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Commitbe1ea72

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Merge pull requestmiykael#149 from effigies/fix/datalad_command
FIX: Datalad command
2 parents27df96a +4fe3537 commitbe1ea72

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6 files changed

+13
-10
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6 files changed

+13
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‎Dockerfile

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@@ -138,6 +138,7 @@ RUN export PATH="/opt/miniconda-latest/bin:$PATH" \
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&& pip install --no-cache-dir \
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https://github.com/nipy/nipype/tarball/master \
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https://github.com/INCF/pybids/tarball/0.7.1 \
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niflow-nipype1-workflows \
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nilearn \
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datalad[full] \
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nipy \

‎notebooks/basic_data_input.ipynb

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@@ -651,7 +651,7 @@
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"metadata": {},
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"outputs": [],
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"source": [
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"!datalad get -r -J 4 /data/ds000114/derivatives/freesurfer/sub-01"
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"!datalad get -r -J 4-d /data/ds000114/data/ds000114/derivatives/freesurfer/sub-01"
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]
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},
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{

‎notebooks/example_normalize.ipynb

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"outputs": [],
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"source": [
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"%%bash\n",
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"datalad get -J 4 /data/ds000114/derivatives/fmriprep/sub-0[2345789]/anat/*h5"
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"datalad get -J 4-d /data/ds000114/data/ds000114/derivatives/fmriprep/sub-0[2345789]/anat/*h5"
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]
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},
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{

‎notebooks/example_preprocessing.ipynb

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"outputs": [],
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"source": [
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"%%bash\n",
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"datalad get -J 4 /data/ds000114/derivatives/fmriprep/sub-*/anat/*preproc.nii.gz\\\n",
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" /data/ds000114/sub-*/ses-test/func/*fingerfootlips*"
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"datalad get -J 4 -d /data/ds000114\\\n",
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" /data/ds000114/derivatives/fmriprep/sub-*/anat/*preproc.nii.gz\\\n",
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" /data/ds000114/sub-*/ses-test/func/*fingerfootlips*"
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]
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},
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{

‎notebooks/handson_preprocessing.ipynb

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"outputs": [],
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"source": [
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"%%bash\n",
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"datalad get -J 4 /data/ds000114/sub-0[234789]/ses-test/anat/sub-0[234789]_ses-test_T1w.nii.gz\\\n",
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" /data/ds000114/sub-0[234789]/ses-test/func/*fingerfootlips*"
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"datalad get -J 4 -d /data/ds000114\\\n",
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" /data/ds000114/sub-0[234789]/ses-test/anat/sub-0[234789]_ses-test_T1w.nii.gz\\\n",
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" /data/ds000114/sub-0[234789]/ses-test/func/*fingerfootlips*"
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]
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},
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{

‎notebooks/introduction_dataset.ipynb

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"source": [
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"%%bash\n",
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"cd /data/ds000114\n",
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"datalad get -J 4/data/ds000114/derivatives/fmriprep/sub-*/anat/*preproc.nii.gz\\\n",
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"/data/ds000114/sub-01/ses-test/anat\\\n",
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"/data/ds000114/sub-*/ses-test/func/*fingerfootlips*"
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"datalad get -J 4 derivatives/fmriprep/sub-*/anat/*preproc.nii.gz\\\n",
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"sub-01/ses-test/anat\\\n",
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"sub-*/ses-test/func/*fingerfootlips*"
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]
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},
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{
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"source": [
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"%%bash\n",
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"cd /data/ds000114\n",
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"datalad get/data/ds000114/sub-01/ses-test/func/sub-01_ses-test_task-linebisection_events.tsv"
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"datalad get sub-01/ses-test/func/sub-01_ses-test_task-linebisection_events.tsv"
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]
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},
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{

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