purple-v2.30

Removed FittedSegment file and db table
Added wholeGenomeDuplication field to purity output (true if more than 10 autosomes have major allele ploidy > 1.5)
Improved logging of missing arguments
Added support for new AMBER and COBALT file names and formats

health-checker-v3-0

Changes:

• Health checker now evaluates health check and touches either a success or failed file
• Somatic checks have been dropped, amber contamination check is added

purple-v2.29

Add biallelic status to somatic VCF
Removed low VAF SGL filtering logic
Create plot directory before writing to it
Allow plotting of negative copy numbers

purple-v2.28

Fix exception if no SV vcf supplied

purple-v2.27

Bug fix when loading ploidies

purple-v2.26

Support for MySQL 8
Added fitted segment chart
Added purity range chart
Ported existing charts to R
Added no_chart option
Write purity enriched somatic VCF into output dir
Added application to persist PURPLE structural variants to DB
Added application to persist PURPLE somatic variants to DB

sage-v1.0

Initial SAGE release.

cobalt-v1.6

CRAM Support

amber-v2.3

CRAM Support

variant-annotator-v2.15

bumped variant annotator pom