Makefile

   1 # Makefile for cgreylag module
   2
   3 # SWIG is still experiencing rapid development--1.3.31 or later is required.
   4 # Python 2.5 or later is required.
   5 # A reasonably recent g++/libstdc++ may also be required.
   6
   7 # Developed with swig 1.3.31, g++ 3.4.6/4.1.2, libstdc++.so.6
   8
   9
  10 .PHONY: all pycheck modsyms install clean tags check
  11 .DELETE_ON_ERROR:
  12
  13
  14 # MARCH = pentium3
  15 # MARCH = pentium4
  16 # MARCH = prescott
  17 # MARCH = opteron
  18 MARCH = nocona
  19
  20
  21 DEST = /n/site/inst/Linux-x86_64/bioinfo/greylag/
  22
  23 PYTHONVER=2.5
  24 PYTHONFLAGS = $(shell python$(PYTHONVER)-config --include)
  25
  26 CXXBASEFLAGS = -Wall -g3 -march=$(MARCH) -fPIC
  27
  28 # This makes it easy to compile different versions without editing this file.
  29 # 0=debug, 2=fast, 3=faster and less safe
  30 SPEED := 2
  31
  32 ifeq ($(SPEED),0)
  33 # for debugging (extra checking, slow)
  34 CXXFLAGS = $(CXXBASEFLAGS) -O0 -D_GLIBCXX_DEBUG
  35 else
  36   ifeq ($(SPEED),2)
  37 # reasonably fast
  38 CXXFLAGS = $(CXXBASEFLAGS) -O2 -ffast-math -mfpmath=sse
  39   else
  40     ifeq ($(SPEED),3)
  41 # for speed (fastest?, fewest checks)
  42 CXXFLAGS = $(CXXBASEFLAGS) -O3 -DNDEBUG -ffast-math -mfpmath=sse
  43 #CXXFASTFLAGS = -finline-limit=20000 --param inline-unit-growth=1000 --param large-function-growth=1000
  44     else
  45 CXXFLAGS = ---INVALID-SPEED
  46     endif
  47   endif
  48 endif
  49
  50 SWIGCXXFLAGS = $(CXXFLAGS) $(PYTHONFLAGS) -fno-strict-aliasing \
  51                 -Wno-unused-function -Wno-uninitialized
  52
  53 MODULE = cgreylag
  54
  55 all :: _$(MODULE).so
  56
  57 $(MODULE)_wrap.cpp : $(MODULE).i $(MODULE).hpp
  58         swig -c++ -python -o $@ $<
  59
  60 $(MODULE)_wrap.o : $(MODULE)_wrap.cpp $(MODULE).hpp
  61         g++ $(SWIGCXXFLAGS) -c $<
  62
  63 $(MODULE).o : $(MODULE).cpp $(MODULE).hpp
  64         g++ $(CXXFLAGS) $(CXXFASTFLAGS) -c $<
  65
  66 _$(MODULE).so : $(MODULE).o $(MODULE)_wrap.o
  67         g++ $(CXXFLAGS) $(CXXFASTFLAGS) -shared $^ -o $@
  68
  69
  70 pycheck::
  71         PYTHONVER=$(PYTHONVER) pychecker --limit 1000 greylag_grind.py
  72
  73 # summary C++ modules symbols used by main script
  74 modsyms::
  75         @sed -n -e 's/^.*\(cgreylag\.[a-zA-Z0-9_.]*\).*$$/\1/p' greylag_grind.py \
  76                 | sort | uniq -c
  77
  78 tags :: TAGS
  79 TAGS : $(MODULE).cpp $(MODULE).hpp
  80         etags --members $^
  81
  82 # FIX: we could compile the .py files here
  83 install::
  84         [ -d $(DEST) ] || install -d $(DEST)
  85         install -p _$(MODULE).so $(DEST)
  86         install -p --mode=444 $(MODULE).py $(DEST)
  87         install -p greylag_grind.py $(DEST)/greylag-grind
  88         install -p greylag_index_spectra.py $(DEST)/greylag-index-spectra
  89         install -p greylag_merge.py $(DEST)/greylag-merge
  90         install -p greylag_sqt.py $(DEST)/greylag-sqt
  91         install -p greylag_solo.py $(DEST)/greylag-solo
  92         install -p greylag_validate.py $(DEST)/greylag-validate
  93         @echo "# remember to link 'greylag-python' to your python $(PYTHONVER)"
  94
  95 clean::
  96         -rm -f $(MODULE).py $(MODULE)_wrap.cpp $(MODULE).o $(MODULE)_wrap.o \
  97                 _$(MODULE).so *.py[co] test/*.py[co] TAGS *~ .??*~ test/*~ \
  98                 test/tmp*
  99
 100 check::
 101         nosetests --exe --with-doctest $(NOSEFLAGS)