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Gentoo's Bugzilla – Attachment 200250 Details for
Bug 278571
sci-biology/mafft-6.707: new version request
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Makefile2
Makefile2 (text/plain), 3.14 KB, created by
Martin Mokrejš
on 2009-08-05 10:53:23 UTC
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Description:
Makefile2
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MIME Type:
Creator:
Martin Mokrejš
Created:
2009-08-05 10:53:23 UTC
Size:
3.14 KB
patch
obsolete
>################################################################################ ># Makefile for probcons >################################################################################ > >################################################################################ ># 1) Choose C++ compiler. >################################################################################ > >CXX = g++ > >################################################################################ ># 2) Set C++ flags. ># a) DEBUG mode -- no optimizations, enable SafeVector checking, no inlining ># b) PROFILE mode -- for gprof ># c) RELEASE mode >################################################################################ >BIG_INLINE_LIMIT = 20000 > >PROBCONS = ./probconsRNA >VIENNA = ./vienna > ># no -Wall option for warning >CXXFLAGS = -O3 -funroll-loops -finline-limit=$(BIG_INLINE_LIMIT) >OFLAGS = -DNDEBUG -DNumInsertStates=1 -DVERSION="2.0" $(CXXFLAGS) $(CFLAGS1) >LIBS = -L$(PROBCONS) -L./ >INCL = -I$(PROBCONS) -I$(VIENNA) -I./ > >################################################################################ ># 3) Dependencies >################################################################################ > >TARGETS = mxscarna > >OBJS = Main.o McCaskill.o vienna/energy_param.o seq2scs.o Globaldp.o postProcessings.o AlifoldMEA.o > >.PHONY : all >all : $(TARGETS) > >mxscarna : $(OBJS) > $(CXX) $(LIBS) $(OFLAGS) -lm -o $@ $(OBJS) > >rfold: > cd $(RFOLD); \ > make; \ > cd .. \ > cd .. >probcons: > cd $(PROBCONS); \ > make; \ > cd .. > >#probcons : MultiSequence.h ProbabilisticModel.h ScoreType.h Sequence.h FileBuffer.h SparseMatrix.h EvolutionaryTree.h Defaults.h SafeVector.h Main.cc ># $(CXX) -lm -o probcons $(OBJS) >#Main.cc > >Main.o : $(PROBCONS)/SafeVector.h $(PROBCONS)/FileBuffer.h $(PROBCONS)/Sequence.h $(PROBCONS)/MultiSequence.h $(PROBCONS)/EvolutionaryTree.h scarna.hpp BPPMatrix.hpp StemCandidate.hpp Globaldp.hpp AlifoldMEA.h Main.cc > $(CXX) $(INCL) $(OFLAGS) -c Main.cc -o Main.o >McCaskill.o: McCaskill.hpp $(VIENNA)/energy_param.hpp Util.hpp Beta.hpp ScoreType.hpp McCaskill.cpp > $(CXX) $(INCL) $(OFLAGS) -c McCaskill.cpp -o McCaskill.o >$(VIENNA)/energy_param.o: $(VIENNA)/energy_param.hpp $(VIENNA)/energy_param.cpp > $(CXX) $(INCL) $(OFLAGS) -c $(VIENNA)/energy_param.cpp -o $(VIENNA)/energy_param.o >seq2scs.o: $(PROBCONS)/SafeVector.h StemCandidate.hpp $(PROBCONS)/Sequence.h $(PROBCONS)/MultiSequence.h BPPMatrix.hpp nrutil.h seq2scs.cpp > $(CXX) $(INCL) $(OFLAGS) -c seq2scs.cpp -o seq2scs.o >Globaldp.o: Globaldp.hpp nrutil.h Util.hpp Beta.hpp scarna.hpp StemCandidate.hpp $(PROBCONS)/MultiSequence.h $(PROBCONS)/Sequence.h BPPMatrix.hpp > $(CXX) $(INCL) $(OFLAGS) -c Globaldp.cpp -o Globaldp.o >GlobalParameters.o: scarna.hpp > $(CXX) $(INCL) $(OFLAGS) -c GlobalParameters.cpp -o GlobalParameters.o >postProcessings.o: StemCandidate.hpp scarna.hpp > $(CXX) $(INCL) $(OFLAGS) -c postProcessings.cpp -o postProcessings.o >AlifoldMEA.o: nrutil.h Util.hpp Beta.hpp BPPMatrix.hpp $(PROBCONS)/MultiSequence.h $(PROBCONS)/Sequence.h $(PROBCONS)/SafeVector.h > $(CXX) $(INCL) $(OFLAGS) -c AlifoldMEA.cpp -o AlifoldMEA.o > >.PHONY : clean >clean: > rm -f $(TARGETS) *.o *.h~ *.hpp~ *.cpp~ *.cc~ $(VIENNA)/*.o > $(MAKE) -C $(PROBCONS) clean
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bug 278571
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198705
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198943
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199524
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199526
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199528
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200249
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200250
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201591