Commits for braney

v424_base to v425_preview (2021-12-06 to 2021-12-13) v425

a5953c342198962b416240e9e3eb0e68725a254c Wed Dec 1 09:41:05 2021 -0800

• add speciesLabels
  • src/hg/makeDb/trackDb/tagTypes.tab - lines changed 1, context: html, text, full: html, text

a7ab24571507f19cc40e4ef65800401b43000a0f Mon Dec 6 13:16:27 2021 -0800

• support itemRgb for bigPsl, remove overload of lf->extra field for USE_ITEM_RGB and replace it with a reasonably named field in lf (useItemRbg)
  • src/hg/hgTracks/bedTrack.c - lines changed 2, context: html, text, full: html, text
  • src/hg/hgTracks/bigBedTrack.c - lines changed 3, context: html, text, full: html, text
  • src/hg/hgTracks/hgTracks.c - lines changed 4, context: html, text, full: html, text
  • src/hg/hgTracks/hgTracks.h - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTracks/interactTrack.c - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTracks/simpleTracks.c - lines changed 5, context: html, text, full: html, text
  • src/hg/hgTracks/wikiTrack.c - lines changed 2, context: html, text, full: html, text
  • src/hg/inc/bedCart.h - lines changed 3, context: html, text, full: html, text

5c16e9df442a6a66c91f8cbf52f7543cb9cb4517 Mon Dec 6 16:34:22 2021 -0800

• add new function to the graphics library to put text in a box that is used by the logo function of wiggle draws
  • src/hg/hgTracks/wigTrack.c - lines changed 35, context: html, text, full: html, text
  • src/hg/inc/hvGfx.h - lines changed 7, context: html, text, full: html, text
  • src/inc/memgfx.h - lines changed 6, context: html, text, full: html, text
  • src/inc/psGfx.h - lines changed 4, context: html, text, full: html, text
  • src/inc/pscmGfx.h - lines changed 4, context: html, text, full: html, text
  • src/inc/vGfx.h - lines changed 8, context: html, text, full: html, text
  • src/lib/freeType.c - lines changed 55, context: html, text, full: html, text
  • src/lib/freeType.h - lines changed 3, context: html, text, full: html, text
  • src/lib/memgfx.c - lines changed 15, context: html, text, full: html, text
  • src/lib/psGfx.c - lines changed 32, context: html, text, full: html, text
  • src/lib/pscmGfx.c - lines changed 11, context: html, text, full: html, text
  • src/lib/vGfxPrivate.h - lines changed 2, context: html, text, full: html, text

e4794fcac9e496413c119487338a99b0ff54c68d Wed Dec 8 11:14:47 2021 -0800

• restore character transform to upright after drawing upside down letters
  • src/lib/freeType.c - lines changed 16, context: html, text, full: html, text

851385903f257839da60df1ba89e525360742b4a Wed Dec 8 14:23:24 2021 -0800

• add JASPAR 2022 core non-redundant PWMs to hgFixed
  • src/hg/makeDb/doc/hgFixed.txt - lines changed 10, context: html, text, full: html, text

ecec043d87a5893ac8c47074538bdd9d417aff7f Fri Dec 10 12:55:02 2021 -0800

• fix #28619 with an error message
  • src/hg/hgTracks/cds.c - lines changed 2, context: html, text, full: html, text

e0b2283ee25ab6e76c2e297f309293736532925f Fri Dec 10 13:17:05 2021 -0800

• oops, put this error message in the wrong place
  • src/hg/hgTracks/cds.c - lines changed 4, context: html, text, full: html, text

38b9ede07fb3bfb98c74f611c62146b820747e4a Sat Dec 11 08:32:34 2021 -0800

• check in custom hgc code for support of TOGA gene annotation from Michael Hiller's group
  • src/hg/hgc/hgc.c - lines changed 4, context: html, text, full: html, text
  • src/hg/hgc/hgc.h - lines changed 1, context: html, text, full: html, text
  • src/hg/hgc/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgc/togaClick.c - lines changed 371, context: html, text, full: html, text
  • src/hg/hgc/togaClick.h - lines changed 101, context: html, text, full: html, text

2b104588a7c8d3ae1ad28e28bcb302093479b11d Sat Dec 11 08:36:53 2021 -0800

• add TOGA annotation track to mm10
  • src/hg/makeDb/trackDb/mouse/mm10/trackDb.ra - lines changed 14, context: html, text, full: html, text

447c433324a13653e1760bc7e4d1a854e517a1e6 Mon Dec 13 09:57:45 2021 -0800

• fix mouseovers for logo wiggles
  • src/hg/hgTracks/wigTrack.c - lines changed 252, context: html, text, full: html, text