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Review python dependencies #488

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Merged
Gab-D-G merged 2 commits into from
Mar 25, 2026
Merged

Review python dependencies #488

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8041b52
Added pip and a specific commit for simpleitk_timeseries_motion_corre…
Gab-D-G Mar 23, 2026
26ec6ed
Also add the specific commit for SITK HMC in docker build
Gab-D-G Mar 25, 2026
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2 changes: 1 addition & 1 deletion Dockerfile
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Original file line number Diff line number Diff line change
Expand Up @@ -69,7 +69,7 @@ COPY scripts $RABIES/scripts

RUN micromamba install -y -n base -f $RABIES/rabies_environment.yml && \
micromamba install -n base -y -c conda-forge git && \
micromamba run -n base pip install git+https://github.com/Gab-D-G/simpleitk_timeseries_motion_correction@rabies_conform && \
micromamba run -n base pip install git+https://github.com/Gab-D-G/simpleitk_timeseries_motion_correction@8cc2b031c22df5cf8d01f75ec186570dd3ffb3e9 && \
micromamba run -n base pip install -e $RABIES && \
micromamba clean --all --yes

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2 changes: 1 addition & 1 deletion rabies_environment.yml
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Expand Up @@ -5,7 +5,7 @@ channels:
- https://fsl.fmrib.ox.ac.uk/fsldownloads/fslconda/public/
dependencies:
- python=3.9
- pip
- pip>=23.0
- future
- matplotlib=3.3.4
- nibabel=3.2.1
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3 changes: 2 additions & 1 deletion setup.py
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Expand Up @@ -22,6 +22,7 @@
# What packages are required for this module to be executed?
REQUIRED = [
# 'requests', 'maya', 'records',
'pip>=23.0',
'matplotlib>=3.3.4',
'nibabel>=3.2.1',
'nilearn>=0.7.1',
Expand All @@ -39,7 +40,7 @@
'networkx<3',
'traits<7.0',
'tqdm',
'simpleitk_timeseries_motion_correction @ git+https://github.com/Gab-D-G/simpleitk_timeseries_motion_correction@rabies_conform',
'simpleitk_timeseries_motion_correction @ git+https://github.com/Gab-D-G/simpleitk_timeseries_motion_correction@8cc2b031c22df5cf8d01f75ec186570dd3ffb3e9',
]

# What packages are optional?
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