Commits for markd

v458_base to v459_preview (2023-12-11 to 2023-12-18) v459

d96ac78dc01133a55575481975194bfc1b8accc1 Tue Dec 12 13:11:04 2023 -0800

• Make glyph drawing code from decorators to being available to all of hgTracks. This is to allow for experimentation in using glyphs to draw SNPs. There is no functional changes, it just moves code around.
  • src/hg/hgTracks/decorator.c - lines changed 65, context: html, text, full: html, text
  • src/hg/hgTracks/hgTracks.h - lines changed 21, context: html, text, full: html, text
  • src/hg/hgTracks/simpleTracks.c - lines changed 102, context: html, text, full: html, text
  • src/hg/inc/decoration.h - lines changed 15, context: html, text, full: html, text
  • src/hg/lib/decoration.c - lines changed 32, context: html, text, full: html, text

5711ac6c2bcaeda814ae1049a0661f499775885e Wed Dec 13 00:36:12 2023 -0800

• change pslProtToRnaCoords to use common code with pslMap to convert protein/NA to CDS-coordinate/NA alignments. This will correctly remove overlapping blocks after conversion
  • src/inc/psl.h - lines changed 3, context: html, text, full: html, text
  • src/inc/pslTransMap.h - lines changed 3, context: html, text, full: html, text
  • src/lib/psl.c - lines changed 8, context: html, text, full: html, text
  • src/lib/pslTransMap.c - lines changed 24, context: html, text, full: html, text
  • src/utils/pslProtToRnaCoords/pslProtToRnaCoords.c - lines changed 90, context: html, text, full: html, text
  • src/utils/pslProtToRnaCoords/tests/expected/kgProtTest.psl - lines changed 38, context: html, text, full: html, text
  • src/utils/pslProtToRnaCoords/tests/expected/spGencodeTest.psl - lines changed 7, context: html, text, full: html, text