From d7adcb03be09e6714b48ce380cff9d0e57aa9304 Mon Sep 17 00:00:00 2001
From: Aaron <aaronquinlan@gmail.com>
Date: Tue, 21 Sep 2010 09:59:05 -0400
Subject: [PATCH] mergeBed assumes stdin.
---
src/mergeBed/mergeMain.cpp | 14 +++++---------
1 file changed, 5 insertions(+), 9 deletions(-)
diff --git a/src/mergeBed/mergeMain.cpp b/src/mergeBed/mergeMain.cpp
index 69752f99..24b12be8 100644
--- a/src/mergeBed/mergeMain.cpp
+++ b/src/mergeBed/mergeMain.cpp
@@ -30,18 +30,15 @@ int main(int argc, char* argv[]) {
bool showHelp = false;
// input files
- string bedFile;
+ string bedFile = "stdin";
int maxDistance = 0;
// input arguments
- bool numEntries = false;
+ bool haveBed = true;
+ bool numEntries = false;
bool haveMaxDistance = false;
- bool haveBed = false;
- bool forceStrand = false;
- bool reportNames = false;
-
- // check to see if we should print out some help
- if(argc <= 1) showHelp = true;
+ bool forceStrand = false;
+ bool reportNames = false;
for(int i = 1; i < argc; i++) {
int parameterLength = (int)strlen(argv[i]);
@@ -61,7 +58,6 @@ int main(int argc, char* argv[]) {
if(PARAMETER_CHECK("-i", 2, parameterLength)) {
if ((i+1) < argc) {
- haveBed = true;
bedFile = argv[i + 1];
i++;
}
--
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