JohnAtl

#!/bin/bash

# Note that this repo includes a Singularity file too
git clone https://github.com/miykael/nipype_tutorial
cd nipype_tutorial
chmod +x generate.sh
./generate.sh
docker build --tag jjnipype .
./run_nipype_tutorial_docker

JohnAtl

#
# This is kind of a mashup with 
# https://github.com/miykael/nipype-beginner-s-guide/blob/master/scripts/example_fMRI_1_first_level.py
#

def subjectinfo(subject_id):

    import pandas as pd
    from nipype.interfaces.base import Bunch
    

JohnAtl

% List of open inputs
nrun = 1; % enter the number of runs here
jobfile = {'/Volumes/Data/Research/fmri/fmri_rs/code/SPM_code/im1_first_level_job.m'};
jobs = repmat(jobfile, 1, nrun);
inputs = cell(0, nrun);
for crun = 1:nrun
end
spm('defaults', 'FMRI');
spm_jobman('run', jobs, inputs{:});

JohnAtl

# -*- mode: ruby -*-
# vi: set ft=ruby :

# All Vagrant configuration is done below. The "2" in Vagrant.configure
# configures the configuration version (we support older styles for
# backwards compatibility). Please don't change it unless you know what
# you're doing.
Vagrant.configure("2") do |config|
  # The most common configuration options are documented and commented below.
  # For a complete reference, please see the online documentation at

JohnAtl

#!/bin/bash

docker run -it --rm \
       -v /Volumes/Data/Courses/Tutorials/nipype_tutorial/:/home/neuro/nipype_tutorial \
       -v /Volumes/Data/Courses/Tutorials/nipype_tutorial/data/:/data \
       -v /Volumes/Data/Courses/Tutorials/nipype_tutorial/output/:/output \
       -p 8989:8888 \
       miykael/nipype_tutorial \
       jupyter notebook
       

JohnAtl

Bootstrap: docker
From: nipype/nipype:latest

# This is the adjusted (fixed) build recipe for the issue above.
# sudo singularity build swist Singularity.swist

%labels
    Maintainer GT
    Version v1.0

JohnAtl

220329-07:08:30,215 nipype.workflow INFO:
	 Workflow preproc settings: ['check', 'execution', 'logging', 'monitoring']
220329-07:08:30,300 nipype.workflow INFO:
	 Running in parallel.
220329-07:08:30,304 nipype.workflow INFO:
	 [MultiProc] Running 0 tasks, and 10 jobs ready. Free memory (GB): 28.80/28.80, Free processors: 1/1.
220329-07:08:32,307 nipype.workflow INFO:
	 [Job 0] Completed (preproc.selectfiles).
220329-07:08:32,311 nipype.workflow INFO:
	 [MultiProc] Running 0 tasks, and 11 jobs ready. Free memory (GB): 28.80/28.80, Free processors: 1/1.

JohnAtl

<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE plist PUBLIC "-//Apple//DTD PLIST 1.0//EN" "http://www.apple.com/DTDs/PropertyList-1.0.dtd">
<plist version="1.0">
<array>
	<dict>
		<key>Activate</key>
		<string>WithPalette</string>
		<key>AddToMacroPalette</key>
		<false/>
		<key>AddToStatusMenu</key>

JohnAtl

Project Actions Template

---

#project @review({{review interval}}) @start({{start date}}) @due({{due data}})

Next Steps

---

Notes

---

Done

Cancelled

JohnAtl

Project Template

---

#project @review({{review interval}}) @start({{start date}}) @due({{due data}})

Project plan

To make your own plan, answer the following questions:

What is your goal?

What is the deadline?

What action do you take?

What is the amount of action?

How often do you do this action?