Commits for kate

v337_base to v338_preview (2016-08-15 to 2016-08-22) v338

ba22bbbe65670b6378e16e7d60a214102e600a8f Thu Jun 30 19:10:06 2016 -0700

• Initial load of GTEx ASE data from NY Genome Center (Analysis group lab)
  
  • src/hg/inc/gtexAse.h - lines changed 89, context: html, text, full: html, text
  • src/hg/lib/gtexAse.as - lines changed 16, context: html, text, full: html, text
  • src/hg/lib/gtexAse.c - lines changed 214, context: html, text, full: html, text
  • src/hg/lib/gtexAse.sql - lines changed 22, context: html, text, full: html, text
  • src/hg/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/gtex/V6.txt - lines changed 71, context: html, text, full: html, text
  • src/hg/makeDb/outside/hgGtexAse/hgGtexAse.c - lines changed 167, context: html, text, full: html, text
  • src/hg/makeDb/outside/hgGtexAse/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/makeDb/outside/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/trackDb.gtex.ra - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/trackDb.gtexAwgAse.ra - lines changed 110, context: html, text, full: html, text

013ccd312d93bfb526241f9d81c4327a3b169b2e Tue Aug 9 14:52:59 2016 -0700

• Extend gtexAse file format to include quartiles, donors. Add GTEx abbreviation to tissue table. Generalize the new hub as GTex analysis.
  
  • src/hg/inc/gtexAse.h - lines changed 9, context: html, text, full: html, text
  • src/hg/inc/gtexTissue.h - lines changed 3, context: html, text, full: html, text
  • src/hg/lib/gtexAse.as - lines changed 8, context: html, text, full: html, text
  • src/hg/lib/gtexAse.c - lines changed 43, context: html, text, full: html, text
  • src/hg/lib/gtexAse.sql - lines changed 8, context: html, text, full: html, text
  • src/hg/lib/gtexTissue.as - lines changed 1, context: html, text, full: html, text
  • src/hg/lib/gtexTissue.c - lines changed 19, context: html, text, full: html, text
  • src/hg/lib/gtexTissue.sql - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/gtex/V6.txt - lines changed 13, context: html, text, full: html, text
  • src/hg/makeDb/outside/gtexAnalysis/README.txt - lines changed 12, context: html, text, full: html, text
  • src/hg/makeDb/outside/gtexAnalysis/buildNotes.ase.txt - lines changed 190, context: html, text, full: html, text
  • src/hg/makeDb/outside/hgGtexAse/hgGtexAse.c - lines changed 105, context: html, text, full: html, text

6a99e0e1adc5f0e60092d58ae73cb40bbfd20463 Wed Aug 10 13:10:03 2016 -0700

• Remove initial experiment work. Add new summary graph (just starting)
  
  • src/hg/makeDb/outside/gtexAnalysis/buildNotes.ase.txt - lines changed 136, context: html, text, full: html, text

ed0199b6ca7d6cc30154cdb537adae9850732f4f Wed Aug 10 15:21:41 2016 -0700

• Add cart var to suppress whiteout behind GTEX graph. Use this so highlighting will extend through GTEx items.
  
  • src/hg/hgTracks/gtexTracks.c - lines changed 5, context: html, text, full: html, text
  • src/hg/inc/gtexUi.h - lines changed 4, context: html, text, full: html, text

df826093d5ab7fe5deb471750201b9a8078d4b8e Thu Aug 11 10:46:24 2016 -0700

• Merge branch 'master' into gtexAse
  

9e2a8a0b99b50e87a71b0bf1f9f6df74f06c708e Mon Aug 15 12:48:20 2016 -0700

• Finish up ASE tracks. Polish hub for release. refs #17885
  
  • src/hg/inc/gtexAse.h - lines changed 1, context: html, text, full: html, text
  • src/hg/lib/gtexAse.as - lines changed 1, context: html, text, full: html, text
  • src/hg/lib/gtexAse.sql - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/outside/gtexAnalysis/buildNotes.ase.txt - lines changed 63, context: html, text, full: html, text
  • src/hg/makeDb/outside/gtexAnalysis/hub/filelist.txt - lines changed 117, context: html, text, full: html, text
  • src/hg/makeDb/outside/gtexAnalysis/hub/genomes.txt - lines changed 6, context: html, text, full: html, text
  • src/hg/makeDb/outside/gtexAnalysis/hub/gtexAnalysisHub.html - lines changed 65, context: html, text, full: html, text
  • src/hg/makeDb/outside/gtexAnalysis/hub/gtexAse.html - lines changed 68, context: html, text, full: html, text
  • src/hg/makeDb/outside/gtexAnalysis/hub/hg19/trackDb.txt - lines changed 462, context: html, text, full: html, text
  • src/hg/makeDb/outside/gtexAnalysis/hub/hg38/trackDb.txt - lines changed 462, context: html, text, full: html, text
  • src/hg/makeDb/outside/gtexAnalysis/hub/hub.test.txt - lines changed 8, context: html, text, full: html, text
  • src/hg/makeDb/outside/gtexAnalysis/hub/hub.txt - lines changed 6, context: html, text, full: html, text

aea21e491af5027c5b506213e85ac9f126f47b1b Mon Aug 15 17:21:42 2016 -0700

• Merge branch 'master' into gtexAse
  

bb1318da2ea0d7c6770ac75066a175217adee659 Mon Aug 15 17:30:22 2016 -0700

• Merge branch 'master' into gtexHighlight
  

7abd8e0cb2d83c0e1f345d6635e8c5b44a233d9c Thu Aug 18 16:45:27 2016 -0700

• Response to QA review. refs #17885
  
  • src/hg/makeDb/outside/gtexAnalysis/hub/gtexAse.html - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/outside/gtexAnalysis/hub/hg19/trackDb.txt - lines changed 57, context: html, text, full: html, text
  • src/hg/makeDb/outside/gtexAnalysis/hub/hg38/trackDb.txt - lines changed 57, context: html, text, full: html, text

f38078ce59f74d48998cad7e5cfe810fa5c4c08a Thu Aug 18 17:16:19 2016 -0700

• Add GTEx to gene sorter. refs #17288
  
  • src/hg/makeDb/doc/hg19.txt - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/doc/hg38/gtex.txt - lines changed 2, context: html, text, full: html, text
  • src/hg/near/hgExpDistance/hgMaxExp.c - lines changed 66, context: html, text, full: html, text
  • src/hg/near/hgExpDistance/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/near/hgNear/hgNearData/Human/columnDb.ra - lines changed 37, context: html, text, full: html, text
  • src/hg/near/hgNear/hgNearData/Human/orderDb.ra - lines changed 5, context: html, text, full: html, text
  • src/hg/near/makeNear.doc - lines changed 30, context: html, text, full: html, text

d6d046f86ee0386264a3bd359a2f0d2cc0d05434 Thu Aug 18 17:22:28 2016 -0700

• Configuration ready for CGI push. Still needs doc files. SHould be fine w/o tables. refs #17288
  
  • src/hg/near/hgNear/hgNearData/Human/columnDb.ra - lines changed 4, context: html, text, full: html, text
  • src/hg/near/hgNear/hgNearData/Human/orderDb.ra - lines changed 1, context: html, text, full: html, text

c54c5fac55102516453cd594152623a5afb56bcc Thu Aug 18 17:33:13 2016 -0700

• Merge branch 'gtexNear'