Commits for angie

v374_preview2 to v374_base (2018-11-05 to 2018-11-12) v374

bb12e20332ff8cdf45003f41268011e95ca64221 Mon Nov 5 15:30:59 2018 -0800

• In pslFromGff3Cigar, we should not reverse the order of CIGAR operations when strand is +- or -+. I'm not sure if the spec covers the -- case for Gap, so making that an errAbort until we get input with that combo. Tested with BLAT. Discovered the problem when our altSeqLiftOverPsl alignments on the - strand were a sea of mismatches in hgTracks. refs #18854 note-27.
  • src/hg/utils/gff3ToPsl/tests/expected/patch1test.psl - lines changed 61, context: html, text, full: html, text
  • src/lib/psl.c - lines changed 7, context: html, text, full: html, text