:42,634 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.633242: you should consider running: | |
| 191017-04:30:42,634 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.633242: 3dWarp -deoblique | |
| 191017-04:30:42,634 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.633242: on this and other oblique datasets in the same session. | |
| 191017-04:30:42,634 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.633242: See 3dWarp -help for details. | |
| 191017-04:30:42,634 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.633242:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191017-04:30:42,634 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:42.633242:++ Coarse del was 10, replaced with 7 | |
| 191017-04:30:42,833 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/gen_ref". | |
| 191017-04:30:42,834 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_split". | |
| 191017-04:30:42,847 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191017-04:30:42,850 nipype.workflow INFO: | |
| [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/validate/12345_task-reapp_run-04_bold_valid.nii.gz -t | |
| 191017-04:30:43,511 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/gen_ref". | |
| 191017-04:30:43,519 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191017-04:30:44,213 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_hmc_wf.mcflirt" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_hmc_wf/mcflirt". | |
| 191017-04:30:44,222 nipype.workflow INFO: | |
| [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: | |
| mcflirt -in /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/validate/12345_task-reapp_run-02_bold_valid.nii.gz -out /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_hmc_wf/mcflirt/12345_task-reapp_run-02_bold_valid_mcf.nii.gz -reffile /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots | |
| 191017-04:30:44,876 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:30:45,7 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:30:45,77 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:45.077164:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191017-04:30:45,77 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:45.077164:++ Authored by: RW Cox | |
| 191017-04:30:45,78 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:45.078165:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191017-04:30:45,78 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:45.078165: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191017-04:30:45,78 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:45.078165: or viewing/combining it with volumes of differing obliquity, | |
| 191017-04:30:45,78 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:45.078165: you should consider running: | |
| 191017-04:30:45,78 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:45.078165: 3dWarp -deoblique | |
| 191017-04:30:45,78 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:45.078165: on this and other oblique datasets in the same session. | |
| 191017-04:30:45,78 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:45.078165: See 3dWarp -help for details. | |
| 191017-04:30:45,78 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:45.078165:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191017-04:30:45,79 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:45.079075:++ Coarse del was 10, replaced with 7 | |
| 191017-04:30:46,250 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:30:46,258 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:30:46,483 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:30:46,555 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:30:46,561 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:46.561283:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191017-04:30:46,561 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:46.561283:++ Authored by: RW Cox | |
| 191017-04:30:46,562 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:46.562376:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191017-04:30:46,562 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:46.562376: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191017-04:30:46,562 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:46.562376: or viewing/combining it with volumes of differing obliquity, | |
| 191017-04:30:46,562 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:46.562376: you should consider running: | |
| 191017-04:30:46,562 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:46.562376: 3dWarp -deoblique | |
| 191017-04:30:46,562 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:46.562376: on this and other oblique datasets in the same session. | |
| 191017-04:30:46,563 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:46.562376: See 3dWarp -help for details. | |
| 191017-04:30:46,563 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:46.562376:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191017-04:30:46,563 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:46.563222:++ Coarse del was 10, replaced with 7 | |
| 191017-04:30:47,318 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:30:47,399 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:47.399431:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191017-04:30:47,400 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:47.400132:++ Authored by: RW Cox | |
| 191017-04:30:47,401 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:47.401782:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191017-04:30:47,402 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:47.401782: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191017-04:30:47,402 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:47.401782: or viewing/combining it with volumes of differing obliquity, | |
| 191017-04:30:47,402 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:47.401782: you should consider running: | |
| 191017-04:30:47,402 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:47.401782: 3dWarp -deoblique | |
| 191017-04:30:47,402 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:47.401782: on this and other oblique datasets in the same session. | |
| 191017-04:30:47,402 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:47.401782: See 3dWarp -help for details. | |
| 191017-04:30:47,402 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:47.401782:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191017-04:30:47,403 nipype.interface INFO: | |
| stderr 2019-10-17T04:30:47.401782:++ Coarse del was 10, replaced with 7 | |
| 191017-04:30:55,527 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:30:56,442 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:30:56,469 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:30:56,788 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:31:03,454 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:31:04,197 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:31:04,207 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:31:04,627 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:31:04,842 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_split". | |
| 191017-04:31:04,848 nipype.workflow INFO: | |
| [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/validate/12345_task-reapp_run-05_bold_valid.nii.gz -t | |
| 191017-04:31:05,505 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/gen_ref". | |
| 191017-04:31:05,506 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_split". | |
| 191017-04:31:05,510 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191017-04:31:05,511 nipype.workflow INFO: | |
| [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/validate/12345_task-reapp_run-06_bold_valid.nii.gz -t | |
| 191017-04:31:06,157 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/gen_ref".191017-04:31:06,157 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.mrg_tmpl" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/mrg_tmpl". | |
| 191017-04:31:06,163 nipype.workflow INFO: | |
| [Node] Running "mrg_tmpl" ("nipype.interfaces.utility.base.Merge") | |
| 191017-04:31:06,164 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191017-04:31:06,165 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_template_wf.get1st" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/anat_template_wf/get1st". | |
| 191017-04:31:06,171 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.mrg_tmpl". | |
| 191017-04:31:06,174 nipype.workflow INFO: | |
| [Node] Running "get1st" ("nipype.interfaces.utility.base.Select") | |
| 191017-04:31:06,179 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_template_wf.get1st". | |
| 191017-04:31:09,338 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:31:09,422 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.422466:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191017-04:31:09,423 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.422466:++ Authored by: RW Cox | |
| 191017-04:31:09,423 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.423263:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191017-04:31:09,423 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.423263: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191017-04:31:09,423 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.423263: or viewing/combining it with volumes of differing obliquity, | |
| 191017-04:31:09,423 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.423263: you should consider running: | |
| 191017-04:31:09,423 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.423263: 3dWarp -deoblique | |
| 191017-04:31:09,423 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.423263: on this and other oblique datasets in the same session. | |
| 191017-04:31:09,424 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.423263: See 3dWarp -help for details. | |
| 191017-04:31:09,424 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.423263:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191017-04:31:09,425 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.423263:++ Coarse del was 10, replaced with 7 | |
| 191017-04:31:09,703 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.surface_recon_wf.fov_check" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/surface_recon_wf/fov_check". | |
| 191017-04:31:09,709 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.truncate_images" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/truncate_images". | |
| 191017-04:31:09,711 nipype.workflow INFO: | |
| [Node] Running "fov_check" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-04:31:09,718 nipype.workflow INFO: | |
| [Node] Setting-up "_truncate_images0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/truncate_images/mapflow/_truncate_images0". | |
| 191017-04:31:09,723 nipype.workflow INFO: | |
| [Node] Running "_truncate_images0" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: | |
| ImageMath 3 12345_T1w_maths.nii.gz TruncateImageIntensity /data/12345/anat/12345_T1w.nii.gz 0.01 0.999 256 | |
| 191017-04:31:09,786 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:31:09,865 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.865639:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191017-04:31:09,866 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.865639:++ Authored by: RW Cox | |
| 191017-04:31:09,867 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.866948:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191017-04:31:09,867 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.866948: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191017-04:31:09,867 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.866948: or viewing/combining it with volumes of differing obliquity, | |
| 191017-04:31:09,867 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.866948: you should consider running: | |
| 191017-04:31:09,867 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.866948: 3dWarp -deoblique | |
| 191017-04:31:09,867 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.866948: on this and other oblique datasets in the same session. | |
| 191017-04:31:09,868 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.866948: See 3dWarp -help for details. | |
| 191017-04:31:09,868 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.866948:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191017-04:31:09,868 nipype.interface INFO: | |
| stderr 2019-10-17T04:31:09.868445:++ Coarse del was 10, replaced with 7 | |
| 191017-04:31:10,10 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.surface_recon_wf.recon_config" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/surface_recon_wf/recon_config". | |
| 191017-04:31:10,328 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_split". | |
| 191017-04:31:10,384 nipype.workflow INFO: | |
| [Node] Running "recon_config" ("niworkflows.interfaces.freesurfer.FSDetectInputs") | |
| 191017-04:31:10,424 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.surface_recon_wf.recon_config". | |
| 191017-04:31:11,131 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.surface_recon_wf.fov_check". | |
| 191017-04:31:13,337 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_split". | |
| 191017-04:31:17,533 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_split". | |
| 191017-04:31:20,53 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_split". | |
| 191017-04:31:20,616 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_split". | |
| 191017-04:31:21,990 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:31:22,409 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_split". | |
| 191017-04:31:22,994 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_split". | |
| 191017-04:31:23,676 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:31:23,680 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:31:23,682 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:31:23,695 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:31:24,222 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge". | |
| 191017-04:31:24,932 nipype.workflow INFO: | |
| [Node] Finished "_truncate_images0". | |
| 191017-04:31:24,935 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.truncate_images". | |
| 191017-04:31:25,272 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge". | |
| 191017-04:31:26,316 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge". | |
| 191017-04:31:26,598 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:31:27,389 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge". | |
| 191017-04:31:27,594 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:31:28,120 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge".191017-04:31:28,120 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge". | |
| 191017-04:31:28,180 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge". | |
| 191017-04:31:29,670 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:31:29,673 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:31:29,677 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:31:29,683 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:31:29,686 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:31:29,780 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:31:29,794 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:31:29,918 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191017-04:31:29,973 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:31:30,137 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:31:30,210 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:31:31,98 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge". | |
| 191017-04:31:31,839 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge". | |
| 191017-04:31:36,768 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:31:37,438 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:31:37,573 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:31:37,808 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:31:38,73 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:31:39,621 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:31:39,642 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:31:39,763 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:31:41,454 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:31:41,705 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:31:41,712 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:31:42,80 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_split". | |
| 191017-04:31:43,133 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:31:43,660 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:31:43,674 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:31:43,685 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:31:43,789 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:31:43,931 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:31:44,90 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:31:44,135 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_split". | |
| 191017-04:31:44,588 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:31:45,191 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:31:45,711 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:31:45,751 nipype.interface WARNING: | |
| q-forms of reference and mask are substantially different | |
| 191017-04:31:45,837 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:31:47,622 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:31:47,662 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:31:47,663 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:31:47,669 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:31:47,728 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191017-04:31:47,997 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:31:49,684 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:31:49,690 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:31:49,717 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:31:49,927 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:31:50,13 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:31:50,202 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:31:50,618 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:31:51,682 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:31:51,697 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:31:52,222 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:31:52,292 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:31:53,686 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:31:53,686 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:31:53,693 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191017-04:31:53,696 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:31:53,699 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:31:53,706 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:31:53,975 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:31:53,979 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:31:54,321 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:31:55,669 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:31:55,679 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:31:55,682 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:31:55,689 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:31:55,955 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:31:55,974 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:31:57,323 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:31:59,414 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:31:59,646 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:31:59,652 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:32:00,171 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge". | |
| 191017-04:32:00,699 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge". | |
| 191017-04:32:01,63 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:32:01,647 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:32:01,653 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:32:02,297 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge". | |
| 191017-04:32:02,401 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:32:02,870 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:32:03,60 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge". | |
| 191017-04:32:03,817 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge". | |
| 191017-04:32:03,967 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:32:04,56 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:32:04,96 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:32:04,103 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:32:04,103 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:32:04,200 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:32:04,482 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge". | |
| 191017-04:32:04,729 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge". | |
| 191017-04:32:05,230 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:32:05,600 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff".191017-04:32:05,599 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:32:05,600 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:32:05,606 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:32:05,853 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:32:05,869 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:32:05,939 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191017-04:32:06,118 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge". | |
| 191017-04:32:06,184 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:07,614 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:32:07,615 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:32:07,616 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:32:07,621 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:32:07,621 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:32:07,623 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191017-04:32:09,476 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge". | |
| 191017-04:32:09,588 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:32:10,245 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:32:10,425 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:32:10,652 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:32:11,109 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:32:11,923 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:32:12,167 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:32:12,180 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:32:12,181 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:32:12,182 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:32:12,187 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:32:12,189 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:32:12,207 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:32:12,438 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:13,582 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:32:13,588 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:32:13,588 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:32:13,588 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:32:13,593 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:32:13,597 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:32:13,617 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:32:13,682 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191017-04:32:13,839 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:32:14,685 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:32:14,950 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:32:15,121 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:32:15,632 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:32:15,643 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:32:15,704 nipype.interface INFO: | |
| stderr 2019-10-17T04:32:15.704336:++ Max displacement in automask = 1.54 (mm) at sub-brick 19 | |
| 191017-04:32:15,704 nipype.interface INFO: | |
| stderr 2019-10-17T04:32:15.704336:++ Max delta displ in automask = 0.65 (mm) at sub-brick 19 | |
| 191017-04:32:15,889 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:16,113 nipype.interface INFO: | |
| stderr 2019-10-17T04:32:16.113790:++ Max displacement in automask = 1.17 (mm) at sub-brick 19 | |
| 191017-04:32:16,114 nipype.interface INFO: | |
| stderr 2019-10-17T04:32:16.113790:++ Max delta displ in automask = 0.49 (mm) at sub-brick 19 | |
| 191017-04:32:16,216 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:32:16,230 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:32:16,231 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:32:16,237 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:32:16,246 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:32:18,242 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:32:18,242 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:32:18,248 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:32:18,253 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:32:18,340 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191017-04:32:18,385 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:32:18,626 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:32:18,629 nipype.interface INFO: | |
| stderr 2019-10-17T04:32:18.628985:++ Max displacement in automask = 1.07 (mm) at sub-brick 3 | |
| 191017-04:32:18,629 nipype.interface INFO: | |
| stderr 2019-10-17T04:32:18.628985:++ Max delta displ in automask = 1.26 (mm) at sub-brick 13 | |
| 191017-04:32:19,555 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:32:19,556 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:32:19,557 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:32:19,557 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:32:19,562 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:32:19,567 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:32:19,583 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:32:19,689 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191017-04:32:19,774 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.gen_ref". | |
| 191017-04:32:19,828 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:19,834 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:19,943 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:20,63 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:32:20,233 nipype.interface INFO: | |
| stderr 2019-10-17T04:32:20.233742:++ Max displacement in automask = 1.01 (mm) at sub-brick 4 | |
| 191017-04:32:20,234 nipype.interface INFO: | |
| stderr 2019-10-17T04:32:20.233742:++ Max delta displ in automask = 0.69 (mm) at sub-brick 5 | |
| 191017-04:32:20,466 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.gen_ref". | |
| 191017-04:32:20,560 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:32:21,139 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:32:21,610 nipype.interface INFO: | |
| stderr 2019-10-17T04:32:21.610435:++ Max displacement in automask = 1.51 (mm) at sub-brick 16 | |
| 191017-04:32:21,610 nipype.interface INFO: | |
| stderr 2019-10-17T04:32:21.610435:++ Max delta displ in automask = 0.64 (mm) at sub-brick 5 | |
| 191017-04:32:21,716 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:32:21,716 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_hmc_wf.mcflirt" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_hmc_wf/mcflirt". | |
| 191017-04:32:21,728 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:32:21,733 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:32:21,736 nipype.workflow INFO: | |
| [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: | |
| mcflirt -in /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/validate/12345_task-pass_run-02_bold_valid.nii.gz -out /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_hmc_wf/mcflirt/12345_task-pass_run-02_bold_valid_mcf.nii.gz -reffile /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots | |
| 191017-04:32:21,984 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:22,194 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_hmc_wf.mcflirt" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_hmc_wf/mcflirt". | |
| 191017-04:32:22,201 nipype.workflow INFO: | |
| [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: | |
| mcflirt -in /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/validate/12345_task-reapp_run-01_bold_valid.nii.gz -out /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_hmc_wf/mcflirt/12345_task-reapp_run-01_bold_valid_mcf.nii.gz -reffile /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots | |
| 191017-04:32:22,500 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.gen_ref". | |
| 191017-04:32:22,688 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:32:22,695 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:32:22,769 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:32:23,210 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:32:23,642 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:32:23,642 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:32:23,647 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:32:23,648 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:32:23,651 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:32:23,653 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191017-04:32:23,657 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:32:23,663 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:32:23,875 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:32:23,940 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:24,84 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_hmc_wf.mcflirt". | |
| 191017-04:32:24,691 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.gen_ref". | |
| 191017-04:32:25,606 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_hmc_wf.mcflirt" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_hmc_wf/mcflirt". | |
| 191017-04:32:25,608 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:32:25,614 nipype.workflow INFO: | |
| [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: | |
| mcflirt -in /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/validate/12345_task-pass_run-01_bold_valid.nii.gz -out /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_hmc_wf/mcflirt/12345_task-pass_run-01_bold_valid_mcf.nii.gz -reffile /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots | |
| 191017-04:32:25,615 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:32:25,914 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.gen_ref". | |
| 191017-04:32:26,119 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_hmc_wf.normalize_motion" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_hmc_wf/normalize_motion". | |
| 191017-04:32:26,120 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:32:26,130 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:32:26,149 nipype.workflow INFO: | |
| [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") | |
| 191017-04:32:26,162 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_hmc_wf.normalize_motion". | |
| 191017-04:32:26,230 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:32:27,698 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:32:27,704 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191017-04:32:28,236 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_confounds_wf.fdisp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_confounds_wf/fdisp". | |
| 191017-04:32:28,237 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:32:28,242 nipype.workflow INFO: | |
| [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 191017-04:32:28,242 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:32:28,257 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_confounds_wf.fdisp". | |
| 191017-04:32:28,512 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:32:28,595 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:32:28,896 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:32:29,588 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:32:29,594 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:32:29,594 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_hmc_wf.mcflirt" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_hmc_wf/mcflirt". | |
| 191017-04:32:29,596 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:32:29,604 nipype.workflow INFO: | |
| [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: | |
| mcflirt -in /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/validate/12345_task-reapp_run-03_bold_valid.nii.gz -out /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_hmc_wf/mcflirt/12345_task-reapp_run-03_bold_valid_mcf.nii.gz -reffile /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots | |
| 191017-04:32:29,617 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:32:29,744 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:32:30,110 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:32:30,110 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_hmc_wf.mcflirt" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_hmc_wf/mcflirt". | |
| 191017-04:32:30,134 nipype.workflow INFO: | |
| [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: | |
| mcflirt -in /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/validate/12345_task-reapp_run-04_bold_valid.nii.gz -out /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_hmc_wf/mcflirt/12345_task-reapp_run-04_bold_valid_mcf.nii.gz -reffile /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots | |
| 191017-04:32:31,559 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:32:31,605 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:32:31,607 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:32:31,611 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:32:31,618 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:32:32,6 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:32:32,386 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:32:32,493 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_hmc_wf.mcflirt". | |
| 191017-04:32:33,201 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:32:33,260 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:32:33,419 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:32:33,560 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:32:33,564 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:32:33,568 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191017-04:32:33,568 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:32:33,572 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_hmc_wf.fsl2itk" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_hmc_wf/fsl2itk". | |
| 191017-04:32:33,578 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:32:33,581 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:32:33,641 nipype.workflow INFO: | |
| [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") | |
| 191017-04:32:33,806 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:32:33,899 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:33,921 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:33,922 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:33,923 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:33,923 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:33,930 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:33,930 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:33,931 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:35,139 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:32:35,916 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:32:36,142 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:32:36,155 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:32:36,156 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:32:36,156 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:32:36,158 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:32:36,162 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:32:36,162 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:32:36,166 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:32:36,240 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:32:36,465 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:37,321 nipype.interface INFO: | |
| stderr 2019-10-17T04:32:37.321053:++ Max displacement in automask = 2.11 (mm) at sub-brick 12 | |
| 191017-04:32:37,321 nipype.interface INFO: | |
| stderr 2019-10-17T04:32:37.321053:++ Max delta displ in automask = 1.35 (mm) at sub-brick 15 | |
| 191017-04:32:37,416 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:32:37,607 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:32:37,608 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:32:37,611 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:32:37,612 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:32:37,617 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:32:37,617 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191017-04:32:37,617 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:32:37,770 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191017-04:32:37,914 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:32:38,178 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_hmc_wf.normalize_motion" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_hmc_wf/normalize_motion". | |
| 191017-04:32:38,178 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:32:38,184 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:32:38,226 nipype.workflow INFO: | |
| [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") | |
| 191017-04:32:38,265 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_hmc_wf.normalize_motion". | |
| 191017-04:32:38,315 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:32:38,441 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:32:38,687 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:32:39,421 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:32:39,435 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:32:39,584 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:32:39,584 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:32:39,585 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:32:39,589 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191017-04:32:39,592 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191017-04:32:39,592 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:32:39,763 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:32:40,558 nipype.interface INFO: | |
| stderr 2019-10-17T04:32:40.558343:++ Max displacement in automask = 1.22 (mm) at sub-brick 15 | |
| 191017-04:32:40,558 nipype.interface INFO: | |
| stderr 2019-10-17T04:32:40.558343:++ Max delta displ in automask = 0.86 (mm) at sub-brick 1 | |
| 191017-04:32:40,683 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_confounds_wf.fdisp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_confounds_wf/fdisp". | |
| 191017-04:32:40,683 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:32:40,688 nipype.workflow INFO: | |
| [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 191017-04:32:40,692 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:32:40,704 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_confounds_wf.fdisp". | |
| 191017-04:32:41,16 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:32:41,536 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.gen_ref". | |
| 191017-04:32:41,571 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:32:41,572 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:32:41,572 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:32:41,573 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:32:41,576 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:32:41,576 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:32:41,576 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:32:41,580 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:32:41,580 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191017-04:32:41,581 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:32:41,586 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:32:41,704 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:32:41,737 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:32:41,754 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191017-04:32:42,3 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:32:43,576 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:32:43,605 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:32:43,613 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191017-04:32:43,949 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:32:44,181 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_hmc_wf.mcflirt" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_hmc_wf/mcflirt". | |
| 191017-04:32:44,202 nipype.workflow INFO: | |
| [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: | |
| mcflirt -in /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/validate/12345_task-reapp_run-06_bold_valid.nii.gz -out /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_hmc_wf/mcflirt/12345_task-reapp_run-06_bold_valid_mcf.nii.gz -reffile /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots | |
| 191017-04:32:44,654 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:32:44,661 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191017-04:32:44,676 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.gen_ref". | |
| 191017-04:32:44,871 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:32:45,628 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:32:45,629 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:32:45,635 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191017-04:32:45,715 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191017-04:32:45,889 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:32:46,233 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_hmc_wf.mcflirt" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_hmc_wf/mcflirt". | |
| 191017-04:32:46,240 nipype.workflow INFO: | |
| [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: | |
| mcflirt -in /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/validate/12345_task-reapp_run-05_bold_valid.nii.gz -out /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_hmc_wf/mcflirt/12345_task-reapp_run-05_bold_valid_mcf.nii.gz -reffile /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots | |
| 191017-04:32:46,428 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:32:46,779 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:32:46,785 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:32:47,19 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:32:47,618 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:32:47,620 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:32:47,620 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:32:47,623 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:32:47,625 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:32:47,659 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:32:47,716 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191017-04:32:47,762 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:32:48,584 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:32:48,892 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:32:49,576 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:32:49,577 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:32:49,577 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:32:49,581 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:32:49,582 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:32:49,585 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:32:49,586 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191017-04:32:49,596 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:32:49,817 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:32:49,830 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:32:50,252 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:32:50,397 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:32:50,983 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:32:51,113 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:32:51,597 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:32:51,598 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:32:51,603 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:32:51,669 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:32:51,675 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:32:51,737 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:32:51,770 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:32:52,206 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:32:52,206 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:32:52,212 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191017-04:32:52,221 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191017-04:32:52,267 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:32:52,494 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:32:53,583 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:32:53,599 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:32:53,600 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:32:53,601 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:32:53,601 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:32:53,601 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:32:53,605 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191017-04:32:53,607 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:32:53,610 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191017-04:32:53,684 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191017-04:32:53,706 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:32:53,798 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:32:53,860 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:32:53,937 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:54,121 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:32:54,134 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:32:54,135 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:32:54,140 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:32:54,215 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:32:55,310 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:32:55,612 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:32:55,617 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:32:55,798 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:32:56,122 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:32:56,149 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:32:56,150 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:32:56,150 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:32:56,155 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:32:56,156 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:32:56,254 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191017-04:32:56,406 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:32:56,506 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:32:57,672 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:32:57,673 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:32:57,677 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:32:57,677 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:32:57,678 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:32:57,684 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:32:57,684 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191017-04:32:57,737 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:32:57,767 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191017-04:32:58,278 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:32:59,56 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:32:59,156 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_hmc_wf.fsl2itk". | |
| 191017-04:32:59,577 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:32:59,639 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:32:59,641 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:32:59,646 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191017-04:32:59,646 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:32:59,795 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:32:59,848 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:33:00,148 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:33:00,677 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:33:00,887 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:33:01,367 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:33:01,580 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask".191017-04:33:01,580 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:33:01,580 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:33:01,580 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:33:01,581 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:33:01,582 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:33:01,583 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:33:01,584 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:33:01,586 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:33:01,587 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:33:01,588 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:33:01,589 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191017-04:33:01,591 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:01,599 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:33:01,601 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:33:01,671 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191017-04:33:01,741 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:33:01,846 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:33:01,908 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:33:02,57 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:33:03,508 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:33:03,692 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:33:03,692 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:33:03,692 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:33:03,715 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:33:03,716 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:33:03,721 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz191017-04:33:03,721 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:03,784 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:33:04,135 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:33:04,363 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:33:05,589 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:33:05,589 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:33:05,591 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:33:05,591 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:33:05,592 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:33:05,592 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:33:05,592 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:33:05,595 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191017-04:33:05,595 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:05,599 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:33:05,600 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:33:05,600 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191017-04:33:05,604 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:33:05,649 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:33:05,693 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:33:05,808 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:33:05,925 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:33:06,395 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:33:06,640 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:33:07,641 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:33:07,642 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:33:07,643 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask".191017-04:33:07,643 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask".191017-04:33:07,643 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:33:07,647 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191017-04:33:07,649 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:33:07,650 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191017-04:33:07,651 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:33:07,651 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191017-04:33:07,854 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:33:07,931 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:33:07,954 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:33:08,505 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:33:09,658 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:33:09,659 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:33:09,659 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:33:09,664 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:33:09,665 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:33:09,666 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191017-04:33:09,979 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:33:10,64 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:33:10,561 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:33:11,304 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:33:11,659 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:33:11,666 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191017-04:33:11,735 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:33:11,832 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:33:11,956 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:33:11,976 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:33:12,180 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:33:13,572 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:33:13,576 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:33:13,578 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:33:13,579 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:33:13,579 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:33:13,582 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/fmap2ref_reg". | |
| 191017-04:33:13,583 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191017-04:33:13,583 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:33:13,583 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:33:13,586 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191017-04:33:13,593 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:33:13,599 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191017-04:33:13,630 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:33:13,681 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191017-04:33:13,875 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:33:14,601 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:33:15,643 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:33:15,649 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191017-04:33:15,919 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:33:16,103 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:33:16,103 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:33:16,366 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:33:16,926 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:33:17,39 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:33:17,103 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:33:17,619 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:33:17,619 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:33:17,619 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:33:17,620 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:33:17,621 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:33:17,621 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:33:17,622 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:33:17,623 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:33:17,624 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191017-04:33:17,625 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:17,625 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191017-04:33:17,625 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191017-04:33:17,627 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191017-04:33:17,627 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:33:17,630 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:33:17,647 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:33:17,773 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:33:17,882 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:33:18,349 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:33:19,561 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:33:19,647 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:33:19,648 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:33:19,648 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:33:19,653 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:33:19,654 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:33:19,654 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191017-04:33:20,82 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:33:20,241 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:33:20,242 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:33:21,159 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:33:21,609 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:33:21,611 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:33:21,612 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:33:21,614 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:33:21,614 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:21,617 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191017-04:33:21,622 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:33:21,626 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:33:21,627 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:33:21,634 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:33:21,667 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:33:22,32 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:33:22,48 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:33:23,631 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:33:23,632 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:33:23,634 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:33:23,638 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:33:23,639 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191017-04:33:23,737 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:23,853 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:33:23,892 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:33:23,914 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:33:24,128 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:33:24,724 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:33:25,704 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:33:25,705 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:33:25,706 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:33:25,708 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass".191017-04:33:25,708 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:33:25,710 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:25,712 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:33:25,712 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:33:25,716 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:33:25,781 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191017-04:33:25,861 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:33:25,994 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:33:26,359 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:33:26,529 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:33:26,534 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:33:26,802 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:33:27,622 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:33:27,623 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:33:27,625 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:33:27,625 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:33:27,626 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:33:27,628 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:33:27,628 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:33:27,629 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:33:27,631 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:27,631 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:33:27,632 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:27,699 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:33:27,739 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191017-04:33:27,773 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:33:27,877 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:33:27,906 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:33:27,955 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:33:28,424 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:33:28,493 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:33:29,633 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:33:29,633 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:33:29,633 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:33:29,634 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:33:29,636 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:33:29,637 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:33:29,638 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:33:29,638 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:33:29,638 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:29,639 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:33:29,640 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:33:29,642 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191017-04:33:29,643 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:33:29,678 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:33:29,688 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:33:29,852 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:33:30,278 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:33:30,617 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:33:30,862 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:33:31,711 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:33:31,714 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:33:31,716 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:33:31,717 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:33:31,718 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:33:31,718 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191017-04:33:31,722 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:33:31,724 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:33:31,724 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191017-04:33:31,816 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:31,853 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:33:31,872 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:33:31,901 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:33:32,5 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:33:32,32 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:33:32,111 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:33:32,783 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:33:33,569 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:33:33,640 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:33:33,643 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:33:33,644 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:33:33,645 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/fmap2ref_reg". | |
| 191017-04:33:33,646 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:33:33,646 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:33:33,646 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:33:33,649 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:33,650 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191017-04:33:33,650 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191017-04:33:33,650 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:33:33,652 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191017-04:33:33,659 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191017-04:33:33,660 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:33:33,802 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:33:33,891 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:33:33,933 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:33:34,570 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:33:35,688 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:33:35,688 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:33:35,693 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:33:35,697 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:33:36,13 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:33:36,238 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:33:36,298 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:33:36,305 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:33:36,980 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:33:37,652 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:33:37,680 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:33:37,680 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:33:37,681 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:33:37,686 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:37,686 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:37,749 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:33:37,770 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191017-04:33:37,859 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:33:38,651 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:33:39,242 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_hmc_wf.mcflirt". | |
| 191017-04:33:39,669 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:33:39,669 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:33:39,670 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:33:39,682 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:33:39,682 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:39,683 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191017-04:33:39,846 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:33:39,960 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:33:40,123 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:33:40,267 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:33:40,270 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:33:40,275 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:33:40,548 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:33:41,670 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_hmc_wf.normalize_motion" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_hmc_wf/normalize_motion". | |
| 191017-04:33:41,670 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:33:41,672 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:33:41,672 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:33:41,672 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:33:41,672 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:33:41,677 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:33:41,678 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:33:41,678 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:33:41,678 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:41,678 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:41,698 nipype.workflow INFO: | |
| [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") | |
| 191017-04:33:41,713 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_hmc_wf.normalize_motion". | |
| 191017-04:33:41,741 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:33:41,846 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:33:41,984 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:33:42,341 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:33:42,466 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:33:43,256 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:33:43,667 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:33:43,674 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191017-04:33:43,859 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_hmc_wf.mcflirt". | |
| 191017-04:33:43,890 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:33:44,220 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_confounds_wf.fdisp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_confounds_wf/fdisp". | |
| 191017-04:33:44,221 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:33:44,222 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:33:44,223 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass".191017-04:33:44,223 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:33:44,225 nipype.workflow INFO: | |
| [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 191017-04:33:44,227 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:44,231 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:33:44,231 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:33:44,238 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_confounds_wf.fdisp". | |
| 191017-04:33:44,287 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:33:44,303 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191017-04:33:44,770 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:33:44,837 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:33:45,691 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_hmc_wf.normalize_motion" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_hmc_wf/normalize_motion". | |
| 191017-04:33:45,696 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:33:45,697 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:33:45,697 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:33:45,698 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:33:45,698 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:33:45,703 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:45,703 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191017-04:33:45,704 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191017-04:33:45,705 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191017-04:33:45,706 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:33:45,720 nipype.workflow INFO: | |
| [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") | |
| 191017-04:33:45,733 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_hmc_wf.normalize_motion". | |
| 191017-04:33:45,763 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:33:45,893 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:33:45,999 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:33:46,67 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:33:46,731 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:33:46,885 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:33:47,908 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:33:48,106 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_confounds_wf.fdisp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_confounds_wf/fdisp". | |
| 191017-04:33:48,107 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:33:48,108 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:33:48,108 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:33:48,109 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:33:48,111 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_hmc_wf.fsl2itk" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_hmc_wf/fsl2itk". | |
| 191017-04:33:48,113 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:33:48,113 nipype.workflow INFO: | |
| [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 191017-04:33:48,116 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191017-04:33:48,117 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191017-04:33:48,119 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191017-04:33:48,129 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_confounds_wf.fdisp". | |
| 191017-04:33:48,176 nipype.workflow INFO: | |
| [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") | |
| 191017-04:33:48,363 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:33:48,466 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:33:49,740 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:33:49,740 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:33:49,745 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:33:49,747 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:33:50,28 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:33:51,233 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_hmc_wf.mcflirt". | |
| 191017-04:33:52,172 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:33:52,830 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:33:53,625 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/fmap2ref_reg". | |
| 191017-04:33:53,639 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191017-04:33:55,92 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:33:55,654 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_hmc_wf.normalize_motion" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_hmc_wf/normalize_motion". | |
| 191017-04:33:55,684 nipype.workflow INFO: | |
| [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") | |
| 191017-04:33:55,695 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_hmc_wf.normalize_motion". | |
| 191017-04:33:56,65 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:33:57,24 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:33:58,204 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:33:58,204 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_confounds_wf.fdisp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_confounds_wf/fdisp". | |
| 191017-04:33:58,204 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:33:58,209 nipype.workflow INFO: | |
| [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 191017-04:33:58,210 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:33:58,210 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:33:58,222 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_confounds_wf.fdisp". | |
| 191017-04:33:58,236 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_hmc_wf.mcflirt". | |
| 191017-04:33:58,363 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:33:58,523 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:33:58,534 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_hmc_wf.mcflirt". | |
| 191017-04:33:59,309 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:33:59,693 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:33:59,693 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_hmc_wf.normalize_motion" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_hmc_wf/normalize_motion". | |
| 191017-04:33:59,693 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:33:59,693 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:33:59,695 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:33:59,698 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:33:59,698 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:33:59,699 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191017-04:33:59,703 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:33:59,726 nipype.workflow INFO: | |
| [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") | |
| 191017-04:33:59,743 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_hmc_wf.normalize_motion". | |
| 191017-04:33:59,988 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:34:00,552 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:34:01,691 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:34:01,698 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:34:01,758 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:34:02,258 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_confounds_wf.fdisp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_confounds_wf/fdisp". | |
| 191017-04:34:02,259 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:34:02,259 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_hmc_wf.normalize_motion" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_hmc_wf/normalize_motion". | |
| 191017-04:34:02,263 nipype.workflow INFO: | |
| [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 191017-04:34:02,264 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191017-04:34:02,278 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_confounds_wf.fdisp". | |
| 191017-04:34:02,295 nipype.workflow INFO: | |
| [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") | |
| 191017-04:34:02,312 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_hmc_wf.normalize_motion". | |
| 191017-04:34:02,484 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:34:03,676 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:34:03,677 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:34:03,684 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191017-04:34:03,684 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191017-04:34:03,888 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:34:04,218 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_confounds_wf.fdisp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_confounds_wf/fdisp". | |
| 191017-04:34:04,219 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:34:04,223 nipype.workflow INFO: | |
| [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 191017-04:34:04,226 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:34:04,237 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_confounds_wf.fdisp". | |
| 191017-04:34:05,619 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:34:05,626 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:34:05,932 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:34:06,825 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:34:07,327 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:34:07,664 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:34:07,664 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:34:07,668 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191017-04:34:07,757 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191017-04:34:09,612 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:34:09,656 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:34:09,661 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:34:09,815 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:34:11,660 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:34:11,663 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:34:11,669 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:34:11,670 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:34:11,805 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:34:12,215 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:34:12,563 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_hmc_wf.fsl2itk". | |
| 191017-04:34:13,445 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:34:13,695 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:34:13,695 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:34:13,695 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/fmap2ref_reg". | |
| 191017-04:34:13,701 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:34:13,702 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:34:13,711 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191017-04:34:13,767 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:34:13,977 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191017-04:34:14,183 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:34:15,706 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:34:15,706 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:34:15,706 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:34:15,712 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191017-04:34:15,713 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191017-04:34:15,714 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:34:15,766 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:34:15,870 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_hmc_wf.mcflirt". | |
| 191017-04:34:15,923 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:34:16,11 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:34:17,234 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:34:17,672 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask".191017-04:34:17,672 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_hmc_wf.normalize_motion" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_hmc_wf/normalize_motion".191017-04:34:17,672 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:34:17,672 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:34:17,679 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191017-04:34:17,679 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:34:17,680 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191017-04:34:17,699 nipype.workflow INFO: | |
| [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") | |
| 191017-04:34:17,715 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_hmc_wf.normalize_motion". | |
| 191017-04:34:17,920 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:34:17,961 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:34:19,717 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:34:19,718 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:34:19,724 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:34:19,725 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:34:19,993 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:34:20,55 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:34:20,285 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_confounds_wf.fdisp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_confounds_wf/fdisp". | |
| 191017-04:34:20,289 nipype.workflow INFO: | |
| [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 191017-04:34:20,301 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_confounds_wf.fdisp". | |
| 191017-04:34:21,683 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:34:21,688 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:34:23,579 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:34:23,621 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_hmc_wf.mcflirt". | |
| 191017-04:34:25,657 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass".191017-04:34:25,657 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_hmc_wf.normalize_motion" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_hmc_wf/normalize_motion". | |
| 191017-04:34:25,664 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:34:25,688 nipype.workflow INFO: | |
| [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") | |
| 191017-04:34:25,700 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_hmc_wf.normalize_motion". | |
| 191017-04:34:26,48 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:34:27,710 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:34:27,716 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:34:27,861 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:34:28,281 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_confounds_wf.fdisp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_confounds_wf/fdisp". | |
| 191017-04:34:28,285 nipype.workflow INFO: | |
| [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 191017-04:34:28,296 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_confounds_wf.fdisp". | |
| 191017-04:34:28,306 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:34:29,713 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:34:29,714 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:34:29,719 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:34:29,720 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191017-04:34:29,778 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:34:30,243 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:34:31,669 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:34:31,671 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:34:31,675 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:34:31,676 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:34:31,727 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:34:31,835 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:34:33,716 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:34:33,716 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:34:33,722 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:34:33,723 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191017-04:34:33,910 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:34:34,250 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:34:35,634 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:34:35,634 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:34:35,639 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:34:35,640 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:34:35,709 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:34:35,937 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:34:37,721 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:34:37,728 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191017-04:34:37,986 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:34:39,686 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:34:39,693 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:34:39,981 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:34:39,985 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:34:41,677 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_hmc_wf.fsl2itk" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_hmc_wf/fsl2itk". | |
| 191017-04:34:41,768 nipype.workflow INFO: | |
| [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") | |
| 191017-04:35:07,814 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg". | |
| 191017-04:35:08,981 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_hmc_wf.fsl2itk". | |
| 191017-04:35:09,663 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/fmap2ref_reg". | |
| 191017-04:35:09,664 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/fmap2ref_reg". | |
| 191017-04:35:09,674 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191017-04:35:09,677 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191017-04:35:26,225 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg". | |
| 191017-04:35:27,708 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_hmc_wf.fsl2itk" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_hmc_wf/fsl2itk". | |
| 191017-04:35:27,790 nipype.workflow INFO: | |
| [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") | |
| 191017-04:35:51,416 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg". | |
| 191017-04:35:53,857 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/fmap2ref_reg". | |
| 191017-04:35:53,868 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191017-04:35:57,69 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_hmc_wf.fsl2itk". | |
| 191017-04:35:57,854 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/fmap2ref_reg". | |
| 191017-04:35:57,870 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191017-04:36:14,342 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg". | |
| 191017-04:36:15,778 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.qwarp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/qwarp". | |
| 191017-04:36:15,787 nipype.workflow INFO: | |
| [Node] Running "qwarp" ("nipype.interfaces.afni.preprocess.QwarpPlusMinus"), a CommandLine Interface with command: | |
| 3dQwarp -prefix Qwarp.nii.gz -plusminus -noXdis -noZdis -base /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped.nii.gz -blur -1.0 -1.0 -source /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped_c0000.nii.gz -minpatch 9 -nopadWARP -noweight -pblur 0.05 0.05 | |
| 191017-04:37:07,882 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg". | |
| 191017-04:37:07,883 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg". | |
| 191017-04:37:08,101 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg". | |
| 191017-04:37:09,784 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.qwarp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/qwarp". | |
| 191017-04:37:09,784 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.qwarp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/qwarp". | |
| 191017-04:37:09,788 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_hmc_wf.fsl2itk" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_hmc_wf/fsl2itk". | |
| 191017-04:37:09,793 nipype.workflow INFO: | |
| [Node] Running "qwarp" ("nipype.interfaces.afni.preprocess.QwarpPlusMinus"), a CommandLine Interface with command: | |
| 3dQwarp -prefix Qwarp.nii.gz -plusminus -noXdis -noZdis -base /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped.nii.gz -blur -1.0 -1.0 -source /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped_c0000.nii.gz -minpatch 9 -nopadWARP -noweight -pblur 0.05 0.05 | |
| 191017-04:37:09,794 nipype.workflow INFO: | |
| [Node] Running "qwarp" ("nipype.interfaces.afni.preprocess.QwarpPlusMinus"), a CommandLine Interface with command: | |
| 3dQwarp -prefix Qwarp.nii.gz -plusminus -noXdis -noZdis -base /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped.nii.gz -blur -1.0 -1.0 -source /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped_c0000.nii.gz -minpatch 9 -nopadWARP -noweight -pblur 0.05 0.05 | |
| 191017-04:37:09,884 nipype.workflow INFO: | |
| [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") | |
| 191017-04:37:34,588 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_hmc_wf.fsl2itk". | |
| 191017-04:37:35,863 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/fmap2ref_reg". | |
| 191017-04:37:35,876 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191017-04:37:53,490 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg". | |
| 191017-04:37:55,875 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.qwarp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/qwarp". | |
| 191017-04:37:55,884 nipype.workflow INFO: | |
| [Node] Running "qwarp" ("nipype.interfaces.afni.preprocess.QwarpPlusMinus"), a CommandLine Interface with command: | |
| 3dQwarp -prefix Qwarp.nii.gz -plusminus -noXdis -noZdis -base /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped.nii.gz -blur -1.0 -1.0 -source /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped_c0000.nii.gz -minpatch 9 -nopadWARP -noweight -pblur 0.05 0.05 | |
| 191017-04:38:48,309 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg". | |
| 191017-04:38:49,928 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/fmap2ref_reg". | |
| 191017-04:38:49,938 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191017-04:40:52,976 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg". | |
| 191017-04:40:54,26 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.qwarp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/qwarp". | |
| 191017-04:40:54,37 nipype.workflow INFO: | |
| [Node] Running "qwarp" ("nipype.interfaces.afni.preprocess.QwarpPlusMinus"), a CommandLine Interface with command: | |
| 3dQwarp -prefix Qwarp.nii.gz -plusminus -noXdis -noZdis -base /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped.nii.gz -blur -1.0 -1.0 -source /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped_c0000.nii.gz -minpatch 9 -nopadWARP -noweight -pblur 0.05 0.05 | |
| 191017-04:43:31,21 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.qwarp". | |
| 191017-04:43:32,142 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp". | |
| 191017-04:43:32,142 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:43:32,147 nipype.workflow INFO: | |
| [Node] Running "cphdr_warp" ("niworkflows.interfaces.utils.CopyHeader") | |
| 191017-04:43:32,148 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191017-04:43:32,413 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:43:32,448 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp". | |
| 191017-04:43:34,184 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.to_ants" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/to_ants". | |
| 191017-04:43:34,184 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:43:34,188 nipype.workflow INFO: | |
| [Node] Running "to_ants" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-04:43:34,190 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191017-04:43:34,457 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.to_ants". | |
| 191017-04:43:36,720 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference". | |
| 191017-04:43:36,727 nipype.workflow INFO: | |
| [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp/_warpfieldQwarp_PLUS_WARP_fixhdr.nii.gz | |
| 191017-04:43:40,934 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:43:42,182 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:43:42,187 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:43:42,325 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:43:43,383 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference". | |
| 191017-04:43:44,190 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_transform" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_transform". | |
| 191017-04:43:44,285 nipype.workflow INFO: | |
| [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") | |
| 191017-04:44:03,999 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.qwarp". | |
| 191017-04:44:06,207 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:44:06,213 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:44:07,991 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.qwarp". | |
| 191017-04:44:10,213 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp". | |
| 191017-04:44:10,215 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp". | |
| 191017-04:44:10,216 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:44:10,219 nipype.workflow INFO: | |
| [Node] Running "cphdr_warp" ("niworkflows.interfaces.utils.CopyHeader") | |
| 191017-04:44:10,220 nipype.workflow INFO: | |
| [Node] Running "cphdr_warp" ("niworkflows.interfaces.utils.CopyHeader") | |
| 191017-04:44:10,222 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:44:10,559 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp". | |
| 191017-04:44:10,560 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp". | |
| 191017-04:44:10,775 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:44:12,223 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.to_ants" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/to_ants". | |
| 191017-04:44:12,224 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.to_ants" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/to_ants". | |
| 191017-04:44:12,225 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:44:12,227 nipype.workflow INFO: | |
| [Node] Running "to_ants" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-04:44:12,228 nipype.workflow INFO: | |
| [Node] Running "to_ants" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-04:44:12,229 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:44:12,276 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:44:12,490 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.to_ants". | |
| 191017-04:44:12,491 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.to_ants". | |
| 191017-04:44:12,592 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:44:14,167 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:44:14,190 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:44:14,609 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference". | |
| 191017-04:44:14,618 nipype.workflow INFO: | |
| [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp/_warpfieldQwarp_PLUS_WARP_fixhdr.nii.gz | |
| 191017-04:44:15,68 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference". | |
| 191017-04:44:15,68 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:44:15,74 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191017-04:44:15,76 nipype.workflow INFO: | |
| [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp/_warpfieldQwarp_PLUS_WARP_fixhdr.nii.gz | |
| 191017-04:44:15,284 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:44:16,220 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:44:16,225 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:44:16,499 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:44:17,112 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:44:18,236 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:44:18,239 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_transform" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_transform". | |
| 191017-04:44:18,245 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:44:18,351 nipype.workflow INFO: | |
| [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") | |
| 191017-04:44:22,43 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference". | |
| 191017-04:44:22,757 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference". | |
| 191017-04:44:32,87 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:44:34,237 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:44:34,243 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:44:36,808 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:44:38,817 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:44:38,823 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:44:46,757 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:44:48,258 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:44:48,310 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.qwarp". | |
| 191017-04:44:48,572 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected_trans_corrected.nii.gz -r | |
| 191017-04:44:50,211 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp". | |
| 191017-04:44:50,211 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:44:50,217 nipype.workflow INFO: | |
| [Node] Running "cphdr_warp" ("niworkflows.interfaces.utils.CopyHeader") | |
| 191017-04:44:50,225 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:44:50,579 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp". | |
| 191017-04:44:52,239 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.to_ants" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/to_ants". | |
| 191017-04:44:52,242 nipype.workflow INFO: | |
| [Node] Running "to_ants" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-04:44:52,504 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.to_ants". | |
| 191017-04:44:53,3 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:44:54,268 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:44:54,278 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:44:54,800 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference". | |
| 191017-04:44:54,803 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_transform" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_transform". | |
| 191017-04:44:54,808 nipype.workflow INFO: | |
| [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp/_warpfieldQwarp_PLUS_WARP_fixhdr.nii.gz | |
| 191017-04:44:54,920 nipype.workflow INFO: | |
| [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") | |
| 191017-04:45:02,610 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference". | |
| 191017-04:45:02,785 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:45:04,278 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:45:04,301 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:45:07,24 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:45:08,249 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:45:08,258 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz | |
| 191017-04:45:08,284 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:45:10,238 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:45:10,243 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:45:13,237 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:45:16,252 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:45:16,519 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected_trans_corrected.nii.gz -r | |
| 191017-04:45:17,960 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:45:20,263 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:45:20,270 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191017-04:45:20,534 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:45:22,264 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:45:22,269 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191017-04:45:30,323 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:45:30,688 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:45:32,275 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:45:32,275 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:45:32,280 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:45:32,281 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:45:32,423 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:45:34,282 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:45:34,287 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:45:34,829 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:45:34,860 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:45:36,284 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:45:36,284 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:45:36,290 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:45:36,290 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz | |
| 191017-04:45:36,345 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:45:38,288 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:45:38,293 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz | |
| 191017-04:45:38,523 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:45:40,277 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:45:40,282 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:45:40,545 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:45:44,840 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:45:46,264 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:45:46,271 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191017-04:45:46,519 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:45:48,299 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:45:48,304 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191017-04:45:55,431 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:45:56,270 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:45:56,275 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:45:56,428 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:45:58,280 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:45:58,286 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:45:58,986 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:46:00,272 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:46:00,277 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:46:00,325 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:46:02,299 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:46:02,304 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz | |
| 191017-04:46:02,478 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:46:04,280 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:46:04,285 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:46:04,591 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:46:06,287 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_transform" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_transform". | |
| 191017-04:46:06,403 nipype.workflow INFO: | |
| [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") | |
| 191017-04:46:33,178 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_transform". | |
| 191017-04:46:34,602 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/merge". | |
| 191017-04:46:34,657 nipype.workflow INFO: | |
| [Node] Running "merge" ("fmriprep.interfaces.nilearn.Merge") | |
| 191017-04:47:10,100 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_transform". | |
| 191017-04:47:12,335 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:47:12,341 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:47:12,653 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/merge". | |
| 191017-04:47:12,706 nipype.workflow INFO: | |
| [Node] Running "merge" ("fmriprep.interfaces.nilearn.Merge") | |
| 191017-04:47:14,616 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.merge". | |
| 191017-04:47:16,357 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/validate". | |
| 191017-04:47:16,638 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191017-04:47:16,665 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.validate". | |
| 191017-04:47:18,312 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref". | |
| 191017-04:47:18,329 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191017-04:47:18,715 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:47:20,390 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:47:20,403 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:47:22,407 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:22.407068:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191017-04:47:22,407 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:22.407068:++ Authored by: RW Cox | |
| 191017-04:47:22,407 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:22.407812:** AFNI converts NIFTI_datatype=4 (INT16) in file /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz to FLOAT32 | |
| 191017-04:47:22,407 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:22.407812: Warnings of this type will be muted for this session. | |
| 191017-04:47:22,408 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:22.407812: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none. | |
| 191017-04:47:22,408 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:22.408230:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191017-04:47:22,408 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:22.408230: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191017-04:47:22,408 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:22.408230: or viewing/combining it with volumes of differing obliquity, | |
| 191017-04:47:22,408 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:22.408230: you should consider running: | |
| 191017-04:47:22,408 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:22.408230: 3dWarp -deoblique | |
| 191017-04:47:22,408 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:22.408230: on this and other oblique datasets in the same session. | |
| 191017-04:47:22,408 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:22.408230: See 3dWarp -help for details. | |
| 191017-04:47:22,408 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:22.408230:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191017-04:47:22,409 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:22.409093:++ Coarse del was 10, replaced with 7 | |
| 191017-04:47:30,594 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:47:32,304 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:47:32,306 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:47:32,313 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:47:32,313 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:47:34,51 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.qwarp". | |
| 191017-04:47:36,361 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp". | |
| 191017-04:47:36,364 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_hmc_wf.fsl2itk" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_hmc_wf/fsl2itk". | |
| 191017-04:47:36,366 nipype.workflow INFO: | |
| [Node] Running "cphdr_warp" ("niworkflows.interfaces.utils.CopyHeader") | |
| 191017-04:47:36,439 nipype.workflow INFO: | |
| [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") | |
| 191017-04:47:36,704 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp". | |
| 191017-04:47:38,277 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:47:38,377 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.to_ants" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/to_ants". | |
| 191017-04:47:38,381 nipype.workflow INFO: | |
| [Node] Running "to_ants" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-04:47:38,627 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.to_ants". | |
| 191017-04:47:40,388 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:47:40,404 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:47:40,867 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference". | |
| 191017-04:47:40,875 nipype.workflow INFO: | |
| [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp/_warpfieldQwarp_PLUS_WARP_fixhdr.nii.gz | |
| 191017-04:47:42,365 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:47:44,362 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:47:44,365 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_transform" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_transform". | |
| 191017-04:47:44,369 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:47:44,465 nipype.workflow INFO: | |
| [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") | |
| 191017-04:47:44,891 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:47:46,373 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:47:46,378 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:47:47,183 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference". | |
| 191017-04:47:49,202 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:47:51,160 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.merge". | |
| 191017-04:47:52,308 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/validate". | |
| 191017-04:47:52,308 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:47:52,590 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected_trans_corrected.nii.gz -r | |
| 191017-04:47:52,727 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191017-04:47:52,763 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.validate". | |
| 191017-04:47:54,369 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref". | |
| 191017-04:47:54,374 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191017-04:47:57,176 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:47:58,155 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:58.154753:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191017-04:47:58,155 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:58.154753:++ Authored by: RW Cox | |
| 191017-04:47:58,156 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:58.155922:** AFNI converts NIFTI_datatype=4 (INT16) in file /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz to FLOAT32 | |
| 191017-04:47:58,156 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:58.155922: Warnings of this type will be muted for this session. | |
| 191017-04:47:58,156 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:58.155922: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none. | |
| 191017-04:47:58,156 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:58.155922:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191017-04:47:58,156 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:58.155922: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191017-04:47:58,156 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:58.155922: or viewing/combining it with volumes of differing obliquity, | |
| 191017-04:47:58,156 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:58.155922: you should consider running: | |
| 191017-04:47:58,156 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:58.155922: 3dWarp -deoblique | |
| 191017-04:47:58,157 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:58.155922: on this and other oblique datasets in the same session. | |
| 191017-04:47:58,157 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:58.155922: See 3dWarp -help for details. | |
| 191017-04:47:58,157 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:58.155922:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191017-04:47:58,157 nipype.interface INFO: | |
| stderr 2019-10-17T04:47:58.155922:++ Coarse del was 10, replaced with 7 | |
| 191017-04:47:58,382 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:47:58,389 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:48:00,366 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_transform". | |
| 191017-04:48:00,434 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:48:02,390 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_hmc_wf.fsl2itk". | |
| 191017-04:48:02,709 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/merge". | |
| 191017-04:48:02,761 nipype.workflow INFO: | |
| [Node] Running "merge" ("fmriprep.interfaces.nilearn.Merge") | |
| 191017-04:48:02,939 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:48:02,945 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:48:04,414 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:48:04,415 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/fmap2ref_reg". | |
| 191017-04:48:04,431 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191017-04:48:04,693 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected_trans_corrected.nii.gz -r | |
| 191017-04:48:06,313 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:48:08,379 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:48:08,385 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:48:09,211 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:48:10,412 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:48:10,495 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:48:10,903 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:48:12,423 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:48:12,428 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz | |
| 191017-04:48:12,715 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:48:14,414 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:48:14,416 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/fmap2ref_reg". | |
| 191017-04:48:14,425 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:48:14,432 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191017-04:48:18,959 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:48:20,420 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:48:20,426 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:48:21,921 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:48:23,186 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:48:24,448 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:48:24,449 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:48:24,455 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191017-04:48:24,456 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz | |
| 191017-04:48:24,780 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:48:26,432 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:48:26,438 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191017-04:48:28,475 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:48:30,504 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:48:30,510 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:48:33,179 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:48:34,547 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:48:34,922 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:48:36,427 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:48:36,429 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:48:36,433 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:48:36,439 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191017-04:48:36,439 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:48:36,588 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:48:36,725 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:48:36,733 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected_trans_corrected.nii.gz -r | |
| 191017-04:48:38,434 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:48:38,434 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:48:38,442 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191017-04:48:38,446 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:48:39,72 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:48:40,442 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:48:40,447 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:48:40,501 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:48:42,447 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:48:42,453 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz | |
| 191017-04:48:42,691 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:48:44,432 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:48:44,439 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:48:44,733 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:48:46,301 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:48:48,280 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.merge". | |
| 191017-04:48:48,428 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:48:48,434 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:48:48,591 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:48:50,439 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:48:50,445 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:48:50,453 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/validate". | |
| 191017-04:48:50,843 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191017-04:48:50,873 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.validate". | |
| 191017-04:48:51,83 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:48:51,689 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:48:52,459 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref". | |
| 191017-04:48:52,461 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:48:52,463 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:48:52,464 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191017-04:48:52,466 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:48:52,469 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:48:52,512 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:48:52,928 nipype.interface INFO: | |
| stderr 2019-10-17T04:48:52.928303:++ Max displacement in automask = 0.36 (mm) at sub-brick 4 | |
| 191017-04:48:52,928 nipype.interface INFO: | |
| stderr 2019-10-17T04:48:52.928303:++ Max delta displ in automask = 0.36 (mm) at sub-brick 8 | |
| 191017-04:48:54,446 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:48:54,454 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz | |
| 191017-04:48:54,482 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref". | |
| 191017-04:48:54,649 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:48:55,142 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:48:57,10 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:48:57,10 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:48:57,16 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz | |
| 191017-04:48:57,20 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:48:57,368 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:48:58,361 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref". | |
| 191017-04:49:06,220 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:49:08,444 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:49:08,449 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191017-04:49:08,703 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:49:10,426 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:49:10,431 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191017-04:49:11,140 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_transform". | |
| 191017-04:49:12,382 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:49:12,388 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:49:12,720 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/merge". | |
| 191017-04:49:12,797 nipype.workflow INFO: | |
| [Node] Running "merge" ("fmriprep.interfaces.nilearn.Merge") | |
| 191017-04:49:17,716 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:49:18,477 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:49:18,481 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:49:18,605 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:49:18,769 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:49:20,489 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:49:20,489 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:49:20,495 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:49:20,502 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:49:20,990 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:49:22,460 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:49:22,465 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:49:22,518 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:49:23,216 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:49:24,446 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:49:24,446 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:49:24,446 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:49:24,451 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:49:24,455 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz | |
| 191017-04:49:24,457 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:49:24,666 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:49:26,459 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:49:26,466 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:49:26,720 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:49:30,900 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:49:30,977 nipype.interface INFO: | |
| stderr 2019-10-17T04:49:30.977216:++ Max displacement in automask = 0.24 (mm) at sub-brick 18 | |
| 191017-04:49:30,977 nipype.interface INFO: | |
| stderr 2019-10-17T04:49:30.977216:++ Max delta displ in automask = 0.28 (mm) at sub-brick 2 | |
| 191017-04:49:32,497 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:49:32,512 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:49:34,467 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:49:36,435 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:49:36,438 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:49:36,444 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:49:36,459 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:49:36,480 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref". | |
| 191017-04:49:38,210 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:49:39,561 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:49:40,469 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:49:40,470 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:49:40,473 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:49:40,476 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:49:40,477 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:49:40,490 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:49:42,835 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:49:46,459 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:49:46,638 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191017-04:49:47,26 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:49:48,440 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:49:48,453 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:49:50,554 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:49:51,303 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:49:52,462 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:49:52,462 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_hmc_wf.fsl2itk" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_hmc_wf/fsl2itk". | |
| 191017-04:49:52,462 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:49:52,467 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:49:52,471 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:49:52,522 nipype.workflow INFO: | |
| [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") | |
| 191017-04:49:54,250 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:49:55,256 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:49:57,54 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:49:57,60 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:49:57,605 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.merge". | |
| 191017-04:49:58,465 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:49:58,482 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/validate". | |
| 191017-04:49:58,698 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191017-04:49:58,906 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191017-04:49:58,936 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.validate". | |
| 191017-04:49:59,507 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:49:59,637 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg". | |
| 191017-04:50:00,418 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref". | |
| 191017-04:50:00,437 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191017-04:50:00,939 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:50:00,945 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:50:01,283 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:50:02,461 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:50:02,462 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:50:02,467 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:50:02,557 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191017-04:50:04,580 nipype.interface INFO: | |
| stderr 2019-10-17T04:50:04.580611:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191017-04:50:04,581 nipype.interface INFO: | |
| stderr 2019-10-17T04:50:04.580611:++ Authored by: RW Cox | |
| 191017-04:50:04,581 nipype.interface INFO: | |
| stderr 2019-10-17T04:50:04.581418:** AFNI converts NIFTI_datatype=4 (INT16) in file /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz to FLOAT32 | |
| 191017-04:50:04,581 nipype.interface INFO: | |
| stderr 2019-10-17T04:50:04.581418: Warnings of this type will be muted for this session. | |
| 191017-04:50:04,581 nipype.interface INFO: | |
| stderr 2019-10-17T04:50:04.581418: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none. | |
| 191017-04:50:04,581 nipype.interface INFO: | |
| stderr 2019-10-17T04:50:04.581854:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191017-04:50:04,582 nipype.interface INFO: | |
| stderr 2019-10-17T04:50:04.581854: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191017-04:50:04,582 nipype.interface INFO: | |
| stderr 2019-10-17T04:50:04.581854: or viewing/combining it with volumes of differing obliquity, | |
| 191017-04:50:04,582 nipype.interface INFO: | |
| stderr 2019-10-17T04:50:04.581854: you should consider running: | |
| 191017-04:50:04,582 nipype.interface INFO: | |
| stderr 2019-10-17T04:50:04.581854: 3dWarp -deoblique | |
| 191017-04:50:04,582 nipype.interface INFO: | |
| stderr 2019-10-17T04:50:04.581854: on this and other oblique datasets in the same session. | |
| 191017-04:50:04,582 nipype.interface INFO: | |
| stderr 2019-10-17T04:50:04.581854: See 3dWarp -help for details. | |
| 191017-04:50:04,582 nipype.interface INFO: | |
| stderr 2019-10-17T04:50:04.581854:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191017-04:50:04,582 nipype.interface INFO: | |
| stderr 2019-10-17T04:50:04.581854:++ Coarse del was 10, replaced with 7 | |
| 191017-04:50:05,320 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:50:05,959 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:50:06,518 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:50:06,524 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191017-04:50:07,99 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:50:08,411 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:50:08,415 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:50:08,417 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:50:08,427 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:50:09,368 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg". | |
| 191017-04:50:10,201 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:50:10,432 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.qwarp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/qwarp". | |
| 191017-04:50:10,442 nipype.workflow INFO: | |
| [Node] Running "qwarp" ("nipype.interfaces.afni.preprocess.QwarpPlusMinus"), a CommandLine Interface with command: | |
| 3dQwarp -prefix Qwarp.nii.gz -plusminus -noXdis -noZdis -base /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped.nii.gz -blur -1.0 -1.0 -source /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped_c0000.nii.gz -minpatch 9 -nopadWARP -noweight -pblur 0.05 0.05 | |
| 191017-04:50:10,713 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:50:12,438 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:50:12,960 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:50:12,967 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:50:12,969 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:50:12,974 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:50:14,467 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct".191017-04:50:14,467 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:50:14,489 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:50:14,639 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:50:14,664 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191017-04:50:15,907 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:50:16,480 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:50:16,481 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:50:16,487 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:50:16,489 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:50:16,745 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:50:17,44 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:50:18,487 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:50:18,487 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:50:18,492 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191017-04:50:18,493 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:50:19,105 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:50:19,211 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:50:19,852 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_hmc_wf.fsl2itk". | |
| 191017-04:50:20,415 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:50:20,420 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:50:20,421 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191017-04:50:20,422 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:50:20,429 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:50:20,450 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:50:22,942 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:50:24,480 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:50:24,484 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_hmc_wf.fsl2itk" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_hmc_wf/fsl2itk". | |
| 191017-04:50:24,506 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:50:24,589 nipype.workflow INFO: | |
| [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") | |
| 191017-04:50:25,640 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:50:26,453 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:50:26,460 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:50:26,484 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:50:26,565 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:50:26,601 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:50:27,431 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:50:28,445 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:50:28,445 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:50:28,446 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:50:28,450 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:50:28,451 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:50:28,452 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:50:28,454 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:50:28,460 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:50:28,742 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:50:28,786 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:50:28,880 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:50:29,83 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:50:30,552 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:50:30,553 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:50:30,554 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:50:30,554 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:50:30,558 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:50:30,560 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:50:30,561 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191017-04:50:30,561 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:50:30,608 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:50:30,651 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:50:30,826 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:50:30,914 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:50:32,489 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:50:32,490 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:50:32,494 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191017-04:50:32,499 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191017-04:50:32,845 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:50:32,854 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:50:33,93 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:50:33,94 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:50:33,100 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:50:33,101 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:50:34,481 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_confounds_wf.dvars" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_confounds_wf/dvars". | |
| 191017-04:50:34,482 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:50:34,482 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:50:34,488 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:50:34,488 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191017-04:50:34,489 nipype.workflow INFO: | |
| [Node] Running "dvars" ("nipype.algorithms.confounds.ComputeDVARS") | |
| 191017-04:50:34,782 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:50:36,616 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:50:36,691 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191017-04:50:37,462 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:50:37,746 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:50:38,518 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:50:38,519 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:50:38,523 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:50:38,525 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:50:38,665 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:50:39,276 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:50:39,778 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:50:40,473 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:50:40,473 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:50:40,477 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:50:40,478 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:50:40,479 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:50:40,496 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:50:40,612 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:50:40,728 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:50:40,939 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:50:42,457 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:50:42,458 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:50:42,461 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:50:42,464 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:50:42,511 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:50:42,773 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:50:42,914 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:50:43,289 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| /usr/local/miniconda/lib/python3.7/site-packages/scipy/fftpack/basic.py:160: FutureWarning: Using a non-tuple sequence for multidimensional indexing is deprecated; use `arr[tuple(seq)]` instead of `arr[seq]`. In the future this will be interpreted as an array index, `arr[np.array(seq)]`, which will result either in an error or a different result. | |
| z[index] = x | |
| 191017-04:50:44,458 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:50:44,458 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:50:44,458 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:50:44,460 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:50:44,461 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:50:44,464 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:50:44,464 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:50:44,465 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191017-04:50:44,471 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:50:44,523 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:50:44,561 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191017-04:50:44,648 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:50:44,742 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:50:46,268 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:50:46,307 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_transform". | |
| 191017-04:50:46,465 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:50:46,471 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_confounds_wf.dvars" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_confounds_wf/dvars". | |
| 191017-04:50:46,471 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:50:46,473 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:50:46,473 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:50:46,476 nipype.workflow INFO: | |
| [Node] Running "dvars" ("nipype.algorithms.confounds.ComputeDVARS") | |
| 191017-04:50:46,478 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:50:46,482 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191017-04:50:46,658 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:50:46,716 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:50:48,512 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:50:48,515 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:50:48,517 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:50:48,518 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:50:48,520 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:50:48,522 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:50:48,770 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:50:48,821 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/merge". | |
| 191017-04:50:48,878 nipype.workflow INFO: | |
| [Node] Running "merge" ("fmriprep.interfaces.nilearn.Merge") | |
| 191017-04:50:50,337 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:50:50,870 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:50:52,503 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:50:52,508 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:50:52,573 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_hmc_wf.fsl2itk". | |
| 191017-04:50:53,20 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:50:53,25 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:50:53,643 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:50:54,528 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:50:54,529 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:50:54,534 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:50:54,641 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191017-04:50:54,695 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:50:54,778 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:50:55,21 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| /usr/local/miniconda/lib/python3.7/site-packages/scipy/fftpack/basic.py:160: FutureWarning: Using a non-tuple sequence for multidimensional indexing is deprecated; use `arr[tuple(seq)]` instead of `arr[seq]`. In the future this will be interpreted as an array index, `arr[np.array(seq)]`, which will result either in an error or a different result. | |
| z[index] = x | |
| 191017-04:50:56,509 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:50:56,509 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:50:56,514 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:50:56,514 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:50:56,515 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191017-04:50:56,524 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:50:57,1 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:50:57,554 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:50:57,941 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:50:58,465 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:50:58,465 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:50:58,468 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:50:58,470 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:50:58,471 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:50:58,472 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_hmc_wf.fsl2itk" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_hmc_wf/fsl2itk". | |
| 191017-04:50:58,476 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:50:58,529 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:50:58,608 nipype.workflow INFO: | |
| [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") | |
| 191017-04:50:59,223 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:50:59,552 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:51:00,484 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:51:00,484 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:51:00,488 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:51:00,491 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191017-04:51:00,491 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:51:00,498 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:51:00,595 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:51:00,680 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:51:02,551 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_confounds_wf.dvars" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_confounds_wf/dvars". | |
| 191017-04:51:02,551 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:51:02,558 nipype.workflow INFO: | |
| [Node] Running "dvars" ("nipype.algorithms.confounds.ComputeDVARS") | |
| 191017-04:51:02,561 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:51:02,809 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:51:03,123 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:51:03,942 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:51:04,512 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:51:04,513 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:51:04,514 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:51:04,516 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191017-04:51:04,518 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.inu_n4" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/inu_n4". | |
| 191017-04:51:04,527 nipype.workflow INFO: | |
| [Node] Setting-up "_inu_n40" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40". | |
| 191017-04:51:04,530 nipype.workflow INFO: | |
| [Node] Running "_inu_n40" ("nipype.interfaces.ants.segmentation.N4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/truncate_images/mapflow/_truncate_images0/12345_T1w_maths.nii.gz --convergence [ 50x50x50x50, 1e-07 ] --output 12345_T1w_maths_corrected.nii.gz --shrink-factor 4 | |
| 191017-04:51:04,592 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:51:04,619 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191017-04:51:05,455 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:51:06,556 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:51:06,562 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:51:06,885 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:51:08,469 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:51:08,474 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:51:09,290 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:51:10,475 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:51:10,495 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| /usr/local/miniconda/lib/python3.7/site-packages/scipy/fftpack/basic.py:160: FutureWarning: Using a non-tuple sequence for multidimensional indexing is deprecated; use `arr[tuple(seq)]` instead of `arr[seq]`. In the future this will be interpreted as an array index, `arr[np.array(seq)]`, which will result either in an error or a different result. | |
| z[index] = x | |
| 191017-04:51:11,614 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:51:12,462 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:51:12,467 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:51:12,898 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:51:12,902 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:51:14,470 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:51:14,470 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:51:14,475 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191017-04:51:14,475 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191017-04:51:14,518 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:51:14,772 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:51:15,306 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:51:16,456 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:51:16,457 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:51:16,460 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:51:16,463 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191017-04:51:16,606 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:51:17,383 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:51:17,780 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:51:18,547 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:51:18,547 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:51:18,548 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:51:18,548 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:51:18,553 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:51:18,553 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:51:18,554 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:51:18,644 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191017-04:51:19,102 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:51:20,502 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:51:20,506 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:51:20,564 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:51:20,765 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:51:20,818 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:51:22,196 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:51:22,551 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:51:22,551 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:51:22,557 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191017-04:51:22,558 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191017-04:51:22,732 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:51:23,501 nipype.interface INFO: | |
| stderr 2019-10-17T04:51:23.500957:++ Max displacement in automask = 0.43 (mm) at sub-brick 3 | |
| 191017-04:51:23,501 nipype.interface INFO: | |
| stderr 2019-10-17T04:51:23.500957:++ Max delta displ in automask = 0.28 (mm) at sub-brick 3 | |
| 191017-04:51:23,704 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:51:24,503 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:51:24,503 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:51:24,504 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:51:24,504 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:51:24,509 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:51:24,509 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:51:24,510 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191017-04:51:24,601 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191017-04:51:24,627 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:51:24,750 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:51:24,750 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:51:26,481 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/fmap2ref_reg". | |
| 191017-04:51:26,495 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191017-04:51:28,641 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref". | |
| 191017-04:51:31,235 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:51:31,238 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:51:31,243 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:51:31,525 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.merge". | |
| 191017-04:51:31,696 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:51:32,570 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/validate". | |
| 191017-04:51:32,571 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:51:32,572 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:51:32,576 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:51:32,578 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191017-04:51:32,603 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191017-04:51:32,631 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.validate". | |
| 191017-04:51:32,634 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:51:33,232 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:51:34,504 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref". | |
| 191017-04:51:34,505 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:51:34,505 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:51:34,508 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191017-04:51:34,512 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:51:34,513 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191017-04:51:34,722 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:51:34,849 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:51:36,677 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:51:36,678 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:51:36,684 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:51:36,684 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:51:36,980 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:51:38,573 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:51:38,577 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:51:38,722 nipype.interface INFO: | |
| stderr 2019-10-17T04:51:38.722681:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191017-04:51:38,723 nipype.interface INFO: | |
| stderr 2019-10-17T04:51:38.722681:++ Authored by: RW Cox | |
| 191017-04:51:38,723 nipype.interface INFO: | |
| stderr 2019-10-17T04:51:38.723600:** AFNI converts NIFTI_datatype=4 (INT16) in file /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz to FLOAT32 | |
| 191017-04:51:38,723 nipype.interface INFO: | |
| stderr 2019-10-17T04:51:38.723600: Warnings of this type will be muted for this session. | |
| 191017-04:51:38,723 nipype.interface INFO: | |
| stderr 2019-10-17T04:51:38.723600: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none. | |
| 191017-04:51:38,724 nipype.interface INFO: | |
| stderr 2019-10-17T04:51:38.723600:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191017-04:51:38,724 nipype.interface INFO: | |
| stderr 2019-10-17T04:51:38.723600: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191017-04:51:38,724 nipype.interface INFO: | |
| stderr 2019-10-17T04:51:38.723600: or viewing/combining it with volumes of differing obliquity, | |
| 191017-04:51:38,724 nipype.interface INFO: | |
| stderr 2019-10-17T04:51:38.723600: you should consider running: | |
| 191017-04:51:38,724 nipype.interface INFO: | |
| stderr 2019-10-17T04:51:38.723600: 3dWarp -deoblique | |
| 191017-04:51:38,724 nipype.interface INFO: | |
| stderr 2019-10-17T04:51:38.723600: on this and other oblique datasets in the same session. | |
| 191017-04:51:38,724 nipype.interface INFO: | |
| stderr 2019-10-17T04:51:38.723600: See 3dWarp -help for details. | |
| 191017-04:51:38,724 nipype.interface INFO: | |
| stderr 2019-10-17T04:51:38.723600:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191017-04:51:38,724 nipype.interface INFO: | |
| stderr 2019-10-17T04:51:38.723600:++ Coarse del was 10, replaced with 7 | |
| 191017-04:51:38,793 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_hmc_wf.fsl2itk". | |
| 191017-04:51:39,112 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:51:40,383 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:51:40,505 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:51:40,505 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:51:40,510 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:51:40,511 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:51:41,182 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:51:42,570 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:51:42,571 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:51:42,577 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191017-04:51:42,579 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:51:42,724 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:51:43,119 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:51:44,297 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:51:44,548 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:51:44,549 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:51:44,553 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:51:44,555 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191017-04:51:45,197 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:51:46,680 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2".191017-04:51:46,680 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:51:46,685 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:51:46,696 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:51:46,750 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:51:46,831 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:51:47,276 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:51:48,582 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:51:48,582 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:51:48,583 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:51:48,588 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:51:48,588 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191017-04:51:48,596 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:51:48,780 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:51:49,86 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:51:50,547 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask".191017-04:51:50,547 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:51:50,553 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:51:50,554 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:51:50,609 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:51:50,610 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:51:50,847 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:51:51,807 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:51:52,532 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:51:52,533 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks".191017-04:51:52,533 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/fmap2ref_reg". | |
| 191017-04:51:52,534 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:51:52,538 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191017-04:51:52,540 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191017-04:51:52,540 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:51:52,546 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191017-04:51:52,758 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:51:52,816 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:51:54,196 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:51:54,586 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:51:54,587 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:51:54,591 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:51:54,593 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191017-04:51:54,901 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:51:56,579 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:51:56,585 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191017-04:51:56,904 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:51:58,64 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_confounds_wf.dvars". | |
| 191017-04:51:58,544 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:51:58,554 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191017-04:52:02,265 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:52:04,645 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:52:04,651 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:52:04,792 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:52:06,184 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:52:06,572 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:52:06,577 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:52:07,133 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:52:07,807 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:52:08,581 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:52:08,581 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:52:08,581 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:52:08,585 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:52:08,586 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:52:08,587 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:52:08,634 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:52:08,745 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:52:10,578 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:52:10,578 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:52:10,583 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:52:10,584 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191017-04:52:10,773 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:52:11,179 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:52:11,231 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:52:13,180 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:52:13,180 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:52:13,186 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:52:13,186 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:52:13,235 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:52:13,450 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:52:14,585 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:52:14,586 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:52:14,591 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191017-04:52:14,760 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191017-04:52:14,786 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:52:16,611 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:52:16,619 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:52:16,883 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:52:17,667 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_confounds_wf.dvars". | |
| 191017-04:52:27,501 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_confounds_wf.dvars". | |
| 191017-04:52:30,202 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:52:32,598 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:52:32,604 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:52:34,864 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:52:36,584 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:52:36,589 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191017-04:52:44,975 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:52:46,153 nipype.workflow INFO: | |
| [Node] Finished "_inu_n40". | |
| 191017-04:52:46,157 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.inu_n4". | |
| 191017-04:52:46,525 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:52:46,532 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:52:46,817 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:52:48,626 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:52:48,628 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/fmap2ref_reg". | |
| 191017-04:52:48,629 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.lap_target" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/lap_target". | |
| 191017-04:52:48,631 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:52:48,634 nipype.workflow INFO: | |
| [Node] Running "lap_target" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: | |
| ImageMath 3 12345_T1w_maths_corrected_maths.nii.gz Laplacian /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/12345_T1w_maths_corrected.nii.gz 1.5 1 | |
| 191017-04:52:48,640 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.res_target" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/res_target". | |
| 191017-04:52:48,641 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191017-04:52:48,645 nipype.workflow INFO: | |
| [Node] Running "res_target" ("niworkflows.interfaces.ants.ResampleImageBySpacing"), a CommandLine Interface with command: | |
| ResampleImageBySpacing 3 /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/12345_T1w_maths_corrected.nii.gz 12345_T1w_maths_corrected_resampled.nii.gz 4 4 4 1 | |
| 191017-04:52:51,294 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.res_target". | |
| 191017-04:52:56,617 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:52:58,619 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:52:58,624 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:52:58,790 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:53:00,627 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:53:00,631 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:53:00,811 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.lap_target". | |
| 191017-04:53:01,280 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:53:02,617 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:53:02,619 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.mrg_target" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/mrg_target". | |
| 191017-04:53:02,622 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:53:02,624 nipype.workflow INFO: | |
| [Node] Running "mrg_target" ("nipype.interfaces.utility.base.Merge") | |
| 191017-04:53:02,630 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.mrg_target". | |
| 191017-04:53:02,673 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:53:04,559 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:53:04,564 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191017-04:53:04,806 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:53:05,730 nipype.interface INFO: | |
| stderr 2019-10-17T04:53:05.730196:++ Max displacement in automask = 0.51 (mm) at sub-brick 3 | |
| 191017-04:53:05,730 nipype.interface INFO: | |
| stderr 2019-10-17T04:53:05.730196:++ Max delta displ in automask = 0.62 (mm) at sub-brick 3 | |
| 191017-04:53:06,599 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_confounds_wf.dvars" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_confounds_wf/dvars". | |
| 191017-04:53:06,599 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-04:53:06,605 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:53:06,923 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-04:53:06,978 nipype.workflow INFO: | |
| [Node] Running "dvars" ("nipype.algorithms.confounds.ComputeDVARS") | |
| 191017-04:53:11,663 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref". | |
| /usr/local/miniconda/lib/python3.7/site-packages/scipy/fftpack/basic.py:160: FutureWarning: Using a non-tuple sequence for multidimensional indexing is deprecated; use `arr[tuple(seq)]` instead of `arr[seq]`. In the future this will be interpreted as an array index, `arr[np.array(seq)]`, which will result either in an error or a different result. | |
| z[index] = x | |
| 191017-04:53:20,732 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg". | |
| 191017-04:53:22,600 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-04:53:22,607 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-04:53:28,815 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-04:53:30,621 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-04:53:30,650 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-04:53:32,651 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-04:53:34,610 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-04:53:34,612 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/fmap2ref_reg". | |
| 191017-04:53:34,619 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-04:53:34,625 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191017-04:53:46,515 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg". | |
| 191017-04:53:48,598 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.qwarp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/qwarp". | |
| 191017-04:53:48,608 nipype.workflow INFO: | |
| [Node] Running "qwarp" ("nipype.interfaces.afni.preprocess.QwarpPlusMinus"), a CommandLine Interface with command: | |
| 3dQwarp -prefix Qwarp.nii.gz -plusminus -noXdis -noZdis -base /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped.nii.gz -blur -1.0 -1.0 -source /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped_c0000.nii.gz -minpatch 9 -nopadWARP -noweight -pblur 0.05 0.05 | |
| 191017-04:53:49,180 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-04:53:50,648 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-04:53:50,673 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-04:53:53,152 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-04:53:56,607 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-04:53:56,804 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191017-04:54:11,787 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-04:54:12,649 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-04:54:12,654 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-04:54:15,413 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-04:54:16,639 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-04:54:16,663 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191017-04:54:27,235 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-04:54:28,664 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-04:54:28,669 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:54:28,977 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-04:54:30,637 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-04:54:30,643 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191017-04:54:38,840 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-04:54:39,237 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg". | |
| 191017-04:54:40,634 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-04:54:40,636 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/fmap2ref_reg". | |
| 191017-04:54:40,640 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:54:40,649 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191017-04:54:41,100 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-04:54:42,520 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_confounds_wf.dvars". | |
| 191017-04:54:42,649 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-04:54:42,654 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-04:54:43,197 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-04:54:45,859 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-04:54:45,864 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-04:54:45,914 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-04:54:46,703 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-04:54:46,710 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191017-04:54:46,911 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-04:54:48,708 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask".191017-04:54:48,708 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_confounds_wf.dvars" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_confounds_wf/dvars". | |
| 191017-04:54:48,714 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-04:54:49,47 nipype.workflow INFO: | |
| [Node] Running "dvars" ("nipype.algorithms.confounds.ComputeDVARS") | |
| 191017-04:54:49,55 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| /usr/local/miniconda/lib/python3.7/site-packages/scipy/fftpack/basic.py:160: FutureWarning: Using a non-tuple sequence for multidimensional indexing is deprecated; use `arr[tuple(seq)]` instead of `arr[seq]`. In the future this will be interpreted as an array index, `arr[np.array(seq)]`, which will result either in an error or a different result. | |
| z[index] = x | |
| 191017-04:55:28,864 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg". | |
| 191017-04:55:30,696 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.qwarp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/qwarp". | |
| 191017-04:55:30,708 nipype.workflow INFO: | |
| [Node] Running "qwarp" ("nipype.interfaces.afni.preprocess.QwarpPlusMinus"), a CommandLine Interface with command: | |
| 3dQwarp -prefix Qwarp.nii.gz -plusminus -noXdis -noZdis -base /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped.nii.gz -blur -1.0 -1.0 -source /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped_c0000.nii.gz -minpatch 9 -nopadWARP -noweight -pblur 0.05 0.05 | |
| 191017-04:55:31,210 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg". | |
| 191017-04:55:32,679 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/fmap2ref_reg". | |
| 191017-04:55:32,694 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191017-04:56:26,528 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_confounds_wf.dvars". | |
| 191017-04:56:29,729 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/init_aff". | |
| 191017-04:56:29,736 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_desc-BrainCerebellumExtraction_mask.nii.gz -m Mattes[/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/res_tmpl/tpl-OASIS30ANTs_res-01_T1w_resampled.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/res_target/12345_T1w_maths_corrected_resampled.nii.gz,32,Regular,0.250000] -o initialization.mat -p 0 -s [15.000000,0.100000] -t Affine[0.100000] -v 1 | |
| 191017-04:56:34,472 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.init_aff". | |
| 191017-04:56:36,684 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/norm". | |
| 191017-04:56:36,698 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ anat_to_template, anat_to_template_Warped.nii.gz ] --transform Rigid[ 0.1 ] --metric MI[ /home/fmriprep/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/12345_T1w_maths_corrected.nii.gz, 1, 32, Regular, 0.25 ] --convergence [ 1000x500x250x100, 1e-08, 10 ] --smoothing-sigmas 4.0x2.0x1.0x0.0vox --shrink-factors 8x4x2x1 --use-histogram-matching 1 --masks [ /home/fmriprep/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_desc-BrainCerebellumExtraction_mask.nii.gz, NULL ] --transform Affine[ 0.1 ] --metric MI[ /home/fmriprep/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/12345_T1w_maths_corrected.nii.gz, 1, 32, Regular, 0.25 ] --convergence [ 1000x500x250x100, 1e-08, 10 ] --smoothing-sigmas 4.0x2.0x1.0x0.0vox --shrink-factors 8x4x2x1 --use-histogram-matching 1 --masks [ /home/fmriprep/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_desc-BrainCerebellumExtraction_mask.nii.gz, NULL ] --transform SyN[ 0.1, 3.0, 0.0 ] --metric CC[ /home/fmriprep/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/12345_T1w_maths_corrected.nii.gz, 0.5, 4, None, 1 ] --metric CC[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/lap_tmpl/tpl-OASIS30ANTs_res-01_T1w_maths.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/lap_target/12345_T1w_maths_corrected_maths.nii.gz, 0.5, 4, None, 1 ] --convergence [ 50x10x0, 1e-09, 15 ] --smoothing-sigmas 2.0x1.0x0.0vox --shrink-factors 4x2x1 --use-histogram-matching 1 --masks [ /home/fmriprep/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_desc-BrainCerebellumExtraction_mask.nii.gz, NULL ] -v --winsorize-image-intensities [ 0.025, 0.975 ] --write-composite-transform 0 | |
| 191017-04:56:43,529 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.qwarp". | |
| 191017-04:56:44,692 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp". | |
| 191017-04:56:44,697 nipype.workflow INFO: | |
| [Node] Running "cphdr_warp" ("niworkflows.interfaces.utils.CopyHeader") | |
| 191017-04:56:45,31 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp". | |
| 191017-04:56:46,453 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg". | |
| 191017-04:56:46,671 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.to_ants" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/to_ants". | |
| 191017-04:56:46,675 nipype.workflow INFO: | |
| [Node] Running "to_ants" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-04:56:46,943 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.to_ants". | |
| 191017-04:56:49,190 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference". | |
| 191017-04:56:49,191 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.qwarp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/qwarp". | |
| 191017-04:56:49,197 nipype.workflow INFO: | |
| [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp/_warpfieldQwarp_PLUS_WARP_fixhdr.nii.gz | |
| 191017-04:56:49,199 nipype.workflow INFO: | |
| [Node] Running "qwarp" ("nipype.interfaces.afni.preprocess.QwarpPlusMinus"), a CommandLine Interface with command: | |
| 3dQwarp -prefix Qwarp.nii.gz -plusminus -noXdis -noZdis -base /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped.nii.gz -blur -1.0 -1.0 -source /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped_c0000.nii.gz -minpatch 9 -nopadWARP -noweight -pblur 0.05 0.05 | |
| 191017-04:56:55,642 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference". | |
| 191017-04:56:56,689 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_transform" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_transform". | |
| 191017-04:56:56,808 nipype.workflow INFO: | |
| [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") | |
| 191017-05:00:17,303 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_transform". | |
| 191017-05:00:19,248 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/merge". | |
| 191017-05:00:19,298 nipype.workflow INFO: | |
| [Node] Running "merge" ("fmriprep.interfaces.nilearn.Merge") | |
| 191017-05:00:59,762 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.merge". | |
| 191017-05:01:00,983 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/validate". | |
| 191017-05:01:01,28 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191017-05:01:01,57 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.validate". | |
| 191017-05:01:02,921 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref". | |
| 191017-05:01:02,925 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191017-05:01:04,607 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.qwarp". | |
| 191017-05:01:06,474 nipype.interface INFO: | |
| stderr 2019-10-17T05:01:06.474018:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191017-05:01:06,474 nipype.interface INFO: | |
| stderr 2019-10-17T05:01:06.474018:++ Authored by: RW Cox | |
| 191017-05:01:06,474 nipype.interface INFO: | |
| stderr 2019-10-17T05:01:06.474781:** AFNI converts NIFTI_datatype=4 (INT16) in file /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz to FLOAT32 | |
| 191017-05:01:06,474 nipype.interface INFO: | |
| stderr 2019-10-17T05:01:06.474781: Warnings of this type will be muted for this session. | |
| 191017-05:01:06,475 nipype.interface INFO: | |
| stderr 2019-10-17T05:01:06.474781: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none. | |
| 191017-05:01:06,475 nipype.interface INFO: | |
| stderr 2019-10-17T05:01:06.475165:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191017-05:01:06,475 nipype.interface INFO: | |
| stderr 2019-10-17T05:01:06.475165: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191017-05:01:06,475 nipype.interface INFO: | |
| stderr 2019-10-17T05:01:06.475165: or viewing/combining it with volumes of differing obliquity, | |
| 191017-05:01:06,475 nipype.interface INFO: | |
| stderr 2019-10-17T05:01:06.475165: you should consider running: | |
| 191017-05:01:06,475 nipype.interface INFO: | |
| stderr 2019-10-17T05:01:06.475165: 3dWarp -deoblique | |
| 191017-05:01:06,475 nipype.interface INFO: | |
| stderr 2019-10-17T05:01:06.475165: on this and other oblique datasets in the same session. | |
| 191017-05:01:06,475 nipype.interface INFO: | |
| stderr 2019-10-17T05:01:06.475165: See 3dWarp -help for details. | |
| 191017-05:01:06,475 nipype.interface INFO: | |
| stderr 2019-10-17T05:01:06.475165:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191017-05:01:06,475 nipype.interface INFO: | |
| stderr 2019-10-17T05:01:06.475165:++ Coarse del was 10, replaced with 7 | |
| 191017-05:01:06,933 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp". | |
| 191017-05:01:06,933 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-05:01:06,938 nipype.workflow INFO: | |
| [Node] Running "cphdr_warp" ("niworkflows.interfaces.utils.CopyHeader") | |
| 191017-05:01:06,939 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-05:01:07,268 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp". | |
| 191017-05:01:08,958 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.to_ants" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/to_ants". | |
| 191017-05:01:08,963 nipype.workflow INFO: | |
| [Node] Running "to_ants" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-05:01:09,247 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.to_ants". | |
| 191017-05:01:11,490 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference". | |
| 191017-05:01:11,498 nipype.workflow INFO: | |
| [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp/_warpfieldQwarp_PLUS_WARP_fixhdr.nii.gz | |
| 191017-05:01:13,165 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-05:01:15,8 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-05:01:15,19 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-05:01:17,690 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-05:01:18,127 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference". | |
| 191017-05:01:18,992 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-05:01:18,996 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_bold_trans_wf.bold_transform" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_bold_trans_wf/bold_transform". | |
| 191017-05:01:19,1 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-05:01:19,98 nipype.workflow INFO: | |
| [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") | |
| 191017-05:01:32,858 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-05:01:35,5 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-05:01:35,10 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-05:01:37,811 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-05:01:40,998 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-05:01:41,225 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected_trans_corrected.nii.gz -r | |
| 191017-05:01:55,757 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-05:01:57,9 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-05:01:57,14 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-05:01:59,185 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-05:02:01,32 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-05:02:01,38 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz | |
| 191017-05:02:02,12 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.qwarp". | |
| 191017-05:02:02,990 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp". | |
| 191017-05:02:02,993 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-05:02:02,996 nipype.workflow INFO: | |
| [Node] Running "cphdr_warp" ("niworkflows.interfaces.utils.CopyHeader") | |
| 191017-05:02:03,1 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-05:02:03,317 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp". | |
| 191017-05:02:05,7 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.to_ants" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/to_ants". | |
| 191017-05:02:05,12 nipype.workflow INFO: | |
| [Node] Running "to_ants" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-05:02:05,263 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.to_ants". | |
| 191017-05:02:07,560 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference". | |
| 191017-05:02:07,569 nipype.workflow INFO: | |
| [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp/_warpfieldQwarp_PLUS_WARP_fixhdr.nii.gz | |
| 191017-05:02:09,218 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-05:02:09,760 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-05:02:11,31 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-05:02:11,34 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-05:02:11,39 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191017-05:02:11,47 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-05:02:11,296 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-05:02:12,900 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-05:02:13,21 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-05:02:13,27 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191017-05:02:14,448 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference". | |
| 191017-05:02:15,34 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-05:02:15,39 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_bold_trans_wf.bold_transform" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_bold_trans_wf/bold_transform". | |
| 191017-05:02:15,43 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-05:02:15,141 nipype.workflow INFO: | |
| [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") | |
| 191017-05:02:21,60 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191017-05:02:23,44 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191017-05:02:23,50 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-05:02:23,176 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191017-05:02:25,28 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191017-05:02:25,36 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191017-05:02:25,654 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191017-05:02:27,50 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191017-05:02:27,56 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191017-05:02:27,115 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191017-05:02:27,408 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191017-05:02:29,41 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191017-05:02:29,41 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191017-05:02:29,47 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191017-05:02:29,52 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz | |
| 191017-05:02:29,236 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191017-05:02:30,996 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191017-05:02:31,2 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191017-05:02:31,333 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191017-05:02:31,647 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191017-05:02:34,867 nipype.interface INFO: | |
| stderr 2019-10-17T05:02:34.867369:++ Max displacement in automask = 0.44 (mm) at sub-brick 9 | |
| 191017-05:02:34,867 nipype.interface INFO: | |
| stderr 2019-10-17T05:02:34.867369:++ Max delta displ in automask = 0.31 (mm) at sub-brick 12 | |
| 191017-05:02:35,50 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191017-05:02:35,307 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected_trans_corrected.nii.gz -r | |
| 191017-05:02:40,159 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref". | |
| 191017-05:02:48,153 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.qwarp". | |
| 191017-05:02:49,38 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp". | |
| 191017-05:02:49,44 nipype.workflow INFO: | |
| [Node] Running "cphdr_warp" ("niworkflows.interfaces.utils.CopyHeader") | |
| 191017-05:02:49,48 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-05:02:49,54 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-05:02:49,247 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp". | |
| 191017-05:02:49,749 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191017-05:02:51,86 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191017-05:02:51,86 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.to_ants" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/to_ants". | |
| 191017-05:02:51,91 nipype.workflow INFO: | |
| [Node] Running "to_ants" ("nipype.interfaces.utility.wrappers.Function") | |
| 191017-05:02:51,92 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -f 0.20 -m | |
| 191017-05:02:51,315 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.to_ants". | |
| 191017-05:02:53,552 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference". | |
| 191017-05:02:53,560 nipype.workflow INFO: | |
| [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp/_warpfieldQwarp_PLUS_WARP_fixhdr.nii.gz | |
| 191017-05:02:53,715 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191017-05:02:55,43 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191017-05:02:55,47 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz | |
| 191017-05:02:55,285 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-05:02:57,37 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-05:02:57,51 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191017-05:02:58,807 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference". | |
| 191017-05:02:59,572 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191017-05:03:01,72 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191017-05:03:01,73 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191017-05:03:01,80 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191017-05:03:01,80 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191017-05:03:05,406 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191017-05:03:07,23 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191017-05:03:07,28 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191017-05:03:07,307 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191017-05:03:07,623 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191017-05:03:09,28 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191017-05:03:09,31 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191017-05:03:09,34 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191017-05:03:09,41 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-lear |
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