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nf-core/bacass v2.5.0

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@Daniel-VM Daniel-VM released this 17 Oct 12:52
2.5.0
76e4b12
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v2.5.0 nf-core/bacass: "Blue Mercury Sturgeon" 2025/10/17

Changed

  • #257 Update module Nanoplot (to 1.46.1).
  • #254 Bump version v2.5.0.
  • #253 Update Template to 3.3.2.
  • #252 Update nf-core/bacass to the new nf-core 3.2.0 TEMPLATE.
  • #249 Replace download_reference.py with NCBI Datasets API implementation (removes assembly_summary_refseq.txt dependency).
  • #247 Update modules: unicycler (to 0.5.1) and dragonflye (to 1.2.1)
  • #239 Add protein FASTA file as an optional parameter to be used by PROKKA to annotate the assembly. Using --prokka_proteins parameter to point to the protein FASTA file.
  • #221 update fastq_trim_fastp_fastqc subworkflow and its modules.
  • #232 Update Template to 3.2.1

Added

  • #248 Fix CAT_FASTQ handling for long reads and hybrid assembly modes.
  • #237 Add LIFTOFF nf-core module
  • Added ToulligQC for Nanopore Raw Reads
  • Added the parameters: --skip_nanoplot and --skip_toulligqc to skip the nanopore qc steps
  • #225 add BUSCO nf-core module.
  • #223 Add nf-core/filtlong module.
  • #222 Reinstalled Dragonflye 1.1.2.
  • #195 Added nf-test.

Fixed

  • #260 Fix unestable files when nf-tests run using conda.
  • #258 Update and Fix ToulligQC.
  • #256 Update module busco to avoid version number error when using conda.
  • #231 Fix KmerFinder DB and relative paths resolution issues.
  • #228 Fixed Kmerfinder database path bug.
  • #220 Fixed local environments.

Dependencies

Tool Previous version New version
Dragonflye 1.1.2 1.2.1
Unicycler 0.5.0 0.5.1
Nanoplot 1.41.6 1.46.1
ToulligQC 2.5.6 2.7.1

Deprecated

Assets 2
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