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Add minimap2=2.31,samtools=1.24 - #4207
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bgruening merged 1 commit intoOct 10, 2026
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bgruening
enabled auto-merge
October 10, 2026 14:41
bgruening
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Oct 10, 2026
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Requesting
mulled-v2-66534bcbb7031a148b13e2ad42583020b9cd25c4:ad4c240457048f1d3cc0bd8c8fa39bf27d222eb7.Why: a Nextflow pipeline (https://github.com/GeiserX/Personal-Genome-Pipeline) pins minimap2 2.31 and samtools 1.24. A process runs in one container, so without an image that holds both, the aligner's SAM output goes to disk compressed before samtools reads it back. On a 30x genome that file was 119 GB.
The existing tag
b411340b52d82a9c276d87c7a3dcffc880be762f-0has minimap2 2.31 with samtools 1.23.1. samtools 1.24 changed howfixmatehandles supplementary alignments, so the pipeline needs the exact 1.24 to keep the same BAM as its other entry point.Both packages are on bioconda at these versions.