Releases
v0.5.0
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
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