1.19.1 - caveman 1.15.5

update caveman version

Full Changelog: 1.19.0...1.19.1

1.19.0 - caveman 1.15.4 and generateCavemanUMNormVCF support

Includes generateCavemanUMNormVCF in image, and updates install process in dockerfile to provide depedencies for that tool

1.16.0 - post processing update

• Pulls in cgpCaVEManPostProcessing 1.9.0
  • Edgecase fix for overlapping reads - cause +1 variant at WGS scale (cancerit/cgpCaVEManPostProcessing#36)
  • Major performance improvement (cancerit/cgpCaVEManPostProcessing#37)

1.15.2 - Speed improvements via flagging

• Upgrade to cgpCaVEManPostProcessing 1.8.9

1.15.0

• Build around CaVEMan core 1.14.0 - uses linasm and read_position calculation speedups
• Add linasm installation to Docker build scripts
• Change base Docker build to quay.io/wtsicgp/pcap-core:4.4.0

Hotfix - 1.13.4

CaVEMan version updated to 1.13.8

Hotfix - 1.13.3

1.13.3

• Build with CaVEMan 1.13.2

Hotfix - 1.13.2

1.13.2

• Build with CaVEMan 1.13.2

1.13.1 - Hotfix

1.13.1

• Build with CaVEMan 1.13.1

1.13.0 - Overlapping read support

1.13.0

• Overlapping read support
• Support for csi indexing of bam/cram files
• Scatter gather implememnted for flagging
• Updates to README, license dates and contact information
• Uses CaVEMan core overlapping reads enabled 1.13.0