* put version number in bam.h

[samtools.git] / bam_plcmd.c

diff --git a/bam_plcmd.c b/bam_plcmd.c
index d6e8213e51c2d9938d15ced14b4eee0ff3859610..bba62cbcdcabe52cbdba71ab71a6b2e5681aa032 100644 (file)
--- a/bam_plcmd.c
+++ b/bam_plcmd.c
@@ -701,7 +701,8 @@ static int mpileup(mplp_conf_t *conf, int n, char **fn)
                bh->l_smpl = s.l;
                bh->sname = malloc(s.l);
                memcpy(bh->sname, s.s, s.l);
-               bh->l_txt = 0;
+               bh->txt = malloc(strlen(BAM_VERSION) + 64);
+               bh->l_txt = 1 + sprintf(bh->txt, "##samtoolsVersion=%s\n", BAM_VERSION);
                free(s.s);
                bcf_hdr_sync(bh);
                bcf_hdr_write(bp, bh);
@@ -934,6 +935,7 @@ int bam_mpileup(int argc, char *argv[])
                fprintf(stderr, "         -A          use anomalous read pairs in SNP/INDEL calling\n");
                fprintf(stderr, "         -g          generate BCF output\n");
                fprintf(stderr, "         -u          do not compress BCF output\n");
+               fprintf(stderr, "         -E          extended BAQ for higher sensitivity but lower specificity\n");
                fprintf(stderr, "         -B          disable BAQ computation\n");
                fprintf(stderr, "         -D          output per-sample DP\n");
                fprintf(stderr, "         -S          output per-sample SP (strand bias P-value, slow)\n");