Makefile

############################################################################# 
# Makefile for BL3DEMC IMOD distribution.
#
# Copyright (C) 1996-2012
# by Boulder Laboratory for 3-Dimensional Electron Microscopy of Cells
# ("BL3DEMC", formerly "BL3DFS")
# and the Regents of the University of Colorado.
#
# See dist/COPYRIGHT for full copyright notice.
#
#  $Id$
#
#############################################################################
# BUILD AND INSTALLATION INSTRUCTIONS:
#    All build instructions are now in the file BUILDING
#
# IF THERE IS NO TIFF LIBRARY ON YOUR SYSTEM: 
#    Add the -no_tiff flag whenever you give the setup command
#
# TO DEBUG:
# 	"setup -debug",  and then,  "make", for debugging and testing.
#	set LD_LIBRARY_PATH to include the buildlib directory.
#
# MAKE TAR ARCHIVES:
# 	To make the full distribution run "make dist"; it will use the last
#          setup options when running setup again
#	To archive the source from an hg repository run "make src" 
#          (this will clone the current repository and remove .hg) 
# 	To archive the html documentation run "make docs"
#
#
#############################################################################
# For making distribution, all files will be put in a
# directory called $(ARCNAME) and a final file called
# $(ARCNAME)$(DISTNAME).tar.gz will be made.
#
VERSION = `sed '/[^0-9.]/s///g' .version`
ARCNAME  = imod_$(VERSION)
DISTNAME = `if [ -e .distname ] ; then sed '/[[:cntrl:]]/s///g' .distname ; fi`
LAST_OPTIONS = `if [ -e .options ] ; then sed '/[[:cntrl:]]/s///g' .options ; fi`

#############################################################################
# The Fortran programs, libraries, and man pages are located under
# the flib directory
#
#############################################################################
#
# Define programs and paths we need.
#
PWD      = `pwd | sed '/[[:cntrl:]]/s///g'`

COMPRESS = gzip -f

ARCHIVE  = $(ARCNAME)$(DISTNAME).tar
ARCCOMP  = $(ARCNAME)$(DISTNAME).tar.gz
ARCCSH   = $(ARCNAME)$(DISTNAME).csh
ARC      = tar cvf
IMODDIR  = $(PWD)
ARCDIR   = $(IMODDIR)/$(ARCNAME)

default : all

#
# Make all the fortran programs then all the C programs.
#
all : configure clibs
	cd Etomo      ; $(MAKE) all
	cd flib       ; $(MAKE) all
	cd 3dmod      ; $(MAKE) all
	cd imodutil   ; $(MAKE) all
	cd qttools    ; $(MAKE) all
	cd ctfplotter ; $(MAKE) all
	cd mrc        ; $(MAKE) all
	cd clip       ; $(MAKE) all
	cd midas      ; $(MAKE) all
	cd raptor     ; $(MAKE) all
	cd pysrc      ; $(MAKE) all
	cd plugs      ; $(MAKE) all

##############################################################################
# If a setup gets run automatically, it uses the last options
configure : setup .version
	./setup $(LAST_OPTIONS)

#
# Install cstuff
#
install : configure man sourcedoc
	cd libcfshr   ; $(MAKE) $@
	cd libimod    ; $(MAKE) $@
	cd libiimod   ; $(MAKE) $@
	cd libmesh    ; $(MAKE) $@
	cd libdiaqt   ; $(MAKE) $@
	cd libfft     ; $(MAKE) $@
	cd libwarp    ; $(MAKE) $@
	cd 3dmod      ; $(MAKE) $@
	cd imodutil   ; $(MAKE) $@
	cd qttools    ; $(MAKE) $@
	cd ctfplotter ; $(MAKE) $@
	cd mrc        ; $(MAKE) $@
	cd midas      ; $(MAKE) $@
	cd raptor     ; $(MAKE) $@
	cd pysrc      ; $(MAKE) $@
	cd plugs      ; $(MAKE) $@
	cd clip       ; $(MAKE) $@
	cd scripts    ; $(MAKE) $@
	cd flib       ; $(MAKE) $@
	cd com        ; $(MAKE) $@
	cd html       ; $(MAKE) $@
	cd Etomo      ; $(MAKE) $@
	./packMacApps
#
# Make the manual pages .1 from .man, and .html from .1, copy to directories
#
man : configure ALWAYS
	(cd manpages ; $(MAKE) install)
	(cd autodoc  ; $(MAKE) install)

docs :	configure man sourcedoc ALWAYS
	if [ -e $(ARCNAME)_docs ] ; then /bin/rm -rf $(ARCNAME)_docs/ ; fi
	cd html  ; $(MAKE) install
	cd html  ; $(MAKE) docs
	echo 'User-agent: *' > $(ARCNAME)_docs/robots.txt
	echo 'Disallow: /' >> $(ARCNAME)_docs/robots.txt
	tar cf $(ARCNAME)_docs.tar $(ARCNAME)_docs
	$(COMPRESS) $(ARCNAME)_docs.tar

#
# Make sourcedoc for libdocs.  If the target is the same as the name of an 
# existing directory it seems to need the ALWAYS
#
sourcedoc : configure ALWAYS
	cd qttools/sourcedoc ; $(MAKE)

#
# Install clibs only or all libs, helps if doing multiple architectures
#
installclibs : configure
	cd libcfshr  ; $(MAKE) install
	cd libimod   ; $(MAKE) install
	cd libiimod  ; $(MAKE) install
	cd libmesh   ; $(MAKE) install
	cd libdiaqt  ; $(MAKE) install
	cd libfft    ; $(MAKE) install
	cd libwarp   ; $(MAKE) install

installlibs : installclibs
	cd flib; $(MAKE) installlibs

#
# Clean up our mess.
#
clean : configure ALWAYS
	cd libcfshr   ; $(MAKE) $@
	cd libimod    ; $(MAKE) $@
	cd libiimod   ; $(MAKE) $@
	cd libmesh    ; $(MAKE) $@
	cd libdiaqt   ; $(MAKE) $@
	cd libfft     ; $(MAKE) $@
	cd libwarp    ; $(MAKE) $@
	cd 3dmod      ; $(MAKE) $@
	cd imodutil   ; $(MAKE) $@
	cd qttools    ; $(MAKE) $@
	cd ctfplotter ; $(MAKE) $@
	cd mrc        ; $(MAKE) $@
	cd midas      ; $(MAKE) $@
	cd raptor     ; $(MAKE) $@
	cd pysrc      ; $(MAKE) $@
	cd plugs      ; $(MAKE) $@
	cd clip       ; $(MAKE) $@
	cd scripts    ; $(MAKE) $@
	cd manpages   ; $(MAKE) $@
	cd flib       ; $(MAKE) $@
	cd com        ; $(MAKE) $@
	cd html       ; $(MAKE) $@
	(cd include ; \find . -type f -name "GLw*.h" -exec rm "{}" \;)
	(cd buildlib ; \find . -type f -name "libGLw.a" -exec rm "{}" \;)
	\find . -type f -name "configure" -exec rm "{}" \;

#
# Clean up entries for clibs only or all libs, helps for building libs for
# different architectures
#

cleanclibs : configure ALWAYS
	cd libcfshr  ; $(MAKE) clean
	cd libimod   ; $(MAKE) clean
	cd libiimod  ; $(MAKE) clean
	cd libmesh   ; $(MAKE) clean
	cd libdiaqt  ; $(MAKE) clean
	cd libfft    ; $(MAKE) clean
	cd libwarp   ; $(MAKE) clean

cleanlibs : cleanclibs
	cd flib; $(MAKE) $@

#
# Clean up everything that depends on Qt
#
cleanqt : configure ALWAYS
	cd libdiaqt   ; $(MAKE) clean
	cd plugs      ; $(MAKE) clean
	cd 3dmod      ; $(MAKE) clean
	cd midas      ; $(MAKE) clean
	cd qttools    ; $(MAKE) clean
	cd ctfplotter ; $(MAKE) clean
	cd flib/subrs ; \find . -type f -name '*dnmncar*' -exec /bin/rm -f '{}' \;
	cd flib/subrs/graphics ; $(MAKE) clean
	cd flib/ndasda ; $(MAKE) clean
	cd flib/graphics ; $(MAKE) clean

#
# Clean up executables in Windows
#
cleanexe : configure ALWAYS
	\find . \( -type d -name bin -prune \) -o -type f -name '*.exe' -exec /bin/rm -f '{}' \;
#
# Shortcut for making libs only, helps for debugging.
#
clibs : configure
	cd libcfshr  ; $(MAKE) all
	cd libimod   ; $(MAKE) all
	cd libiimod  ; $(MAKE) all
	cd libmesh   ; $(MAKE) all
	cd libdiaqt  ; $(MAKE) all
	cd libfft    ; $(MAKE) all
	cd libwarp   ; $(MAKE) all

libs : clibs 
	cd flib; $(MAKE) $@

#
# These entries are no longer needed but the build script calls them
#
o32libs : 

installo32libs : 

#
# Shortcut for making FORTRAN libs only
#
flibs: configure
	cd flib; $(MAKE) libs

#
# To make 3dmod and needed libraries
#
3dmod : configure clibs
	cd flib      ;  $(MAKE) configure
	cd flib/subrs  ; $(MAKE) track
	cd 3dmod     ; $(MAKE) all

#
# Make the full software distribution.  Use the options from last setup
#
dist : ALWAYS
	if [ -e $(ARCDIR) ] ; then /bin/rm -rf $(ARCDIR)/ ; fi
	mkdir $(ARCDIR)
	mkdir $(ARCDIR)/licenses
	./setup -inst $(ARCDIR) $(LAST_OPTIONS)
	(cd dist ; \find . -type f -name "*~" -exec rm "{}" \;)
	($(MAKE) install)
	-\cp buildlib/*.so $(ARCDIR)/lib/
	\cp dist/COPYRIGHT dist/start.html dist/installIMOD $(ARCDIR)/
	\cp  dist/[a-zA-Z]*.txt dist/CPOL.html $(ARCDIR)/licenses/
	-\find $(ARCDIR) -depth -name CVS -exec /bin/rm -rf {} \;
	./installqtlib
	@echo "Compressing..."
	$(ARC) $(ARCHIVE) $(ARCNAME); $(COMPRESS) $(ARCHIVE)
	@echo "Making self-installing file..."
	if [ -e $(ARCCSH) ] ; then /bin/rm -f $(ARCCSH) ; fi
	cat dist/installStub $(ARCCOMP) > $(ARCCSH) ; chmod a+x $(ARCCSH)


##################################################################
# Make the full IMOD source distribution 
# (2/25/12: eliminated the easily broken gathering of identified files and dirs)
#
src : ALWAYS
	if [ -e $(ARCDIR)_src ] ; then /bin/rm -rf $(ARCDIR)_src/ ; fi
	if [ -e $(ARCNAME)_src.tar ] ; then /bin/rm -rf $(ARCNAME)_src.tar ; fi
	if [ -e $(ARCDIR)_src/$(ARCDIR)_src/ ] ; then /bin/rm -rf $(ARCDIR)_src/$(ARCDIR)_src/ ; fi
	hg clone . $(ARCDIR)_src
	/bin/rm -rf $(ARCDIR)_src/.hg
	tar cf $(ARCNAME)_src.tar $(ARCNAME)_src 
	$(COMPRESS) $(ARCNAME)_src.tar

#
# Tests
#
tests : ImodTests
	cd Etomo ; $(MAKE) tests
	cd ImodTests ; hg pull -u ; $(MAKE) tests

uitestinstall : 
	cd Etomo ; $(MAKE) $@

ImodTests : 
	hg clone ssh://simba.colorado.edu//home/hg/ImodTests 

ALWAYS: