diff --git a/Dockerfile b/Dockerfile index 1241f4f..d61c00e 100644 --- a/Dockerfile +++ b/Dockerfile @@ -68,8 +68,6 @@ COPY optimized_antsMultivariateTemplateConstruction $RABIES/optimized_antsMultiv 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@8cc2b031c22df5cf8d01f75ec186570dd3ffb3e9 && \ micromamba run -n base pip install -e $RABIES && \ micromamba clean --all --yes diff --git a/dependencies.txt b/dependencies.txt index 1f5adcf..b51bd22 100644 --- a/dependencies.txt +++ b/dependencies.txt @@ -2,4 +2,4 @@ minc-toolkit-v2>=1.9.18 ANTs>=v2.4.3 FSL AFNI -https://github.com/Gab-D-G/simpleitk_timeseries_motion_correction@rabies_conform \ No newline at end of file +simpleitk_timeseries_motion_correction @ git+https://github.com/Gab-D-G/simpleitk_timeseries_motion_correction@8cc2b031c22df5cf8d01f75ec186570dd3ffb3e9 \ No newline at end of file diff --git a/rabies_environment.dev.yml b/rabies_environment.dev.yml index 9849604..9df0681 100644 --- a/rabies_environment.dev.yml +++ b/rabies_environment.dev.yml @@ -23,5 +23,7 @@ dependencies: - fsl-melodic - traits<7.0 - tqdm + - git # necessary for installing the simpleitk_timeseries_motion_correction package from GitHub - pip: - qbatch + - simpleitk_timeseries_motion_correction @ git+https://github.com/Gab-D-G/simpleitk_timeseries_motion_correction@8cc2b031c22df5cf8d01f75ec186570dd3ffb3e9 diff --git a/rabies_environment.yml b/rabies_environment.yml index 6889731..130a179 100644 --- a/rabies_environment.yml +++ b/rabies_environment.yml @@ -24,5 +24,7 @@ dependencies: - fsl-melodic=2111.3 - traits<7.0 - tqdm + - git # necessary for installing the simpleitk_timeseries_motion_correction package from GitHub - pip: - qbatch==2.3 + - simpleitk_timeseries_motion_correction @ git+https://github.com/Gab-D-G/simpleitk_timeseries_motion_correction@8cc2b031c22df5cf8d01f75ec186570dd3ffb3e9 diff --git a/setup.py b/setup.py index d687aef..53f025c 100644 --- a/setup.py +++ b/setup.py @@ -38,7 +38,6 @@ 'networkx<3', 'traits<7.0', 'tqdm', - 'simpleitk_timeseries_motion_correction @ git+https://github.com/Gab-D-G/simpleitk_timeseries_motion_correction@8cc2b031c22df5cf8d01f75ec186570dd3ffb3e9', ] # What packages are optional?