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CyclotronResearchCentre / bidsme

Flexible bidsificator for multimodal datasets
GNU General Public License v2.0
8 stars 2 forks source link

JOSS Review — Installation Proof #11

Closed TheChymera closed 1 year ago

TheChymera commented 1 year ago

As part of the JOSS review: https://github.com/openjournals/joss-reviews/issues/5575

Could you confirm that the following files constitute a successful installation of the package?

decohost ~ # equery f bidsme
 * Searching for bidsme ...
 * Contents of dev-python/bidsme-1.4.4:
/usr
/usr/bin
/usr/bin/bidsme -> ../lib/python-exec/python-exec2
/usr/bin/bidsme-pdb -> ../lib/python-exec/python-exec2
/usr/lib
/usr/lib/python-exec
/usr/lib/python-exec/python3.11
/usr/lib/python-exec/python3.11/bidsme
/usr/lib/python-exec/python3.11/bidsme-pdb
/usr/lib/python3.11
/usr/lib/python3.11/site-packages
/usr/lib/python3.11/site-packages/bidsme
/usr/lib/python3.11/site-packages/bidsme-1.4.0.post4.dist-info
/usr/lib/python3.11/site-packages/bidsme-1.4.0.post4.dist-info/METADATA
/usr/lib/python3.11/site-packages/bidsme-1.4.0.post4.dist-info/RECORD
/usr/lib/python3.11/site-packages/bidsme-1.4.0.post4.dist-info/WHEEL
/usr/lib/python3.11/site-packages/bidsme-1.4.0.post4.dist-info/entry_points.txt
/usr/lib/python3.11/site-packages/bidsme-1.4.0.post4.dist-info/top_level.txt
/usr/lib/python3.11/site-packages/bidsme/Modules
/usr/lib/python3.11/site-packages/bidsme/Modules/EEG
/usr/lib/python3.11/site-packages/bidsme/Modules/EEG/BrainVision.py
/usr/lib/python3.11/site-packages/bidsme/Modules/EEG/EDF.py
/usr/lib/python3.11/site-packages/bidsme/Modules/EEG/EEG.py
/usr/lib/python3.11/site-packages/bidsme/Modules/EEG/_EDF.py
/usr/lib/python3.11/site-packages/bidsme/Modules/EEG/_EEG.py
/usr/lib/python3.11/site-packages/bidsme/Modules/EEG/_MNE.py
/usr/lib/python3.11/site-packages/bidsme/Modules/EEG/__init__.py
/usr/lib/python3.11/site-packages/bidsme/Modules/EEG/__pycache__
/usr/lib/python3.11/site-packages/bidsme/Modules/EEG/__pycache__/BrainVision.cpython-311.opt-1.pyc
/usr/lib/python3.11/site-packages/bidsme/Modules/EEG/__pycache__/BrainVision.cpython-311.opt-2.pyc
/usr/lib/python3.11/site-packages/bidsme/Modules/EEG/__pycache__/BrainVision.cpython-311.pyc
/usr/lib/python3.11/site-packages/bidsme/Modules/EEG/__pycache__/EDF.cpython-311.opt-1.pyc
/usr/lib/python3.11/site-packages/bidsme/Modules/EEG/__pycache__/EDF.cpython-311.opt-2.pyc
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/usr/lib/python3.11/site-packages/bidsme/Modules/MRI
/usr/lib/python3.11/site-packages/bidsme/Modules/MRI/DICOM.py
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/usr/lib/python3.11/site-packages/bidsme/Modules/MRI/NIFTI.py
/usr/lib/python3.11/site-packages/bidsme/Modules/MRI/_DICOM.py
/usr/lib/python3.11/site-packages/bidsme/Modules/MRI/_MRI.py
/usr/lib/python3.11/site-packages/bidsme/Modules/MRI/__init__.py
/usr/lib/python3.11/site-packages/bidsme/Modules/MRI/__pycache__
/usr/lib/python3.11/site-packages/bidsme/Modules/MRI/__pycache__/DICOM.cpython-311.opt-1.pyc
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/usr/lib/python3.11/site-packages/bidsme/Modules/PET/__pycache__
/usr/lib/python3.11/site-packages/bidsme/Modules/PET/__pycache__/DICOM.cpython-311.opt-1.pyc
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nbeliy commented 1 year ago

Looks correct. Except this part (if these are the links): 

/usr/bin/bidsme -> ../lib/python-exec/python-exec2
/usr/bin/bidsme-pdb -> ../lib/python-exec/python-exec2

bidsme and bidsme-pdb are supposed to point to /usr/lib/python-exec/python3.11/bidsme and /usr/lib/python-exec/python3.11/bidsme-pdb

Usually I test installation using bidsme --help.

TheChymera commented 1 year ago

@nbeliy the python-exec2 file is a generic wrapper, so it should be ok. Thanks.