Code

update htjsdk#6083

Code

Merged

cmnbroad merged 15 commits intomasterbroadinstitute/gatk:masterfrom lb_test_htsjdk_updatebroadinstitute/gatk:lb_test_htsjdk_updateCopy head branch name to clipboardAug 8, 2019

+1,575-1,532

Commits

Commits on Aug 5, 2019

• Subclass BCF2Codec for use with GenomicsDB.

  

  cmnbroad

  authored and

  lbergelson

  committed
  a8bfba7

  Copy full SHA for a8bfba7

• updating deprecated File Extension constants

  lbergelson

  committed
  4d045cb

  Copy full SHA for 4d045cb

• fix use of BCFCodec

  lbergelson

  committed
  dc1c1fb

  Copy full SHA for dc1c1fb

• workign on stuff

  lbergelson

  committed
  3d2c52b

  Copy full SHA for 3d2c52b

• remove .,. from test files

  lbergelson

  committed
  d4d8924

  Copy full SHA for d4d8924

• update to disq 3.2

  lbergelson

  committed
  e281d89

  Copy full SHA for e281d89

• snapshot build

  lbergelson

  committed
  bd5ff9a

  Copy full SHA for bd5ff9a

• move to non-snapshot versions

  lbergelson

  committed
  0e3e994

  Copy full SHA for 0e3e994

• change to snapshot

  lbergelson

  committed
  f54c8a9

  Copy full SHA for f54c8a9

• fix stupid test pattern filters((String)null)

  lbergelson

  committed
  5f761ac

  Copy full SHA for 5f761ac

• update to new snapshot

  lbergelson

  committed
  9b9596e

  Copy full SHA for 9b9596e

• test with htsjdk bug fix

  lbergelson

  committed
  fdc4a96

  Copy full SHA for fdc4a96

• bump picard

  lbergelson

  committed
  f43251d

  Copy full SHA for f43251d

• fix additional null filters and markduplicates metric file change

  lbergelson

  committed
  852c2bb

  Copy full SHA for 852c2bb

• update to new release

  lbergelson

  committed
  127fdb1

  Copy full SHA for 127fdb1