a9fc918cca9c5a348af6e778636e892d2b6ab9df galt Mon Nov 15 15:58:10 2010 -0800 oops do not want commented out code diff --git src/lib/basicBed.c src/lib/basicBed.c index 4a792f4..0ad62b2 100644 --- src/lib/basicBed.c +++ src/lib/basicBed.c @@ -653,31 +653,30 @@ /* A tiny bit of error checking on the psl. */ if (psl->qStart >= psl->qEnd || psl->qEnd > psl->qSize || psl->tStart >= psl->tEnd || psl->tEnd > psl->tSize) { errAbort("mangled psl format for %s", psl->qName); } /* Allocate bed and fill in from psl. */ AllocVar(bed); bed->chrom = cloneString(psl->tName); bed->chromStart = bed->thickStart = chromStart = psl->tStart; bed->chromEnd = bed->thickEnd = psl->tEnd; bed->score = 1000 - 2*pslCalcMilliBad(psl, TRUE); if (bed->score < 0) bed->score = 0; -//strncpy(bed->strand, psl->strand, sizeof(bed->strand)); bed->strand[0] = psl->strand[0]; bed->blockCount = blockCount = psl->blockCount; bed->blockSizes = (int *)cloneMem(psl->blockSizes,(sizeof(int)*psl->blockCount)); if (pslIsProtein(psl)) { /* Convert blockSizes from protein to dna. */ for (i=0; i<blockCount; ++i) bed->blockSizes[i] *= 3; } bed->chromStarts = chromStarts = (int *)cloneMem(psl->tStarts, (sizeof(int)*psl->blockCount)); bed->name = cloneString(psl->qName); /* Switch minus target strand to plus strand. */ if (psl->strand[1] == '-') {