Migrate snpsift/split to topic channel versions#11732
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jonasscheid merged 4 commits intoMay 21, 2026
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Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>
…ta.split key Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>
Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>
mashehu
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May 21, 2026
| output: | ||
| tuple val(meta), path("*.vcf"), emit: out_vcfs | ||
| path "versions.yml", emit: versions | ||
| tuple val("${task.process}"), val('snpsift'), eval("SnpSift split -h 2>&1 | head -n1 | sed 's/^.*version //; s/ .*//'"), topic: versions, emit: versions_snpsift |
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| tuple val("${task.process}"), val('snpsift'), eval("SnpSift split -h 2>&1 | head -n1 | sed 's/^.*version //; s/ .*//'"), topic: versions, emit: versions_snpsift | |
| tuple val("${task.process}"), val('snpsift'), eval("SnpSift split -h 2>&1 | sed -n 's/.*version \([^ ]*\).*/\1/p;q'"), topic: versions, emit: versions_snpsift |
Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>
manascripts
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May 21, 2026
* Migrate snpsift/split to topic channel versions Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com> * Drive snpsift/split join mode via ext.args instead of non-standard meta.split key Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com> * Use args.tokenize() for exact -j flag matching in snpsift/split Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com> * Apply review suggestion: simplify snpsift version eval to a single sed Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com> --------- Co-authored-by: Claude Opus 4.7 <noreply@anthropic.com>
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