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Commits on Sep 3, 2025

• Update RGI modules to 6.0.5 (#8989)

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Commits on Aug 28, 2025

• Update DIAMOND_*: Update all DIAMOND modules to satisfy Nextflow language server (#8966)

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Commits on Aug 25, 2025

• PORECHOP_ABI: Use patched version of bioconda recipe/biocontainer (#8945)

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Commits on Aug 22, 2025

• METAPHLAN_METAPHLAN: update to support optional SAM output (#8937)

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Commits on Aug 15, 2025

• Add drep/dereplicate (#8897)

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Commits on Jun 21, 2025

• PYDAMAGE_FILTER: Move args to compatible place (#8683)

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Commits on Jun 5, 2025

• Fix prettier linting in meta.yaml of DIAMOND_MAKEDB (#8606)

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• Bump DIAMOND versions (#8604)

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Commits on Jun 3, 2025

• Bump antismash modules version to 8.0.1 (#8590)

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Commits on May 27, 2025

• More permissive ABRICATE_RUN file symlinking (#8555)

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Commits on May 22, 2025

• New module: ANTISMASH_ANTISMASH and ANTISMASH_DOWNLOADDATABASES (#8493)

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Commits on Apr 28, 2025

• Add real tests for GTDB Tk (#8371)

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Commits on Apr 16, 2025

• Bump versiuon ARGNORM and add native --version flag (#8322)

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• Fix KRAKEN2_ADD custom seqid2taxid support (#8320)

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Commits on Apr 8, 2025

• GTDBTK_CLASSIFYWF database improvement (#8220)

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Commits on Apr 2, 2025

• Add threads parameter for all seqkit modules missing (#8192)

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Commits on Mar 26, 2025

• Add DREP/COMAPRE (#8084)

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Commits on Mar 12, 2025

• New module: hostile/clean (#6966)

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Commits on Mar 7, 2025

• Update FASTA_BUILD_ADD_KRAKEN2_BRACKEN to support new custom seqid2taxid (#7757)

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• Update FASTA_BUILD_ADD_KRAKEN2 subworkflow: support custom seqid2taxid files (#7756)

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• Update KRAKEN2/ADD to allow proper resuming (#7445)

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Commits on Mar 6, 2025

• Update KRAKENUNIQ_BUILD to fix clean up command (#7749)

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Commits on Mar 1, 2025

• Add extra input channel to KRAKEN2/ADD (#7721)

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Commits on Feb 28, 2025

• Clean up README a little (#7720)

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Commits on Feb 5, 2025

• MALT/BUILD: Start adding a2tax support (#7409)

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Commits on Jan 31, 2025

• Fix lots of yaml formatting errors (#7399)

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  mashehu

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Commits on Jan 30, 2025

• ANTISMASH/ANTISMASHLITE: Remove debug tag from tests (#7397)

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• Add apptainer as alternative to singularity in container mounting hac… (#7384)

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Commits on Jan 25, 2025

• Add CATPACK/READS (#7362)

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Commits on Jan 24, 2025

• Add CATPACK_summarise (#7359)

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Commits on Jan 23, 2025

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

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• Add CATPACK_ADDNAMES (#7349)

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• Add CATPACK_BINS (add missing optional input files CATPACK_CONTIGS) (#7347)

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Commits on Jan 21, 2025

• Add CATPACK/CONTIGS (#7334)

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Commits on Jan 20, 2025

• Add CATPACK_PREPARE (#7312)

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