From 70eeaf79135a1c0844adbcf121d13409e95869f6 Mon Sep 17 00:00:00 2001
From: Aaron <aaronquinlan@gmail.com>
Date: Tue, 28 Feb 2012 09:29:23 -0500
Subject: [PATCH] correct -abam/-wb/-bed warning
---
src/intersectBed/intersectMain.cpp | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/src/intersectBed/intersectMain.cpp b/src/intersectBed/intersectMain.cpp
index f7524c78..c26aae08 100644
--- a/src/intersectBed/intersectMain.cpp
+++ b/src/intersectBed/intersectMain.cpp
@@ -217,7 +217,7 @@ int intersect_main(int argc, char* argv[]) {
showHelp = true;
}
- if (inputIsBam && writeB) {
+ if (inputIsBam && writeB && outputIsBam) {
cerr << endl << "*****" << endl << "*****WARNING: -wb is ignored with -abam" << endl << "*****" << endl;
}
--
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