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Makefile_LINUX_DMALLOC
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Makefile_LINUX_DMALLOC
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######################################################################
# Makefile - command file for make to create CBFlib #
# #
# Version 0.9.5 05 Feb 2017 #
# #
# Paul Ellis and #
# Herbert J. Bernstein ([email protected]) #
# #
# (C) Copyright 2006 - 2015 Herbert J. Bernstein #
# #
######################################################################
######################################################################
# #
# YOU MAY REDISTRIBUTE THE CBFLIB PACKAGE UNDER THE TERMS OF THE GPL #
# #
# ALTERNATIVELY YOU MAY REDISTRIBUTE THE CBFLIB API UNDER THE TERMS #
# OF THE LGPL #
# #
######################################################################
########################### GPL NOTICES ##############################
# #
# This program is free software; you can redistribute it and/or #
# modify it under the terms of the GNU General Public License as #
# published by the Free Software Foundation; either version 2 of #
# (the License, or (at your option) any later version. #
# #
# This program is distributed in the hope that it will be useful, #
# but WITHOUT ANY WARRANTY; without even the implied warranty of #
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the #
# GNU General Public License for more details. #
# #
# You should have received a copy of the GNU General Public License #
# along with this program; if not, write to the Free Software #
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA #
# 02111-1307 USA #
# #
######################################################################
######################### LGPL NOTICES ###############################
# #
# This library is free software; you can redistribute it and/or #
# modify it under the terms of the GNU Lesser General Public #
# License as published by the Free Software Foundation; either #
# version 2.1 of the License, or (at your option) any later version. #
# #
# This library is distributed in the hope that it will be useful, #
# but WITHOUT ANY WARRANTY; without even the implied warranty of #
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU #
# Lesser General Public License for more details. #
# #
# You should have received a copy of the GNU Lesser General Public #
# License along with this library; if not, write to the Free #
# Software Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, #
# MA 02110-1301 USA #
# #
######################################################################
######################################################################
# #
# Stanford University Notices #
# for the CBFlib software package that incorporates SLAC software #
# on which copyright is disclaimed #
# #
# This software #
# ------------- #
# The term "this software", as used in these Notices, refers to #
# those portions of the software package CBFlib that were created by #
# employees of the Stanford Linear Accelerator Center, Stanford #
# University. #
# #
# Stanford disclaimer of copyright #
# -------------------------------- #
# Stanford University, owner of the copyright, hereby disclaims its #
# copyright and all other rights in this software. Hence, anyone #
# may freely use it for any purpose without restriction. #
# #
# Acknowledgement of sponsorship #
# ------------------------------ #
# This software was produced by the Stanford Linear Accelerator #
# Center, Stanford University, under Contract DE-AC03-76SFO0515 with #
# the Department of Energy. #
# #
# Government disclaimer of liability #
# ---------------------------------- #
# Neither the United States nor the United States Department of #
# Energy, nor any of their employees, makes any warranty, express or #
# implied, or assumes any legal liability or responsibility for the #
# accuracy, completeness, or usefulness of any data, apparatus, #
# product, or process disclosed, or represents that its use would #
# not infringe privately owned rights. #
# #
# Stanford disclaimer of liability #
# -------------------------------- #
# Stanford University makes no representations or warranties, #
# express or implied, nor assumes any liability for the use of this #
# software. #
# #
# Maintenance of notices #
# ---------------------- #
# In the interest of clarity regarding the origin and status of this #
# software, this and all the preceding Stanford University notices #
# are to remain affixed to any copy or derivative of this software #
# made or distributed by the recipient and are to be affixed to any #
# copy of software made or distributed by the recipient that #
# contains a copy or derivative of this software. #
# #
# Based on SLAC Software Notices, Set 4 #
# OTT.002a, 2004 FEB 03 #
######################################################################
######################################################################
# NOTICE #
# Creative endeavors depend on the lively exchange of ideas. There #
# are laws and customs which establish rights and responsibilities #
# for authors and the users of what authors create. This notice #
# is not intended to prevent you from using the software and #
# documents in this package, but to ensure that there are no #
# misunderstandings about terms and conditions of such use. #
# #
# Please read the following notice carefully. If you do not #
# understand any portion of this notice, please seek appropriate #
# professional legal advice before making use of the software and #
# documents included in this software package. In addition to #
# whatever other steps you may be obliged to take to respect the #
# intellectual property rights of the various parties involved, if #
# you do make use of the software and documents in this package, #
# please give credit where credit is due by citing this package, #
# its authors and the URL or other source from which you obtained #
# it, or equivalent primary references in the literature with the #
# same authors. #
# #
# Some of the software and documents included within this software #
# package are the intellectual property of various parties, and #
# placement in this package does not in any way imply that any #
# such rights have in any way been waived or diminished. #
# #
# With respect to any software or documents for which a copyright #
# exists, ALL RIGHTS ARE RESERVED TO THE OWNERS OF SUCH COPYRIGHT. #
# #
# Even though the authors of the various documents and software #
# found here have made a good faith effort to ensure that the #
# documents are correct and that the software performs according #
# to its documentation, and we would greatly appreciate hearing of #
# any problems you may encounter, the programs and documents any #
# files created by the programs are provided **AS IS** without any *
# warranty as to correctness, merchantability or fitness for any #
# particular or general use. #
# #
# THE RESPONSIBILITY FOR ANY ADVERSE CONSEQUENCES FROM THE USE OF #
# PROGRAMS OR DOCUMENTS OR ANY FILE OR FILES CREATED BY USE OF THE #
# PROGRAMS OR DOCUMENTS LIES SOLELY WITH THE USERS OF THE PROGRAMS #
# OR DOCUMENTS OR FILE OR FILES AND NOT WITH AUTHORS OF THE #
# PROGRAMS OR DOCUMENTS. #
######################################################################
######################################################################
# #
# The IUCr Policy #
# for the Protection and the Promotion of the STAR File and #
# CIF Standards for Exchanging and Archiving Electronic Data #
# #
# Overview #
# #
# The Crystallographic Information File (CIF)[1] is a standard for #
# information interchange promulgated by the International Union of #
# Crystallography (IUCr). CIF (Hall, Allen & Brown, 1991) is the #
# recommended method for submitting publications to Acta #
# Crystallographica Section C and reports of crystal structure #
# determinations to other sections of Acta Crystallographica #
# and many other journals. The syntax of a CIF is a subset of the #
# more general STAR File[2] format. The CIF and STAR File approaches #
# are used increasingly in the structural sciences for data exchange #
# and archiving, and are having a significant influence on these #
# activities in other fields. #
# #
# Statement of intent #
# #
# The IUCr's interest in the STAR File is as a general data #
# interchange standard for science, and its interest in the CIF, #
# a conformant derivative of the STAR File, is as a concise data #
# exchange and archival standard for crystallography and structural #
# science. #
# #
# Protection of the standards #
# #
# To protect the STAR File and the CIF as standards for #
# interchanging and archiving electronic data, the IUCr, on behalf #
# of the scientific community, #
# #
# # holds the copyrights on the standards themselves, *
# #
# # owns the associated trademarks and service marks, and *
# #
# # holds a patent on the STAR File. *
# #
# These intellectual property rights relate solely to the #
# interchange formats, not to the data contained therein, nor to #
# the software used in the generation, access or manipulation of #
# the data. #
# #
# Promotion of the standards #
# #
# The sole requirement that the IUCr, in its protective role, #
# imposes on software purporting to process STAR File or CIF data #
# is that the following conditions be met prior to sale or #
# distribution. #
# #
# # Software claiming to read files written to either the STAR *
# File or the CIF standard must be able to extract the pertinent #
# data from a file conformant to the STAR File syntax, or the CIF #
# syntax, respectively. #
# #
# # Software claiming to write files in either the STAR File, or *
# the CIF, standard must produce files that are conformant to the #
# STAR File syntax, or the CIF syntax, respectively. #
# #
# # Software claiming to read definitions from a specific data *
# dictionary approved by the IUCr must be able to extract any #
# pertinent definition which is conformant to the dictionary #
# definition language (DDL)[3] associated with that dictionary. #
# #
# The IUCr, through its Committee on CIF Standards, will assist #
# any developer to verify that software meets these conformance #
# conditions. #
# #
# Glossary of terms #
# #
# [1] CIF: is a data file conformant to the file syntax defined #
# at http://www.iucr.org/iucr-top/cif/spec/index.html #
# #
# [2] STAR File: is a data file conformant to the file syntax #
# defined at http://www.iucr.org/iucr-top/cif/spec/star/index.html #
# #
# [3] DDL: is a language used in a data dictionary to define data #
# items in terms of "attributes". Dictionaries currently approved #
# by the IUCr, and the DDL versions used to construct these #
# dictionaries, are listed at #
# http://www.iucr.org/iucr-top/cif/spec/ddl/index.html #
# #
# Last modified: 30 September 2000 #
# #
# IUCr Policy Copyright (C) 2000 International Union of #
# Crystallography #
######################################################################
.DELETE_ON_ERROR:
# Version string
VERSION = 0.9.5
#
# Directories
#
ROOT = .
LIB = $(ROOT)/lib
SOLIB = $(ROOT)/solib
JCBF = $(ROOT)/jcbf
JAVADIR = $(ROOT)/java
BIN = $(ROOT)/bin
SRC = $(ROOT)/src
INCLUDE = $(ROOT)/include
M4 = $(ROOT)/m4
PYCBF = $(ROOT)/pycbf
EXAMPLES = $(ROOT)/examples
TEMPLATES= $(ROOT)/templates
DECTRIS_EXAMPLES = $(EXAMPLES)/dectris_cbf_template_test
DOC = $(ROOT)/doc
MINICBF_TEST = $(ROOT)/minicbf_test
GRAPHICS = $(ROOT)/html_graphics
DATADIRI = $(ROOT)/../CBFlib_$(VERSION)_Data_Files_Input
DATADIRO = $(ROOT)/../CBFlib_$(VERSION)_Data_Files_Output
DATADIRS = $(ROOT)/../CBFlib_$(VERSION)_Data_Files_Output_Sigs_Only
CBF_PREFIX ?= $(HOME)
#
# Comment out the next line if scratch test files should be retained
#
CLEANTESTS = yes
CBFLIB_DONT_HAVE_FGETLN ?= yes
ifeq ($(CBFLIB_DONT_HAVE_FGETLN),yes)
SRC_FGETLN = $(SRC)/fgetln.c
else
SRC_FGETLN =
endif
CBFLIB_DONT_USE_PYCIFRW ?= no
ifneq ($(CBFLIB_DONT_USE_PYCIFRW),yes)
#
# Definitions to get versions of PyCifRW and PLY
#
PYCIFRW = PyCifRW-4.1
PLY = ply-3.2
PYCIFRWFLAG = -DCBF_USE_PYCIFRW
endif
#
# Definition to get a version of tifflib to support tiff2cbf
#
TIFF = tiff-4.0.6_rev_3Nov16
TIFF_PREFIX ?= $(PWD)
TIFF_INSTALL = $(TIFF)_INSTALL
#
# Definitions to get a version of HDF5
#
HDF5_PREFIX ?= $(PWD)
ifneq ($(HDF5_PREFIX),$(PWD))
CBFLIB_DONT_USE_LOCAL_HDF5 ?= yes
endif
ifneq ($(CBFLIB_DONT_USE_LOCAL_HDF5),yes)
HDF5 = hdf5-1.8.18
HDF5_INSTALL = $(HDF5)_INSTALL
HDF5LIBS_LOCAL = $(LIB)/libhdf5.a
HDF5LIBS_SYSTEM = -lz -ldl
HDF5SOLIBS_LOCAL = -L$(LIB) -lhdf5
HDF5SOLIBS_SYSTEM = -lz
HDF5REGISTER ?= --register plugin
else
HDF5 =
HDF5_INSTALL =
HDF5LIBS_LOCAL =
HDF5LIBS_SYSTEM = -L$(HDF5_PREFIX)/lib -lhdf5 -lz -ldl
HDF5SOLIBS_LOCAL =
HDF5SOLIBS_SYSTEM = -L$(HDF5_PREFIX)/lib -lhdf5 -lz
HDF5REGISTER ?= --register manual
endif
H5DUMP = $(HDF5_PREFIX)/bin/h5dump
CBFLIB_DONT_USE_LZ4 ?= no
ifneq ($(CBFLIB_DONT_USE_LZ4),yes)
#
# Definitions to get a version of HDF5Plugin for LZ4
#
LZ4 = HDF5Plugin_4Feb17
LZ4src = $(LZ4)/src
LZ4include = $(LZ4)/include
LZ4SOLIBS = -L$(SOLIB) -lh5zlz4
else
LZ4SOLIBS =
endif
CBFLIB_DONT_USE_BSHUF ?= no
ifneq ($(CBFLIB_DONT_USE_BSHUF),yes)
#
# Definitions to get a version of HDF5Plugin for BSHUFFLE WITH LZ4
#
BSHUF = bitshuffle-0.2.2.1_15Jun16
BSHUFsrc = $(BSHUF)/src
BSHUFinclude = $(BSHUF)/src
BSHUFSOLIBS = -L$(SOLIB) -lh5zbshuf
BSHUFFILTER = libbshuf_h5filter
else
BSHUFSOLIBS =
endif
CBFLIB_DONT_USE_BLOSC ?= no
ifneq ($(CBFLIB_DONT_USE_BLOSC),yes)
#
# Definitions to get a version of HDF5Plugin for BLOSC
#
BLOSC = c-blosc_4Sep16.tar.gz
BLOSCFILTER = hdf5-blosc_2Sep16.tar.gz
BLOSCsrc = $(BLOSC)/src
BLOSCinclude = $(BLOSC)/src
BLOSCSOLIBS = -L$(SOLIB) -lh5zbshuf
BLOSCFILTER = libbshuf_h5filter
else
BLOSCSOLIBS =
endif
#
# Definition of python to use
#
PYTHON = python
#
# Definitions to get a stable version of regex
#
REGEX_PREFIX ?= $(PWD)
ifneq ($(REGEX_PREFIX),$(PWD))
CBFLIB_DONT_USE_LOCAL_REGEX ?= yes
endif
REGEX_LIBDIR ?= $(REGEX_PREFIX)/lib
ifneq ($(CBFLIB_DONT_USE_LOCAL_REGEX),yes)
REGEX = pcre-8.38
REGEXDEP = $(REGEX)
REGEX_INSTALL = $(REGEX)_INSTALL
REGEX_LIB ?= pcreposix
REGEX_LIB2 ?= pcre
REGEX_LIBS ?= -L $(REGEX_LIBDIR) -l$(REGEX_LIB) -l$(REGEX_LIB2)
REGEX_LIBS_STATIC = $(LIB)/libpcreposix.a $(LIB)/libpcre.a
REGEX_INCLUDES ?= -I $(REGEX_PREFIX)
else
REGEX =
REGEXDEP =
REGEX_INSTALL =
REGEX_LIB ?=
REGEX_LIB2 ?=
REGEX_LIBS ?=
REGEX_INCLUDES ?=
endif
# Program to use to retrieve a URL
#DOWNLOAD = wget -N
DOWNLOAD ?= curl -O -L
# Flag to control symlinks versus copying
SLFLAGS = --use_ln
LN = ln -s -f
#
# Program to use to pack shars
#
SHAR = /usr/bin/shar
#SHAR = /usr/local/bin/gshar
#
# Program to use to create archives
#
AR = /usr/bin/ar
#
# Program to use to add an index to an archive
#
RANLIB = /usr/bin/ranlib
#
# Program to use to generate a signature
#
#SIGNATURE ?= /usr/bin/openssl dgst -md5
#SIGNATURE ?= (/usr/bin/openssl dgst -md5 | sed "s/^.*= //")
SIGNATURE ?= ( cat > md5tmp; cmake -E md5sum md5tmp| sed "s/ .*//")
#
# Pipe command to extract all but the first line of a text file
#
ALLBUTONE = tail -n +2
#
# Extension for signatures of files
#
SEXT = .md5
# Default shell
SHELL = bash
# call to time a command
#TIME =
#TIME = time
#
# Program to display differences between files
#
DIFF = diff -u -b
#
# Program to generate wrapper classes for Python
#
PYSWIG = swig -python
#
# Program to generate wrapper classes for Java
#
JSWIG = swig -java
#
# Program to generate LaTex and HTML program documentation
#
NUWEB = nuweb
#
# Compiler for Java
#
JAVAC = javac
#
# Java archiver for compiled classes
#
JAR = jar
#
# Java SDK root directory
#
ifeq ($(JDKDIR),)
JDKDIR = /usr/lib/java
endif
ifneq ($(CBF_DONT_USE_LONG_LONG),)
NOLLFLAG = -DCBF_DONT_USE_LONG_LONG
else
NOLLFLAG =
endif
ifneq ($(CBF_NO_REGEX),)
CBF_REGEXFLAG = -DCBF_NO_REGEX
else
CBF_REGEXFLAG = -DCBF_REGEXLIB_REGEX
endif
ifneq ($(CBF_USE_ULP),)
ULPFLAG = -DCBF_USE_ULP
else
ULPFLAG =
endif
ifneq ($(CBFLIB_DONT_USE_LZ4),yes)
LZ4FLAG = -DCBF_H5Z_USE_LZ4
else
LZ4FLAG =
endif
ifneq ($(CBFLIB_DONT_USE_BSHUF),yes)
BSHUFFLAG = -DCBF_H5Z_USE_BSHUF
else
BSHUFFLAG =
endif
MISCFLAG = $(NOLLFLAG) $(ULPFLAG)
#
# PYCBF definitions
#
PYCBFEXT = so
PYCBFBOPT =
PYCBFIOPT =
SETUP_PY = setup.py
INSTALLSETUP_PY = installsetup.py
#
# Set the compiler and flags
#
#########################################################
#
# Appropriate compiler definitions for Linux and DMALLOC
#
#########################################################
CC = gcc
C++ = g++
CFLAGS = -g -O2 -Wall -D_USE_XOPEN_EXTENDED -fno-strict-aliasing -DDMALLOC -DDMALLOC_FUNC_CHECK -I$(HOME)/include
LDFLAGS =
F90C = gfortran
F90FLAGS = -g
F90LDFLAGS =
SOCFLAGS = -fPIC
SOLDFLAGS = -shared -Wl,-rpath,$(CBF_PREFIX)/lib
JAVAINCLUDES = -I$(JDKDIR)/include -I$(JDKDIR)/include/linux
LDPREFIX = LD_LIBRARY_PATH=$(SOLIB)
EXTRALIBS = -lm -L$(HOME)/lib -ldmalloc
M4FLAGS = -Dfcb_bytes_in_rec=131072
TIME = time
ifneq ($(NOFORTRAN),)
F90C =
endif
#
# URLs from which to retrieve the data directories
#
DATAURLBASE = http://downloads.sf.net/cbflib/
DATAURLI = $(DATAURLBASE)/CBFlib_$(VERSION)_Data_Files_Input.tar.gz
DATAURLO = $(DATAURLBASE)/CBFlib_$(VERSION)_Data_Files_Output.tar.gz
DATAURLS = $(DATAURLBASE)/CBFlib_$(VERSION)_Data_Files_Output_Sigs_Only.tar.gz
#
# URLs from which to retrieve needed external package snapshots
#
ifneq ($(CBFLIB_DONT_USE_PYCIFRW),yes)
PYCIFRWURL = http://downloads.sf.net/cbflib/$(PYCIFRW).tar.gz
PLYURL = http://www.dabeaz.com/ply/$(PLY).tar.gz
endif
REGEX_URL ?= http://downloads.sf.net/cbflib/$(REGEX).tar.gz
TIFF_URL ?= http://downloads.sf.net/cbflib/$(TIFF).tar.gz
HDF5_URL ?= http://downloads.sf.net/cbflib/$(HDF5).tar.gz
LZ4_URL = http://downloads.sf.net/cbflib/$(LZ4).tar.gz
BSHUFURL = http://downloads.sf.net/cbflib/$(BSHUF).tar.gz
#
# Include directories
#
INCLUDES = -I$(INCLUDE) -I$(SRC) -I$(HDF5_PREFIX)/include
#
# runtime library path export commands
#
RTLPEXPORTS = LD_LIBRARY_PATH=$(PWD)/solib:$(PWD)/lib;export LD_LIBRARY_PATH; \
DYLD_LIBRARY_PATH=$(PWD)/solib:$(PWD)/lib;export DYLD_LIBRARY_PATH; \
LD_RUN_PATH=$(PWD)/solib:$(PWD)/lib;export LD_RUN_PATH;
######################################################################
# You should not need to make modifications below this line #
######################################################################
ifneq ($(CBF_USE_ULP),)
SRC_CBF_ULP_C = $(SRC)/cbf_ulp.c
INCLUDE_CBF_ULP_H = $(INCLUDE)/cbf_ulp.h
BIN_TESTULP = $(BIN)/testulp
else
SRC_CBF_ULP_C =
INCLUDE_CBF_ULP_H =
BIN_TESTULP =
endif
#
# Suffixes of files to be used or built
#
.SUFFIXES: .c .o .f90 .m4
.m4.f90:
m4 -P $(M4FLAGS) $< > $@
ifneq ($(F90C),)
.f90.o:
$(F90C) $(F90FLAGS) -c $< -o $@
endif
#
# Common dependencies
#
COMMONDEP = Makefile
#
# Source files
#
SOURCE = $(SRC)/cbf.c \
$(SRC)/cbf_airy_disk.c \
$(SRC)/cbf_alloc.c \
$(SRC)/cbf_ascii.c \
$(SRC)/cbf_binary.c \
$(SRC)/cbf_byte_offset.c \
$(SRC)/cbf_canonical.c \
$(SRC)/cbf_codes.c \
$(SRC)/cbf_compress.c \
$(SRC)/cbf_context.c \
$(SRC)/cbf_copy.c \
$(SRC)/cbf_file.c \
$(SRC)/cbf_getopt.c \
$(SRC)/cbf_hdf5.c \
$(SRC)/cbf_hdf5_filter.c \
$(SRC)/cbf_lex.c \
$(SRC)/cbf_minicbf_header.c\
$(SRC)/cbf_nibble_offset.c \
$(SRC)/cbf_packed.c \
$(SRC)/cbf_predictor.c \
$(SRC)/cbf_read_binary.c \
$(SRC)/cbf_read_mime.c \
$(SRC)/cbf_simple.c \
$(SRC)/cbf_string.c \
$(SRC)/cbf_stx.c \
$(SRC)/cbf_tree.c \
$(SRC_CBF_ULP_C) \
$(SRC)/cbf_uncompressed.c \
$(SRC)/cbf_write.c \
$(SRC)/cbf_write_binary.c \
$(SRC)/cbf_ws.c \
$(SRC)/cbff.c \
$(SRC)/md5c.c \
$(SRC)/img.c \
$(SRC_FGETLN)
ifneq ($(CBFLIB_DONT_USE_PYCIFRW),yes)
PYSOURCE = $(SRC)/drel_lex.py \
$(SRC)/drel_yacc.py \
$(SRC)/drelc.py \
$(SRC)/drel_prep.py
endif
F90SOURCE = $(SRC)/fcb_atol_wcnt.f90 \
$(SRC)/fcb_ci_strncmparr.f90 \
$(SRC)/fcb_exit_binary.f90 \
$(SRC)/fcb_nblen_array.f90 \
$(SRC)/fcb_next_binary.f90 \
$(SRC)/fcb_open_cifin.f90 \
$(SRC)/fcb_packed.f90 \
$(SRC)/fcb_read_bits.f90 \
$(SRC)/fcb_read_byte.f90 \
$(SRC)/fcb_read_image.f90 \
$(SRC)/fcb_read_line.f90 \
$(SRC)/fcb_read_xds_i2.f90 \
$(SRC)/fcb_skip_whitespace.f90
#
# Header files
#
HEADERS = $(INCLUDE)/cbf.h \
$(INCLUDE)/cbf_airy_disk.h \
$(INCLUDE)/cbf_alloc.h \
$(INCLUDE)/cbf_ascii.h \
$(INCLUDE)/cbf_binary.h \
$(INCLUDE)/cbf_byte_offset.h \
$(INCLUDE)/cbf_canonical.h \
$(INCLUDE)/cbf_codes.h \
$(INCLUDE)/cbf_compress.h \
$(INCLUDE)/cbf_context.h \
$(INCLUDE)/cbf_copy.h \
$(INCLUDE)/cbf_file.h \
$(INCLUDE)/cbf_getopt.h \
$(INCLUDE)/cbf_hdf5.h \
$(INCLUDE)/cbf_hdf5_filter.h \
$(INCLUDE)/cbf_lex.h \
$(INCLUDE)/cbf_minicbf_header.h\
$(INCLUDE)/cbf_nibble_offset.h \
$(INCLUDE)/cbf_packed.h \
$(INCLUDE)/cbf_predictor.h \
$(INCLUDE)/cbf_read_binary.h \
$(INCLUDE)/cbf_read_mime.h \
$(INCLUDE)/cbf_simple.h \
$(INCLUDE)/cbf_string.h \
$(INCLUDE)/cbf_stx.h \
$(INCLUDE)/cbf_tree.h \
$(INCLUDE)/cbf_uncompressed.h \
$(INCLUDE_CBF_ULP_H) \
$(INCLUDE)/cbf_write.h \
$(INCLUDE)/cbf_write_binary.h \
$(INCLUDE)/cbf_ws.h \
$(INCLUDE)/global.h \
$(INCLUDE)/cbff.h \
$(INCLUDE)/md5.h \
$(INCLUDE)/img.h
#
# m4 macro files
#
M4FILES = $(M4)/fcblib_defines.m4 \
$(M4)/fcb_exit_binary.m4 \
$(M4)/fcb_next_binary.m4 \
$(M4)/fcb_open_cifin.m4 \
$(M4)/fcb_packed.m4 \
$(M4)/fcb_read_bits.m4 \
$(M4)/fcb_read_image.m4 \
$(M4)/fcb_read_xds_i2.m4 \
$(M4)/test_fcb_read_image.m4 \
$(M4)/test_xds_binary.m4
#
# Documentation files
#
DOCUMENTS = $(DOC)/CBFlib.html \
$(DOC)/CBFlib.txt \
$(DOC)/CBFlib_NOTICES.html \
$(DOC)/CBFlib_NOTICES.txt \
$(DOC)/ChangeLog \
$(DOC)/ChangeLog.html \
$(DOC)/MANIFES \
$(DOC)/gpl.txt $(DOC)/lgpl.txt
#
# HTML Graphics files
#
JPEGS = $(GRAPHICS)/CBFbackground.jpg \
$(GRAPHICS)/CBFbig.jpg \
$(GRAPHICS)/CBFbutton.jpg \
$(GRAPHICS)/cbflibbackground.jpg\
$(GRAPHICS)/cbflibbig.jpg \
$(GRAPHICS)/cbflibbutton.jpg \
$(GRAPHICS)/cifhome.jpg \
$(GRAPHICS)/iucrhome.jpg \
$(GRAPHICS)/noticeButton.jpg
#
# Default: instructions
#
default:
@echo ' '
@echo '***************************************************************'
@echo ' '
@echo ' PLEASE READ README and doc/CBFlib_NOTICES.txt'
@echo ' '
@echo ' Before making the CBF library and example programs, check'
@echo ' that the C compiler name and flags are correct:'
@echo ' '
@echo ' The current values are:'
@echo ' '
@echo ' $(CC) $(CFLAGS) $(MISCFLAG) $(CBF_REGEXFLAG) $(PYCIFRWFLAG)'
@echo ' '
@echo ' Before installing the CBF library and example programs, check'
@echo ' that the install directory is correct:'
@echo ' '
@echo ' The current value :'
@echo ' '
@echo ' $(CBF_PREFIX) '
@echo ' '
@echo ' To compile the CBF library and example programs type:'
@echo ' '
@echo ' make clean'
@echo ' make all'
@echo ' '
@echo ' To compile the CBF library as a shared object library, type:'
@echo ' '
@echo ' make shared'
@echo ' '
@echo ' To compile the Java wrapper classes for CBF library, type:'
@echo ' '
@echo ' make javawrapper'
@echo ' '
@echo ' To run a set of tests type:'
@echo ' '
@echo ' make tests'
@echo ' '
@echo ' To run some java tests type:'
@echo ' '
@echo ' make javatests'
@echo ' '
@echo ' The tests assume that several data files are in the directories'
@echo ' $(DATADIRI) and $(DATADIRO)'
@echo ' '
@echo ' Alternatively tests can be run comparing MD5 signatures only by'
@echo ' '
@echo ' make tests_sigs_only'
@echo ' '
@echo ' These signature only tests save space and download time by'
@echo ' assuming that input data files and the output signatures'
@echo ' are in the directories'
@echo ' $(DATADIRI) and $(DATADIRS)'
@echo ' '
@echo ' These directory can be obtained from'
@echo ' '
@echo ' $(DATAURLI) '
@echo ' $(DATAURLO) '
@echo ' $(DATAURLS) '
@echo ' '
@echo ' To clean up the directories type:'
@echo ' '
@echo ' make clean'
@echo ' '
@echo ' To install the library and binaries type:'
@echo ' '
@echo ' make install'
@echo ' '
@echo '***************************************************************'
@echo ' '
#
# Compile the library and examples
#
ifneq ($(CBFLIB_DONT_USE_PYCIFRW),yes)
PYCIFRWDEPS = $(PYCIFRW) $(PLY)
else
PYCIFRWDEPS =
endif
ifneq ($(CBFLIB_DONT_USE_LZ4),yes)
LZ4DEPS = $(LZ4)
else
LZ4DEPS =
endif
ifneq ($(CBFLIB_DONT_USE_BSHUF),yes)
BSHUFDEPS = $(BSHUF)
else
BSHUFDEPS =
endif
all:: $(BIN) $(SOURCE) $(F90SOURCE) $(HEADERS) \
$(HDF5) \
$(LZ4DEPS) \
$(BSHUFDEPS) \
$(PYCIFRWDEPS) \
symlinksdone \
$(REGEXDEP) \
$(LIB)/libcbf.a \
$(LIB)/libfcb.a \
$(LIB)/libimg.a \
$(BIN)/adscimg2cbf \
$(BIN)/arvai_test \
$(BIN)/cbf2adscimg \
$(BIN)/cbf2nexus \
$(BIN)/cif2c \
$(BIN)/cif2cbf \
$(BIN)/cbf_standardize_numbers \
$(BIN)/convert_image \
$(BIN)/convert_minicbf\
$(BIN)/img2cif \
$(BIN)/makecbf \
$(BIN)/minicbf2nexus \
$(BIN)/nexus2cbf \
$(BIN)/roi_peaksearch \
$(BIN)/sequence_match \
$(BIN)/testcell \
$(BIN)/testalloc \
$(BIN)/testreals \
$(BIN)/testflat \
$(BIN)/testflatpacked \
$(BIN)/testhdf5 \
$(BIN_TESTULP) \
$(BIN)/tiff2cbf \
$(BIN)/test_cbf_airy_disk \
$(BIN)/cbf_testxfelread
ifneq ($(F90C),)
all:: $(BIN)/test_xds_binary \
$(BIN)/test_fcb_read_image
endif
shared: $(SOLIB)/libcbf.so $(SOLIB)/libfcb.so $(SOLIB)/libimg.so
javawrapper: shared $(JCBF) $(JCBF)/cbflib-$(VERSION).jar $(SOLIB)/libcbf_wrap.so
ifneq ($(CBFLIB_DONT_USE_PYCIFRW),yes)
PYCIFRWDEF = -Dcbf_use_pycifrw=yes
else
PYCIFRWDEF =
endif
Makefiles: Makefile \
Makefile_LINUX \
Makefile_LINUX_64 \
Makefile_LINUX_gcc42 \
Makefile_LINUX_DMALLOC \
Makefile_LINUX_gcc42_DMALLOC \
Makefile_OSX \
Makefile_OSX_gcc42 \
Makefile_OSX_gcc42_DMALLOC \
Makefile_AIX \
Makefile_MINGW \
Makefile_MSYS2 \
Makefile_IRIX_gcc
Makefile_LINUX: $(M4)/Makefile.m4
-cp Makefile_LINUX Makefile_LINUX_old
m4 -P $(PYCIFRWDEF) -Dcbf_system=LINUX $(M4)/Makefile.m4 > Makefile_LINUX.tmp
mv Makefile_LINUX.tmp Makefile_LINUX
Makefile_LINUX_DMALLOC: $(M4)/Makefile.m4
-cp Makefile_LINUX Makefile_LINUX_old
m4 -P $(PYCIFRWDEF) -Dcbf_system=LINUX_DMALLOC $(M4)/Makefile.m4 > Makefile_LINUX_DMALLOC.tmp
mv Makefile_LINUX_DMALLOC.tmp Makefile_LINUX_DMALLOC
Makefile_LINUX_64: $(M4)/Makefile.m4
-cp Makefile_LINUX_64 Makefile_LINUX_64_old
m4 -P $(PYCIFRWDEF) -Dcbf_system=LINUX_64 $(M4)/Makefile.m4 > Makefile_LINUX_64.tmp
mv Makefile_LINUX_64.tmp Makefile_LINUX_64
Makefile_LINUX_gcc42: $(M4)/Makefile.m4
-cp Makefile_LINUX_gcc42 Makefile_LINUX_gcc42_old
m4 -P $(PYCIFRWDEF) -Dcbf_system=LINUX_gcc42 $(M4)/Makefile.m4 > Makefile_LINUX_gcc42.tmp
mv Makefile_LINUX_gcc42.tmp Makefile_LINUX_gcc42
Makefile_LINUX_gcc42_DMALLOC: $(M4)/Makefile.m4
-cp Makefile_LINUX_gcc42 Makefile_LINUX_gcc42_old
m4 -P $(PYCIFRWDEF) -Dcbf_system=LINUX_gcc42_DMALLOC $(M4)/Makefile.m4 > Makefile_LINUX_gcc42_DMALLOC.tmp
mv Makefile_LINUX_gcc42_DMALLOC.tmp Makefile_LINUX_gcc42_DMALLOC
Makefile_OSX: $(M4)/Makefile.m4
-cp Makefile_OSX Makefile_OSX_old
m4 -P $(PYCIFRWDEF) -Dcbf_system=OSX $(M4)/Makefile.m4 > Makefile_OSX.tmp
mv Makefile_OSX.tmp Makefile_OSX
Makefile_OSX_gcc42: $(M4)/Makefile.m4
-cp Makefile_OSX_gcc42 Makefile_OSX_gcc42_old
m4 -P $(PYCIFRWDEF) -Dcbf_system=OSX_gcc42 $(M4)/Makefile.m4 > Makefile_OSX_gcc42.tmp
mv Makefile_OSX_gcc42.tmp Makefile_OSX_gcc42
Makefile_OSX_gcc42_DMALLOC: $(M4)/Makefile.m4
-cp Makefile_OSX_gcc42 Makefile_OSX_gcc42_old
m4 -P $(PYCIFRWDEF) -Dcbf_system=OSX_gcc42_DMALLOC $(M4)/Makefile.m4 > Makefile_OSX_gcc42_DMALLOC.tmp
mv Makefile_OSX_gcc42_DMALLOC.tmp Makefile_OSX_gcc42_DMALLOC
Makefile_AIX: $(M4)/Makefile.m4
-cp Makefile_AIX Makefile_AIX_old
m4 -P $(PYCIFRWDEF) -Dcbf_system=AIX $(M4)/Makefile.m4 > Makefile_AIX.tmp
mv Makefile_AIX.tmp Makefile_AIX
Makefile_MINGW: $(M4)/Makefile.m4
-cp Makefile_MINGW Makefile_MINGW_old