diff --git a/.github/workflows/test-inference-pipeline.yml b/.github/workflows/test-inference-pipeline.yml index 43fce31..f085381 100644 --- a/.github/workflows/test-inference-pipeline.yml +++ b/.github/workflows/test-inference-pipeline.yml @@ -19,21 +19,17 @@ jobs: - name: Install dependencies for deepMask run: | - eval "$(conda shell.bash hook)" - conda create -n preprocess python=3.8 - conda activate preprocess + eval "$(micromamba shell.bash hook)" + micromamba create -n preprocess python=3.8 + micromamba activate preprocess python -m pip install -r ./app/deepMask/app/requirements.txt - conda deactivate + micromamba deactivate - name: Install dependencies for deepFCD run: | - eval "$(conda shell.bash hook)" - conda create -n deepFCD python=3.8 - conda activate deepFCD python -m pip install -r ./app/requirements.txt - conda install -c conda-forge pygpu==0.7.6 + micromamba install -c conda-forge pygpu==0.7.6 pip cache purge - conda deactivate - name: Download openneuro.org dataset to test the inference pipeline # https://openneuro.org/datasets/ds004199/versions/1.0.5 run: |