Commits for braney

v237_base to v238_preview (2010-08-03 to 2010-08-10) v238

• v238 preview
  • src/utils/qa/weeklybld/buildEnv.csh - lines changed 2, context: html, text, full: html, text
• draw in MG_BLACK, not 1 (which is white in 32-bit)
  • src/hg/hgTracks/simpleTracks.c - lines changed 1, context: html, text, full: html, text
• add submission id for gencode
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeGencode.ra - lines changed 7, context: html, text, full: html, text
• fix link out for Gencode V3
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra - lines changed 1, context: html, text, full: html, text
• take out metadata for hg19 wgEncodeGencode
  • src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncode.ra - lines changed 3, context: html, text, full: html, text
• metadata for hg19 gencodeV4
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeGencode.ra - lines changed 89, context: html, text, full: html, text
• drop alignments from UCSF Brain Methyl since they aren't correct
  • src/hg/makeDb/trackDb/human/hg18/trackDb.ra - lines changed 73, context: html, text, full: html, text
• take out spurious url variable
  • src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncode.ra - lines changed 1, context: html, text, full: html, text
• fix up some gencode table naming inconsistencies
  • src/hg/makeDb/doc/encodeDccHg19/gencodeV4.txt - lines changed 9, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncode.ra - lines changed 2, context: html, text, full: html, text
• add association between hg19 Gencode class and GTF tables
  • src/hg/makeDb/schema/all.joiner - lines changed 14, context: html, text, full: html, text
• put gencode ensembl transcript id link in trackDb instead of hard-coding it
  • src/hg/hgc/hgc.c - lines changed 7, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncode.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
• added wgEncodeMapability
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/makefile - lines changed 1, context: html, text, full: html, text
• put this in metaDb
  • src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeMapability.ra - lines changed 85, context: html, text, full: html, text
• change .bw to .bigWig
  • src/hg/encode/encodeLoad/doEncodeLoad.pl - lines changed 3, context: html, text, full: html, text
• change .bw to .bigWig
  • src/hg/encode/encodeLoad/doEncodeUnload.pl - lines changed 1, context: html, text, full: html, text
• fix typos in preamble
  • src/hg/encode/encodeLoad/doEncodeLoad.pl - lines changed 4, context: html, text, full: html, text
• change Myers to HudsonAlpha
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeHudsonalphaRnaSeq.ra - lines changed 13, context: html, text, full: html, text
• change back to old code
  • src/hg/lib/trackDbCustom.c - lines changed 1, context: html, text, full: html, text