Commits for kate

v311_preview to v311_preview2 (2015-01-12 to 2015-01-20) v311

• Add ENCODE cell table (wgEncodeCell) support. This contains the more useful info from cv.ra, with additional curation (e.g. summary description)
  • src/hg/inc/encode/wgEncodeCell.h - lines changed 75, context: html, text, full: html, text
  • src/hg/lib/encode/wgEncodeCell.as - lines changed 17, context: html, text, full: html, text
  • src/hg/lib/encode/wgEncodeCell.c - lines changed 210, context: html, text, full: html, text
  • src/hg/lib/encode/wgEncodeCell.sql - lines changed 23, context: html, text, full: html, text
  • src/hg/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/hg38/reg.txt - lines changed 22, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/uwDnase.ra - lines changed 1165, context: html, text, full: html, text
• Merge branch 'master' into dnase38
• Add option to use cell descriptions in table to construct long labels
  • src/hg/makeDb/outside/uwDnaseTrackHub/uwDnaseTrackHub.c - lines changed 219, context: html, text, full: html, text
• Fix typos
  • src/hg/makeDb/trackDb/human/hg38/uwDnase.ra - lines changed 8, context: html, text, full: html, text
• Merge branch 'master' into dnase38
• Fix typos
  • src/hg/makeDb/trackDb/human/hg38/uwDnase.ra - lines changed 8, context: html, text, full: html, text
• Merge branch 'master' into dnase38
• Remove unused code
  • src/hg/lib/hui.c - lines changed 7, context: html, text, full: html, text
• Refactor subtrack table construction (500 line function)
  • src/hg/lib/hui.c - lines changed 297, context: html, text, full: html, text
• Suppress annoying 'Top' link at start of subtrack list when matrix not present
  • src/hg/lib/hui.c - lines changed 13, context: html, text, full: html, text
• Sortable subtrack list now includes color patch with header. Still needs sorting logic for the column
  • src/hg/lib/hui.c - lines changed 18, context: html, text, full: html, text
• Add ability to sort subtracks by color to hgTrackUi. refs #14353.
  • src/hg/lib/hui.c - lines changed 18, context: html, text, full: html, text
• Simplify color sorting code, and make trackDb settings more consistent. refs #14353
  • src/hg/lib/hui.c - lines changed 14, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/uwDnase.ra - lines changed 4, context: html, text, full: html, text
• Set default subtracks on (10 spread across color spectrum, emphasizing ENCODE tier1 and well-known. Additional support for subtrack color on UI. refs #14353
  • src/hg/inc/hui.h - lines changed 10, context: html, text, full: html, text
  • src/hg/lib/hui.c - lines changed 11, context: html, text, full: html, text
  • src/hg/makeDb/hgTrackDb/hgTrackDb.c - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/uwDnase.ra - lines changed 48, context: html, text, full: html, text
• Merge branch 'master' into dnase38
• Support for computing track priorities by subtrack color in hgTrackDb
  • src/hg/lib/hui.c - lines changed 41, context: html, text, full: html, text
• Restore subtrack color feature when no sortable columns. refs #14353
  • src/hg/lib/hui.c - lines changed 18, context: html, text, full: html, text
• Tweak order of UI subtrack columns. refs #14353
  • src/hg/makeDb/trackDb/human/hg38/uwDnase.ra - lines changed 1, context: html, text, full: html, text
• Merge branch 'dnase38'