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Use dummy threading + re-enable C++ files that failed due to a gloabl 

namespace
This commit is contained in:
Roman Yurchak 2018-10-15 16:36:06 +02:00
parent 858e6e0a6e
commit 862f257423
7 changed files with 421 additions and 269 deletions
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1
.gitignore vendored
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@ -8,6 +8,7 @@
.pytest_cache/
__pycache__
geckodriver.log
firefox/
build
downloads

3
packages/scipy/meta.yaml
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@ -16,11 +16,12 @@ source:
# https://github.com/rth/scipy/tree/0.17.1-pyodide
# on top of the v0.17.1 tag
- patches/disable_modules_with_blas.patch
- patches/disable_modules_global_cpp_namespace_issue.patch
- patches/fix-build-gcc5-a80460.patch
- patches/force_malloc.patch
- patches/disable_scipy_stats_mvn.patch
- patches/skip-fortran-fails-to-link.patch
- patches/dummy_threading.patch
- patches/skip-blas-imports.patch
build:
cflags: -I../../CLAPACK-WA/INCLUDE -Wno-implicit-function-declaration

93
packages/scipy/patches/disable_modules_global_cpp_namespace_issue.patch
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@ -1,93 +0,0 @@
commit 0da8a50bd566ee7810ed1888112cc9c9a1b27d9e
Author: Roman Yurchak <rth.yurchak@pm.me>
Date: Wed Oct 10 14:12:22 2018 +0200
Remove modules with global C++ namespace issue
diff --git a/scipy/sparse/setup.py b/scipy/sparse/setup.py
index ecf8ae5c6..27fd128c3 100755
--- a/scipy/sparse/setup.py
+++ b/scipy/sparse/setup.py
@@ -45,17 +45,17 @@ def configuration(parent_package='',top_path=None):
'sparsetools.h',
'util.h']
depends = [os.path.join('sparsetools', hdr) for hdr in depends],
- config.add_extension('_sparsetools',
- define_macros=[('__STDC_FORMAT_MACROS', 1)],
- depends=depends,
- include_dirs=['sparsetools'],
- sources=[os.path.join('sparsetools', 'sparsetools.cxx'),
- os.path.join('sparsetools', 'csr.cxx'),
- os.path.join('sparsetools', 'csc.cxx'),
- os.path.join('sparsetools', 'bsr.cxx'),
- os.path.join('sparsetools', 'other.cxx'),
- get_sparsetools_sources]
- )
+ #config.add_extension('_sparsetools',
+ # define_macros=[('__STDC_FORMAT_MACROS', 1)],
+ # depends=depends,
+ # include_dirs=['sparsetools'],
+ # sources=[os.path.join('sparsetools', 'sparsetools.cxx'),
+ # os.path.join('sparsetools', 'csr.cxx'),
+ # os.path.join('sparsetools', 'csc.cxx'),
+ # os.path.join('sparsetools', 'bsr.cxx'),
+ # os.path.join('sparsetools', 'other.cxx'),
+ # get_sparsetools_sources]
+ # )
return config
diff --git a/scipy/spatial/setup.py b/scipy/spatial/setup.py
index 43b635dec..5b100ac06 100755
--- a/scipy/spatial/setup.py
+++ b/scipy/spatial/setup.py
@@ -58,10 +58,10 @@ def configuration(parent_package='', top_path=None):
ckdtree_headers = [join('ckdtree', 'src', x) for x in ckdtree_headers]
ckdtree_dep = ['ckdtree.cxx'] + ckdtree_headers + ckdtree_src
- config.add_extension('ckdtree',
- sources=['ckdtree.cxx'] + ckdtree_src,
- depends=ckdtree_dep,
- include_dirs=inc_dirs + [join('ckdtree','src')])
+ #config.add_extension('ckdtree',
+ # sources=['ckdtree.cxx'] + ckdtree_src,
+ # depends=ckdtree_dep,
+ # include_dirs=inc_dirs + [join('ckdtree','src')])
# _distance_wrap
config.add_extension('_distance_wrap',
sources=[join('src', 'distance_wrap.c')],
diff --git a/scipy/special/setup.py b/scipy/special/setup.py
index e5efb2e7a..6f75681c0 100755
--- a/scipy/special/setup.py
+++ b/scipy/special/setup.py
@@ -91,18 +91,18 @@ def configuration(parent_package='',top_path=None):
'_faddeeva.cxx', 'Faddeeva.cc']
ufuncs_cxx_dep = (headers + ufuncs_cxx_src + cephes_src
+ ['*.hh'])
- config.add_extension('_ufuncs_cxx',
- sources=ufuncs_cxx_src,
- depends=ufuncs_cxx_dep,
- include_dirs=[curdir],
- define_macros=define_macros,
- extra_info=get_info("npymath"))
-
- cfg = dict(get_system_info('lapack_opt'))
- config.add_extension('_ellip_harm_2',
- sources=['_ellip_harm_2.c', 'sf_error.c',],
- **cfg
- )
+ #config.add_extension('_ufuncs_cxx',
+ # sources=ufuncs_cxx_src,
+ # depends=ufuncs_cxx_dep,
+ # include_dirs=[curdir],
+ # define_macros=define_macros,
+ # extra_info=get_info("npymath"))
+
+ #cfg = dict(get_system_info('lapack_opt'))
+ #config.add_extension('_ellip_harm_2',
+ # sources=['_ellip_harm_2.c', 'sf_error.c',],
+ # **cfg
+ # )
config.add_data_files('tests/*.py')
config.add_data_files('tests/data/README')

365
packages/scipy/patches/disable_modules_with_blas.patch
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@ -1,53 +1,68 @@
commit 96142c968cda5394482c9fe086d0eeaf88d8e4f4
commit 5c2a77219d5bd92c48d8d5d5e71ba28228c282a1
Author: Roman Yurchak <rth.yurchak@pm.me>
Date: Mon Oct 8 10:53:11 2018 +0200
Removes files that require LAPACK
diff --git a/scipy/linalg/__init__.py b/scipy/linalg/__init__.py
index fd02851bf..faa6723d2 100644
--- a/scipy/linalg/__init__.py
+++ b/scipy/linalg/__init__.py
@@ -181,13 +181,16 @@ from ._decomp_qz import *
from .decomp_svd import *
from .decomp_schur import *
from ._decomp_polar import *
-from .matfuncs import *
-from .blas import *
-from .lapack import *
-from .special_matrices import *
-from ._solvers import *
-from ._procrustes import *
-from ._decomp_update import *
+try:
+ from .matfuncs import *
+ from .blas import *
+ from .lapack import *
+ from .special_matrices import *
+ from ._solvers import *
+ from ._procrustes import *
+ from ._decomp_update import *
+except ImportError:
+ pass
__all__ = [s for s in dir() if not s.startswith('_')]
diff --git a/scipy/linalg/setup.py b/scipy/linalg/setup.py
deleted file mode 100755
index 2c9b9ba22..000000000
index 2c9b9ba22..035b4bb80 100755
--- a/scipy/linalg/setup.py
+++ /dev/null
@@ -1,173 +0,0 @@
-#!/usr/bin/env python
-from __future__ import division, print_function, absolute_import
-
-import os
-from os.path import join
-
-
-def configuration(parent_package='', top_path=None):
- from distutils.sysconfig import get_python_inc
- from numpy.distutils.system_info import get_info, NotFoundError, numpy_info
- from numpy.distutils.misc_util import Configuration, get_numpy_include_dirs
- from scipy._build_utils import (get_sgemv_fix, get_g77_abi_wrappers,
- split_fortran_files)
-
- config = Configuration('linalg', parent_package, top_path)
-
- lapack_opt = get_info('lapack_opt')
-
+++ b/scipy/linalg/setup.py
@@ -16,8 +16,8 @@ def configuration(parent_package='', top_path=None):
lapack_opt = get_info('lapack_opt')
- if not lapack_opt:
- raise NotFoundError('no lapack/blas resources found')
-
- atlas_version = ([v[3:-3] for k, v in lapack_opt.get('define_macros', [])
- if k == 'ATLAS_INFO']+[None])[0]
- if atlas_version:
- print(('ATLAS version: %s' % atlas_version))
-
- # fblas:
- sources = ['fblas.pyf.src']
- sources += get_g77_abi_wrappers(lapack_opt)
- sources += get_sgemv_fix(lapack_opt)
-
+ # if not lapack_opt:
+ # raise NotFoundError('no lapack/blas resources found')
atlas_version = ([v[3:-3] for k, v in lapack_opt.get('define_macros', [])
if k == 'ATLAS_INFO']+[None])[0]
@@ -29,45 +29,45 @@ def configuration(parent_package='', top_path=None):
sources += get_g77_abi_wrappers(lapack_opt)
sources += get_sgemv_fix(lapack_opt)
- config.add_extension('_fblas',
- sources=sources,
- depends=['fblas_l?.pyf.src'],
- extra_info=lapack_opt
- )
-
- # flapack:
+ #config.add_extension('_fblas',
+ # sources=sources,
+ # depends=['fblas_l?.pyf.src'],
+ # extra_info=lapack_opt
+ # )
# flapack:
- sources = ['flapack.pyf.src']
- sources += get_g77_abi_wrappers(lapack_opt)
- dep_pfx = join('src', 'lapack_deprecations')
@ -80,75 +95,68 @@ index 2c9b9ba22..000000000
- sources=[join('src', 'det.f'), join('src', 'lu.f')],
- extra_info=lapack_opt
- )
-
- # _interpolative:
- routines_to_split = [
- 'dfftb1',
- 'dfftf1',
- 'dffti1',
- 'dsint1',
- 'dzfft1',
- 'id_srand',
- 'idd_copyints',
- 'idd_id2svd0',
- 'idd_pairsamps',
- 'idd_permute',
- 'idd_permuter',
- 'idd_random_transf0',
- 'idd_random_transf0_inv',
- 'idd_random_transf_init0',
- 'idd_subselect',
- 'iddp_asvd0',
- 'iddp_rsvd0',
- 'iddr_asvd0',
- 'iddr_rsvd0',
- 'idz_estrank0',
- 'idz_id2svd0',
- 'idz_permute',
- 'idz_permuter',
- 'idz_random_transf0_inv',
- 'idz_random_transf_init0',
- 'idz_random_transf_init00',
- 'idz_realcomp',
- 'idz_realcomplex',
- 'idz_reco',
- 'idz_subselect',
- 'idzp_aid0',
- 'idzp_aid1',
- 'idzp_asvd0',
- 'idzp_rsvd0',
- 'idzr_asvd0',
- 'idzr_reco',
- 'idzr_rsvd0',
- 'zfftb1',
- 'zfftf1',
- 'zffti1',
- ]
- print('Splitting linalg.interpolative Fortran source files')
- dirname = os.path.split(os.path.abspath(__file__))[0]
- fnames = split_fortran_files(join(dirname, 'src', 'id_dist', 'src'),
- routines_to_split)
+ #sources = ['flapack.pyf.src']
+ #sources += get_g77_abi_wrappers(lapack_opt)
+ #dep_pfx = join('src', 'lapack_deprecations')
+ #deprecated_lapack_routines = [join(dep_pfx, c + 'gegv.f') for c in 'cdsz']
+ #sources += deprecated_lapack_routines
+
+ #config.add_extension('_flapack',
+ # sources=sources,
+ # depends=['flapack_user.pyf.src'],
+ # extra_info=lapack_opt
+ # )
+
+ #if atlas_version is not None:
+ # # cblas:
+ # config.add_extension('_cblas',
+ # sources=['cblas.pyf.src'],
+ # depends=['cblas.pyf.src', 'cblas_l1.pyf.src'],
+ # extra_info=lapack_opt
+ # )
+
+ # # clapack:
+ # config.add_extension('_clapack',
+ # sources=['clapack.pyf.src'],
+ # depends=['clapack.pyf.src'],
+ # extra_info=lapack_opt
+ # )
+
+ ## _flinalg:
+ #config.add_extension('_flinalg',
+ # sources=[join('src', 'det.f'), join('src', 'lu.f')],
+ # extra_info=lapack_opt
+ # )
# _interpolative:
routines_to_split = [
@@ -116,15 +116,15 @@ def configuration(parent_package='', top_path=None):
dirname = os.path.split(os.path.abspath(__file__))[0]
fnames = split_fortran_files(join(dirname, 'src', 'id_dist', 'src'),
routines_to_split)
- fnames = [join('src', 'id_dist', 'src', f) for f in fnames]
- config.add_extension('_interpolative', fnames + ["interpolative.pyf"],
- extra_info=lapack_opt
- )
-
- # _calc_lwork:
+ #fnames = [join('src', 'id_dist', 'src', f) for f in fnames]
+ #config.add_extension('_interpolative', fnames + ["interpolative.pyf"],
+ # extra_info=lapack_opt
+ # )
# _calc_lwork:
- config.add_extension('_calc_lwork',
- [join('src', 'calc_lwork.f')],
- extra_info=lapack_opt)
-
- # _solve_toeplitz:
- config.add_extension('_solve_toeplitz',
- sources=[('_solve_toeplitz.c')],
- include_dirs=[get_numpy_include_dirs()])
-
- config.add_data_dir('tests')
-
- # Cython BLAS/LAPACK
- config.add_data_files('cython_blas.pxd')
- config.add_data_files('cython_lapack.pxd')
-
+ #config.add_extension('_calc_lwork',
+ # [join('src', 'calc_lwork.f')],
+ # extra_info=lapack_opt)
# _solve_toeplitz:
config.add_extension('_solve_toeplitz',
@@ -137,27 +137,27 @@ def configuration(parent_package='', top_path=None):
config.add_data_files('cython_blas.pxd')
config.add_data_files('cython_lapack.pxd')
- sources = ['_blas_subroutine_wrappers.f', '_lapack_subroutine_wrappers.f']
- sources += get_g77_abi_wrappers(lapack_opt)
- sources += get_sgemv_fix(lapack_opt)
@ -170,54 +178,60 @@ index 2c9b9ba22..000000000
- include_dirs=['.'],
- libraries=['fwrappers'],
- extra_info=lapack_opt)
-
- config.add_extension('_decomp_update',
- sources=['_decomp_update.c'])
-
- return config
-
-
-if __name__ == '__main__':
- from numpy.distutils.core import setup
- from linalg_version import linalg_version
-
- setup(version=linalg_version,
- **configuration(top_path='').todict())
+ #sources = ['_blas_subroutine_wrappers.f', '_lapack_subroutine_wrappers.f']
+ #sources += get_g77_abi_wrappers(lapack_opt)
+ #sources += get_sgemv_fix(lapack_opt)
+ #includes = numpy_info().get_include_dirs() + [get_python_inc()]
+ #config.add_library('fwrappers', sources=sources, include_dirs=includes)
+
+ #config.add_extension('cython_blas',
+ # sources=['cython_blas.c'],
+ # depends=['cython_blas.pyx', 'cython_blas.pxd',
+ # 'fortran_defs.h', '_blas_subroutines.h'],
+ # include_dirs=['.'],
+ # libraries=['fwrappers'],
+ # extra_info=lapack_opt)
+
+ #config.add_extension('cython_lapack',
+ # sources=['cython_lapack.c'],
+ # depends=['cython_lapack.pyx', 'cython_lapack.pxd',
+ # 'fortran_defs.h', '_lapack_subroutines.h'],
+ # include_dirs=['.'],
+ # libraries=['fwrappers'],
+ # extra_info=lapack_opt)
config.add_extension('_decomp_update',
sources=['_decomp_update.c'])
diff --git a/scipy/sparse/linalg/eigen/arpack/setup.py b/scipy/sparse/linalg/eigen/arpack/setup.py
deleted file mode 100755
index a8175a9d5..000000000
index a8175a9d5..c63b76dda 100755
--- a/scipy/sparse/linalg/eigen/arpack/setup.py
+++ /dev/null
@@ -1,44 +0,0 @@
-#!/usr/bin/env python
-from __future__ import division, print_function, absolute_import
-
-from os.path import join
-
-
-def configuration(parent_package='',top_path=None):
- from numpy.distutils.system_info import get_info, NotFoundError
- from numpy.distutils.misc_util import Configuration
- from scipy._build_utils import get_g77_abi_wrappers, get_sgemv_fix
-
- config = Configuration('arpack',parent_package,top_path)
-
- lapack_opt = get_info('lapack_opt')
-
+++ b/scipy/sparse/linalg/eigen/arpack/setup.py
@@ -13,28 +13,28 @@ def configuration(parent_package='',top_path=None):
lapack_opt = get_info('lapack_opt')
- if not lapack_opt:
- raise NotFoundError('no lapack/blas resources found')
-
- config = Configuration('arpack', parent_package, top_path)
-
+ #if not lapack_opt:
+ # raise NotFoundError('no lapack/blas resources found')
config = Configuration('arpack', parent_package, top_path)
- arpack_sources = [join('ARPACK','SRC', '*.f')]
- arpack_sources.extend([join('ARPACK','UTIL', '*.f')])
- arpack_sources.extend([join('ARPACK','LAPACK', '*.f')])
-
+ #arpack_sources = [join('ARPACK','SRC', '*.f')]
+ #arpack_sources.extend([join('ARPACK','UTIL', '*.f')])
+ #arpack_sources.extend([join('ARPACK','LAPACK', '*.f')])
- arpack_sources += get_g77_abi_wrappers(lapack_opt)
-
+ #arpack_sources += get_g77_abi_wrappers(lapack_opt)
- config.add_library('arpack_scipy', sources=arpack_sources,
- include_dirs=[join('ARPACK', 'SRC')])
-
+ #config.add_library('arpack_scipy', sources=arpack_sources,
+ # include_dirs=[join('ARPACK', 'SRC')])
- ext_sources = ['arpack.pyf.src']
- ext_sources += get_sgemv_fix(lapack_opt)
- config.add_extension('_arpack',
@ -226,34 +240,25 @@ index a8175a9d5..000000000
- extra_info=lapack_opt,
- depends=arpack_sources,
- )
-
- config.add_data_dir('tests')
- return config
-
-if __name__ == '__main__':
- from numpy.distutils.core import setup
- setup(**configuration(top_path='').todict())
+ #ext_sources = ['arpack.pyf.src']
+ #ext_sources += get_sgemv_fix(lapack_opt)
+ #config.add_extension('_arpack',
+ # sources=ext_sources,
+ # libraries=['arpack_scipy'],
+ # extra_info=lapack_opt,
+ # depends=arpack_sources,
+ # )
config.add_data_dir('tests')
return config
diff --git a/scipy/sparse/linalg/isolve/setup.py b/scipy/sparse/linalg/isolve/setup.py
deleted file mode 100755
index becb9237a..000000000
index becb9237a..17288207e 100755
--- a/scipy/sparse/linalg/isolve/setup.py
+++ /dev/null
@@ -1,48 +0,0 @@
-#!/usr/bin/env python
-from __future__ import division, print_function, absolute_import
-
-from os.path import join
-
-
-def configuration(parent_package='',top_path=None):
- from numpy.distutils.system_info import get_info, NotFoundError
- from numpy.distutils.misc_util import Configuration
- from scipy._build_utils import get_g77_abi_wrappers
-
- config = Configuration('isolve',parent_package,top_path)
-
- lapack_opt = get_info('lapack_opt')
-
+++ b/scipy/sparse/linalg/isolve/setup.py
@@ -13,29 +13,29 @@ def configuration(parent_package='',top_path=None):
lapack_opt = get_info('lapack_opt')
- if not lapack_opt:
- raise NotFoundError('no lapack/blas resources found')
-
@ -277,13 +282,29 @@ index becb9237a..000000000
- config.add_extension('_iterative',
- sources=sources,
- extra_info=lapack_opt)
-
- config.add_data_dir('tests')
-
- return config
-
-
-if __name__ == '__main__':
- from numpy.distutils.core import setup
-
- setup(**configuration(top_path='').todict())
+ #if not lapack_opt:
+ # raise NotFoundError('no lapack/blas resources found')
+
+ ## iterative methods
+ #methods = ['BiCGREVCOM.f.src',
+ # 'BiCGSTABREVCOM.f.src',
+ # 'CGREVCOM.f.src',
+ # 'CGSREVCOM.f.src',
+# # 'ChebyREVCOM.f.src',
+ # 'GMRESREVCOM.f.src',
+# # 'JacobiREVCOM.f.src',
+ # 'QMRREVCOM.f.src',
+# # 'SORREVCOM.f.src'
+ # ]
+
+ #Util = ['STOPTEST2.f.src','getbreak.f.src']
+ #sources = Util + methods + ['_iterative.pyf.src']
+ #sources = [join('iterative', x) for x in sources]
+ #sources += get_g77_abi_wrappers(lapack_opt)
+
+ #config.add_extension('_iterative',
+ # sources=sources,
+ # extra_info=lapack_opt)
config.add_data_dir('tests')

115
packages/scipy/patches/dummy_threading.patch Normal file
View File

@ -0,0 +1,115 @@
commit 055d7fcf48996f9619ddd68f4ac0ccb611e8706d
Author: Roman Yurchak <rth.yurchak@pm.me>
Date: Mon Oct 15 15:40:48 2018 +0200
Use dummy_threading
diff --git a/scipy/interpolate/tests/test_gil.py b/scipy/interpolate/tests/test_gil.py
index df3ab3bc4..974b68ada 100644
--- a/scipy/interpolate/tests/test_gil.py
+++ b/scipy/interpolate/tests/test_gil.py
@@ -1,7 +1,7 @@
from __future__ import division, print_function, absolute_import
import itertools
-import threading
+import dummy_threading as threading
import time
import numpy as np
diff --git a/scipy/ndimage/tests/test_filters.py b/scipy/ndimage/tests/test_filters.py
index 8c56393a6..8ff85547c 100644
--- a/scipy/ndimage/tests/test_filters.py
+++ b/scipy/ndimage/tests/test_filters.py
@@ -129,7 +129,7 @@ def test_gaussian_truncate():
class TestThreading(TestCase):
def check_func_thread(self, n, fun, args, out):
- from threading import Thread
+ from dummy_threading import Thread
thrds = [Thread(target=fun, args=args, kwargs={'output': out[x]}) for x in range(n)]
[t.start() for t in thrds]
[t.join() for t in thrds]
diff --git a/scipy/signal/signaltools.py b/scipy/signal/signaltools.py
index df7107684..2b9a18422 100644
--- a/scipy/signal/signaltools.py
+++ b/scipy/signal/signaltools.py
@@ -4,7 +4,7 @@
from __future__ import division, print_function, absolute_import
import warnings
-import threading
+import dummy_threading as threading
from . import sigtools
from scipy._lib.six import callable
diff --git a/scipy/sparse/tests/test_sparsetools.py b/scipy/sparse/tests/test_sparsetools.py
index 7a3c903cc..cc495d500 100644
--- a/scipy/sparse/tests/test_sparsetools.py
+++ b/scipy/sparse/tests/test_sparsetools.py
@@ -4,7 +4,7 @@ import sys
import os
import gc
import re
-import threading
+import dummy_threading as threading
from nose import SkipTest
import numpy as np
diff --git a/scipy/spatial/ckdtree.pyx b/scipy/spatial/ckdtree.pyx
index 2f98613a7..c9f657cf3 100644
--- a/scipy/spatial/ckdtree.pyx
+++ b/scipy/spatial/ckdtree.pyx
@@ -17,8 +17,7 @@ from libc.string cimport memset, memcpy
cimport cython
-from multiprocessing import cpu_count
-import threading
+import dummy_threading as threading
cdef extern from "limits.h":
long LONG_MAX
@@ -26,7 +25,7 @@ cdef extern from "limits.h":
cdef extern from "ckdtree_methods.h":
int number_of_processors
-number_of_processors = cpu_count()
+number_of_processors = 1
from libcpp.vector cimport vector
from libc cimport string
@@ -91,7 +90,7 @@ cdef extern from "cpp_utils.h":
# coo_entry wrapper
# =================
-cdef class coo_entries:
+cdef class coo_entries(object):
cdef:
readonly object __array_interface__
diff --git a/scipy/spatial/qhull.pyx b/scipy/spatial/qhull.pyx
index ba33fadbe..644a57eaf 100644
--- a/scipy/spatial/qhull.pyx
+++ b/scipy/spatial/qhull.pyx
@@ -10,7 +10,7 @@ Wrappers for Qhull triangulation, plus some additional N-D geometry utilities
# Distributed under the same BSD license as Scipy.
#
-import threading
+import dummy_threading as threading
import numpy as np
cimport numpy as np
cimport cython
diff --git a/scipy/special/_ellip_harm.py b/scipy/special/_ellip_harm.py
index 6972c2ad1..76a828201 100644
--- a/scipy/special/_ellip_harm.py
+++ b/scipy/special/_ellip_harm.py
@@ -1,6 +1,6 @@
from __future__ import division, print_function, absolute_import
-import threading
+import dummy_threadng as threading
import numpy as np
from ._ufuncs import _ellip_harm

104
packages/scipy/patches/skip-blas-imports.patch Normal file
View File

@ -0,0 +1,104 @@
commit 3f9694b956a2c900f92b635e28ea0eed4baed2fa
Author: Roman Yurchak <rth.yurchak@pm.me>
Date: Fri Oct 19 17:16:05 2018 +0200
Workaround for missing BLAS/LAPACK imports
diff --git a/scipy/linalg/blas.py b/scipy/linalg/blas.py
index e4bd57aa4..b88d2f7ea 100644
--- a/scipy/linalg/blas.py
+++ b/scipy/linalg/blas.py
@@ -152,7 +152,10 @@ __all__ = ['get_blas_funcs', 'find_best_blas_type']
import numpy as _np
-from scipy.linalg import _fblas
+try:
+ from scipy.linalg import _fblas
+except ImportError:
+ _fblas = None
try:
from scipy.linalg import _cblas
except ImportError:
@@ -160,7 +163,10 @@ except ImportError:
# Expose all functions (only fblas --- cblas is an implementation detail)
empty_module = None
-from scipy.linalg._fblas import *
+try:
+ from scipy.linalg._fblas import *
+except ImportError:
+ pass
del empty_module
# 'd' will be default for 'i',..
diff --git a/scipy/linalg/lapack.py b/scipy/linalg/lapack.py
index bc712c4ea..29d59085d 100644
--- a/scipy/linalg/lapack.py
+++ b/scipy/linalg/lapack.py
@@ -359,7 +359,10 @@ from .blas import _get_funcs
# Backward compatibility:
from .blas import find_best_blas_type as find_best_lapack_type
-from scipy.linalg import _flapack
+try:
+ from scipy.linalg import _flapack
+except ImportError:
+ _flapack = None
try:
from scipy.linalg import _clapack
except ImportError:
@@ -367,12 +370,18 @@ except ImportError:
# Backward compatibility
from scipy._lib._util import DeprecatedImport as _DeprecatedImport
-clapack = _DeprecatedImport("scipy.linalg.blas.clapack", "scipy.linalg.lapack")
-flapack = _DeprecatedImport("scipy.linalg.blas.flapack", "scipy.linalg.lapack")
+try:
+ clapack = _DeprecatedImport("scipy.linalg.blas.clapack", "scipy.linalg.lapack")
+ flapack = _DeprecatedImport("scipy.linalg.blas.flapack", "scipy.linalg.lapack")
+except ImportError:
+ pass
# Expose all functions (only flapack --- clapack is an implementation detail)
empty_module = None
-from scipy.linalg._flapack import *
+try:
+ from scipy.linalg._flapack import *
+except ImportError:
+ pass
del empty_module
_dep_message = """The `*gegv` family of routines has been deprecated in
@@ -380,17 +389,20 @@ LAPACK 3.6.0 in favor of the `*ggev` family of routines.
The corresponding wrappers will be removed from SciPy in
a future release."""
-cgegv = _np.deprecate(cgegv, old_name='cgegv', message=_dep_message)
-dgegv = _np.deprecate(dgegv, old_name='dgegv', message=_dep_message)
-sgegv = _np.deprecate(sgegv, old_name='sgegv', message=_dep_message)
-zgegv = _np.deprecate(zgegv, old_name='zgegv', message=_dep_message)
-
-# Modyfy _flapack in this scope so the deprecation warnings apply to
-# functions returned by get_lapack_funcs.
-_flapack.cgegv = cgegv
-_flapack.dgegv = dgegv
-_flapack.sgegv = sgegv
-_flapack.zgegv = zgegv
+try:
+ cgegv = _np.deprecate(cgegv, old_name='cgegv', message=_dep_message)
+ dgegv = _np.deprecate(dgegv, old_name='dgegv', message=_dep_message)
+ sgegv = _np.deprecate(sgegv, old_name='sgegv', message=_dep_message)
+ zgegv = _np.deprecate(zgegv, old_name='zgegv', message=_dep_message)
+
+ # Modyfy _flapack in this scope so the deprecation warnings apply to
+ # functions returned by get_lapack_funcs.
+ _flapack.cgegv = cgegv
+ _flapack.dgegv = dgegv
+ _flapack.sgegv = sgegv
+ _flapack.zgegv = zgegv
+except Exception:
+ pass
# some convenience alias for complex functions
_lapack_alias = {

9
test/test_scipy.py
View File

@ -10,22 +10,25 @@ sys.path.append(str(Path(__file__).parents[1]))
from pyodide_build.common import HOSTPYTHON # noqa: E402
def test_scipy_import(selenium_standalone):
def test_scipy_import(selenium_standalone, request):
from selenium.common.exceptions import JavascriptException
selenium = selenium_standalone
if selenium.browser == 'chrome':
request.applymarker(pytest.mark.xfail(
run=False, reason='chrome not supported'))
selenium.load_package("scipy")
selenium.run("""
import scipy
""")
# supported modules
for module in ['constants', 'fftpack', 'odr']:
for module in ['constants', 'fftpack', 'odr', 'sparse']:
selenium.run(f"import scipy.{module}")
# not yet built modules
for module in ['cluster', # needs sparse
'spatial', # needs sparse
'sparse',
'integrate', # needs special
'interpolate', # needs linalg
'linalg',