Commits for braney

v322_base to v323_preview (2015-09-14 to 2015-09-21) v323

• a few changes to the decipher otto scripts to make them less verbose
  
  • src/hg/utils/otto/decipher/buildDecipher - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/otto/decipher/checkDecipher.sh - lines changed 2, context: html, text, full: html, text
  • src/hg/utils/otto/decipher/validateDecipher.sh - lines changed 1, context: html, text, full: html, text
• make the "genome" keyword result in the web code setting the position to the default position # no redmine
  
  • src/hg/lib/cart.c - lines changed 5, context: html, text, full: html, text
• added hg38 support to OMIM otto scripts. This has actually been
  happening for a while, but I hadn't checked in the code. no redmine
  
  • src/hg/utils/otto/omim/buildOmimTracks.csh - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/otto/omim/checkOmim.sh - lines changed 18, context: html, text, full: html, text
  • src/hg/utils/otto/omim/checkOmimUpload.sh - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/otto/omim/doOmimAv/makefile - lines changed 2, context: html, text, full: html, text
  • src/hg/utils/otto/omim/doOmimGene2/makefile - lines changed 2, context: html, text, full: html, text
  • src/hg/utils/otto/omim/doOmimGeneSymbols/makefile - lines changed 2, context: html, text, full: html, text
  • src/hg/utils/otto/omim/doOmimLocation/makefile - lines changed 2, context: html, text, full: html, text
• new ISCA (ClinGen) process #no redmine
  
  • src/hg/utils/otto/isca/buildISCA.csh - lines changed 43, context: html, text, full: html, text
  • src/hg/utils/otto/isca/checkISCA.sh - lines changed 18, context: html, text, full: html, text
  • src/hg/utils/otto/isca/gvfToBed8Attrs.pl - lines changed 39, context: html, text, full: html, text
  • src/hg/utils/otto/isca/iscaWrapper.sh - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/otto/isca/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/otto/isca/validateISCA.sh - lines changed 12, context: html, text, full: html, text
• update OMIM upload script # no redmine
  
  • src/hg/utils/otto/omim/checkOmimUpload.sh - lines changed 17, context: html, text, full: html, text
• updates to the GWAS otto download files # no redmine
  
  • src/hg/utils/otto/gwas/checkGwas.sh - lines changed 12, context: html, text, full: html, text
  • src/hg/utils/otto/gwas/expectedColumns.txt - lines changed 32, context: html, text, full: html, text
  • src/hg/utils/otto/gwas/makefile - lines changed 2, context: html, text, full: html, text
  • src/hg/utils/otto/gwas/perlParser.pl - lines changed 18, context: html, text, full: html, text
  • src/hg/utils/otto/gwas/validateGwas.sh - lines changed 3, context: html, text, full: html, text
• update to the genereview otto scripts # no redmine
  
  • src/hg/utils/otto/geneReviews/buildGeneReviews.sh - lines changed 2, context: html, text, full: html, text
  • src/hg/utils/otto/geneReviews/checkGeneReviews.sh - lines changed 2, context: html, text, full: html, text
  • src/hg/utils/otto/geneReviews/geneReviewsWrapper.sh - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/otto/geneReviews/makefile - lines changed 20, context: html, text, full: html, text
  • src/hg/utils/otto/geneReviews/validateGeneReviews.sh - lines changed 1, context: html, text, full: html, text