Datasets:

introvoyz045
/

COPASI

License:

Dataset card Files Files and versions

xet

Community

COPASI / data /LinuxTGZ /python_obs /setup.py.in

introvoyz045

Migrated from GitHub

7e59e4c verified 16 days ago

Raw History Blame Contribute Delete

3.32 kB

## @file    setup.py
## @brief   Python distutils code for COPASI Python module
## @author  Frank Bergmann (fbergman@caltech.edu)
## 

import glob
import os
import sys
import shutil
import platform

# remove -Wstrict-prototypes (to compile with clang on osx)
from distutils.sysconfig import get_config_vars
(opt,) = get_config_vars('OPT')
if opt != None:
  os.environ['OPT'] = " ".join(
      flag for flag in opt.split() if flag != '-Wstrict-prototypes'
  )

# post processing, if needed here
shutil.copyfile('./script/COPASI.py', './COPASI/__init__.py')

# figure out the os
basepath = os.path.abspath('./') + '/'
current_os = 'LINUX'

#initialize definitions 
definitions = [('Linux', None)]

# since those are static libraries, order is important
# order by usage:
#  -COPASISE, uses all libraries
#  -SED-ML uses, SBML, which uses expat ...
#
libs = ['COPASISE', 'lapack', 'blas','f2c', 'raptor', 'sedml-static', 'sbml-static','expat']

if platform.system() == 'Darwin': 
  current_os = 'DARWIN'

elif platform.system() == 'Windows':
  current_os = 'WIN32'
  libs = ['libblas', 'libexpat', 'libf2c', 'liblapack', 'libraptor', 'libsbml-static', 'libsedml-static']

# the dependencies dir, is just the bin dir from copasi-dependencies
# additionally the libCOPASISE.a from a build is copied into lib
dependency_dir = basepath + current_os + '/dependencies-32/'

if sys.maxint > 2147483647:
  dependency_dir = basepath + current_os + '/dependencies-64/'

# on DARWIN use universal binaries
if platform.system() == 'Darwin': 
  dependency_dir = basepath + current_os + '/dependencies/'

lib_dirs = [dependency_dir + 'lib', '/usr/lib']

# the cpp-api folder contains all header files of copasi
inc_dirs = [dependency_dir + 'include', 
            basepath + "src",
            basepath + "src/copasi",  
            basepath + "cpp-api",
            basepath + "cpp-api/copasi",  
            "."]

package_name = '"COPASI"'

definitions += [
  ('COPASI_SEDML', None),
  ('HAVE_BLASWRAP_H', None),
  ('HAVE_CLAPACK_H', None),
  ('HAVE_MML', None),  
  ('NO_BLAS_WRAP', None),
  ('WITH_PE_EVENT_CREATION', None),
  ('binding_python_lib_EXPORTS', None)
]

cfiles = [basepath + 'src/copasi_wrapper.cpp' ]

from distutils.core import setup, Extension

setup(name             = "python-copasi", 
      version          = "@VERSION@",
      description      = "COPASI Python API",
      long_description = ("COPASI is a software application for simulation and analysis of biochemical networks and their dynamics. COPASI is a stand-alone program that supports models in the SBML standard and can simulate their behavior using ODEs or Gillespie's stochastic simulation algorithm; arbitrary discrete events can be included in such simulations."),
      license          = "Artistic License",
      author           = "COPASI Team",
      author_email     = "copasi-devel@copasi.org",
      url              = "http://copasi.org",
      packages         = ["COPASI"],
      package_dir      = {'COPASI': 'COPASI'},
      ext_package      = "COPASI",
      ext_modules      = [Extension("_COPASI", 
         sources       = cfiles,
         define_macros = definitions +  
                         [(current_os, None)],
         include_dirs = inc_dirs,
         libraries = libs,
         library_dirs = lib_dirs
      )]
)

	## @file setup.py
	## @brief Python distutils code for COPASI Python module
	## @author Frank Bergmann (fbergman@caltech.edu)
	##

	import glob
	import os
	import sys
	import shutil
	import platform

	# remove -Wstrict-prototypes (to compile with clang on osx)
	from distutils.sysconfig import get_config_vars
	(opt,) = get_config_vars('OPT')
	if opt != None:
	os.environ['OPT'] = " ".join(
	flag for flag in opt.split() if flag != '-Wstrict-prototypes'
	)

	# post processing, if needed here
	shutil.copyfile('./script/COPASI.py', './COPASI/__init__.py')

	# figure out the os
	basepath = os.path.abspath('./') + '/'
	current_os = 'LINUX'

	#initialize definitions
	definitions = [('Linux', None)]

	# since those are static libraries, order is important
	# order by usage:
	# -COPASISE, uses all libraries
	# -SED-ML uses, SBML, which uses expat ...
	#
	libs = ['COPASISE', 'lapack', 'blas','f2c', 'raptor', 'sedml-static', 'sbml-static','expat']

	if platform.system() == 'Darwin':
	current_os = 'DARWIN'

	elif platform.system() == 'Windows':
	current_os = 'WIN32'
	libs = ['libblas', 'libexpat', 'libf2c', 'liblapack', 'libraptor', 'libsbml-static', 'libsedml-static']

	# the dependencies dir, is just the bin dir from copasi-dependencies
	# additionally the libCOPASISE.a from a build is copied into lib
	dependency_dir = basepath + current_os + '/dependencies-32/'

	if sys.maxint > 2147483647:
	dependency_dir = basepath + current_os + '/dependencies-64/'

	# on DARWIN use universal binaries
	if platform.system() == 'Darwin':
	dependency_dir = basepath + current_os + '/dependencies/'

	lib_dirs = [dependency_dir + 'lib', '/usr/lib']

	# the cpp-api folder contains all header files of copasi
	inc_dirs = [dependency_dir + 'include',
	basepath + "src",
	basepath + "src/copasi",
	basepath + "cpp-api",
	basepath + "cpp-api/copasi",
	"."]

	package_name = '"COPASI"'

	definitions += [
	('COPASI_SEDML', None),
	('HAVE_BLASWRAP_H', None),
	('HAVE_CLAPACK_H', None),
	('HAVE_MML', None),
	('NO_BLAS_WRAP', None),
	('WITH_PE_EVENT_CREATION', None),
	('binding_python_lib_EXPORTS', None)
	]

	cfiles = [basepath + 'src/copasi_wrapper.cpp' ]

	from distutils.core import setup, Extension

	setup(name = "python-copasi",
	version = "@VERSION@",
	description = "COPASI Python API",
	long_description = ("COPASI is a software application for simulation and analysis of biochemical networks and their dynamics. COPASI is a stand-alone program that supports models in the SBML standard and can simulate their behavior using ODEs or Gillespie's stochastic simulation algorithm; arbitrary discrete events can be included in such simulations."),
	license = "Artistic License",
	author = "COPASI Team",
	author_email = "copasi-devel@copasi.org",
	url = "http://copasi.org",
	packages = ["COPASI"],
	package_dir = {'COPASI': 'COPASI'},
	ext_package = "COPASI",
	ext_modules = [Extension("_COPASI",
	sources = cfiles,
	define_macros = definitions +
	[(current_os, None)],
	include_dirs = inc_dirs,
	libraries = libs,
	library_dirs = lib_dirs
	)]
	)