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Commits on Oct 25, 2025

• Proovframe map lint

  Ge94

  committed
  d0f6a98

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Commits on Jan 30, 2025

• Add sylph/profile module (#7118)

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  5 peopleauthored
  cfe3660

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• Fix broken versions.yml file in last/train. (#7393)

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  charles-plessy

  authored
  29a9928

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• Update GitHub Actions (#7382)

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  renovate[bot]

  authored
  a4cb3da

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• Update cooler/makebins (#7375)

  SPPearce

  authored
  e4ab86d

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Commits on Jan 29, 2025

• Fix find/unpigz input arity, currently it crashes on single files (#7392)

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  BioWilko

  authored
  2d199bd

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• add find/unpigz module (#7383)

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  3 peopleauthored
  f53dd9e

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Commits on Jan 28, 2025

• Add haplogrep3 (#7389)

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  ramprasadn

  and

  fellen31

  authored
  6af3331

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• add cleanup step also in linting job (#7388)

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  mashehu

  authored
  6f21c0f

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• add clean up step at the beginning of linting CI (#7387)

  mashehu

  authored
  210bcf0

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• Fix bcftools concat (#7377)

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  fellen31

  authored
  c807a63

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Commits on Jan 27, 2025

• Bump paraphase to 3.2.0 (#7374)

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  fellen31

  authored
  4bb5796

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• Pytest with nftest (#7378)

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  SPPearce

  authored
  7c21d63

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• catpack/contigs fix a typo in the option for the diamond table (#7376)

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  ochkalova

  authored
  a385138

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• Add pre-commit hook to validate environment.ymls (#7086)

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  edmundmiller

  and

  mirpedrol

  authored
  592ec15

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• add subworkflow for functional enrichment analysis (#7254)

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  5 peopleauthored
  6506b7b

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• Add a Find/Concatenate module (#7356)

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  3 peopleauthored
  326bde8

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• bump multiqc 1.26 to 1.27 (#7364)

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  pinin4fjords

  authored
  f0719ae

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• Update actions/setup-node digest to 1d0ff46 (#7371)

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  renovate[bot]

  authored
  27978ac

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Commits on Jan 25, 2025

• Add CATPACK/READS (#7362)

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  jfy133

  and

  sateeshperi

  authored
  58d83da

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• Update bakta modules (#7367)

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  jasmezz

  and

  sateeshperi

  authored
  4f0998e

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• Run prettier on taxonkit/lineage/meta.yml (#7366)

  erikrikarddaniel

  authored
  90c5156

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Commits on Jan 24, 2025

• Upgrade simpleaf modules to 0.18.4 (#7335)

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  3 peopleauthored
  5b33c12

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• Add CATPACK_summarise (#7359)

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  jfy133

  authored
  271b0be

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• fix issue in tabix VEP PR (#7361)

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  nvnieuwk

  authored
  ef36bae

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• tabix vep output (#7360)

  nvnieuwk

  authored
  5a7ae28

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• Bump DAS_Tool container version (#7355)

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  prototaxites

  authored
  98482ba

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Commits on Jan 23, 2025

• FEAT: add meta to gatk4/baserecalibrator (#7354)

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  maxulysse

  authored
  0bcdd15

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• Bump TRGT to 1.5.0 (#7346)

  fellen31

  authored
  9b9d7d0

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• Bump Severus to 1.3 (#7345)

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  fellen31

  authored
  3d18fc5

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• update vcfanno output (#7353)

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  nvnieuwk

  authored
  b1137e2

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• Update odgi to version 0.9.0 (#7313)

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  heuermh

  and

  Simon Heumos

  authored
  759d9b3

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• Update: SEQKIT/REPLACE to optionally emit uncompressed output (#7352)

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  jfy133

  authored
  c898ced

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• Add CATPACK_ADDNAMES (#7349)

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  jfy133

  and

  maxulysse

  authored
  2c72cb8

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• Use the correct syntax for devcontainer features (#7344)

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  bepoli

  authored
  5b5e812

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