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#
# This Python module has been developed by V.A. Sole, from the European
# Synchrotron Radiation Facility (ESRF) to build PyMca.
# Given the nature of this work, these module can be considered public domain.
# Therefore redistribution and use in source and binary forms, with or without
# modification, are permitted provided the following disclaimer is accepted:
#
#
# THIS SOFTWARE IS PROVIDED BY THE AUTHOR(S) AND THE ESRF ``AS IS'' AND ANY
# EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
# WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
# DISCLAIMED. IN NO EVENT SHALL THE AUTHOR(S) AND/OR THE ESRF BE LIABLE FOR ANY
# DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
# (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
# LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND
# ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
# (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
# SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
#
import sys,os
import glob
import platform
import time
from distutils.core import Extension, setup, Command
from distutils.command.install import install as dftinstall
try:
import numpy
except ImportError:
text = "You must have numpy installed.\n"
text += "See http://sourceforge.net/project/showfiles.php?group_id=1369&package_id=175103\n"
raise ImportError(text)
import distutils.sysconfig
global PYMCA_INSTALL_DIR
global PYMCA_SCRIPTS_DIR
global USE_SMART_INSTALL_SCRIPTS
#package maintainers customization
# Dear (Debian, RedHat, ...) package makers, please feel free to customize the
# following paths to the directory containing module's data relative to the
# directory containing the python modules (aka. installation directory).
# The sift module implements a patented algorithm. The algorithm can be used
# for non-commercial research purposes. If you do not want to distribute it
# with the PyMca sources you just need to delete the PyMca/sift directory.
PYMCA_DATA_DIR = '/usr/share/pymca'
PYMCA_DOC_DIR = '/usr/share/doc/pymca'
USE_SMART_INSTALL_SCRIPTS = False
if "--install-scripts" in sys.argv:
USE_SMART_INSTALL_SCRIPTS = True
SPECFILE_USE_GNU_SOURCE = os.getenv("SPECFILE_USE_GNU_SOURCE")
if SPECFILE_USE_GNU_SOURCE is None:
SPECFILE_USE_GNU_SOURCE = 0
if sys.platform.lower().startswith("linux"):
print("WARNING:")
print("A cleaner locale independent implementation")
print("may be achieved setting SPECFILE_USE_GNU_SOURCE to 1")
print("For instance running this script as:")
print("SPECFILE_USE_GNU_SOURCE=1 python setup.py build")
else:
SPECFILE_USE_GNU_SOURCE = int(SPECFILE_USE_GNU_SOURCE)
ffile = open(os.path.join('PyMca', 'PyMcaMain.py'), 'r').readlines()
for line in ffile:
if line.startswith('__version__'):
#remove spaces and split
__version__ = "%s" % line.replace(' ','').split("=")[-1][:-1]
#remove " or ' present
__version__ = __version__[1:-1]
break
print("PyMca X-Ray Fluorescence Toolkit %s\n" % __version__)
# The following is not supported by python-2.3:
#package_data = {'PyMca': ['attdata/*', 'HTML/*.*', 'HTML/IMAGES/*', 'HTML/PyMCA_files/*']}
packages = ['PyMca','PyMca.PyMcaPlugins', 'PyMca.tests', 'PyMca.XRFMC', 'PyMca.PyMcaIO']
py_modules = []
# Specify all the required PyMca data
data_files = [(PYMCA_DATA_DIR, ['LICENSE.GPL',
'PyMca/PyMcaData/Scofield1973.dict',
'changelog.txt',
'PyMca/PyMcaData/McaTheory.cfg',
'PyMca/PyMcaData/PyMcaSplashImage.png',
'PyMca/PyMcaData/BindingEnergies.dat',
'PyMca/PyMcaData/KShellRates.dat',
'PyMca/PyMcaData/KShellRatesScofieldHS.dat',
'PyMca/PyMcaData/KShellConstants.dat',
'PyMca/PyMcaData/LShellRates.dat',
'PyMca/PyMcaData/LShellConstants.dat',
'PyMca/PyMcaData/LShellRatesCampbell.dat',
'PyMca/PyMcaData/LShellRatesScofieldHS.dat',
'PyMca/PyMcaData/MShellRates.dat',
'PyMca/PyMcaData/MShellConstants.dat',
'PyMca/PyMcaData/EADL97_BindingEnergies.dat',
'PyMca/PyMcaData/EADL97_KShellConstants.dat',
'PyMca/PyMcaData/EADL97_LShellConstants.dat',
'PyMca/PyMcaData/EADL97_MShellConstants.dat',
'PyMca/PyMcaData/EPDL97_CrossSections.dat',
'PyMca/PyMcaData/XCOM_CrossSections.dat',
'PyMca/PyMcaData/XRFSpectrum.mca']),
(PYMCA_DATA_DIR+'/attdata', glob.glob('PyMca/PyMcaData/attdata/*')),
(PYMCA_DOC_DIR+'/HTML', glob.glob('PyMca/PyMcaData/HTML/*.*')),
(PYMCA_DOC_DIR+'/HTML/IMAGES', glob.glob('PyMca/PyMcaData/HTML/IMAGES/*')),
(PYMCA_DOC_DIR+'/HTML/PyMCA_files', glob.glob('PyMca/HTML/PyMCA_files/*'))]
if os.path.exists(os.path.join("PyMca", "EPDL97")):
packages.append('PyMca.EPDL97')
data_files.append((PYMCA_DATA_DIR+'/EPDL97',glob.glob('PyMca/EPDL97/*.DAT')))
data_files.append((PYMCA_DATA_DIR+'/EPDL97',['PyMca/EPDL97/LICENSE']))
global SIFT_OPENCL_FILES
SIFT_OPENCL_FILES = []
if os.path.exists(os.path.join("PyMca", "sift")):
packages.append('PyMca.sift')
SIFT_OPENCL_FILES = glob.glob('PyMca/sift/*.cl')
data_files.append((os.path.join('PyMca', 'sift'), SIFT_OPENCL_FILES))
NNMA_PATH = os.path.join("PyMca", "py_nnma")
if os.path.exists(NNMA_PATH):
py_modules.append('PyMca.py_nnma.__init__')
py_modules.append('PyMca.py_nnma.nnma')
LOCAL_OBJECT3D =False
if os.path.exists(os.path.join("PyMca", "Object3D")):
LOCAL_OBJECT3D = True
sources = glob.glob('*.c')
if sys.platform == "win32":
define_macros = [('WIN32',None)]
script_files = glob.glob('PyMca/scripts/*')
script_files += glob.glob('scripts/*.bat')
script_files.append('scripts/pymca_win_post_install.py')
else:
define_macros = []
script_files = glob.glob('PyMca/scripts/*')
def build_FastEdf(ext_modules):
module = Extension(name = 'PyMca.FastEdf',
sources = glob.glob('PyMca/edf/*.c'),
define_macros = define_macros,
include_dirs = [numpy.get_include()])
ext_modules.append(module)
def build_specfile(ext_modules):
if os.name.lower().startswith('posix'):
specfile_define_macros = [('PYMCA_POSIX', None)]
#the best choice is to use _GNU_SOURCE if possible
#because that enables the use of strtod_l
if SPECFILE_USE_GNU_SOURCE:
specfile_define_macros = [('_GNU_SOURCE', 1)]
else:
specfile_define_macros = define_macros
srcfiles = [ 'sfheader','sfinit','sflists','sfdata','sfindex',
'sflabel' ,'sfmca', 'sftools','locale_management','specfile_py']
if sys.version >= '3.0':
srcfiles[-1] += '3'
sources = []
specfile_source_dir = os.path.join('PyMca', 'specfile', 'src')
specfile_include_dir = os.path.join('PyMca', 'specfile', 'include')
for ffile in srcfiles:
sources.append(os.path.join(specfile_source_dir, ffile+'.c'))
module = Extension(name = 'PyMca.specfile',
sources = sources,
define_macros = specfile_define_macros,
include_dirs = [specfile_include_dir,
numpy.get_include()])
ext_modules.append(module)
def build_specfit(ext_modules):
module = Extension(name = 'PyMca.SpecfitFuns',
sources = glob.glob('PyMca/specfit/*.c'),
define_macros = define_macros,
include_dirs = ['PyMca/specfit',
numpy.get_include()])
ext_modules.append(module)
def build_sps(ext_modules):
if platform.system() == 'Linux' :
extra_compile_args = ['-pthread']
#extra_compile_args = []
elif platform.system() == 'SunOS' :
#extra_compile_args = ['-pthreads']
extra_compile_args = []
else:
extra_compile_args = []
module = Extension(name = 'PyMca.spslut',
sources = ['PyMca/sps/Src/sps_lut.c',
'PyMca/sps/Src/spslut_py.c'],
define_macros = define_macros,
extra_compile_args = extra_compile_args,
include_dirs = ['PyMca/sps/Include',
numpy.get_include()])
ext_modules.append(module)
if (sys.platform != "win32") and (sys.version < '3.0'):
module = (Extension(name = 'PyMca.sps',
sources = ['PyMca/sps/Src/sps.c',
'PyMca/sps/Src/sps_py.c'],
define_macros = define_macros,
extra_compile_args = extra_compile_args,
include_dirs = ['PyMca/sps/Include',
numpy.get_include()]))
ext_modules.append(module)
def build_PyMcaIOHelper(ext_modules):
module = Extension(name = 'PyMca.PyMcaIOHelper',
sources = glob.glob('PyMca/PyMcaIOHelper/*.c'),
define_macros = define_macros,
include_dirs = ['PyMca/PyMcaIOHelper',
numpy.get_include()])
ext_modules.append(module)
def build_Object3DCTools(ext_modules):
includes = [numpy.get_include()]
if sys.platform == "win32":
libraries = ['opengl32', 'glu32']
elif sys.platform == "darwin":
libraries = []
else:
libraries = ['GL', 'GLU']
if sys.platform == 'windows':
WindowsSDK = os.getenv('WindowsSdkDir')
#if WindowsSDK is not None:
# includes.append(WindowsSDK)
module = Extension(name = 'PyMca.Object3D.Object3DCTools',
sources = glob.glob('PyMca/Object3D/Object3DCTools/*.c'),
define_macros = define_macros,
libraries = libraries,
include_dirs = includes)
ext_modules.append(module)
def build_Object3DQhull(extensions):
libraries = []
sources = ["PyMca/Object3D/Object3DQhull/Object3DQhull.c"]
include_dirs = [numpy.get_include()]
# check if the user provide some information about a system qhull
# library
QHULL_CFLAGS = os.getenv("QHULL_CFLAGS")
QHULL_LIBS = os.getenv("QHULL_LIBS")
extra_compile_args = []
extra_link_args = []
if QHULL_CFLAGS and QHULL_LIBS:
extra_compile_args += [QHULL_CFLAGS]
extra_link_args += [QHULL_LIBS]
else:
sources += glob.glob("third-party/qhull/src/*.c")
include_dirs += ["third-party/qhull/src"]
module = Extension(name='PyMca.Object3D.Object3DQhull',
sources=sources,
define_macros=define_macros,
libraries=libraries,
include_dirs=include_dirs,
extra_compile_args=extra_compile_args,
extra_link_args=extra_link_args)
extensions.append(module)
def build_PyMcaSciPy(ext_modules):
packages.append('PyMca.PyMcaSciPy')
packages.append('PyMca.PyMcaSciPy.signal')
module = Extension(name = 'PyMca.PyMcaSciPy.signal.mediantools',
sources = glob.glob('PyMca/PyMcaSciPy/signal/*.c'),
define_macros = [],
include_dirs = [numpy.get_include()])
ext_modules.append(module)
ext_modules = []
if sys.version < '3.0':
build_FastEdf(ext_modules)
build_specfile(ext_modules)
build_specfit(ext_modules)
build_sps(ext_modules)
build_PyMcaIOHelper(ext_modules)
if (sys.version < '3.0') and LOCAL_OBJECT3D:
try:
build_Object3DCTools(ext_modules)
build_Object3DQhull(ext_modules)
for python_file in glob.glob('PyMca/Object3D/*.py'):
if python_file in ['setup.py', 'cx_setup.py']:
continue
m = "PyMca.Object3D.%s" % os.path.basename(python_file)[:-3]
py_modules.append(m)
for python_file in glob.glob('PyMca/Object3D/Object3DPlugins/*.py'):
m = "PyMca.Object3D.Object3DPlugins.%s" %\
os.path.basename(python_file)[:-3]
py_modules.append(m)
except:
print("Object3D Module could not be built")
print(sys.exc_info())
build_PyMcaSciPy(ext_modules)
from distutils.command.build_py import build_py
class smart_build_py(build_py):
def run (self):
toReturn = build_py.run(self)
global PYMCA_DATA_DIR
global PYMCA_DOC_DIR
global PYMCA_INSTALL_DIR
defaultPath = os.path.join('PyMca','PyMcaData')
if (PYMCA_DATA_DIR == defaultPath) or\
(PYMCA_DOC_DIR == defaultPath):
#default, just make sure the complete path is there
install_cmd = self.get_finalized_command('install')
PYMCA_INSTALL_DIR = getattr(install_cmd, 'install_lib')
#packager should have given the complete path
#in other cases
if PYMCA_DATA_DIR == defaultPath:
PYMCA_DATA_DIR = os.path.join(PYMCA_INSTALL_DIR,
PYMCA_DATA_DIR)
if PYMCA_DOC_DIR == defaultPath:
#default, just make sure the complete path is there
PYMCA_DOC_DIR = os.path.join(PYMCA_INSTALL_DIR,
PYMCA_DOC_DIR)
target = os.path.join(self.build_lib, "PyMca", "PyMcaDataDir.py")
fid = open(target,'r')
content = fid.readlines()
fid.close()
fid = open(target,'w')
for line in content:
lineToBeWritten = line
txt = 'DATA_DIR_FROM_SETUP'
if txt in line:
lineToBeWritten = line.replace(txt, PYMCA_DATA_DIR)
txt = 'DOC_DIR_FROM_SETUP'
if txt in line:
lineToBeWritten = line.replace(txt, PYMCA_DOC_DIR)
fid.write(lineToBeWritten)
fid.close()
return toReturn
# data_files fix from http://wiki.python.org/moin/DistutilsInstallDataScattered
from distutils.command.install_data import install_data
class smart_install_data(install_data):
def run(self):
global PYMCA_INSTALL_DIR
global PYMCA_DATA_DIR
global PYMCA_DOC_DIR
#need to change self.install_dir to the library dir
install_cmd = self.get_finalized_command('install')
self.install_dir = getattr(install_cmd, 'install_lib')
PYMCA_INSTALL_DIR = self.install_dir
print("PyMca to be installed in %s" % self.install_dir)
#cleanup old stuff if present
pymcaOld = os.path.join(PYMCA_INSTALL_DIR, "PyMca", "Plugins1D")
if os.path.exists(pymcaOld):
for f in glob.glob(os.path.join(pymcaOld,"*.py")):
print("Removing previously installed file %s" % f)
os.remove(f)
for f in glob.glob(os.path.join(pymcaOld,"*.pyc")):
print("Removing previously installed file %s" % f)
os.remove(f)
print("Removing previously installed directory %s" % pymcaOld)
os.rmdir(pymcaOld)
pymcaOld = os.path.join(PYMCA_INSTALL_DIR, "PyMca", "PyMca.py")
if os.path.exists(pymcaOld):
print("Removing previously installed file %s" % pymcaOld)
os.remove(pymcaOld)
pymcaOld += "c"
if os.path.exists(pymcaOld):
print("Removing previously installed file %s" % pymcaOld)
os.remove(pymcaOld)
return install_data.run(self)
# smart_install_scripts
if USE_SMART_INSTALL_SCRIPTS:
from distutils.command.install_scripts import install_scripts
class smart_install_scripts(install_scripts):
def run (self):
global PYMCA_SCRIPTS_DIR
#I prefer not to translate the python used during the build
#process for the case of having an installation on a disk shared
#by different machines and starting python from a shell script
#that positions the environment
from distutils import log
from stat import ST_MODE
install_cmd = self.get_finalized_command('install')
#This is to ignore the --install-scripts keyword
#I do not know if to leave it optional ...
if False:
self.install_dir = os.path.join(getattr(install_cmd, 'install_lib'), 'PyMca')
self.install_dir = os.path.join(self.install_dir, 'bin')
else:
self.install_dir = getattr(install_cmd, 'install_scripts')
self.install_data = getattr(install_cmd, 'install_data')
PYMCA_SCRIPTS_DIR = self.install_dir
PYMCA_DATA_DIR = self.install_data
if sys.platform != "win32":
print("PyMca scripts to be installed in %s" % self.install_dir)
self.outfiles = self.copy_tree(self.build_dir, self.install_dir)
self.outfiles = []
for filein in glob.glob('PyMca/scripts/*'):
filedest = os.path.join(self.install_dir, os.path.basename(filein))
if os.path.exists(filedest):
os.remove(filedest)
moddir = os.path.join(getattr(install_cmd,'install_lib'), "PyMca")
if 0:
f = open(filein, 'r')
modfile = f.readline().replace("\n","")
f.close()
else:
basename = os.path.basename(filein)
if basename.startswith('pymcabatch'):
modfile = 'PyMcaBatch.py'
elif basename.startswith('pymcapostbatch') or\
basename.startswith('rgbcorrelator'):
modfile = 'PyMcaPostBatch.py'
elif basename.startswith('pymcaroitool'):
modfile = 'QStackWidget.py'
elif basename.startswith('mca2edf'):
modfile = 'Mca2Edf.py'
elif basename.startswith('edfviewer'):
modfile = 'EdfFileSimpleViewer.py'
elif basename.startswith('peakidentifier'):
modfile = 'PeakIdentifier.py'
elif basename.startswith('elementsinfo'):
modfile = 'ElementsInfo.py'
elif basename.startswith('pymca'):
modfile = 'PyMcaMain.py'
else:
print("ignored %s" % filein)
continue
text = "#!/bin/bash\n"
text += "export PYTHONPATH=%s:${PYTHONPATH}\n" % moddir
#deal with sys.executables not named python
text += "exec %s %s $*\n" % (
sys.executable,
os.path.join(moddir, modfile)
)
f=open(filedest, 'w')
f.write(text)
f.close()
#self.copy_file(filein, filedest)
self.outfiles.append(filedest)
if os.name == 'posix':
# Set the executable bits (owner, group, and world) on
# all the scripts we just installed.
for ffile in self.get_outputs():
if self.dry_run:
log.info("changing mode of %s", ffile)
else:
# python 2.5 does not accept next line
#mode = ((os.stat(ffile)[ST_MODE]) | 0o555) & 0o7777
mode = ((os.stat(ffile)[ST_MODE]) | 365) & 4095
log.info("changing mode of %s to %o", ffile, mode)
os.chmod(ffile, mode)
# man pages handling
def abspath(*path):
"""A method to determine absolute path for a given relative path to the
directory where this setup.py script is located"""
setup_dir = os.path.dirname(os.path.abspath(__file__))
return os.path.join(setup_dir, *path)
class install_man(Command):
user_options = [
('install-dir=', 'd', 'base directory for installing man page files')]
def initialize_options(self):
self.install_dir = None
def finalize_options(self):
self.set_undefined_options('install',
('install_man', 'install_dir'))
def run(self):
if self.install_dir is None:
return
src_man_dir = abspath('doc', 'man')
man_elems = os.listdir(src_man_dir)
man_pages = []
for f in man_elems:
f = os.path.join(src_man_dir,f)
if not os.path.isfile(f):
continue
if not f.endswith(".1"):
continue
man_pages.append(f)
install_dir = os.path.join(self.install_dir, 'man1')
if not os.path.isdir(install_dir):
os.makedirs(install_dir)
for man_page in man_pages:
self.copy_file(man_page, install_dir)
class install(dftinstall):
user_options = list(dftinstall.user_options)
user_options.extend([
('install-man=', None, 'installation directory for Unix man pages')])
def initialize_options(self):
self.install_man = None
dftinstall.initialize_options(self)
def finalize_options(self):
# We do a hack here. We cannot trust the 'install_base' value because it
# is not always the final target. For example, in unix, the install_base
# is '/usr' and all other install_* are directly relative to it. However,
# in unix-local (like ubuntu) install_base is still '/usr' but, for
# example, install_data, is '$install_base/local' which breaks everything.
#
# The hack consists in using install_data instead of install_base since
# install_data seems to be, in practice, the proper install_base on all
# different systems.
global USE_SMART_INSTALL_SCRIPTS
dftinstall.finalize_options(self)
if os.name != "posix":
if self.install_man is not None:
self.warn("install-man option ignored on this platform")
self.install_man = None
else:
if self.install_man is None:
if not USE_SMART_INSTALL_SCRIPTS:
# if one is installing the scripts somewhere else
# he can be smart enough to pass install_man
self.install_man = os.path.join(self.install_data,\
'share', 'man')
if self.install_man is not None:
if not os.path.exists(self.install_man):
try:
os.makedirs(self.install_man)
except:
#we'll get the error in the next check
pass
#check if we can write
if not os.access(self.install_man, os.W_OK):
print("********************************")
print("")
print("No permission to write man pages")
print("")
print("********************************")
self.install_man = None
self.dump_dirs("Installation directories")
def expand_dirs(self):
dftinstall.expand_dirs(self)
self._expand_attrs(['install_man'])
def has_man(self):
return os.name == "posix"
sub_commands = list(dftinstall.sub_commands)
sub_commands.append(('install_man', has_man))
# end of man pages handling
cmdclass = {'install_data':smart_install_data,
'build_py':smart_build_py}
if USE_SMART_INSTALL_SCRIPTS:
# typical use of user without superuser privileges
cmdclass['install_scripts'] = smart_install_scripts
if os.name == "posix":
cmdclass['install'] = install
cmdclass['install_man'] = install_man
description = "Mapping and X-Ray Fluorescence Analysis"
long_description = """Stand-alone application and Python tools for interactive and/or batch processing analysis of X-Ray Fluorescence Spectra. Graphical user interface (GUI) and batch processing capabilities provided
"""
#######################
# build_doc commands #
#######################
try:
import sphinx
import sphinx.util.console
sphinx.util.console.color_terminal = lambda: False
from sphinx.setup_command import BuildDoc
except:
sphinx = None
if sphinx:
class build_doc(BuildDoc):
def run(self):
# make sure the python path is pointing to the newly built
# code so that the documentation is built on this and not a
# previously installed version
build = self.get_finalized_command('build')
sys.path.insert(0, os.path.abspath(build.build_lib))
# Build the Users Guide in HTML and TeX format
for builder in ('html', 'latex'):
self.builder = builder
self.builder_target_dir = os.path.join(self.build_dir, builder)
self.mkpath(self.builder_target_dir)
builder_index = 'index_{0}.txt'.format(builder)
BuildDoc.run(self)
sys.path.pop(0)
cmdclass['build_doc'] = build_doc
distrib = setup(name="PyMca",
version= __version__,
description = description,
author = "V. Armando Sole",
author_email="sole@esrf.fr",
license= "GPL - Please read LICENSE.GPL for details",
url = "http://pymca.sourceforge.net",
long_description = long_description,
packages = packages,
platforms='any',
ext_modules = ext_modules,
data_files = data_files,
## package_data = package_data,
## package_dir = {'':'PyMca', 'PyMca.tests':'tests'},
cmdclass = cmdclass,
scripts=script_files,
py_modules=py_modules,
)
try:
print("PyMca is installed in %s " % PYMCA_INSTALL_DIR)
print("PyMca data files are installed in %s " % PYMCA_DATA_DIR)
print("HTML help files are installed in %s " % PYMCA_DOC_DIR)
except:
#I really do not see how this may happen but ...
pass
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