Commits for fanhsu

v252_preview to v252_preview2 (2011-05-17 to 2011-05-31) v252

• Created doOmimDisorders.c.
  • src/hg/oneShot/doOmimDisorders/doOmimDisorders.c - lines changed 109, context: html, text, full: html, text
• Created makefile.
  • src/hg/oneShot/doOmimDisorders/makefile - lines changed 14, context: html, text, full: html, text
• Updated new OMIM tracks processing to use the new omimPhenotype table.
  • src/hg/hgc/hgc.c - lines changed 13, context: html, text, full: html, text
• Rebuilt new OMIM tracks using new data, new omimPhenotype table, and updated programs.
  • src/hg/makeDb/doc/hg19.txt - lines changed 193, context: html, text, full: html, text
• Updated omimGeneMap.sql.
  • src/hg/lib/omimGeneMap.sql - lines changed 16, context: html, text, full: html, text
• Created omimPhenotype.sql.
  • src/hg/lib/omimPhenotype.sql - lines changed 9, context: html, text, full: html, text
• Updated new OMIM related track processing, using the omimPhenotype tale instead of omimDisoroderPhenotype.
  • src/hg/hgTracks/simpleTracks.c - lines changed 4, context: html, text, full: html, text
• Added mimAV.txt to the list of files we get from OMIM.
  • src/hg/makeDb/doc/hg19.txt - lines changed 1, context: html, text, full: html, text
• Updated new OMIM tracks entries.
  • src/hg/makeDb/schema/all.joiner - lines changed 7, context: html, text, full: html, text
• Added reference section and link to Amos Tanay's lab.
  • src/hg/makeDb/trackDb/human/hg18/evoCpg.html - lines changed 25, context: html, text, full: html, text
• Added evoCpg build.
  • src/hg/makeDb/doc/hg18.txt - lines changed 18, context: html, text, full: html, text
• Added evoCpgId.
  • src/hg/makeDb/schema/all.joiner - lines changed 4, context: html, text, full: html, text
• Revamped omimGene2 processing logic and minor edits of links to OMIM page at omim.org.
  • src/hg/hgc/hgc.c - lines changed 92, context: html, text, full: html, text
• Show phenotype class for omimGene2.
  • src/hg/hgc/hgc.c - lines changed 4, context: html, text, full: html, text
• Added evoCpg.
  • src/hg/makeDb/trackDb/human/hg18/trackDb.ra - lines changed 11, context: html, text, full: html, text
• Changed colors for new OMIM Gene tracks.
  • src/hg/makeDb/trackDb/human/trackDb.ra - lines changed 6, context: html, text, full: html, text
• Removed target=_blank from refGene and KG links in omimGene2.
  • src/hg/hgc/hgc.c - lines changed 2, context: html, text, full: html, text
• Updated description page info on omimGene2.
  • src/hg/makeDb/trackDb/human/hg19/omimGene2.html - lines changed 9, context: html, text, full: html, text
• Added Brooke into Credits section of OMIM tracks.
  • src/hg/makeDb/trackDb/human/hg19/omimAvSnp.html - lines changed 1, context: html, text, full: html, text
• Added Brooke into Credits section of OMIM tracks.
  • src/hg/makeDb/trackDb/human/hg19/omimLocation.html - lines changed 2, context: html, text, full: html, text
• Created omimPhenotype.as
  • src/hg/lib/omimPhenotype.as - lines changed 8, context: html, text, full: html, text
• Created mim2gene.as.
  • src/hg/lib/mim2gene.as - lines changed 7, context: html, text, full: html, text
• Added comment for description.
  • src/hg/lib/omimAv.as - lines changed 1, context: html, text, full: html, text
• Added comment for the last two fields.
  • src/hg/lib/omimAvRepl.as - lines changed 2, context: html, text, full: html, text
• Added mim2gene entries.
  • src/hg/makeDb/schema/all.joiner - lines changed 3, context: html, text, full: html, text
• Updated class descriptions for OMIM tracks.
  • src/hg/hgTrackUi/hgTrackUi.c - lines changed 10, context: html, text, full: html, text
• Updated class descriptions.
  • src/hg/makeDb/trackDb/human/hg19/omimGene2.html - lines changed 12, context: html, text, full: html, text
• Updated class discriptions of omimLocation.
  • src/hg/makeDb/trackDb/human/hg19/omimLocation.html - lines changed 12, context: html, text, full: html, text
• Minor edits of OMIM tracks configureation language.
  • src/hg/hgTrackUi/hgTrackUi.c - lines changed 8, context: html, text, full: html, text
• Implemented new color scheme for OMIM tracks.
  • src/hg/hgTracks/simpleTracks.c - lines changed 87, context: html, text, full: html, text
• Updated default color of OMIM tracks.
  • src/hg/makeDb/trackDb/human/trackDb.ra - lines changed 6, context: html, text, full: html, text
• Updated omimGene2 color scheme.
  • src/hg/makeDb/trackDb/human/hg19/omimGene2.html - lines changed 5, context: html, text, full: html, text
• Updated color scheme of omimLocation track.
  • src/hg/makeDb/trackDb/human/hg19/omimLocation.html - lines changed 6, context: html, text, full: html, text
• Added itemNameColor method for omimGeneLocation track.
  • src/hg/hgTracks/simpleTracks.c - lines changed 1, context: html, text, full: html, text