From ba21caf366b360eae2a559f973b867efbdb1f131 Mon Sep 17 00:00:00 2001 From: peterjc Date: Fri, 19 Apr 2013 16:55:10 +0100 Subject: [PATCH] Slightly more detailed error message for debugging. It would be nice to include the RNAME, but currently the header is being discarded before parsing. --- bam_index.c | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/bam_index.c b/bam_index.c index 35fb5b6..2fac746 100644 --- a/bam_index.c +++ b/bam_index.c @@ -196,8 +196,8 @@ bam_index_t *bam_index_core(bamFile fp) if (c->tid >= 0) { recalculated_bin = bam_reg2bin(c->pos, bam_calend(c, bam1_cigar(b))); if (c->bin != recalculated_bin) { - fprintf(stderr, "[bam_index_core] read '%s' mapped at POS %d has BIN %d but should be %d\n", - bam1_qname(b), c->pos + 1, c->bin, recalculated_bin); + fprintf(stderr, "[bam_index_core] read '%s' mapped at POS %d to %d has BIN %d but should be %d\n", + bam1_qname(b), c->pos + 1, bam_calend(c, bam1_cigar(b)), c->bin, recalculated_bin); fprintf(stderr, "[bam_index_core] Fix it by using BAM->SAM->BAM to force a recalculation of the BIN field\n"); return NULL; } -- 2.39.2