Remove dead code for reading overlaps.

andylaw · Aug 2, 2013 · 6a314ab · 6a314ab
1 parent 9396424
commit 6a314ab
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Showing 4 changed files with 5 additions and 101 deletions.
diff --git a/src/AS_OBT/Makefile b/src/AS_OBT/Makefile
@@ -67,7 +67,6 @@ EXE_SOURCES = initialTrim.C \
               finalTrim-bestEdge.C \
               chimera.C \
               trim.C \
-              readOverlap.C \
               removeMateOverlap.C
 LIB_SOURCES = AS_OBT_acceptableOverlap.C
 
@@ -93,11 +92,11 @@ all: $(CXX_PROGS) $(SCRIPTS)
 libAS_OBT.a: $(LIB_SOURCES:.C=.o)
 libCA.a:     $(LIB_SOURCES:.C=.o)
 
-initialTrim:          initialTrim.o       trim.o           libCA.a
-deduplicate:          deduplicate.o       readOverlap.o    libCA.a
-finalTrim:            finalTrim.o         trim.o           finalTrim-largestCovered.o  finalTrim-evidenceBased.o  finalTrim-bestEdge.o libCA.a 
-chimera:              chimera.o           readOverlap.o    libCA.a
-removeMateOverlap:    removeMateOverlap.o readOverlap.o    libCA.a
+initialTrim:          initialTrim.o trim.o libCA.a
+deduplicate:          deduplicate.o libCA.a
+finalTrim:            finalTrim.o trim.o finalTrim-largestCovered.o finalTrim-evidenceBased.o finalTrim-bestEdge.o libCA.a
+chimera:              chimera.o libCA.a
+removeMateOverlap:    removeMateOverlap.o libCA.a
 
 figaro: $(FIGARO)/figaro
 	@cp $< $(LOCAL_BIN)/$@

diff --git a/src/AS_OBT/readOverlap.C b/src/AS_OBT/readOverlap.C
diff --git a/src/AS_OBT/readOverlap.H b/src/AS_OBT/readOverlap.H
diff --git a/src/AS_OBT/removeMateOverlap.C b/src/AS_OBT/removeMateOverlap.C
@@ -30,8 +30,6 @@ const char *mainid = "$Id$";
 #include <math.h>
 #include <assert.h>
 
-#include "readOverlap.H"
-
 #include "AS_global.H"
 #include "AS_PER_gkpStore.H"
 #include "AS_OVS_overlapStore.H"