From b25957590f6426559af8f8d3fa88b0e94fd65382 Mon Sep 17 00:00:00 2001
From: Aaron Quinlan <aaronquinlan@gmail.com>
Date: Thu, 9 Apr 2009 19:48:57 -0400
Subject: [PATCH] Changed all of the Makefiles to only write the binary to bin/
 There will no longer be local copies of the binaries in each of the
 respective src/* directories

---
 src/complementBed/Makefile     | 1 -
 src/coverageBed/Makefile       | 1 -
 src/fastaFromBed/Makefile      | 1 -
 src/genomeCoverageBed/Makefile | 1 -
 src/intersectBed/Makefile      | 1 -
 src/mergeBed/Makefile          | 1 -
 src/sortBed/Makefile           | 1 -
 7 files changed, 7 deletions(-)

diff --git a/src/complementBed/Makefile b/src/complementBed/Makefile
index 61b56bf8..c35e2c87 100755
--- a/src/complementBed/Makefile
+++ b/src/complementBed/Makefile
@@ -28,7 +28,6 @@ all: $(PROGRAM)
 
 $(PROGRAM): $(BUILT_OBJECTS) $(EXT_OBJECTS)
 	@echo "  * linking $(PROGRAM)"
-	@$(CXX) $(LDFLAGS) $(CXXFLAGS) -o $@ $^ $(LIBS)	
 	@$(CXX) $(LDFLAGS) $(CXXFLAGS) -o $(BIN_DIR)/$@ $^ $(LIBS)
 
 $(BUILT_OBJECTS): $(SOURCES)
diff --git a/src/coverageBed/Makefile b/src/coverageBed/Makefile
index 61325a3f..da338ba3 100644
--- a/src/coverageBed/Makefile
+++ b/src/coverageBed/Makefile
@@ -28,7 +28,6 @@ all: $(PROGRAM)
 
 $(PROGRAM): $(BUILT_OBJECTS) $(EXT_OBJECTS)
 	@echo "  * linking $(PROGRAM)"
-	@$(CXX) $(LDFLAGS) $(CXXFLAGS) -o $@ $^ $(LIBS)	
 	@$(CXX) $(LDFLAGS) $(CXXFLAGS) -o $(BIN_DIR)/$@ $^ $(LIBS)
 
 $(BUILT_OBJECTS): $(SOURCES)
diff --git a/src/fastaFromBed/Makefile b/src/fastaFromBed/Makefile
index 7c6c8bda..54f75713 100755
--- a/src/fastaFromBed/Makefile
+++ b/src/fastaFromBed/Makefile
@@ -28,7 +28,6 @@ all: $(PROGRAM)
 
 $(PROGRAM): $(BUILT_OBJECTS) $(EXT_OBJECTS)
 	@echo "  * linking $(PROGRAM)"
-	@$(CXX) $(LDFLAGS) $(CXXFLAGS) -o $@ $^ $(LIBS)	
 	@$(CXX) $(LDFLAGS) $(CXXFLAGS) -o $(BIN_DIR)/$@ $^ $(LIBS)
 
 $(BUILT_OBJECTS): $(SOURCES)
diff --git a/src/genomeCoverageBed/Makefile b/src/genomeCoverageBed/Makefile
index 992924d1..cac145cd 100755
--- a/src/genomeCoverageBed/Makefile
+++ b/src/genomeCoverageBed/Makefile
@@ -28,7 +28,6 @@ all: $(PROGRAM)
 
 $(PROGRAM): $(BUILT_OBJECTS) $(EXT_OBJECTS)
 	@echo "  * linking $(PROGRAM)"
-	@$(CXX) $(LDFLAGS) $(CXXFLAGS) -o $@ $^ $(LIBS)	
 	@$(CXX) $(LDFLAGS) $(CXXFLAGS) -o $(BIN_DIR)/$@ $^ $(LIBS)
 
 $(BUILT_OBJECTS): $(SOURCES)
diff --git a/src/intersectBed/Makefile b/src/intersectBed/Makefile
index 53c03e01..0fb788a2 100644
--- a/src/intersectBed/Makefile
+++ b/src/intersectBed/Makefile
@@ -28,7 +28,6 @@ all: $(PROGRAM)
 
 $(PROGRAM): $(BUILT_OBJECTS) $(EXT_OBJECTS)
 	@echo "  * linking $(PROGRAM)"
-	@$(CXX) $(LDFLAGS) $(CXXFLAGS) -o $@ $^ $(LIBS)	
 	@$(CXX) $(LDFLAGS) $(CXXFLAGS) -o $(BIN_DIR)/$@ $^ $(LIBS)
 
 $(BUILT_OBJECTS): $(SOURCES)
diff --git a/src/mergeBed/Makefile b/src/mergeBed/Makefile
index 3030a89f..f4401d20 100755
--- a/src/mergeBed/Makefile
+++ b/src/mergeBed/Makefile
@@ -28,7 +28,6 @@ all: $(PROGRAM)
 
 $(PROGRAM): $(BUILT_OBJECTS) $(EXT_OBJECTS)
 	@echo "  * linking $(PROGRAM)"
-	@$(CXX) $(LDFLAGS) $(CXXFLAGS) -o $@ $^ $(LIBS)	
 	@$(CXX) $(LDFLAGS) $(CXXFLAGS) -o $(BIN_DIR)/$@ $^ $(LIBS)
 
 $(BUILT_OBJECTS): $(SOURCES)
diff --git a/src/sortBed/Makefile b/src/sortBed/Makefile
index 54f390ba..a0b8a27d 100755
--- a/src/sortBed/Makefile
+++ b/src/sortBed/Makefile
@@ -28,7 +28,6 @@ all: $(PROGRAM)
 
 $(PROGRAM): $(BUILT_OBJECTS) $(EXT_OBJECTS)
 	@echo "  * linking $(PROGRAM)"
-	@$(CXX) $(LDFLAGS) $(CXXFLAGS) -o $@ $^ $(LIBS)	
 	@$(CXX) $(LDFLAGS) $(CXXFLAGS) -o $(BIN_DIR)/$@ $^ $(LIBS)
 
 $(BUILT_OBJECTS): $(SOURCES)
-- 
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