"Fossies" - the Fresh Open Source Software Archive  

Source code changes of the file "src/Makefile" between
augustus-3.3.2.tar.gz and augustus-3.3.3.tar.gz

About: AUGUSTUS is a program that predicts genes in eukaryotic genomic sequences.

Makefile  (augustus-3.3.2):Makefile  (augustus-3.3.3)
# #
# Makefile for Augustus # Makefile for Augustus
# #
include ../common.mk include ../common.mk
CXX = g++ CXX = g++
# Notes: - "-Wno-sign-compare" eliminates a high number of warnings (see footnot e below). Please adopt # Notes: - "-Wno-sign-compare" eliminates a high number of warnings (see footnot e below). Please adopt
# a strict signed-only usage strategy to avoid mistakes since we are no t warned about this. # a strict signed-only usage strategy to avoid mistakes since we are no t warned about this.
# - The order of object files in $(OBJS) IS IMPORTANT (see lldouble.hh) # - The order of object files in $(OBJS) IS IMPORTANT (see lldouble.hh)
CXXFLAGS := -Wall -Wno-sign-compare -Wno-strict-overflow -pedantic -g -ggdb -O3 ${CXXFLAGS}# -DDEBUG -g -ggdb -pg -DDEBUG_STATES CXXFLAGS := -Wall -Wno-sign-compare -pedantic -g -ggdb -O3 ${CXXFLAGS}# -DDEBUG -g -ggdb -pg -DDEBUG_STATES
ifdef SQLITE ifdef SQLITE
COMPGENEPRED = true COMPGENEPRED = true
endif endif
ifdef MYSQL ifdef MYSQL
COMPGENEPRED = true COMPGENEPRED = true
endif endif
ifdef ZIPINPUT ifdef ZIPINPUT
CXXFLAGS += -DZIPINPUT CXXFLAGS += -DZIPINPUT
skipping to change at line 69 skipping to change at line 69
endif endif
ifdef COMPGENEPRED ifdef COMPGENEPRED
PROGR += espoca PROGR += espoca
endif endif
all: $(OBJS) $(TOBJS) $(DUMOBJS) $(PROGR) info all: $(OBJS) $(TOBJS) $(DUMOBJS) $(PROGR) info
.SUFFIXES: .SUFFIXES:
.SUFFIXES: .cc .o .so .SUFFIXES: .cc .o .so
.PHONY: googletest
.cc.o: .cc.o:
$(CXX) -c $(CXXFLAGS) -o $@ $< $(INCLS) $(CXX) -c $(CXXFLAGS) -o $@ $< $(INCLS)
augustus: augustus.cc $(OBJS) $(DUMOBJS) augustus: augustus.cc $(OBJS) $(DUMOBJS)
$(CXX) $(CPPFLAGS) $(CXXFLAGS) $(LDFLAGS) -o $@ $^ $(INCLS) $(LIBS) $(CXX) $(CPPFLAGS) $(CXXFLAGS) $(LDFLAGS) -o $@ $^ $(INCLS) $(LIBS)
cp augustus ../bin/ cp augustus ../bin/
etraining: etraining.cc $(TOBJS) $(OBJS) etraining: etraining.cc $(TOBJS) $(OBJS)
$(CXX) $(CPPFLAGS) $(CXXFLAGS) $(LDFLAGS) -o $@ $^ $(INCLS) $(LIBS) $(CXX) $(CPPFLAGS) $(CXXFLAGS) $(LDFLAGS) -o $@ $^ $(INCLS) $(LIBS)
skipping to change at line 122 skipping to change at line 123
espoca: espoca.cc $(OBJS) $(DUMOBJS) espoca: espoca.cc $(OBJS) $(DUMOBJS)
$(CXX) $(CPPFLAGS) $(CXXFLAGS) $(LDFLAGS) -o $@ $^ $(INCLS) $(LIBS) $(CXX) $(CPPFLAGS) $(CXXFLAGS) $(LDFLAGS) -o $@ $^ $(INCLS) $(LIBS)
cp espoca ../bin/ cp espoca ../bin/
info: info:
echo "$(CXXFLAGS)" > $(INFO) echo "$(CXXFLAGS)" > $(INFO)
clean: clean:
rm -f ../bin/* $(PROGR) $(OBJS) $(DUMOBJS) $(TOBJS) consensus.o exon_seg. o pp_fastBlockSearcher.o $(INFO) rm -f ../bin/* $(PROGR) $(OBJS) $(DUMOBJS) $(TOBJS) consensus.o exon_seg. o pp_fastBlockSearcher.o $(INFO)
cd googletest && ${MAKE} clean
cd unittests && ${MAKE} clean
tidy: clean tidy: clean
rm -f *~ *.o *.rej *.orig ../include/*~ ../include/*.orig ../include/*.re j $(INFO) rm -f *~ *.o *.rej *.orig ../include/*~ ../include/*.orig ../include/*.re j $(INFO)
cd googletest && ${MAKE} tidy
googletest:
cd googletest && ${MAKE}
unittest: googletest
cd unittests && ${MAKE}
augustus.o : \ augustus.o : \
../include/evaluation.hh \ ../include/evaluation.hh \
../include/extrinsicinfo.hh \ ../include/extrinsicinfo.hh \
../include/genbank.hh \ ../include/genbank.hh \
../include/gene.hh \ ../include/gene.hh \
../include/geneticcode.hh \ ../include/geneticcode.hh \
../include/hints.hh \ ../include/hints.hh \
../include/lldouble.hh \ ../include/lldouble.hh \
../include/matrix.hh \ ../include/matrix.hh \
 End of changes. 4 change blocks. 
1 lines changed or deleted 11 lines changed or added

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