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nf-core/bacass v2.4.0

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@Daniel-VM Daniel-VM released this 18 Nov 14:48
2.4.0
be9c064
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v2.4.0 nf-core/bacass: "Yellow Copper Crayfish" 2024/11/05

Changed

  • #180 Bump version 2.4.0.
  • #169 Refactored long-reads polishing step.
  • #167 Remove params.save_merged as merged reads are not used in downstream analysis.
  • #159 Updated Kmerfinder module and increased memory.
  • #150 Replace local unicycler module with nf-core module + bump version.

Added

  • #176 Update nf-core/bacass to nf-core-tools v3.0.2 TEMPLATE.
  • #166 Added FastQC after-trimming section to MultiQC report.
  • #158 Support automatic concatenation of FastQ files for the same sample.

Fixed

  • #183 Fix DFAST issue in conda environment by updating its version.
  • #182 Uncommented required line to pass linting test in --release mode.
  • #179 Fixed matrix.test_name in linting and missing features from template 3.0.2.
  • #178 Fixed bakta running only for one sample.
  • #169 Fixed long reads polishing input channel.
  • #168 Fix wrong metadata in canu input channel.
  • #163 Fixed params.save_merged to properly save merged files.
  • #160 Fixed memory issues in KmerFinder, fixed handling of no species detected, and fixed handling of empty fasta files in the prokka/bakkta channel.
  • #157 Fixed corrupted zenodo URL of Kmerfinder database.
  • #154 Fixed kmerfinder script and increase resources to prevent memory issues.
  • #153 Update .nf-core.yml to fix files_unchanged section for accurate linting checks.

Dependencies

Tool Previous version New version
Dfast 1.2.20 1.3.2
Unicycler 0.4.8 0.5.0

Deprecated

Assets 2
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