Commits for kate

v349_preview to v349_preview2 (2017-05-01 to 2017-05-08) v349

bf18fbc459d663c8559dcfec513675ec165bcbc3 Mon May 1 12:23:14 2017 -0700

• Fix problem with GTEx viewLimits input box noted by QA during review of this track (similar controls). Id name was changed for barchart in JS -- needed update in GTEx. refs #18736
  • src/hg/inc/gtexUi.h - lines changed 2, context: html, text, full: html, text
  • src/hg/lib/gtexUi.c - lines changed 2, context: html, text, full: html, text

857182c9dd3165d550b0246da56a7b64f9697517 Mon May 1 12:25:35 2017 -0700

• Gray out text in a disabled control (as in HGStyle). Not standard in boostrap/jQuery UI. Affects GTEx UI as well as barchart. Older GTEx UI has this appearance as it uses HGStyle. refs #18736
  • src/hg/htdocs/style/gb.css - lines changed 5, context: html, text, full: html, text

ffa6bd5dfd1cc374ce42d970a504f1dc9688935f Mon May 1 13:37:56 2017 -0700

• Allow custom labeling of bar chart values on details page. And update file that should have been in previous commit (viewlimits fix). refs #18736
  • src/hg/hgTracks/gtexTracks.c - lines changed 3, context: html, text, full: html, text
  • src/hg/hgc/barChartClick.c - lines changed 7, context: html, text, full: html, text
  • src/hg/inc/barChartUi.h - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/trackDb.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/tagTypes.tab - lines changed 2, context: html, text, full: html, text

0490db6e85ca2bdf98e3bf71df2b04d7582a08de Mon May 1 14:21:50 2017 -0700

• Add links to matrix and sample files on details page. refs #18738
  • src/hg/hgc/barChartClick.c - lines changed 25, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/trackDb.ra - lines changed 1, context: html, text, full: html, text

30632e578f8f276e1d2a6e021dc9cb8eb5e882f4 Mon May 1 15:54:05 2017 -0700

• Add name2 to schema, to support alternate names. refs #18736
  • src/hg/hgc/barChartClick.c - lines changed 3, context: html, text, full: html, text
  • src/hg/inc/barChartBed.h - lines changed 9, context: html, text, full: html, text
  • src/hg/lib/barChartBed.as - lines changed 4, context: html, text, full: html, text
  • src/hg/lib/barChartBed.c - lines changed 33, context: html, text, full: html, text
  • src/hg/lib/barChartBed.sql - lines changed 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/trackDb.ra - lines changed 1, context: html, text, full: html, text

c67885b1bc7b28fd26dfcc1cd622a6e0b5240438 Mon May 1 15:56:32 2017 -0700

• Clean up tests
  • src/hg/makeDb/trackDb/human/hg38/trackDb.ra - lines changed 62, context: html, text, full: html, text

3810604d5c77948f1eb2d1dc7605aa4fdda5f3e2 Mon May 1 16:56:54 2017 -0700

• Use .as comments to label item name and name2. Also add name2 to boxplot. refs #18736
  • src/hg/hgc/barChartClick.c - lines changed 36, context: html, text, full: html, text
  • src/hg/hgc/hgcData/barChartBoxplot.R - lines changed 6, context: html, text, full: html, text
  • src/hg/inc/barChartBed.h - lines changed 4, context: html, text, full: html, text

c8834b5b67c2b983e3c7736a2ce2342448b536f2 Tue May 2 16:13:27 2017 -0700

• A little more robust to bad trackDb. refs #18736
  • src/hg/hgTracks/barChartTrack.c - lines changed 5, context: html, text, full: html, text

9569f017fa4f55a12ecd82aa9270091ccc939883 Tue May 2 16:16:18 2017 -0700

• Fix ordering problem on boxplot (thanks Chris L). refs #18736
  • src/hg/hgc/hgcData/barChartBoxplot.R - lines changed 14, context: html, text, full: html, text

5593175b35ed5abf3ac564ab716869c64593cb40 Wed May 3 08:44:31 2017 -0700

• Make data download link more useful ? It now retrieves data frame. The full matrix and sample file urls can live in track description. refs #18736
  • src/hg/hgc/barChartClick.c - lines changed 6, context: html, text, full: html, text

1020ed9ae2ad60e3ec36657f14029485bb2ae0f7 Wed May 3 11:13:57 2017 -0700

• Get bigBarChart custom track support mostly working. refs #18736
  • src/hg/hgCustom/hgCustom.c - lines changed 1, context: html, text, full: html, text
  • src/hg/hgc/barChartClick.c - lines changed 8, context: html, text, full: html, text
  • src/hg/hgc/hgc.c - lines changed 3, context: html, text, full: html, text
  • src/hg/lib/barChartUi.c - lines changed 10, context: html, text, full: html, text

f8c988bd0b93ce33967d2aad0005ec6e09b541db Wed May 3 11:14:16 2017 -0700

• Merge branch 'barchart-custom2'

ca0eced9d495e2bf4850da62f94e64e74ad74b1e Wed May 3 11:27:56 2017 -0700

• Additional setting for bigBarChart. refs #18736
  • src/hg/htdocs/goldenPath/help/trackDb/trackDbDoc.html - lines changed 3, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/trackDb/trackDbHub.v2.html - lines changed 3, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/trackDb/trackDbLibrary.shtml - lines changed 11, context: html, text, full: html, text

4abf44177745692dfda0cc4f93b2b20f2dd39ea2 Thu May 4 10:40:43 2017 -0700

• Add tools for making barChart files (expMatrixToBarchartBed and bedJoinTabOffset) to user apps. Cleanup ws and provide for scripts in subdirs. refs #18736
  • src/utils/makefile - lines changed 39, context: html, text, full: html, text

9e83875382b580eea449c0f9fe83b3686b506409 Thu May 4 14:59:09 2017 -0700

• Add schema for barChart custom track type. refs #18736
  • src/hg/makeDb/hgLoadBed/makefile - lines changed 1, context: html, text, full: html, text

70dd30683fe3a9795bb81067da75d34521265577 Thu May 4 16:41:16 2017 -0700

• Add custom track suport for type barChart. refs #18736
  • src/hg/hgCustom/hgCustom.c - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTracks/barChartTrack.c - lines changed 5, context: html, text, full: html, text
  • src/hg/hgTracks/bedTrack.c - lines changed 12, context: html, text, full: html, text
  • src/hg/hgTracks/hgTracks.c - lines changed 6, context: html, text, full: html, text
  • src/hg/hgTracks/hgTracks.h - lines changed 3, context: html, text, full: html, text
  • src/hg/hgc/barChartClick.c - lines changed 9, context: html, text, full: html, text
  • src/hg/inc/barChartBed.h - lines changed 2, context: html, text, full: html, text
  • src/hg/lib/customFactory.c - lines changed 201, context: html, text, full: html, text

3bb3a5c8edd08f85940d6358484dbe3343f34338 Fri May 5 10:01:15 2017 -0700

• Left out registration of barChart type in last round of cleanup. refs #18736
  • src/hg/lib/customFactory.c - lines changed 1, context: html, text, full: html, text