Skip to content

v0.5.0

Latest
Compare
Choose a tag to compare
@github-actions github-actions released this 15 Jan 16:02
ef2e627

0.5.0 (2025-01-15)

⚠ BREAKING CHANGES

  • remove deprecated functionality of cubi-tk archive

Features

  • add --filter-status option for controlling which landing zones are listed (#239) (900b67a)
  • add cubi-tk sodar update-samplesheet (#240) (581e650)
  • Add common functions for interfacing with python-irodsclient (#202) (67e6e49)
  • Add generic SODAR ingest command (#199) (8548c97)
  • Add new command sodar landing-zone-validate (#219) (98e21c1)
  • Adding cubi-tk snappy itransfer_sv_calling (#213) (5a00e40)
  • allow varfish case resubmission (#224) (964bcac)
  • irods download refactoring and new generic sodar downloader with preset for dragen data (#226 ) (#227) (3fc38af)
  • presets for cubi-tk sodar ingest-fastq (#232 ) (#235) (8669118)
  • Switching cubi-tk sodar ingest-fastq from icommands to irods_common (#217) (cd9a3b9)
  • Update ingest-fastq, allow to match samples against assay table to determine collections names (#198) (#203) (8b3662d)

Bug Fixes

  • adapt to varfish-cli >=0.6.2 syntax (#221) (9619609)
  • isa-tab add-ped now only modifies values on process nodes of ped-supplied samples #207 (#233) (88977d4)
  • parsing snappy config for with WGS projects (#231) (10592f3)
  • varfish cli 06x uses new import syntax (#220) (#222) (cb10dbb)
  • varfish-upload subprocess submission (#225) (0f7f5b2)

Miscellaneous Chores