File Changes for kate

v332_base to v333_preview (2016-05-02 to 2016-05-09) v333

• src/hg/hgGene/alleles.c
  • lines changed 39, context: html, text, full: html, text
    58f241185a4522bb0dd6bac6df5b1abe4f5d6a4f Wed May 4 13:22:25 2016 -0700
    Shift alleles section code from exists to print routine to allow hide of section to speed up hgGene which is slow on hg19. Part of perf improvements when adding GTEx to hgGene. refs #17244
    
• src/hg/hgGene/gtex.c
  • lines changed 62, context: html, text, full: html, text
    000226be7ecaa7674455d3968af3590ff2a047b3 Thu Apr 28 13:13:40 2016 -0700
    Add GTEx gene expression boxplot to hg38 and hg19 hgGene pages. Remove old GTEx link. refs #17244
    
  • lines changed 4, context: html, text, full: html, text
    c32415cfb3e0d34c6c21ad9b10dbd66c7ef2b76b Mon May 2 10:44:28 2016 -0700
    Add link to browser with GTEX track on to hgGene GTEX section. refs #17244
    
  • lines changed 29, context: html, text, full: html, text
    c4da827b5b232b002a32e2ec07cdb6b2494df4e4 Mon May 2 14:23:26 2016 -0700
    Add highest and total median expression info to section panel. refs #17244
    
  • lines changed 43, context: html, text, full: html, text
    6eb7b642e4d1286b4662ea3d527a9bc09b17db70 Wed May 4 10:53:50 2016 -0700
    Performance work: Add measureTiming support. Also, restructure GTEx to move heavy lifting to print routine so closing section will save time. Also, a few label changes for expression sections. refs #17244
    
• src/hg/hgGene/hgGene.c
  • lines changed 1, context: html, text, full: html, text
    000226be7ecaa7674455d3968af3590ff2a047b3 Thu Apr 28 13:13:40 2016 -0700
    Add GTEx gene expression boxplot to hg38 and hg19 hgGene pages. Remove old GTEx link. refs #17244
    
  • lines changed 35, context: html, text, full: html, text
    6eb7b642e4d1286b4662ea3d527a9bc09b17db70 Wed May 4 10:53:50 2016 -0700
    Performance work: Add measureTiming support. Also, restructure GTEx to move heavy lifting to print routine so closing section will save time. Also, a few label changes for expression sections. refs #17244
    
  • lines changed 21, context: html, text, full: html, text
    ddafb30c2f0d5489f4a56c280f56fabf0b08c161 Wed May 4 12:45:18 2016 -0700
    Add default visibility feature to hgGene sections. Setting 'visiblity hide' in section.ra will cause section to be collapsed as default. Using this to set microarray sections to default closed when GTEx data is present (perf boost). refs #17244
    
• src/hg/hgGene/hgGene.h
  • lines changed 3, context: html, text, full: html, text
    000226be7ecaa7674455d3968af3590ff2a047b3 Thu Apr 28 13:13:40 2016 -0700
    Add GTEx gene expression boxplot to hg38 and hg19 hgGene pages. Remove old GTEx link. refs #17244
    
  • lines changed 2, context: html, text, full: html, text
    6eb7b642e4d1286b4662ea3d527a9bc09b17db70 Wed May 4 10:53:50 2016 -0700
    Performance work: Add measureTiming support. Also, restructure GTEx to move heavy lifting to print routine so closing section will save time. Also, a few label changes for expression sections. refs #17244
    
• src/hg/hgGene/hgGeneData/Human/hg19/section.ra
  • lines changed 9, context: html, text, full: html, text
    000226be7ecaa7674455d3968af3590ff2a047b3 Thu Apr 28 13:13:40 2016 -0700
    Add GTEx gene expression boxplot to hg38 and hg19 hgGene pages. Remove old GTEx link. refs #17244
    
  • lines changed 2, context: html, text, full: html, text
    6eb7b642e4d1286b4662ea3d527a9bc09b17db70 Wed May 4 10:53:50 2016 -0700
    Performance work: Add measureTiming support. Also, restructure GTEx to move heavy lifting to print routine so closing section will save time. Also, a few label changes for expression sections. refs #17244
    
  • lines changed 6, context: html, text, full: html, text
    ddafb30c2f0d5489f4a56c280f56fabf0b08c161 Wed May 4 12:45:18 2016 -0700
    Add default visibility feature to hgGene sections. Setting 'visiblity hide' in section.ra will cause section to be collapsed as default. Using this to set microarray sections to default closed when GTEx data is present (perf boost). refs #17244
    
  • lines changed 1, context: html, text, full: html, text
    c9f540c357130c039f10a9da275891a461b99cae Wed May 4 14:07:11 2016 -0700
    Set Gene Alleles section to default off. Saves 500-1000 msec. By request of JK. Part of perf improvements motivated by adding GTEx section. refs #17244
    
• src/hg/hgGene/hgGeneData/Human/hg38/section.ra
  • lines changed 7, context: html, text, full: html, text
    000226be7ecaa7674455d3968af3590ff2a047b3 Thu Apr 28 13:13:40 2016 -0700
    Add GTEx gene expression boxplot to hg38 and hg19 hgGene pages. Remove old GTEx link. refs #17244
    
  • lines changed 2, context: html, text, full: html, text
    6eb7b642e4d1286b4662ea3d527a9bc09b17db70 Wed May 4 10:53:50 2016 -0700
    Performance work: Add measureTiming support. Also, restructure GTEx to move heavy lifting to print routine so closing section will save time. Also, a few label changes for expression sections. refs #17244
    
  • lines changed 11, context: html, text, full: html, text
    ddafb30c2f0d5489f4a56c280f56fabf0b08c161 Wed May 4 12:45:18 2016 -0700
    Add default visibility feature to hgGene sections. Setting 'visiblity hide' in section.ra will cause section to be collapsed as default. Using this to set microarray sections to default closed when GTEx data is present (perf boost). refs #17244
    
• src/hg/hgGene/hgGeneData/Human/links.ra
  • lines changed 10, context: html, text, full: html, text
    000226be7ecaa7674455d3968af3590ff2a047b3 Thu Apr 28 13:13:40 2016 -0700
    Add GTEx gene expression boxplot to hg38 and hg19 hgGene pages. Remove old GTEx link. refs #17244
    
• src/hg/hgGene/hgGeneData/section.ra
  • lines changed 1, context: html, text, full: html, text
    6eb7b642e4d1286b4662ea3d527a9bc09b17db70 Wed May 4 10:53:50 2016 -0700
    Performance work: Add measureTiming support. Also, restructure GTEx to move heavy lifting to print routine so closing section will save time. Also, a few label changes for expression sections. refs #17244
    
• src/hg/hgGene/makefile
  • lines changed 1, context: html, text, full: html, text
    000226be7ecaa7674455d3968af3590ff2a047b3 Thu Apr 28 13:13:40 2016 -0700
    Add GTEx gene expression boxplot to hg38 and hg19 hgGene pages. Remove old GTEx link. refs #17244
    
• src/hg/hgTracks/hgTracks.c
  • lines changed 6, context: html, text, full: html, text
    7ab16d909d9bbd6b55565c87f7ad7b645caa90a2 Thu May 5 19:54:36 2016 -0700
    Tweak the new darkerLabels setting to further darken extra pale colors.
    
• src/hg/hgc/gtexClick.c
  • lines changed 32, context: html, text, full: html, text
    b46d372807d2ffc6fd3d03ec2ad71dd72a361672 Thu Apr 28 11:15:14 2016 -0700
    Refactor GTEx boxplot code in preparation for moving to library for shared use with hgGene
    
  • lines changed 146, context: html, text, full: html, text
    000226be7ecaa7674455d3968af3590ff2a047b3 Thu Apr 28 13:13:40 2016 -0700
    Add GTEx gene expression boxplot to hg38 and hg19 hgGene pages. Remove old GTEx link. refs #17244
    
  • lines changed 11, context: html, text, full: html, text
    b3bbb2830441deb68f6645938db234d0ce7f170d Thu Apr 28 13:17:13 2016 -0700
    Cleanup for readability.
    
  • lines changed 2, context: html, text, full: html, text
    2226ef649b0fbb80ce771caeda16c71ccc290eac Mon May 2 10:46:16 2016 -0700
    Add link to browser with GTEX track on to hgGene GTEX section. refs #17244
    
  • lines changed 6, context: html, text, full: html, text
    114bd9cc108feeb8b20ad0b98b35454ea3fde8e0 Mon May 2 11:45:50 2016 -0700
    Add details page info to show highest expressed tissue with scores. refs #17244
    
• src/hg/inc/gtexGeneBed.h
  • lines changed 3, context: html, text, full: html, text
    114bd9cc108feeb8b20ad0b98b35454ea3fde8e0 Mon May 2 11:45:50 2016 -0700
    Add details page info to show highest expressed tissue with scores. refs #17244
    
• src/hg/inc/gtexInfo.h
  • lines changed 3, context: html, text, full: html, text
    b46d372807d2ffc6fd3d03ec2ad71dd72a361672 Thu Apr 28 11:15:14 2016 -0700
    Refactor GTEx boxplot code in preparation for moving to library for shared use with hgGene
    
• src/hg/inc/gtexTissue.h
  • lines changed 3, context: html, text, full: html, text
    114bd9cc108feeb8b20ad0b98b35454ea3fde8e0 Mon May 2 11:45:50 2016 -0700
    Add details page info to show highest expressed tissue with scores. refs #17244
    
• src/hg/inc/gtexUi.h
  • lines changed 9, context: html, text, full: html, text
    000226be7ecaa7674455d3968af3590ff2a047b3 Thu Apr 28 13:13:40 2016 -0700
    Add GTEx gene expression boxplot to hg38 and hg19 hgGene pages. Remove old GTEx link. refs #17244
    
• src/hg/lib/gtexBoxplot.c
  • lines changed 160, context: html, text, full: html, text
    ba9c4b8c144df33072d58154549b7cf531d15bde Tue May 3 09:14:22 2016 -0700
    Libifying GTEx boxplot for use by hgGene (as well as hgc). refs #17244
    
• src/hg/lib/gtexGeneBed.c
  • lines changed 18, context: html, text, full: html, text
    114bd9cc108feeb8b20ad0b98b35454ea3fde8e0 Mon May 2 11:45:50 2016 -0700
    Add details page info to show highest expressed tissue with scores. refs #17244
    
• src/hg/lib/gtexInfo.c
  • lines changed 8, context: html, text, full: html, text
    b46d372807d2ffc6fd3d03ec2ad71dd72a361672 Thu Apr 28 11:15:14 2016 -0700
    Refactor GTEx boxplot code in preparation for moving to library for shared use with hgGene
    
  • lines changed 3, context: html, text, full: html, text
    114bd9cc108feeb8b20ad0b98b35454ea3fde8e0 Mon May 2 11:45:50 2016 -0700
    Add details page info to show highest expressed tissue with scores. refs #17244
    
• src/hg/lib/gtexTissue.c
  • lines changed 11, context: html, text, full: html, text
    114bd9cc108feeb8b20ad0b98b35454ea3fde8e0 Mon May 2 11:45:50 2016 -0700
    Add details page info to show highest expressed tissue with scores. refs #17244
    
• src/hg/lib/gtexUi.c
  • lines changed 7, context: html, text, full: html, text
    000226be7ecaa7674455d3968af3590ff2a047b3 Thu Apr 28 13:13:40 2016 -0700
    Add GTEx gene expression boxplot to hg38 and hg19 hgGene pages. Remove old GTEx link. refs #17244
    
  • lines changed 1, context: html, text, full: html, text
    c32415cfb3e0d34c6c21ad9b10dbd66c7ef2b76b Mon May 2 10:44:28 2016 -0700
    Add link to browser with GTEX track on to hgGene GTEX section. refs #17244
    
• src/hg/lib/makefile
  • lines changed 1, context: html, text, full: html, text
    000226be7ecaa7674455d3968af3590ff2a047b3 Thu Apr 28 13:13:40 2016 -0700
    Add GTEx gene expression boxplot to hg38 and hg19 hgGene pages. Remove old GTEx link. refs #17244