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|
###################################################
#
# Makefile for mothur
# Created: June 29, 2010
#
###################################################
#
# Macros
#
USEMPI ?= no
64BIT_VERSION ?= yes
USEREADLINE ?= yes
USECOMPRESSION ?= no
MOTHUR_FILES="\"Enter_your_default_path_here\""
RELEASE_DATE = "\"3/20/2014\""
VERSION = "\"1.33.3\""
FORTAN_COMPILER = gfortran
FORTRAN_FLAGS =
# Optimize to level 3:
# Nope - let debuild set this
#CXXFLAGS += -O3
ifeq ($(strip $(64BIT_VERSION)),yes)
#if you are using centos uncomment the following lines
#CXX = g++44
#if you are a mac user use the following line
#TARGET_ARCH += -arch x86_64
#if you using cygwin to build Windows the following line
#CXX = x86_64-w64-mingw32-g++
#CC = x86_64-w64-mingw32-g++
#FORTAN_COMPILER = x86_64-w64-mingw32-gfortran
#TARGET_ARCH += -m64 -static
#if you are a linux user use the following line
#CXXFLAGS += -mtune=native -march=native
# But not if you are trying to make a generic build for
# packaging, because your binary will end up being specific
# to your own processor.
CXXFLAGS += -DBIT_VERSION
# FORTRAN_FLAGS = -m64
endif
CXXFLAGS += -DRELEASE_DATE=${RELEASE_DATE} -DVERSION=${VERSION}
ifeq ($(strip $(MOTHUR_FILES)),"\"Enter_your_default_path_here\"")
else
CXXFLAGS += -DMOTHUR_FILES=${MOTHUR_FILES}
endif
# if you do not want to use the readline library, set this to no.
# make sure you have the library installed
ifeq ($(strip $(USEREADLINE)),yes)
CXXFLAGS += -DUSE_READLINE
LIBS = \
-lreadline
endif
ifeq ($(strip $(USEMPI)),yes)
CXX = mpic++
CXXFLAGS += -DUSE_MPI
endif
# if you want to enable reading and writing of compressed files, set to yes.
# The default is no. this may only work on unix-like systems, not for windows.
ifeq ($(strip $(USECOMPRESSION)),yes)
CXXFLAGS += -DUSE_COMPRESSION
endif
#
# INCLUDE directories for mothur
#
CXXFLAGS += -I.
#
# Get the list of all .cpp files, rename to .o files
#
OBJECTS=$(patsubst %.cpp,%.o,$(wildcard *.cpp))
OBJECTS+=$(patsubst %.c,%.o,$(wildcard *.c))
OBJECTS+=$(patsubst %.f,%.o,$(wildcard *.f))
mothur : fortranSource $(OBJECTS) uchime
$(CXX) $(LDFLAGS) $(TARGET_ARCH) -o $@ $(OBJECTS) $(LIBS)
strip mothur
uchime:
echo ENV_GCC_OPTS="$(CPPFLAGS)"
echo ENV_LINK_OPTS="$(LDFLAGS)"
cd uchime_src && ENV_GCC_OPTS="$(CPPFLAGS)" ENV_LINK_OPTS="$(LDFLAGS)" ./mk && mv uchime .. && cd ..
fortranSource:
${FORTAN_COMPILER} -c $(FORTRAN_FLAGS) *.f
install : mothur
# cp mothur ../Release/mothur
%.o : %.c %.h
$(COMPILE.c) $(OUTPUT_OPTION) $<
%.o : %.cpp %.h
$(COMPILE.cpp) $(OUTPUT_OPTION) $<
%.o : %.cpp %.hpp
$(COMPILE.cpp) $(OUTPUT_OPTION) $<
clean :
@rm -f $(OBJECTS)
@rm -f uchime
|
