How to use the pyodesys.native._base._NativeSysBase function in pyodesys

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github bjodah / pyodesys / pyodesys / native / cvode.py View on Github external
def __init__(self, *args, **kwargs):
        self.compile_kwargs = copy.deepcopy(_compile_kwargs)
        self.compile_kwargs['define'] = ['PYCVODES_NO_KLU={}'.format("0" if config.get('KLU', True) else "1"),
                                         'PYCVODES_NO_LAPACK={}'.format("0" if config.get('LAPACK', True) else "1"),
                                         'ANYODE_NO_LAPACK={}'.format("0" if config.get('LAPACK', True) else "1")]
        self.compile_kwargs['include_dirs'].append(get_include())
        self.compile_kwargs['libraries'].extend(_libs.get_libs().split(','))
        self.compile_kwargs['libraries'].extend([l for l in os.environ.get(
            'PYODESYS_LAPACK', "lapack,blas" if config["LAPACK"] else "").split(",") if l != ""])
        self.compile_kwargs['flags'] = [f for f in os.environ.get("PYODESYS_CVODE_FLAGS", "").split() if f]
        self.compile_kwargs['ldflags'] = [f for f in os.environ.get("PYODESYS_CVODE_LDFLAGS", "").split() if f]
        super(NativeCvodeCode, self).__init__(*args, **kwargs)


class NativeCvodeSys(_NativeSysBase):
    _NativeCode = NativeCvodeCode
    _native_name = 'cvode'

    def as_standalone(self, out_file=None, compile_kwargs=None):
        from pycompilation.compilation import src2obj, link
        from pycodeexport.util import render_mako_template_to
        compile_kwargs = compile_kwargs or {}
        impl_src = open([f for f in self._native._written_files if f.endswith('.cpp')][0], 'rt').read()
        f = render_mako_template_to(
            os.path.join(os.path.dirname(__file__), 'sources/standalone_template.cpp'),
            '%s.cpp' % out_file, {'p_odesys': self, 'p_odesys_impl': impl_src})
        kw = copy.deepcopy(self._native.compile_kwargs)
        kw.update(compile_kwargs)
        objf = src2obj(f, **kw)
        kw['libraries'].append('boost_program_options')
        return link([objf], out_file, **kw)
github bjodah / pyodesys / pyodesys / native / gsl.py View on Github external
_config, get_include = import_('pygslodeiv2', '_config', 'get_include')


class NativeGSLCode(_NativeCodeBase):
    """ Looks for the environment variable: ``PYODESYS_BLAS`` (``gslcblas``) """
    wrapper_name = '_gsl_wrapper'

    def __init__(self, *args, **kwargs):
        self.compile_kwargs = copy.deepcopy(_compile_kwargs)
        self.compile_kwargs['include_dirs'].append(get_include())
        self.compile_kwargs['libraries'].extend(_config.env['GSL_LIBS'].split(','))
        self.compile_kwargs['libraries'].extend(os.environ.get('PYODESYS_BLAS', _config.env['BLAS']).split(','))
        super(NativeGSLCode, self).__init__(*args, **kwargs)


class NativeGSLSys(_NativeSysBase):
    _NativeCode = NativeGSLCode
    _native_name = 'gsl'
github bjodah / pyodesys / pyodesys / native / _base.py View on Github external
def integrate(self, *args, **kwargs):
        integrator = kwargs.pop('integrator', 'native')
        if integrator not in ('native', self._native_name):
            raise ValueError("Got incompatible kwargs integrator=%s" % integrator)
        else:
            kwargs['integrator'] = 'native'

        return super(_NativeSysBase, self).integrate(*args, **kwargs)
github bjodah / pyodesys / pyodesys / native / odeint.py View on Github external
from ._base import _NativeCodeBase, _NativeSysBase, _compile_kwargs

pyodeint = import_('pyodeint')


class NativeOdeintCode(_NativeCodeBase):
    wrapper_name = '_odeint_wrapper'

    def __init__(self, *args, **kwargs):
        self.compile_kwargs = copy.deepcopy(_compile_kwargs)
        self.compile_kwargs['include_dirs'].append(pyodeint.get_include())
        self.compile_kwargs['libraries'].extend(['m'])
        super(NativeOdeintCode, self).__init__(*args, **kwargs)


class NativeOdeintSys(_NativeSysBase):
    _NativeCode = NativeOdeintCode
    _native_name = 'odeint'