angie: changes by file

review to branch (2009-08-25 to 2009-09-02) v214

• src/hg/hgc/hgc.c
  • 1.1569 lines changed: 2, context: html, text, full: html, text
    Added check for table existence to printSnp125CodingAnnotations so an extra trackDb setting is ignored instead of errAborting.
• src/hg/makeDb/doc/hg19.txt
  • 1.36 lines changed: 302, context: html, text, full: html, text
    Added snp130: dbSNP's provisional mapping from b36 to GRCh37 coords. Also added orthologous allele table for snp130.
• src/hg/makeDb/schema/all.joiner
  • 1.733 lines changed: 1, context: html, text, full: html, text
    Adding minCheck to snp130Exceptions.name -- sometimes a snp can trigger an exception before we detect a real error and omit it from snp130.
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
  • 1.49 lines changed: 12, context: html, text, full: html, text
    Adding local overrides for snp130 (*provisional* b37 coord release by dbSNP).
• src/hg/snp/snpLoad/snpNcbiToUcsc.c
  • 1.11 lines changed: 10, context: html, text, full: html, text
    If refNCBI is wrong size (or snp coords are wrong), make an error instead of aborting. Don't abort on between+in-del -- between size is 0, min observed size can be 0 (-).