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Author: Andreas Tille <tille@debian.org>
Last-Update: Tue, 22 Nov 2016 10:56:09 +0100
Bug-Debian: https://bugs.debian.org/838513
Description: Use Debian packaged libssw (while its not clear
why two implementations of Smith-Waterman are needed at all)
--- a/Makefile
+++ b/Makefile
@@ -136,13 +136,7 @@ CXXFLAGS = -O3 -D_FILE_OFFSET_BITS=64 -s
#CXXFLAGS = -O2
#CXXFLAGS = -pedantic -Wall -Wshadow -Wpointer-arith -Wcast-qual
-SSW = src/ssw.o src/ssw_cpp.o
-
-src/ssw.o: src/ssw.h src/ssw.c
- $(CXX) -c $(CFLAGS) -fPIC -o $@ src/$(*F).c
-
-src/ssw_cpp.o: src/ssw_cpp.cpp src/ssw_cpp.h
- $(CXX) -c $(CFLAGS) -fPIC -o $@ src/$(*F).cpp
+SSW =
openmp:
$(MAKE) CXXFLAGS="$(CXXFLAGS) -fopenmp -D HAS_OPENMP"
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