From cbeca9e3b0205f8805ed0314402f331342ceec12 Mon Sep 17 00:00:00 2001
From: Aaron <aaronquinlan@gmail.com>
Date: Tue, 21 Sep 2010 09:55:57 -0400
Subject: [PATCH] complementBed assumes stdin.
---
src/complementBed/complementMain.cpp | 8 ++------
1 file changed, 2 insertions(+), 6 deletions(-)
diff --git a/src/complementBed/complementMain.cpp b/src/complementBed/complementMain.cpp
index a384c7eb..ea4fc549 100644
--- a/src/complementBed/complementMain.cpp
+++ b/src/complementBed/complementMain.cpp
@@ -30,15 +30,12 @@ int main(int argc, char* argv[]) {
bool showHelp = false;
// input files
- string bedFile;
+ string bedFile = "stdin";
string genomeFile;
- bool haveBed = false;
+ bool haveBed = true;
bool haveGenome = false;
- // check to see if we should print out some help
- if(argc <= 1) showHelp = true;
-
for(int i = 1; i < argc; i++) {
int parameterLength = (int)strlen(argv[i]);
@@ -57,7 +54,6 @@ 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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