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@kevinlibuit kevinlibuit released this 06 May 16:39
· 247 commits to main since this release
v1.4.2
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Patch to properly parse modified pangolin outputs in versions >=2.4.1

Updates to the pangolin2 task and the workflows the use it (Titan_Illumina_PE, Titan_Illuimna_SE, Titan_ONT, Titan_ClearLabs, & Pangolin_Update):

  • Parse outputs from repot file by column headers to avoid a need to make changes if additional fields are added in future releases (including pangolin and pangoLEARN versions)
  • Output pangolin conflicts & notes at task and workflow level
  • Remove pangolin_aLRT output as it is no longer available in pangolin versions >=2.4
  • add min_length and max_ambig intputs (defaults set to 10000 and 0.5, respectively)
  • Set pangolin_docker_image to most recent stable release available: staphb/pangolin:2.4.2-pangolearn-2021-04-28

Other repo changes:

  • Cleaned local-dev workflows
  • Ensure a static docker tag for nextclade
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