Release Version 1.7.9 · oicr-gsi/djerba

Highlights

Updated contact name/address on report letterhead
Overhaul of GSICAPBENCH evaluation, with support for TAR and PWGS
Remove "failed report " plugin, transfer functionality to "summary" plugin
Remove the Sequenza CNV plugin
Updated total genome segment length constant in percent genome altered calculation

Dev gcgi 1378 new gsicapbench inputs by @iainrb in #486
Update 1.7.8 with latest changes from main by @iainrb in #492
Add new JSON diff script and tests by @iainrb in #493
Gcgi 1472 grab all patient ids by @AqsaAlam in #495
Allowed tumour and normal ids to be manually specified for provenance helper by @AqsaAlam in #496
Added oncokb definitions to 40x assays by @AqsaAlam in #497
Dev-GCGI-1446_fusion-total by @OumaimaHamza in #498
self.patient_id_raw defaults to None when not in use by @iainrb in #499
Dev gcgi 1326 whizbam links for fusions by @OumaimaHamza in #487
Release 1.7.8 update by @OumaimaHamza in #500
Fusion plugin test fixup by @iainrb in #501
Fix arguments in calls to get_logger by @iainrb in #503
Dev gcgi 1478 more informative logger name by @iainrb in #505
Add --pre-populate option by @iainrb in #506
Dev gcgi 1481 raw coverage autofill by @OumaimaHamza in #504
Gcgi 1480 email in header by @AqsaAlam in #508
Remove the Sequenza CNV plugin by @iainrb in #510
Remove input paths from pwgs.analysis results by @iainrb in #511
Gcgi 1413 move failed report plugin to summary by @AqsaAlam in #489
Support TAR and PWGS in GSICAPBENCH by @iainrb in #509
Release 1.7.9 by @iainrb in #512

Full Changelog: v1.7.8...v1.7.9