File Changes for markd

v238_base to v239_preview (2010-08-17 to 2010-08-24) v239

• src/hg/hgc/ccdsClick.c
  • lines changed 87, context: html, text, full: html, text
    add CCDS public notes to the CCDS details page
• src/hg/inc/ccdsNotes.h
  • lines changed 66, context: html, text, full: html, text
    added support for importing CCDS public notes into a table
• src/hg/inc/genePred.h
  • lines changed 5, context: html, text, full: html, text
    fix bug where insertions between multiple bases of stop codon generated incorrect frame. Provide explicit control over use of gene_id or gene_name for name2 column
• src/hg/lib/ccdsNotes.as
  • lines changed 7, context: html, text, full: html, text
    added support for importing CCDS public notes into a table
• src/hg/lib/ccdsNotes.c
  • lines changed 148, context: html, text, full: html, text
    added support for importing CCDS public notes into a table
  • lines changed 1, context: html, text, full: html, text
    fixed bugs in ccdsNotes load
• src/hg/lib/ccdsNotes.sql
  • lines changed 13, context: html, text, full: html, text
    added support for importing CCDS public notes into a table
• src/hg/lib/genePred.c
  • lines changed 136, context: html, text, full: html, text
    fix bug where insertions between multiple bases of stop codon generated incorrect frame. Provide explicit control over use of gene_id or gene_name for name2 column
• src/hg/lib/makefile
  • lines changed 1, context: html, text, full: html, text
    added support for importing CCDS public notes into a table
• src/hg/makeDb/genbank/etc/genbank.tbls
  • lines changed 1, context: html, text, full: html, text
    added support for importing CCDS public notes into a table
• src/hg/makeDb/genbank/src/ccds/ccdsMkTables.c
  • lines changed 162, context: html, text, full: html, text
    added support for importing CCDS public notes into a table
  • lines changed 2, context: html, text, full: html, text
    fixed bugs in ccdsNotes load
• src/hg/makeDb/genbank/src/dbload/gbDbLoadStep
  • lines changed 1, context: html, text, full: html, text
    added support for importing CCDS public notes into a table
• src/utils/gtfToGenePred/gtfToGenePred.c
  • lines changed 6, context: html, text, full: html, text
    fix bug where insertions between multiple bases of stop codon generated incorrect frame. Provide explicit control over use of gene_id or gene_name for name2 column
• src/utils/gtfToGenePred/tests/expected/dups.out
  • lines changed 1, context: html, text, full: html, text
    fix bug where insertions between multiple bases of stop codon generated incorrect frame. Provide explicit control over use of gene_id or gene_name for name2 column
• src/utils/gtfToGenePred/tests/expected/ensembl.gp
  • lines changed 2, context: html, text, full: html, text
    fix bug where insertions between multiple bases of stop codon generated incorrect frame. Provide explicit control over use of gene_id or gene_name for name2 column
• src/utils/gtfToGenePred/tests/expected/geneNameAsName2.gp
  • lines changed 2, context: html, text, full: html, text
    fix bug where insertions between multiple bases of stop codon generated incorrect frame. Provide explicit control over use of gene_id or gene_name for name2 column
• src/utils/gtfToGenePred/tests/expected/splitStop.gp
  • lines changed 2, context: html, text, full: html, text
    fix bug where insertions between multiple bases of stop codon generated incorrect frame. Provide explicit control over use of gene_id or gene_name for name2 column
• src/utils/gtfToGenePred/tests/input/splitStop.gtf
  • lines changed 34, context: html, text, full: html, text
    fix bug where insertions between multiple bases of stop codon generated incorrect frame. Provide explicit control over use of gene_id or gene_name for name2 column
• src/utils/gtfToGenePred/tests/makefile
  • lines changed 18, context: html, text, full: html, text
    fix bug where insertions between multiple bases of stop codon generated incorrect frame. Provide explicit control over use of gene_id or gene_name for name2 column