Commits for markd

v427_preview2 to v427_base (2022-02-14 to 2022-02-21) v427

73e706bbc55cb2eaa16c47e353f57103d3baaa8a Fri Feb 18 20:20:58 2022 -0800

• detected missing baseColorUseSequence rather tha SEGV
  • src/hg/hgTracks/cds.c - lines changed 3, context: html, text, full: html, text

d7ff43fdbd408928d1d0b66a1f791e4635032c47 Sun Feb 20 08:44:04 2022 -0800

• add program to take repeat masker .align.tsv files and convert to PSL for use with pslMap
  • src/hg/inc/rmskAlign.h - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/rmskAlignToPsl/makefile - lines changed 3, context: html, text, full: html, text
  • src/hg/utils/rmskAlignToPsl/rmskAlignToPsl.c - lines changed 586, context: html, text, full: html, text
  • src/hg/utils/rmskAlignToPsl/tests/expected/hg38Test.psl - lines changed 60, context: html, text, full: html, text
  • src/hg/utils/rmskAlignToPsl/tests/expected/mm39ProbTest.err - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/rmskAlignToPsl/tests/expected/mm39ProbTest.psl - lines changed 10, context: html, text, full: html, text
  • src/hg/utils/rmskAlignToPsl/tests/expected/mm39Test.psl - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/rmskAlignToPsl/tests/input/hg38.align.tsv - lines changed 81, context: html, text, full: html, text
  • src/hg/utils/rmskAlignToPsl/tests/input/mm39.align.tsv - lines changed 6, context: html, text, full: html, text
  • src/hg/utils/rmskAlignToPsl/tests/input/mm39.prob.align.tsv - lines changed 26, context: html, text, full: html, text
  • src/hg/utils/rmskAlignToPsl/tests/makefile - lines changed 30, context: html, text, full: html, text