angie: changes by file

review to branch (2009-09-09 to 2009-09-15) v215

• src/hg/hgTracks/bamTrack.c
  • 1.9 lines changed: 2, context: html, text, full: html, text
    Added bamFileNameFromTable to bamFile.h and changed bamFetch to take a filename, not db+table, so it can be used for CT files someday. bamFileNameFromTable supports an optional seqName column in the db table, for per-chrom BAM files (as we get from 1000Genomes).
• src/hg/hgc/bamClick.c
  • 1.8 lines changed: 3, context: html, text, full: html, text
    Added bamFileNameFromTable to bamFile.h and changed bamFetch to take a filename, not db+table, so it can be used for CT files someday. bamFileNameFromTable supports an optional seqName column in the db table, for per-chrom BAM files (as we get from 1000Genomes).
• src/hg/inc/bamFile.h
  • 1.8 lines changed: 9, context: html, text, full: html, text
    Added bamFileNameFromTable to bamFile.h and changed bamFetch to take a filename, not db+table, so it can be used for CT files someday. bamFileNameFromTable supports an optional seqName column in the db table, for per-chrom BAM files (as we get from 1000Genomes).
• src/hg/lib/bamFile.c
  • 1.7 lines changed: 31, context: html, text, full: html, text
    Added bamFileNameFromTable to bamFile.h and changed bamFetch to take a filename, not db+table, so it can be used for CT files someday. bamFileNameFromTable supports an optional seqName column in the db table, for per-chrom BAM files (as we get from 1000Genomes).
• src/hg/makeDb/trackDb/human/hg18/trackDb.ra
  • 1.417 lines changed: 1, context: html, text, full: html, text
    Added chr21 to bamNA12878 -- remote access to 1000Genomes DCC using (for now) samtools' support for FTP.