Created
August 6, 2011 13:29
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(iterables, mapnode, rename)
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| import os | |
| import nipype.interfaces.utility as niu | |
| import nipype.interfaces.io as nio | |
| import nipype.interfaces.fsl as fsl | |
| import nipype.pipeline.engine as pe | |
| inputspec = pe.Node(niu.IdentityInterface(fields=['frac']), | |
| name='inputsource') | |
| inputspec.iterables = ('frac', [0.3, 0.5]) | |
| better = pe.Node(fsl.BET(), | |
| name='better') | |
| better.inputs.in_file = os.path.abspath('s1struct.nii') | |
| rename = pe.Node(niu.Rename(format_string='betted_%(frac).03f', | |
| keep_ext=True), | |
| name='namer') | |
| sinker = pe.Node(nio.DataSink(parameterization=False), | |
| name='sinker') | |
| sinker.inputs.base_directory = os.path.abspath('testrename2') | |
| wf = pe.Workflow(name='testrename') | |
| wf.config = {'execution' : {'stop_on_first_crash' : True}} | |
| wf.base_dir = os.path.abspath('testrename2') | |
| wf.connect(inputspec, 'frac', better, 'frac') | |
| wf.connect(better, 'out_file', rename, 'in_file') | |
| wf.connect(inputspec, 'frac', rename, 'frac') | |
| wf.connect(rename, 'out_file', sinker, 'betted') |
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| import os | |
| import nipype.interfaces.utility as niu | |
| import nipype.interfaces.io as nio | |
| import nipype.interfaces.fsl as fsl | |
| import nipype.pipeline.engine as pe | |
| inputspec = pe.Node(niu.IdentityInterface(fields=['frac']), | |
| name='inputsource') | |
| inputspec.inputs.frac = [0.3, 0.5] | |
| better = pe.MapNode(fsl.BET(), | |
| iterfield = ['frac'], | |
| name='better') | |
| better.inputs.in_file = os.path.abspath('s1struct.nii') | |
| rename = pe.MapNode(niu.Rename(format_string='betted_%(frac).03f', | |
| keep_ext=True), | |
| iterfield= ['in_file','frac'], | |
| name='namer') | |
| sinker = pe.Node(nio.DataSink(parameterization=False), | |
| name='sinker') | |
| sinker.inputs.base_directory = os.path.abspath('testrename') | |
| wf = pe.Workflow(name='testrename') | |
| wf.config = {'execution' : {'stop_on_first_crash' : True}} | |
| wf.base_dir = os.path.abspath('testrename') | |
| wf.connect(inputspec, 'frac', better, 'frac') | |
| wf.connect(better, 'out_file', rename, 'in_file') | |
| wf.connect(inputspec, 'frac', rename, 'frac') | |
| wf.connect(rename, 'out_file', sinker, 'betted') |
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