File Changes for markd

v272_preview to v272_preview2 (2012-08-14 to 2012-08-21) v272

• src/hg/hgTracks/gencodeTracks.c
  • lines changed 21, context: html, text, full: html, text
    fixed crash accessing 2way consensus pseudogenes because they don't have the extended genePred field
  • lines changed 1, context: html, text, full: html, text
    removed extra call to genePredAssignConfiguredName that did nothing
• src/hg/htdocs/makefile
  • lines changed 6, context: html, text, full: html, text
    allow overriding CGI_BIN user directory and htdocs in environment
• src/hg/makeDb/doc/encodeDccHg19/gencodeV12.txt
  • lines changed 1, context: html, text, full: html, text
    imported GENCODE V13
• src/hg/makeDb/doc/encodeDccHg19/gencodeV13.txt
  • lines changed 63, context: html, text, full: html, text
    imported GENCODE V13
• src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncode.ra
  • lines changed 1, context: html, text, full: html, text
    imported GENCODE V13
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV13.html
  • lines changed 352, context: html, text, full: html, text
    imported GENCODE V13
• src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV13.ra
  • lines changed 227, context: html, text, full: html, text
    added fogotten V13.ra file
• src/hg/utils/gff3ToGenePred/gff3ToGenePred.c
  • lines changed 49, context: html, text, full: html, text
    handled turning GFF3 transcript records into non-coding genes
• src/hg/utils/gff3ToGenePred/tests/expected/geneTranscriptTest.gp
  • lines changed 3, context: html, text, full: html, text
    handled turning GFF3 transcript records into non-coding genes
• src/hg/utils/gff3ToGenePred/tests/input/geneTranscript.gff3
  • lines changed 14, context: html, text, full: html, text
    handled turning GFF3 transcript records into non-coding genes
• src/hg/utils/gff3ToGenePred/tests/makefile
  • lines changed 7, context: html, text, full: html, text
    handled turning GFF3 transcript records into non-coding genes
• src/inc/cgi_build_rules.mk
  • lines changed 10, context: html, text, full: html, text
    allow overriding CGI_BIN user directory and htdocs in environment
• src/inc/gff3.h
  • lines changed 1, context: html, text, full: html, text
    handled turning GFF3 transcript records into non-coding genes
• src/lib/gff3.c
  • lines changed 1, context: html, text, full: html, text
    handled turning GFF3 transcript records into non-coding genes