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Commits on Mar 30, 2026

• Update subworkflows/local/utils_nfcore_mag_pipeline/main.nf

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• Update subworkflows/local/utils_nfcore_mag_pipeline/main.nf

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Commits on Mar 29, 2026

• Merge remote-tracking branch 'upstream/dev' into todo-cleanup

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• feat: add proper method-style paragraph for citations.

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• chore: improve conditions for bowtie2 and minimap2

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• chore: normalize citations

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• chore: fix citations

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Commits on Mar 28, 2026

• Add conditional methods citations

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• chore: try another way

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• feat: make ordering more explicit

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• fix: add sorting step to ensure reproducibility

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Commits on Mar 27, 2026

• feat: migrate collecFile to qsv/cat [WIP]

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• fix: use deep hash sorting to keep gunc summaries stable

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Commits on Mar 23, 2026

• Merge remote-tracking branch 'upstream/dev' into fix/dastool-check

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• fix: include all binners in dastool validation

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Commits on Mar 16, 2026

• fix: add sorting to keep result stable

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• feat: enable gunc in test_assembly_input profile

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Commits on Mar 11, 2026

• Update snapshot

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• Fix module usage

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Commits on Mar 6, 2026

• Merge remote-tracking branch 'upstream/dev' into minimap2-yaml-issue

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Commits on Mar 4, 2026

• Merge remote-tracking branch 'upstream/dev' into fix-docs

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• Fix typos

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Commits on Feb 18, 2026

• Remove correct line

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Commits on Feb 17, 2026

• update minimap2 modules to see if it fixes yaml loading isseus

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Commits on Feb 9, 2026

• Re-add contigs vs scaffolds metaSPAdes selection

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Commits on Jan 29, 2026

• Remove no-longer needed versions mixing for metabat2

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• Fix file extension based on review from @charles-plessyand @takiifujita-ui

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Commits on Jan 25, 2026

• Merge pull request #967 from nf-core/update-utils-subworkflow

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• Update tuils_nfcore_pipeline

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Commits on Jan 20, 2026

• Workaround Checkm2 database building until aria2 is unblocked (will run longer)

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Commits on Jan 16, 2026

• Apply suggestions from code review

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Commits on Jan 15, 2026

• update subworkflow to take in the new file

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• Improve docs and make stronger warning about pyDamage and

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Commits on Jan 9, 2026

• Merge branch '964-generate-contig-to-bin-maps-for-all-bins-during-binning-and-simplify-code' into merge-binqc-pydamage-2

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• Move contig to bin map to outside of binning subworkflow to support inclusion of refined bins

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