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Fix CI tests #101

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Merged
Dhananjhay merged 4 commits into from
Feb 24, 2026
Merged

Fix CI tests #101

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7c35b41
change participant label from 001 to 002
Dhananjhay Feb 24, 2026
963ea33
pin python version when building and uploading conda package
Dhananjhay Feb 24, 2026
6b6f1f2
pin python in the mamba install step
Dhananjhay Feb 24, 2026
68c4bbc
stop building and uploading conda package on PRs
Dhananjhay Feb 24, 2026
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2 changes: 1 addition & 1 deletion .github/workflows/push_conda.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -31,7 +31,7 @@ jobs:
auto-activate-base: true
- name: Install dependencies
run: |
mamba install -y -c conda-forge conda-build anaconda-client boa
mamba install -y -c conda-forge conda-build anaconda-client boa python=3.11
- name: Get latest commit SHA from main
id: get_sha
run: |
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6 changes: 3 additions & 3 deletions Dockerfile
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Expand Up @@ -17,11 +17,11 @@ RUN set -e && \
mamba create -y -n snakebids-env -c conda-forge -c bioconda snakebids unzip && \
source /opt/conda/etc/profile.d/conda.sh && \
conda activate snakebids-env && \
./autoafids/run.py test_data/bids_T1w test_out participant --participant-label 001 --use-conda --conda-create-envs-only --cores all --conda-prefix /src/conda-envs && \
./autoafids/run.py test_data/bids_T1w test_out participant --participant-label 002 --use-conda --conda-create-envs-only --cores all --conda-prefix /src/conda-envs && \
./autoafids/run.py test_data/bids_T2w test_out participant --modality T2w --use-conda --conda-create-envs-only --cores all --conda-prefix /src/conda-envs && \
./autoafids/run.py test_data/bids_ct test_out participant --modality ct --use-conda --conda-create-envs-only --cores all --conda-prefix /src/conda-envs && \
./autoafids/run.py test_data/bids_T1w test_out participant --participant-label 001 --stereotaxy STN --use-conda --conda-create-envs-only --cores all --conda-prefix /src/conda-envs && \
./autoafids/run.py test_data/bids_T1w test_out participant --participant-label 001 --fidqc --use-conda --conda-create-envs-only --cores all --conda-prefix /src/conda-envs && \
./autoafids/run.py test_data/bids_T1w test_out participant --participant-label 002 --stereotaxy STN --use-conda --conda-create-envs-only --cores all --conda-prefix /src/conda-envs && \
./autoafids/run.py test_data/bids_T1w test_out participant --participant-label 002 --fidqc --use-conda --conda-create-envs-only --cores all --conda-prefix /src/conda-envs && \
conda clean --all -y && \
rm -rf /opt/conda/pkgs /root/.caches

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