Update BWA_INDEX memory formula to match BWAMEM2_INDEX pattern#9528
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Update BWA_INDEX memory formula to match BWAMEM2_INDEX pattern#9528
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Co-authored-by: edmundmiller <20095261+edmundmiller@users.noreply.github.com>
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[WIP] Update BWA_INDEX memory request for HPC systems
Update BWA_INDEX memory formula to match BWAMEM2_INDEX pattern
Dec 8, 2025
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PR checklist
versions.ymlfile.labelnf-core modules test <MODULE> --profile dockernf-core modules test <MODULE> --profile singularitynf-core modules test <MODULE> --profile condanf-core subworkflows test <SUBWORKFLOW> --profile dockernf-core subworkflows test <SUBWORKFLOW> --profile singularitynf-core subworkflows test <SUBWORKFLOW> --profile condaDescription
BWA_INDEX fails on HPC systems with strict memory limits. Applied the same memory allocation pattern used in BWAMEM2_INDEX.
Changes
Updated
modules/nf-core/bwa/index/main.nf:task.attemptmultiplier enables retry with increased memory on failure53.7MB / 10MB = 5.37Identical pattern to BWAMEM2_INDEX (28x scaling, 280MB floor).
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