src/shortReads/itsaFind/itsaFind.c 1.5

Index: src/shortReads/itsaFind/itsaFind.c
===================================================================
RCS file: /projects/compbio/cvsroot/kent/src/shortReads/itsaFind/itsaFind.c,v
retrieving revision 1.4
retrieving revision 1.5
diff -b -B -U 4 -r1.4 -r1.5
--- src/shortReads/itsaFind/itsaFind.c	6 Nov 2008 07:03:00 -0000	1.4
+++ src/shortReads/itsaFind/itsaFind.c	24 Nov 2009 15:50:23 -0000	1.5
@@ -69,9 +69,9 @@
 	struct slInt **pHitList)
 /* Search the part of the suffix array between searchStart and searchEnd for a match.
  * The searchStart/searchEnd and cursor position must agree. */
 {
-uglyf("itsaFindWithin(qDna=%s cursor=%d searchStart=%d searchEnd=%d\n", qDna, cursor, searchStart, searchEnd);
+// uglyf("itsaFindWithin(qDna=%s cursor=%d searchStart=%d searchEnd=%d\n", qDna, cursor, searchStart, searchEnd);
 bits32 arrayPos = searchStart;
 /* We step through each base of the query */
 for (; cursor<qSize; ++cursor)
     {
@@ -131,9 +131,9 @@
 bits32 searchStart = itsa->index13[slot];
 if (searchStart != 0)
     {
     searchStart -= 1;	/* Pesky thing to keep 0 meaning no data in slot. */
-    uglyf("Going to look within.  Cursor slot %d\n", itsa->cursors13[slot]);
+    // uglyf("Going to look within.  Cursor slot %d\n", itsa->cursors13[slot]);
     itsaFindWithin(itsa->allDna, itsa->array, itsa->traverse, qDna, qSize,
     	itsa->cursors13[slot], searchStart, searchStart + itsa->traverse[searchStart], pHitList);
     }
 }