Commit eef3fe39 authored by Luis Pedro Coelho's avatar Luis Pedro Coelho
Browse files

Fix htslib API usage

parent f4b4a665
......@@ -527,7 +527,7 @@ int main(int argc, char *argv[])
} else {
if (!userOpt.spanCov) {
//All entries in SAM file are represented on the forward strand! (See specs of SAM format for details)
uint32_t* cigar = bam1_cigar(b);
uint32_t* cigar = bam_get_cigar(b);
uint32_t pp = core->pos+1;
int i = 0;
if(((*cigar) & BAM_CIGAR_MASK) == BAM_CSOFT_CLIP || ((*cigar) & BAM_CIGAR_MASK) == BAM_CHARD_CLIP) {//BWA is actively fucking with me.
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