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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

  jfy133

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Commits on Feb 17, 2026

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

  jfy133

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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

  jfy133

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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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  dialvarezs

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Commits on Jan 15, 2026

• update subworkflow to take in the new file

  jfy133

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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

  jfy133

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

  jfy133

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• Add support for contig2bin map generation immediately after binning

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Commits on Jan 7, 2026

• Better commenting

  jfy133

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• Merge branch 'dev' into merge-binqc-pydamage-2

  jfy133

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• Update tests and improve docs

  jfy133

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• Save 'raw' files of the reordered contigs per bin

  jfy133

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Commits on Jan 6, 2026

• Get basic scripts working

  jfy133

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Commits on Dec 3, 2025

• Fix conditional

  dialvarezs

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• Fix param names, add additional warning

  dialvarezs

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• Add verifications to ensure that GTDB-Tk is only run when bin QC is enabled

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Commits on Dec 1, 2025

• Merge pull request #861 from jeffe107/dev

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Commits on Nov 28, 2025

• Merge branch 'dev' into dev-jeffe107

  dialvarezs

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• Add summarise pydamage bins module and store making script

  jfy133

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Commits on Nov 27, 2025

• Fix meta linting

  dialvarezs

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• Fix busc report concat

  dialvarezs

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• Fix logical error in BIgMAG parameters check

  jeffe107

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• Fix BIgMAG parameter validation logic

  jeffe107

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• Fix error message for BIgMAG file generation

  jeffe107

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• Add validation for BIgMAG file generation parameters

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• Update subworkflows/local/bin_qc/main.nf

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