Commits for kate

v377_base to v378_preview (2019-02-04 to 2019-02-11) v378

ace7d6c2a03c2ad76c14134546785b8c3fa61ac2 Tue Jan 8 11:39:09 2019 -0800

• Implement 'packDense' setting (tentative name) to support Regeneron 2nd contract amino acide display. This setting will pack items on a single line if they are adjacent (suppresses padding between packed items). refs #22739
  • src/hg/hgTracks/simpleTracks.c - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/tagTypes.tab - lines changed 1, context: html, text, full: html, text
  • src/inc/spaceSaver.h - lines changed 10, context: html, text, full: html, text
  • src/lib/spaceSaver.c - lines changed 18, context: html, text, full: html, text

a3badf9209cb200878acc8ae0cb74d2695032e83 Tue Jan 8 16:57:26 2019 -0800

• Exploratory work for Regeneron. refs #22739
  • src/hg/makeDb/trackDb/tagTypes.tab - lines changed 1, context: html, text, full: html, text

27afc5a5182ee8614bcb8ec2ef7eaaa1152040a3 Wed Jan 9 16:06:49 2019 -0800

• Add setting to collapse empty subtracks, for Regeneron AA display, but others may find useful. refs #22739
  • src/hg/hgTracks/hgTracks.c - lines changed 3, context: html, text, full: html, text

75ffe3b6a127bec72fdb44290af9b98a14eb79dc Fri Jan 11 15:27:03 2019 -0800

• Partial implementation of 'centerLabelsPack' setting, to suppress center labels in pack mode (when setting is 'off'). This checkin suppresses center labels but doesn't show left labels. refs #22739
  • src/hg/hgTracks/hgTracks.c - lines changed 4, context: html, text, full: html, text
  • src/hg/hgTracks/hgTracks.h - lines changed 6, context: html, text, full: html, text
  • src/hg/hgTracks/simpleTracks.c - lines changed 37, context: html, text, full: html, text

459d5ecb521f2127de635683101db94ca4f5c5d5 Fri Jan 11 15:28:48 2019 -0800

• Setting to collapse empty subtracks. refs #22739
  • src/hg/makeDb/trackDb/tagTypes.tab - lines changed 1, context: html, text, full: html, text

f7504e4db88de54c3a438f70a0acc4cddb41f148 Sat Jan 12 18:23:15 2019 -0800

• Finish regeneron feature to display left labels instead of center labels in pack mode (setting centerLabelsPack off). refs #22739
  • src/hg/hgTracks/hgTracks.c - lines changed 24, 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 60, context: html, text, full: html, text

58c8a7a860a3013d0c6b40d451f6e03e4f8674e6 Sat Jan 12 18:24:34 2019 -0800

• Merge branch 'packDense' into packCompactDense

1c31a4919d26da45a76c5dd8355b8312c8ae04ad Mon Jan 14 13:47:42 2019 -0800

• Add new settings for implemented for Regeneron AA display. refs #20377
  • src/hg/makeDb/trackDb/bacteria/staAur2/aaCounts.ra - lines changed 27, context: html, text, full: html, text

08414ac23ba7fd2d7298ad5502053cc94b0834b0 Mon Jan 14 16:48:37 2019 -0800

• Allow very short labels to be used with labelsOnFeature setting. Needed for Regeneron (and no reason not to). refs #22739
  • src/hg/hgTracks/simpleTracks.c - lines changed 6, context: html, text, full: html, text

811c0ec699b51e705fe2364ad5c2c7f0981ac3f8 Mon Jan 14 16:50:58 2019 -0800

• Add setting for Regeneron. refs #22739
  • src/hg/makeDb/trackDb/tagTypes.tab - lines changed 1, context: html, text, full: html, text

9f594b688dbccc173794ef82a264284665965bba Sun Feb 3 20:32:53 2019 -0800

• Add score filter (ala Hiram). refs #20377
  • src/hg/makeDb/trackDb/bacteria/staAur2/aaCounts.ra - lines changed 2, context: html, text, full: html, text

4ea4720251ee4652a7948cf4ba8c1fc0170a2527 Sun Feb 3 20:33:41 2019 -0800

• Add score filter (ala Hiram). refs #20377
  • src/hg/makeDb/trackDb/bacteria/staAur2/aaCounts.ra - lines changed 12, context: html, text, full: html, text

5e72f9391924a337e2b569658f35dee58874544e Mon Feb 4 14:35:52 2019 -0800

• Fix trackDb for regn
  • src/hg/makeDb/trackDb/bacteria/staAur2/aaCounts.ra - lines changed 4, context: html, text, full: html, text

5b7259d9d96a48a1b976b9a01e293bdccfb22f06 Wed Feb 6 14:39:49 2019 -0800

• Fix merge conflict
  • src/hg/htdocs/inc/globalNavBar.inc - lines changed 1, context: html, text, full: html, text

a1f14669950ee535871ba2336c1068f1c1ab58a5 Wed Feb 6 14:39:52 2019 -0800

• Merge branch 'regeneron' of hgwdev.gi.ucsc.edu:/data/git/kent into regeneron

58502ff9a4db966bdad267df1bc713fcc1b660b3 Wed Feb 6 17:47:52 2019 -0800

• Cleanup regeneron features. refs #22739
  • src/hg/hgTracks/hgTracks.c - lines changed 20, context: html, text, full: html, text
  • src/hg/hgTracks/hgTracks.h - lines changed 7, context: html, text, full: html, text
  • src/hg/hgTracks/simpleTracks.c - lines changed 35, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/bacteria/staAur2/aaCounts.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/tagTypes.tab - lines changed 2, context: html, text, full: html, text

4a065d0391a37385e623d1039826268acd18ea17 Wed Feb 6 17:54:11 2019 -0800

• Resolving merge conflicts

34640b8bb26a2f43097ff65d9b2555a79b8335f5 Thu Feb 7 11:59:13 2019 -0800

• Fix display problem with interchromosomal items in non-full modes (introduced with new pack/dense/cluster display code for Genehancer). refs #22910
  • src/hg/hgTracks/interactTrack.c - lines changed 1, context: html, text, full: html, text