From 074a146c77d63c8912c24c364e638e44c05233c9 Mon Sep 17 00:00:00 2001
From: nkindlon <nek3d@virginia.edu>
Date: Mon, 16 Dec 2013 17:48:52 -0500
Subject: [PATCH] Changed main Makefile to put LDFLAGS after -lbamtools. Fixes
 customized Bamtools link error when Bamtools already defined in /usr/lib.

---
 Makefile | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/Makefile b/Makefile
index 39c2e8e3..3a4cb074 100644
--- a/Makefile
+++ b/Makefile
@@ -94,7 +94,7 @@ BUILT_OBJECTS = $(OBJ_DIR)/*.o
 all: print_banner $(OBJ_DIR) $(BIN_DIR) autoversion $(UTIL_SUBDIRS) $(SUBDIRS)
 	@echo "- Building main bedtools binary."
 	@$(CXX) $(CXXFLAGS) -c src/bedtools.cpp -o obj/bedtools.o -I$(UTIL_DIR)/version/
-	@$(CXX) $(LDFLAGS) $(CXXFLAGS) -o $(BIN_DIR)/bedtools $(BUILT_OBJECTS) -L$(UTIL_DIR)/BamTools/lib/ -lbamtools $(LIBS)
+	@$(CXX) $(CXXFLAGS) -o $(BIN_DIR)/bedtools $(BUILT_OBJECTS) -L$(UTIL_DIR)/BamTools/lib/ -lbamtools $(LIBS) $(LDFLAGS)
 	@echo "done."
 	
 	@echo "- Creating executables for old CLI."
-- 
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