Commits for angie

v277_preview2 to v277_base (2012-12-11 to 2012-12-18) v277

• Track #1656: GWAS Catalog bi-monthly update.
  • src/hg/makeDb/doc/hg18.txt - lines changed 4, context: html, text, full: html, text
  • src/hg/makeDb/doc/hg19.txt - lines changed 48, context: html, text, full: html, text
• Added #include <localmem.h> in case some earlier-included file hasn't already done so.
  • src/inc/bbiFile.h - lines changed 1, context: html, text, full: html, text
• typo fix in comment
  • src/inc/annoStreamBigBed.h - lines changed 1, context: html, text, full: html, text
• minor: needed to reset one more private variable when region changes.
  • src/lib/annoStreamBigBed.c - lines changed 2, context: html, text, full: html, text
• annoFormatTab: use %g instead of %f for floats, for consistency with bigWig output.
  • src/hg/lib/tests/expected/annoGrator/snpConsDbToTabOutShort.txt - lines changed 12, context: html, text, full: html, text
  • src/lib/annoFormatTab.c - lines changed 1, context: html, text, full: html, text
• Feature #6152 (Variant Annotation Integrator): added annoStreamBigWigand moved up annoGrateWig from hg/lib to lib. Tested with comparison
  to hgTables intersection, bitwise. Output is not identical because
  hgTables merges adjacent bases and splits on value changes, while
  annoGrator prints original item and comma-sep list of per-base values.
  
  • src/hg/inc/annoGrateWig.h - lines changed 11, context: html, text, full: html, text
  • src/hg/inc/annoGrateWigDb.h - lines changed 11, context: html, text, full: html, text
  • src/hg/lib/annoGrateWig.c - lines changed 79, context: html, text, full: html, text
  • src/hg/lib/annoGrateWigDb.c - lines changed 12, context: html, text, full: html, text
  • src/hg/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/lib/tests/annoGratorTester.c - lines changed 21, context: html, text, full: html, text
  • src/hg/lib/tests/annoGratorTests.mk - lines changed 5, context: html, text, full: html, text
  • src/hg/lib/tests/expected/annoGrator/snpBigWigToTabOut.txt - lines changed 304, context: html, text, full: html, text
  • src/inc/annoGrateWig.h - lines changed 14, context: html, text, full: html, text
  • src/inc/annoStreamBigWig.h - lines changed 11, context: html, text, full: html, text
  • src/lib/annoGrateWig.c - lines changed 87, context: html, text, full: html, text
  • src/lib/annoStreamBigWig.c - lines changed 133, context: html, text, full: html, text
  • src/lib/makefile - lines changed 2, context: html, text, full: html, text