File Changes for kate

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v312_base to v313_preview (2015-02-16 to 2015-02-23) v313

src/hg/hgc/hgc.c
- lines changed 1, context: html, text, full: html, text
  A little more flexibility with table naming. refs #14731
src/hg/hgc/peakClusters.c
- lines changed 2, context: html, text, full: html, text
  Renames to fix poor name choice (meta->vocab). refs #14353
- lines changed 9, context: html, text, full: html, text
  Use controlledVocabulary setting for non-ENCODE (table-based) vocabularies (replace briefly used *MetaTables settings)
src/hg/inc/gtexGeneBed.h
- lines changed 71, context: html, text, full: html, text
  First cut loader of GTEX gene track. Enough here to test track display. refs #13504
src/hg/inc/hui.h
- lines changed 4, context: html, text, full: html, text
  Renames to fix poor name choice (meta->vocab). refs #14353
- lines changed 9, context: html, text, full: html, text
  Use controlledVocabulary setting for non-ENCODE (table-based) vocabularies (replace briefly used *MetaTables settings)
src/hg/inc/hvGfx.h
- lines changed 26, context: html, text, full: html, text
  Libify graphics routine used for GTEX bar graph display. refs #13504
src/hg/lib/encode/wgEncodeTreatment.as
- lines changed 7, context: html, text, full: html, text
  Add table with info about ENCODE treatment terms (from cv.ra). refs #14353
src/hg/lib/encode/wgEncodeTreatment.sql
- lines changed 13, context: html, text, full: html, text
  Add table with info about ENCODE treatment terms (from cv.ra). refs #14353
src/hg/lib/gtexGeneBed.as
- lines changed 15, context: html, text, full: html, text
  First cut loader of GTEX gene track. Enough here to test track display. refs #13504
src/hg/lib/gtexGeneBed.c
- lines changed 212, context: html, text, full: html, text
  First cut loader of GTEX gene track. Enough here to test track display. refs #13504
src/hg/lib/hui.c
- lines changed 10, context: html, text, full: html, text
  Fix bad loop over input field meta tables
- lines changed 24, context: html, text, full: html, text
  Renames to fix poor name choice (meta->vocab). refs #14353
- lines changed 3, context: html, text, full: html, text
  Renames to fix poor name choice (meta->vocab). refs #14353
- lines changed 5, context: html, text, full: html, text
  Renames to distinguish ENCODE cv from non-ENCODE table-based vocabularies. refs #14353
- lines changed 9, context: html, text, full: html, text
  Readability changes
- lines changed 31, context: html, text, full: html, text
  Use controlledVocabulary setting for non-ENCODE (table-based) vocabularies (replace briefly used *MetaTables settings)
src/hg/lib/makefile
- lines changed 1, context: html, text, full: html, text
  First cut loader of GTEX gene track. Enough here to test track display. refs #13504
src/hg/makeDb/doc/hg38/reg.txt
- lines changed 20, context: html, text, full: html, text
  Testing for data issue
- lines changed 12, context: html, text, full: html, text
  Merge branch 'master' into dnase38
- lines changed 23, context: html, text, full: html, text
  Add table with info about ENCODE treatment terms (from cv.ra). refs #14353
- lines changed 40, context: html, text, full: html, text
  Prep for renames. refs #14353
- lines changed 134, context: html, text, full: html, text
  Rename tables for consistency with hg19. refs #14353
- lines changed 26, context: html, text, full: html, text
  Move new DNase tracks to ENCODE Reg supertrack. Compare to CHris' lifted track. refs #14353
src/hg/makeDb/outside/hgGtexGeneBed/hgGtexGeneBed.c
- lines changed 242, context: html, text, full: html, text
  First cut loader of GTEX gene track. Enough here to test track display. refs #13504
- lines changed 1, context: html, text, full: html, text
  First cut loader of GTEX gene track. Enough here to test track display. refs #13504
- lines changed 8, context: html, text, full: html, text
  Compute max score, will need this in trackDb. refs #13504
src/hg/makeDb/outside/hgGtexGeneBed/makefile
- lines changed 4, context: html, text, full: html, text
  First cut loader of GTEX gene track. Enough here to test track display. refs #13504
src/hg/makeDb/trackDb/human/hg38/trackDb.ra
- lines changed 1, context: html, text, full: html, text
  More renames for consistency with hg19. refs #14353
src/hg/makeDb/trackDb/human/hg38/uwDnase.html
- lines changed 2, context: html, text, full: html, text
  Refer to local ENCODE page. refs #14353
- lines changed 51, context: html, text, full: html, text
  Move new DNase tracks to ENCODE Reg supertrack. Compare to CHris' lifted track. refs #14353
src/hg/makeDb/trackDb/human/hg38/uwDnase.ra
- lines changed 10, context: html, text, full: html, text
  Testing for data issue
- lines changed 1, context: html, text, full: html, text
  Add treatment vocab table
- lines changed 95, context: html, text, full: html, text
  Eliminate unneeded duplicate tables. refs #14353
- lines changed 1, context: html, text, full: html, text
  Fix vocab setting. refs #14353
- lines changed 6, context: html, text, full: html, text
  Use controlledVocabulary setting for non-ENCODE (table-based) vocabularies (replace briefly used *MetaTables settings)
- lines changed 868, context: html, text, full: html, text
  Rename tables for consistency with hg19. refs #14353
- lines changed 290, context: html, text, full: html, text
  Change default ordering of views (Peak, Hotspot, Signal). refs #14733
- lines changed 3246, context: html, text, full: html, text
  Move new DNase tracks to ENCODE Reg supertrack. Compare to CHris' lifted track. refs #14353
src/hg/makeDb/trackDb/human/hg38/uwDnaseClusters.html
- lines changed 1, context: html, text, full: html, text
  Refer to local ENCODE page. refs #14353
- lines changed 37, context: html, text, full: html, text
  Move new DNase tracks to ENCODE Reg supertrack. Compare to CHris' lifted track. refs #14353
src/hg/makeDb/trackDb/human/hg38/uwDnaseSignal.html
- lines changed 2, context: html, text, full: html, text
  Refer to local ENCODE page. refs #14353
- lines changed 45, context: html, text, full: html, text
  Move new DNase tracks to ENCODE Reg supertrack. Compare to CHris' lifted track. refs #14353
src/hg/makeDb/trackDb/human/hg38/wgEncodeReg.ra
- lines changed 21, context: html, text, full: html, text
  More renames for consistency with hg19. refs #14353
- lines changed 23, context: html, text, full: html, text
  Tweak DNase lifted track config.
- lines changed 2, context: html, text, full: html, text
  Tweak priorities and label.
- lines changed 1, context: html, text, full: html, text
  Tweak pri
src/hg/makeDb/trackDb/human/hg38/wgEncodeRegDnase.html
- lines changed 51, context: html, text, full: html, text
  Move new DNase tracks to ENCODE Reg supertrack. Compare to CHris' lifted track. refs #14353
src/hg/makeDb/trackDb/human/hg38/wgEncodeRegDnase.ra
- lines changed 3243, context: html, text, full: html, text
  Move new DNase tracks to ENCODE Reg supertrack. Compare to CHris' lifted track. refs #14353
- lines changed 3, context: html, text, full: html, text
  Tweak priorities and label.
- lines changed 1, context: html, text, full: html, text
  Label tweak.
src/hg/makeDb/trackDb/human/hg38/wgEncodeRegDnaseClustered.html
- lines changed 37, context: html, text, full: html, text
  Move new DNase tracks to ENCODE Reg supertrack. Compare to CHris' lifted track. refs #14353
src/hg/makeDb/trackDb/human/hg38/wgEncodeRegDnaseSignal.html
- lines changed 45, context: html, text, full: html, text
  Move new DNase tracks to ENCODE Reg supertrack. Compare to CHris' lifted track. refs #14353
src/hg/oneShot/tryGtexBoxPlot/tryGtexBoxPlot.c
- lines changed 29, context: html, text, full: html, text
  Libify graphics routine used for GTEX bar graph display. refs #13504

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