1d76bf881d3e18580739e44698a0d1a499c2f9f1
hiram
  Fri Oct 2 10:31:39 2015 -0700
fixup gcc warnings for -Wunused-but-set-variable refs #16121

diff --git src/lib/pslShow.c src/lib/pslShow.c
index c827e9a..fb4e23e 100644
--- src/lib/pslShow.c
+++ src/lib/pslShow.c
@@ -9,70 +9,62 @@
 #include "cda.h"
 #include "seqOut.h"
 
 
 static void pslShowAlignmentStranded(struct psl *psl, boolean isProt,
 	char *qName, bioSeq *qSeq, int qStart, int qEnd,
 	char *tName, bioSeq *tSeq, int tStart, int tEnd, FILE *f)
 /* Show protein/DNA alignment or translated DNA alignment in HTML format. */
 {
 boolean tIsRc = (psl->strand[1] == '-');
 boolean qIsRc = (psl->strand[0] == '-');
 int mulFactor = (isProt ? 3 : 1);
 DNA *dna = NULL;	/* Mixed case version of genomic DNA. */
 int qSize = qSeq->size;
 char *qLetters = cloneString(qSeq->dna);
-int qbafStart, qbafEnd, tbafStart, tbafEnd;
-int qcfmStart, qcfmEnd, tcfmStart, tcfmEnd;
+int qbafStart, tbafStart;
+int qcfmStart, tcfmStart;
 
 int lineWidth = isProt ? 60 : 50;
 
 tbafStart = tStart;
-tbafEnd   = tEnd;
 tcfmStart = tStart;
-tcfmEnd   = tEnd;
 
 qbafStart = qStart;
-qbafEnd   = qEnd;
 qcfmStart = qStart;
-qcfmEnd   = qEnd;
 
 /* Deal with minus strand. */
 if (tIsRc)
     {
     int temp;
     reverseComplement(tSeq->dna, tSeq->size);
 
     tbafStart = tEnd;
-    tbafEnd   = tStart;
     tcfmStart = tEnd;
-    tcfmEnd   = tStart;
 
     temp = psl->tSize - tEnd;
     tEnd = psl->tSize - tStart;
     tStart = temp;
     }
 if (qIsRc)
     {
     int temp;
     reverseComplement(qSeq->dna, qSeq->size);
     reverseComplement(qLetters, qSeq->size);
 
     qcfmStart = qEnd;
-    qcfmEnd   = qStart;
     qbafStart = qEnd;
-    qbafEnd   = qStart;
     
     temp = psl->qSize - qEnd;
     qEnd = psl->qSize - qStart;
     qStart = temp;
     }
 dna = cloneString(tSeq->dna);
 
 if (qName == NULL) 
     qName = psl->qName;
 if (tName == NULL)
     tName = psl->tName;
 
 
 fputs("Matching bases are colored blue and capitalized. " 
       "Light blue bases mark the boundaries of gaps in either sequence.\n", f);