Enhance DICOM processing and add HPC deployment support#15

Merged

NicholasLeotta99 merged 12 commits into

Jun 11, 2026

Commits on Mar 2, 2026

Merge pull request #4 from TheParraLab/develop
NicholasLeotta99
authored

Commits on Mar 16, 2026

Merge pull request #11 from TheParraLab/develop
NicholasLeotta99
authored

Commits on Jun 11, 2026

Add Singularity/Apptainer support for HPC deployments
NicholasLeotta99
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Add conda/mamba native HPC deployment as third runtime option
NicholasLeotta99
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Add --scan-dir/--save-dir passthrough to 00_preprocess.sh for native HPC deployment
NicholasLeotta99
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Add --start-step, --stop-step, --steps flags to 00_preprocess.sh for partial pipeline runs
NicholasLeotta99
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Restore --scan-dir/--save-dir passthrough to step 01 in 00_preprocess.sh
NicholasLeotta99
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Fix conda runtime: pass --scan-dir/--save-dir through to pipeline and correct typo in Singularity hint
NicholasLeotta99
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fix: name Docker base stage for CI target build
Copilot
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Implement test synthetic dataset
NicholasLeotta99
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Merge branch 'feature/hpc-singularity' of https://github.com/TheParraLab/MRI_preprocessing into feature/hpc-singularity
NicholasLeotta99
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Merge pull request #14 from TheParraLab/feature/hpc-singularity
NicholasLeotta99
authored