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BUISCIII/buisciii-tools v2.1.0
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@Shettland Shettland released this 19 Apr 12:42
· 554 commits to main since this release
2.1.0
64a841f
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Credits

Code contributions to the new version:

Template fixes and updates

  • Added blast_nt template to services.json #208
  • Included new user to sftp_user.json
  • Included a missing sed inside IRMA's 04-irma/lablog #213
  • Changed singularity mount options in Viralrecon template to fix errors with Nextflow v23.10.0
  • excel_generator.py reverted to last state, now lineage tables are merged when argument -l is given
  • Adapted viralrecon_results lablog to new excel_generator.py argument
  • IRMA/RESULTS now creates a summary of the different types of flu found in irma_stats.txt
  • Updated IRMA to v1.1.4 date 02-2024 and reduced threads to 16
  • IRMA 04-irma/lablog now creates B and C dirs only if those flu-types are present
  • Fixed characterization template #220
  • Created Chewbbaca template #230

Modules

Added enhancements

  • #207 - Bioinfo-doc updates: email password can be given in buisciii_config.yml and delivery notes in a text file

Fixes

  • Added missing url for service assembly_annotation in module list
  • Autoclean-sftp refined folder name parsing with regex label adjustment
  • Autoclean_sftp does not crash anymore. New argument from 'utils.prompt_yn_question()' in v2.0.0 was missing: 'dflt'
  • Bioinfo-doc now sends email correctly to multiple CCs

Changed

Removed

  • Removed empty strings from services.json
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