Commits for braney

v465_preview2 to v465_base (2024-05-06 to 2024-05-13) v465

c9cb558b37ad87c86ca3a0f1efb1a75c1b83465c Tue May 7 11:08:19 2024 -0700

• strip off hub_#_ for genark hubs when sending to Galaxy
  • src/hg/hgTables/galaxy.c - lines changed 7, context: html, text, full: html, text

651e4b46d7060ede4d9a977a1cd838f55e3315e9 Tue May 7 11:35:30 2024 -0700

• don't draw chevrons in squish mode even if intronGap is set.
  • src/hg/hgTracks/simpleTracks.c - lines changed 1, context: html, text, full: html, text

675293a87172d440c9c78b1c1bdc54610bc35a77 Tue May 7 14:14:26 2024 -0700

• changes to HPRC rearrangements track in response to SAB refs #33484
  • src/hg/lib/chainArrange.as - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/hg38/hprcInDel.txt - lines changed 6, context: html, text, full: html, text
  • src/hg/makeDb/doc/hg38/hprcRearrange.txt - lines changed 4, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/hprcArr.ra - lines changed 5, context: html, text, full: html, text
  • src/hg/utils/chainArrangeCollect/chainArrangeCollect.c - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/chainInDel/chainInDel.c - lines changed 1, context: html, text, full: html, text

83a03d08eb15f3352267026c3d875e2f8ff68bd0 Wed May 8 16:09:49 2024 -0700

• a utility to build an assembly hub for a sequence that includes both sequences from a pairwise alignment
  • src/hg/utils/buildPairAssembly/buildPairAssembly.c - lines changed 222, context: html, text, full: html, text
  • src/hg/utils/buildPairAssembly/makefile - lines changed 3, context: html, text, full: html, text

a94ab9b578fa7ff2bad82cefb1742985c55b6a76 Thu May 9 15:03:10 2024 -0700

• ongoing work on pair browser
  • src/hg/lib/trackDbCustom.c - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/buildPairAssembly/buildPairAssembly.c - lines changed 78, context: html, text, full: html, text

3b88e1378464206ae20e4105071c3dad3697d0ad Sun May 12 14:42:19 2024 -0700

• ongoing work on pairwise browser
  • src/hg/makeDb/doc/pairBrowse/hg38-JAGYVI010000087.1.txt - lines changed 10, context: html, text, full: html, text
  • src/hg/makeDb/doc/pairBrowse/hg38-JAHAOR010000021.1.txt - lines changed 9, context: html, text, full: html, text
  • src/hg/utils/buildPairAssembly/makePair - lines changed 85, context: html, text, full: html, text