USEREADLINE ?= yes
CYGWIN_BUILD ?= no
USECOMPRESSION ?= no
-MOTHUR_FILES = "\"../release\""
-RELEASE_DATE = "\"2/7/2011\""
-VERSION = "\"1.16.0\""
+MOTHUR_FILES="\"Enter_your_default_path_here\""
+RELEASE_DATE = "\"5/14/2012\""
+VERSION = "\"1.25.1\""
+FORTAN_COMPILER = gfortran
+FORTRAN_FLAGS =
# Optimize to level 3:
-CXXFLAGS += -O3
+CXXFLAGS += -O3
ifeq ($(strip $(64BIT_VERSION)),yes)
#if you are using centos uncomment the following lines
#if you are a mac user use the following line
TARGET_ARCH += -arch x86_64
+ #if you using cygwin to build Windows the following line
+ #CXX = x86_64-w64-mingw32-g++
+ #CC = x86_64-w64-mingw32-g++
+ #FORTAN_COMPILER = x86_64-w64-mingw32-gfortran
+ #TARGET_ARCH += -m64 -static
+
#if you are a linux user use the following line
#CXXFLAGS += -mtune=native -march=native -m64
- CXXFLAGS += -DBIT_VERSION
+ CXXFLAGS += -DBIT_VERSION
+ FORTRAN_FLAGS = -m64
endif
OBJECTS=$(patsubst %.cpp,%.o,$(wildcard *.cpp))
OBJECTS+=$(patsubst %.c,%.o,$(wildcard *.c))
+OBJECTS+=$(patsubst %.f,%.o,$(wildcard *.f))
-mothur : $(OBJECTS)
+mothur : fortranSource $(OBJECTS) uchime
$(CXX) $(LDFLAGS) $(TARGET_ARCH) -o $@ $(OBJECTS) $(LIBS)
strip mothur
+
+uchime:
+ cd uchime_src && ./mk && mv uchime .. && cd ..
+
+fortranSource:
+ ${FORTAN_COMPILER} -c $(FORTRAN_FLAGS) *.f
install : mothur
# cp mothur ../Release/mothur
clean :
@rm -f $(OBJECTS)
+ @rm -f uchime