From e6ba78ac1e0c41c4256dd385895352236d80426a Mon Sep 17 00:00:00 2001
From: Charles Plessy <plessy@debian.org>
Date: Thu, 19 Aug 2010 15:49:17 +0900
Subject: [PATCH] Imported Upstream version 0.1.1

---
 index.c | 4 ++--
 main.c  | 3 ++-
 tabix.1 | 5 +++--
 3 files changed, 7 insertions(+), 5 deletions(-)

diff --git a/index.c b/index.c
index cc56498..80b863d 100644
--- a/index.c
+++ b/index.c
@@ -159,8 +159,8 @@ static int get_intv(ti_index_t *idx, kstring_t *str, ti_intv_t *intv)
 				if (i != str->l) str->s[i] = '\t';
 			} else if (id == idx->conf.bc) {
 				// here ->beg is 1-based. it will be changed to 0-based at the end of this routine.
-				intv->beg = strtol(str->s + b, &s, 0);
-				if (idx->conf.preset&TI_FLAG_UCSC) ++intv->beg;
+				intv->beg = intv->end = strtol(str->s + b, &s, 0);
+				if (!(idx->conf.preset&TI_FLAG_UCSC)) --intv->beg;
 			} else {
 				if ((idx->conf.preset&0xffff) == TI_PRESET_GENERIC) {
 					if (id == idx->conf.ec) intv->end = strtol(str->s + b, &s, 0);
diff --git a/main.c b/main.c
index faef7fb..02daedf 100644
--- a/main.c
+++ b/main.c
@@ -5,7 +5,7 @@
 #include "bgzf.h"
 #include "tabix.h"
 
-#define PACKAGE_VERSION "0.1.0 (r506)"
+#define PACKAGE_VERSION "0.1.1 (r542)"
 
 static int fetch_func(int l, const char *s, void *data)
 {
@@ -82,6 +82,7 @@ int main(int argc, char *argv[])
 			for (i = optind + 1; i < argc; ++i) {
 				int tid, beg, end;
 				if (ti_parse_region(idx, argv[i], &tid, &beg, &end) == 0) {
+					fprintf(stderr, "%d,%d\n", beg, end);
 					ti_fetch(fp, idx, tid, beg, end, 0, fetch_func);
 				} else fprintf(stderr, "[main] invalid region: unknown target name or minus interval.\n");
 			}
diff --git a/tabix.1 b/tabix.1
index 6b6e2d6..4b5eea2 100644
--- a/tabix.1
+++ b/tabix.1
@@ -1,4 +1,4 @@
-.TH tabix 1 "2 November 2009" "tabix-0.1.0" "Bioinformatics tools"
+.TH tabix 1 "16 March 2009" "tabix-0.1.1" "Bioinformatics tools"
 .SH NAME
 .PP
 bgzip - Block compression/decompression utility
@@ -69,7 +69,8 @@ are all stored in the index file and thus not used in data retrieval. [1]
 Column of start chromosomal position. [4]
 .TP
 .BI "-e " INT
-Column of end chromosomal position. [5]
+Column of end chromosomal position. The end column can be the same as
+start column, [5]
 .TP
 .BI "-S " INT
 Skip first INT lines in the data file. [0]
-- 
2.30.2