From 6032579dc67e043e0c002507ec0b65f9a7ba6875 Mon Sep 17 00:00:00 2001 From: Henry Amrhein Date: Fri, 21 Dec 2012 12:36:17 -0800 Subject: [PATCH] added calls and description for bam_calnh. --- bamtk.c | 3 +++ 1 file changed, 3 insertions(+) diff --git a/bamtk.c b/bamtk.c index 8ba2581..52b12df 100644 --- a/bamtk.c +++ b/bamtk.c @@ -19,6 +19,7 @@ int bam_rmdup(int argc, char *argv[]); int bam_flagstat(int argc, char *argv[]); int bam_fillmd(int argc, char *argv[]); int bam_idxstats(int argc, char *argv[]); +int bam_calnh(int argc, char **argv); int main_samview(int argc, char *argv[]); int main_import(int argc, char *argv[]); int main_reheader(int argc, char *argv[]); @@ -55,6 +56,7 @@ static int usage() fprintf(stderr, " cat concatenate BAMs\n"); fprintf(stderr, " targetcut cut fosmid regions (for fosmid pool only)\n"); fprintf(stderr, " phase phase heterozygotes\n"); + fprintf(stderr, " calnh calculate NH tags\n"); fprintf(stderr, "\n"); #ifdef _WIN32 fprintf(stderr, "\ @@ -98,6 +100,7 @@ int main(int argc, char *argv[]) fprintf(stderr, "[main] The `pileup' command has been removed. Please use `mpileup' instead.\n"); return 1; } + else if (strcmp(argv[1], "calnh") == 0) return bam_calnh(argc-1, argv+1); #if _CURSES_LIB != 0 else if (strcmp(argv[1], "tview") == 0) return bam_tview_main(argc-1, argv+1); #endif -- 2.30.2