X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=bam_tview.c;h=06d5e3330ce586cbbbd1eb698176130a52c554b6;hb=efc19a36de7236c21b3ae1fe7601e0503bc9c4b7;hp=81afdfd48ec0372e06f13658f8eff3c00d4d5bf5;hpb=5193fbf4944f67fd2d2bb0be5a54b5bbd27c5e6b;p=samtools.git

diff --git a/bam_tview.c b/bam_tview.c
index 81afdfd..06d5e33 100644
--- a/bam_tview.c
+++ b/bam_tview.c
@@ -284,9 +284,9 @@ static void error(const char *format, ...)
         fprintf(stderr, "\n");
         fprintf(stderr, "Usage: bamtk tview [options] <aln.bam> [ref.fasta]\n");
         fprintf(stderr, "Options:\n");
+        fprintf(stderr, "   -d display      output as (H)tml or (C)urses or (T)ext \n");
         fprintf(stderr, "   -p chr:pos      go directly to this position\n");
         fprintf(stderr, "   -s STR          display only reads from this sample or group\n");
-        fprintf(stderr, "   -d display      (H)tml or (C)urses or (T)ext \n");
         fprintf(stderr, "\n\n");
     }
     else
@@ -302,6 +302,8 @@ static void error(const char *format, ...)
 enum dipsay_mode {display_ncurses,display_html,display_text};
 extern tview_t* curses_tv_init(const char *fn, const char *fn_fa, const char *samples);
 extern tview_t* html_tv_init(const char *fn, const char *fn_fa, const char *samples);
+extern tview_t* text_tv_init(const char *fn, const char *fn_fa, const char *samples);
+
 int bam_tview_main(int argc, char *argv[])
 	{
 	int view_mode=display_ncurses;
@@ -336,6 +338,10 @@ int bam_tview_main(int argc, char *argv[])
 			break;
 			}
 		case display_text:
+			{
+			tv = text_tv_init(argv[optind], (optind+1>=argc)? 0 : argv[optind+1], samples);
+			break;
+			}
 		case display_html:
 			{
 			tv = html_tv_init(argv[optind], (optind+1>=argc)? 0 : argv[optind+1], samples);