3846f517009c43abc65d227a4695645c9b5f3e8a
braney
  Fri Feb 15 18:31:21 2013 -0800
changes necessary to support assembly hubs (#8072)
diff --git src/hg/hgc/bamClick.c src/hg/hgc/bamClick.c
index 0430243..37bb181 100644
--- src/hg/hgc/bamClick.c
+++ src/hg/hgc/bamClick.c
@@ -39,33 +39,31 @@
 if (!skipQualityScore)
     printf("<B>Alignment Quality: </B>%d<BR>\n", core->qual);
 printf("<B>CIGAR string: </B><tt>%s</tt> (", bamGetCigar(bam));
 bamShowCigarEnglish(bam);
 printf(")<BR>\n");
 printf("<B>Tags:</B>");
 bamShowTags(bam);
 puts("<BR>");
 printf("<B>Flags: </B><tt>0x%02x:</tt><BR>\n &nbsp;&nbsp;", core->flag);
 bamShowFlagsEnglish(bam);
 puts("<BR>");
 if (bamIsRc(bam))
     printf("<em>Note: although the read was mapped to the reverse strand of the genome, "
 	   "the sequence and CIGAR in BAM are relative to the forward strand.</em><BR>\n");
 puts("<BR>");
-char nibName[HDB_MAX_PATH_STRING];
-hNibForChrom(database, seqName, nibName);
-struct dnaSeq *genoSeq = hFetchSeq(nibName, seqName, tStart, tEnd);
+struct dnaSeq *genoSeq = hChromSeq(database, seqName, tStart, tEnd);
 char *qSeq = bamGetQuerySequence(bam, FALSE);
 if (isNotEmpty(qSeq) && !sameString(qSeq, "*"))
     {
     char *qSeq = NULL;
     struct ffAli *ffa = bamToFfAli(bam, genoSeq, tStart, useStrand, &qSeq);
     printf("<B>Alignment of %s to %s:%d-%d%s:</B><BR>\n", itemName,
 	   seqName, tStart+1, tEnd, (isRc ? " (reverse complemented)" : ""));
     ffShowSideBySide(stdout, ffa, qSeq, 0, genoSeq->dna, tStart, tLength, 0, tLength, 8, isRc,
 		     FALSE);
     }
 if (!skipQualityScore && core->l_qseq > 0)
     {
     printf("<B>Sequence quality scores:</B><BR>\n<TT><TABLE><TR>\n");
     UBYTE *quals = bamGetQueryQuals(bam, useStrand);
     int i;