Version 1.7.2

What's changed

• GCGI-1420: Added green line separator to research footer
• GCGI-1419: Fixed callability fetching in sample plugin to use donor as well as tumour_id

Version 1.7.1

What's changed

GCGI-1165: Automatically look up author name from user ID
GCGI-1407: Added requisition ID to tar_input_params_helper
GCGI-1408: Updated CAPTIV8 plugin to expect output from Purple instead of Sequenza
GCGI-1409: Fixed snv_indel plugin to handle no somatic mutations by omitting vaf plot
GCGI-1401: Update Purple plots from svg to png
GCGI-1293: Sort fusions by oncoKB heirchy
GCGI-1381: Add RUO report capabilities
GCGI-1358: Fix clipped text in PWGS plot
GCGI-1418: Fix handling of user supplied draft date and mini-Djerba tests

Version 1.7.0

• Mini-Djerba improvements with new HTML cache
• Update supplementary for NovaSeq X Plus
• Fixes for HRD treatment reporting
• Make report ID default to requisition ID
• ISO-8601 date format

What's Changed

• Mini-Djerba rewrite by @iainrb in #433
• Dev gcgi 1399 mini djerba build tests by @iainrb in #434
• Dev gcgi 1393 iso8601 date format by @iainrb in #435
• Gcgi 1377 report id default to req by @AqsaAlam in #428
• Fixes to genomic_landscape by @iainrb in #436
• Mini-Djerba status spinner and other improvements by @iainrb in #437
• Release 1.7.0 by @iainrb in #438

Full Changelog: v1.6.7...v1.7.0

Version 1.7.0-alpha

Pre-release of version 1.7.0 with updated mini-Djerba

The mini-djerba binary is a prototype build of this release for MacOS

What's Changed

• Mini-Djerba rewrite by @iainrb in #433
• Dev gcgi 1399 mini djerba build tests by @iainrb in #434
• Dev gcgi 1393 iso8601 date format by @iainrb in #435

Full Changelog: v1.6.7...v1.7.0-alpha

Version 1.6.7

• GCGI-1396: Fixes to report text requested by clinical geneticist
• Correct threshold for reporting HRD; genomic landscape plugin has new "sample type" parameter
• Improved explanation and links for NCCN compendium
• Added number of MSI sites

Version 1.6.6

What's Changed

• GCGI-1391: Fixed column names in data_CNA_oncoKBgenes_nonDiploid.txt which impacted oncoKB therapy annotation

Version 1.6.5

• GCGI-1336: Fixed "cannot resolve assay" issue in case overview plugin
• GCGI-1887: Changed "no effect" fusion reading frame to "unknown"
• GCGI-1388: Fixed whizbam_project to default to project instead of study
• GCGI-1390: Update README with new conference slides and demo link

What's Changed

• Gcgi 1336 cannot resolve assay by @AqsaAlam in #419
• Gcgi 1387 fusion no effect to unknown by @AqsaAlam in #420
• First demo release by @iainrb in #422
• Revert "First demo release" by @iainrb in #423
• Changed whizbam project to default to project by @AqsaAlam in #421
• Update README by @iainrb in #424
• Update version and pdf by @iainrb in #425
• Update checksums by @iainrb in #426
• Release 1.6.5 by @iainrb in #427

Full Changelog: v1.6.4...v1.6.5

Version 1.6.4

What's Changed

• GCGI-1382: Fixed TAR disclaimer text (typos, flow)
• GCGI-1385: Change Tumour Sample ID to Plasma Sample ID for TAR reports
• Modified treatment options merger to deduplicate by gene in addition to oncokb level and alteration name

Version 1.6.3

• Updates pipeline version to 5.0

What's Changed

• Fixed TAR to deal with unclean input maf files by @AqsaAlam in #407
• Gcgi 1368 remove tar snvindel purity dependency by @AqsaAlam in #408
• Use a blank white image as a spacer in the "Report Sign-Offs" section by @iainrb in #409
• Update pipeline version, tests and changelog by @iainrb in #410
• Release 1.6.3 by @iainrb in #411

Full Changelog: v1.6.2...v1.6.3

Version 1.6.2

• Bugfixes including MAF filtering and Cardea data structure

What's Changed

• Correctly handle missing subcommand name in djerba.py by @iainrb in #402
• Fix gcgi 1362 remove sequenza script by @iainrb in #401
• Edited requisition hierarchy in pwgs cardea helper by @AqsaAlam in #403
• Added biotype = protein_coding to maf filtering by @AqsaAlam in #405
• Release 1.6.2 by @iainrb in #406

Full Changelog: v1.6.1...v1.6.2