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Fix cxxflags patch

This commit is contained in:
Adam Huffman 2011-10-07 16:13:42 +01:00
parent 749d6643b0
commit 0278f50499
1 changed files with 5 additions and 21 deletions
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26
mmseq-flags.patch
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@ -1,27 +1,11 @@
diff -ur mmseq_0.9.9/Makefile mmseq_0.9.9.new/Makefile
--- mmseq_0.9.9/Makefile 2011-03-18 00:25:53.000000000 +0000
+++ mmseq_0.9.9.new/Makefile 2011-04-09 16:46:16.445406767 +0100
@@ -26,19 +26,19 @@
.PHONY : all
mmseq : sokal.o mmseq.cpp
- $(CXX) ${MACROS} -fopenmp -O3 sokal.o mmseq.cpp -o mmseq ${LIBS}
+ $(CXX) ${MACROS} $(CXXFLAGS) -fopenmp sokal.o mmseq.cpp -o mmseq ${LIBS}
static: sokal.o mmseq.cpp
$(CXX) ${MACROS} ${STATICFLAG} -fopenmp -O3 sokal.o mmseq.cpp -o ${STATICBIN} ${STATICLIBS}
sokal.o : sokal.cc sokal.hh
- $(CXX) -c sokal.cc
+ $(CXX) $(CXXFLAGS) -c sokal.cc
--- mmseq_0.9.14/Makefile 2011-09-20 11:27:55.000000000 +0100
+++ mmseq_0.9.14.new/Makefile 2011-10-07 16:13:01.261226334 +0100
@@ -35,7 +35,7 @@
$(CXX) $(CXXFLAGS) -c sokal.cc
fasta.o : fasta.c fasta.h
- $(CC) -c fasta.c
+ $(CC) $(CXXFLAGS) -c fasta.c
bam2hits : fasta.o bam2hits.cpp
- ${CXX} ${MACROS} -fopenmp -O3 fasta.o bam2hits.cpp -o bam2hits ${LIBS_B2H}
+ ${CXX} ${MACROS} $(CXXFLAGS) -fopenmp fasta.o bam2hits.cpp -o bam2hits ${LIBS_B2H}
hpc : mmseq_hpc bam2hits_hpc
.PHONY : all
${CXX} ${MACROS} $(CXXFLAGS) -fopenmp -O3 fasta.o bam2hits.cpp -o bam2hits ${LIBS_B2H}