From 8e0cda946df67b944828a049dea8315f33b9f7af Mon Sep 17 00:00:00 2001 From: Heng Li Date: Wed, 15 Dec 2010 03:41:09 +0000 Subject: [PATCH] When -B is applied to mpileup, still use paired reads only unless -A is flagged. --- bam_plcmd.c | 2 +- bamtk.c | 2 +- 2 files changed, 2 insertions(+), 2 deletions(-) diff --git a/bam_plcmd.c b/bam_plcmd.c index 27f6762..d03bab1 100644 --- a/bam_plcmd.c +++ b/bam_plcmd.c @@ -877,7 +877,7 @@ int bam_mpileup(int argc, char *argv[]) case 'g': mplp.flag |= MPLP_GLF; break; case 'u': mplp.flag |= MPLP_NO_COMP | MPLP_GLF; break; case 'a': mplp.flag |= MPLP_NO_ORPHAN | MPLP_REALN; break; - case 'B': mplp.flag &= ~MPLP_REALN & ~MPLP_NO_ORPHAN; break; + case 'B': mplp.flag &= ~MPLP_REALN; break; case 'R': mplp.flag |= MPLP_REALN; break; case 'D': mplp.flag |= MPLP_FMT_DP; break; case 'S': mplp.flag |= MPLP_FMT_SP; break; diff --git a/bamtk.c b/bamtk.c index 9706069..7e72b4e 100644 --- a/bamtk.c +++ b/bamtk.c @@ -9,7 +9,7 @@ #endif #ifndef PACKAGE_VERSION -#define PACKAGE_VERSION "0.1.12-6 (r887)" +#define PACKAGE_VERSION "0.1.12-7 (r888)" #endif int bam_taf2baf(int argc, char *argv[]); -- 2.39.2