d2c7e8be3ceae6027a5274faafdf6239d778cc63 aamp Sat Jul 16 08:31:16 2011 -0700 Changes related to change source filenames around: bamUdc.ch -> bamFile.ch and bamFile.ch -> hgBam.ch diff --git src/hg/hgc/bamClick.c src/hg/hgc/bamClick.c index 9471b4b..f3afb97 100644 --- src/hg/hgc/bamClick.c +++ src/hg/hgc/bamClick.c @@ -1,32 +1,32 @@ /* bamClick - handler for alignments in BAM format (produced by MAQ, * BWA and some other short-read alignment tools). */ #ifdef USE_BAM #include "common.h" #include "hash.h" #include "hdb.h" -#include "bamFile.h" +#include "hgBam.h" #include "hgc.h" #if (defined USE_BAM && defined KNETFILE_HOOKS) #include "knetUdc.h" #include "udc.h" #endif//def USE_BAM && KNETFILE_HOOKS static char const rcsid[] = "$Id: bamClick.c,v 1.21 2010/05/11 01:43:28 kent Exp $"; -#include "bamFile.h" +#include "hgBam.h" struct bamTrackData { int itemStart; char *itemName; struct hash *pairHash; }; /* Maybe make this an option someday -- for now, I find it too confusing to deal with * CIGAR that is anchored to positive strand while showing rc'd sequence. I think * to do it right, we would need to reverse the CIGAR string for display. */ static boolean useStrand = FALSE; static boolean skipQualityScore = FALSE; static void singleBamDetails(const bam1_t *bam) /* Print out the properties of this alignment. */