X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=bamtk.c;h=87b9c136c1c739493a9e4ce000fca0dcc6f60df5;hb=9f30c9ba76e0266e896f1199b41e0e7ddf6bd648;hp=a7e75cb59c9820201fd670fe0f570819acb7117f;hpb=f1222861f3824c28d35cd143f5565ca09d80f056;p=samtools.git

diff --git a/bamtk.c b/bamtk.c
index a7e75cb..87b9c13 100644
--- a/bamtk.c
+++ b/bamtk.c
@@ -1,9 +1,10 @@
 #include <stdio.h>
 #include <unistd.h>
+#include <assert.h>
 #include "bam.h"
 
 #ifndef PACKAGE_VERSION
-#define PACKAGE_VERSION "0.1.3-11 (r258)"
+#define PACKAGE_VERSION "0.1.5 (r373)"
 #endif
 
 int bam_taf2baf(int argc, char *argv[]);
@@ -14,6 +15,7 @@ int bam_sort(int argc, char *argv[]);
 int bam_tview_main(int argc, char *argv[]);
 int bam_mating(int argc, char *argv[]);
 int bam_rmdup(int argc, char *argv[]);
+int bam_rmdupse(int argc, char *argv[]);
 int bam_flagstat(int argc, char *argv[]);
 int bam_fillmd(int argc, char *argv[]);
 
@@ -100,6 +102,7 @@ int main(int argc, char *argv[])
 	else if (strcmp(argv[1], "faidx") == 0) return faidx_main(argc-1, argv+1);
 	else if (strcmp(argv[1], "fixmate") == 0) return bam_mating(argc-1, argv+1);
 	else if (strcmp(argv[1], "rmdup") == 0) return bam_rmdup(argc-1, argv+1);
+	else if (strcmp(argv[1], "rmdupse") == 0) return bam_rmdupse(argc-1, argv+1);
 	else if (strcmp(argv[1], "glfview") == 0) return glf3_view_main(argc-1, argv+1);
 	else if (strcmp(argv[1], "flagstat") == 0) return bam_flagstat(argc-1, argv+1);
 	else if (strcmp(argv[1], "tagview") == 0) return bam_tagview(argc-1, argv+1);