Commits for chmalee

v398_base to v399_preview (2020-05-11 to 2020-05-18) v399

259002a92c7e2b7f01f4bbbd079790eab6a6cec2 Wed May 13 10:01:45 2020 -0700

• Fixing refSeqGet tests
  • src/hg/utils/refSeqGet/tests/expected/basicListTest.gp - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/refSeqGet/tests/expected/basicListTest.meta - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/refSeqGet/tests/expected/basicListTest.psl - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/refSeqGet/tests/expected/basicListTest.rna.fa - lines changed 2, context: html, text, full: html, text
  • src/hg/utils/refSeqGet/tests/expected/versionedListTest.gp - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/refSeqGet/tests/expected/versionedListTest.meta - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/refSeqGet/tests/expected/versionedListTest.psl - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/refSeqGet/tests/expected/versionedListTest.rna.fa - lines changed 2, context: html, text, full: html, text
  • src/hg/utils/refSeqGet/tests/input/versioned.acc - lines changed 1, context: html, text, full: html, text

48c5bcc0735d09367f9853ebbd053aea3f94b262 Fri May 15 10:37:48 2020 -0700

• Fix bug in hub searching where a hub being down at the time we are trying to display it's search results caused a segfault, also removing remnants of hgHubConnect needing a special udcCache, which the CGI has not been using for months now, refs #25574
  • src/hg/hgHubConnect/hgHubConnect.c - lines changed 12, context: html, text, full: html, text

e46073f856770bdfef4f7637eea8f9f9297aa139 Tue Nov 19 15:57:08 2019 -0800

• Initial commit of new track type vcfPhased trio. A line with ticks, one per haplotype per sample in the VCF, as specified by trackDb variables.
  • src/hg/hgTables/vcf.c - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTracks/hgTracks.c - lines changed 7, context: html, text, full: html, text
  • src/hg/hgTracks/hgTracks.h - lines changed 3, context: html, text, full: html, text
  • src/hg/hgTracks/simpleTracks.c - lines changed 4, context: html, text, full: html, text
  • src/hg/hgTracks/vcfTrack.c - lines changed 583, context: html, text, full: html, text
  • src/hg/hgc/hgc.c - lines changed 3, context: html, text, full: html, text
  • src/hg/inc/vcfUi.h - lines changed 11, context: html, text, full: html, text
  • src/hg/lib/customFactory.c - lines changed 18, context: html, text, full: html, text
  • src/hg/lib/trackDbCustom.c - lines changed 1, context: html, text, full: html, text
  • src/hg/lib/vcfUi.c - lines changed 112, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/trackDb.ra - lines changed 47, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/tagTypes.tab - lines changed 3, context: html, text, full: html, text
  • src/inc/memgfx.h - lines changed 2, context: html, text, full: html, text
  • src/inc/vcf.h - lines changed 1, context: html, text, full: html, text