From 8041b52e4e628340847037f6dc944adde0b985f6 Mon Sep 17 00:00:00 2001 From: Gab-D-G Date: Mon, 23 Mar 2026 22:50:03 +0100 Subject: [PATCH 1/2] Added pip and a specific commit for simpleitk_timeseries_motion_correction --- rabies_environment.yml | 2 +- setup.py | 3 ++- 2 files changed, 3 insertions(+), 2 deletions(-) diff --git a/rabies_environment.yml b/rabies_environment.yml index 7297f16..a5bc271 100644 --- a/rabies_environment.yml +++ b/rabies_environment.yml @@ -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 diff --git a/setup.py b/setup.py index 4e81f90..72a71e7 100644 --- a/setup.py +++ b/setup.py @@ -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', @@ -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? From 26ec6edd12377cc441b52ac9212e8cce7940aa0e Mon Sep 17 00:00:00 2001 From: Gab-D-G Date: Wed, 25 Mar 2026 14:04:29 +0100 Subject: [PATCH 2/2] Also add the specific commit for SITK HMC in docker build --- Dockerfile | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/Dockerfile b/Dockerfile index 036fb23..1241f4f 100644 --- a/Dockerfile +++ b/Dockerfile @@ -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