File Changes for angie

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

• src/hg/inc/annoGrateWig.h
  • lines changed 11, 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/annoGrateWigDb.h
  • lines changed 11, 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/lib/annoGrateWig.c
  • lines changed 79, 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/lib/annoGrateWigDb.c
  • lines changed 12, 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/lib/makefile
  • 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/lib/tests/annoGratorTester.c
  • lines changed 21, 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/lib/tests/annoGratorTests.mk
  • lines changed 5, 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/lib/tests/expected/annoGrator/snpBigWigToTabOut.txt
  • lines changed 304, 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/lib/tests/expected/annoGrator/snpConsDbToTabOutShort.txt
  • lines changed 12, context: html, text, full: html, text
    annoFormatTab: use %g instead of %f for floats, for consistency with bigWig output.
• src/hg/makeDb/doc/hg18.txt
  • lines changed 4, context: html, text, full: html, text
    Track #1656: GWAS Catalog bi-monthly update.
• src/hg/makeDb/doc/hg19.txt
  • lines changed 48, context: html, text, full: html, text
    Track #1656: GWAS Catalog bi-monthly update.
• src/inc/annoGrateWig.h
  • lines changed 14, 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/inc/annoStreamBigBed.h
  • lines changed 1, context: html, text, full: html, text
    typo fix in comment
• src/inc/annoStreamBigWig.h
  • lines changed 11, 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/inc/bbiFile.h
  • lines changed 1, context: html, text, full: html, text
    Added #include <localmem.h> in case some earlier-included file hasn't already done so.
• src/lib/annoFormatTab.c
  • lines changed 1, context: html, text, full: html, text
    annoFormatTab: use %g instead of %f for floats, for consistency with bigWig output.
• src/lib/annoGrateWig.c
  • lines changed 87, 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/lib/annoStreamBigBed.c
  • lines changed 2, context: html, text, full: html, text
    minor: needed to reset one more private variable when region changes.
• src/lib/annoStreamBigWig.c
  • lines changed 133, 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/lib/makefile
  • lines changed 2, 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.