Commits for angie

v341_preview to v341_preview2 (2016-10-24 to 2016-10-31) v341

a0effc171c049178f9569214bf74008ee25833a0 Thu Oct 27 11:03:48 2016 -0700

• canIntersect wasn't recognizing bigDataUrl-only tracks. refs #18289
  • src/hg/hgTables/intersect.c - lines changed 7, context: html, text, full: html, text

1088a8b905852b08102668fdbb2ab9cf6d278f77 Fri Oct 28 10:10:22 2016 -0700

• Adding special code for linking out to ExAC. refs #18284
  • src/hg/hgc/vcfClick.c - lines changed 8, context: html, text, full: html, text

94699b698cc07983f2b10c5b9d4523502a4e5467 Fri Oct 28 17:18:25 2016 -0700

• Adapted from code contributed by Belinda Giardine: adding support for VCF from cancer somatic variant callers Strelka and Mutect2, when genotype columns are TUMOR and NORMAL and the hgTracks display shows allele counts for the tumor sample. For Strelka VCF, genotypes are parsed out of INFO SGT. refs #18275
  • src/hg/lib/pgSnp.c - lines changed 114, context: html, text, full: html, text
  • src/inc/vcf.h - lines changed 3, context: html, text, full: html, text
  • src/lib/vcf.c - lines changed 77, context: html, text, full: html, text