Kind regards,
Sam
On Sat, Apr 27, 2019 at 6:47 AM Ms. Sona CP <[email protected]
<mailto:[email protected]>> wrote:
Hi,
I am facing following error while installing
spyder-3.3.2-foss-2019b-3.6.6
^~~~~~~~~
scipy/sparse/csgraph/_shortest_path.c:2519:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
scipy/sparse/csgraph/_shortest_path.c:2532:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__pyx_t_5 = __Pyx_PyBool_FromLong((!__pyx_t_4)); if
(unlikely(!__pyx_t_5)) __PYX_ERR(0, 133, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/csgraph/_shortest_path.c:2532:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
scipy/sparse/csgraph/_shortest_path.c: In function
'__pyx_pf_5scipy_6sparse_7csgraph_14_shortest_path_2floyd_warshall':
scipy/sparse/csgraph/_shortest_path.c:3563:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__pyx_t_5 = __Pyx_PyBool_FromLong((!__pyx_t_4)); if
(unlikely(!__pyx_t_5)) __PYX_ERR(0, 237, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/csgraph/_shortest_path.c:3563:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
gcc -shared
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/GCCcore/7.3.0/lib64
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/GCCcore/7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/bzip2/1.0.6-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/zlib/1.2.11-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/libreadline/7.0-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/ncurses/6.1-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/SQLite/3.24.0-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/GMP/6.1.2-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/libffi/3.2.1-GCCcore-7.3.0/lib64
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/libffi/3.2.1-GCCcore-7.3.0/lib
-O2 -ftree-vectorize -march=native -fno-math-errno -fPIC
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/include
build/temp.linux-x86_64-2.7/scipy/sparse/csgraph/_shortest_path.o
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib
-Lbuild/temp.linux-x86_64-2.7 -lpython2.7 -o
build/lib.linux-x86_64-2.7/scipy/sparse/csgraph/_shortest_path.so
-Wl,--version-script=build/temp.linux-x86_64-2.7/link-version-scipy.sparse.csgraph._shortest_path.map
building 'scipy.sparse.csgraph._traversal' extension
compiling C sources
C compiler: gcc -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes
-O2 -ftree-vectorize -march=native -fno-math-errno -fPIC
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/include
-fPIC
compile options:
'-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/include/python2.7
-c'
gcc: scipy/sparse/csgraph/_traversal.c
In file included from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/ndarraytypes.h:1816:0,
from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/ndarrayobject.h:18,
from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/arrayobject.h:4,
from scipy/sparse/csgraph/_traversal.c:566:
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2:
warning: #warning "Using deprecated NumPy API, disable it by "
"#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^~~~~~~
scipy/sparse/csgraph/_traversal.c: In function
'__pyx_pf_5scipy_6sparse_7csgraph_10_traversal_connected_components':
scipy/sparse/csgraph/_traversal.c:2099:5: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__Pyx_INCREF(Py_False);
^~~~~~~~~~~~
gcc -shared
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/GCCcore/7.3.0/lib64
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/GCCcore/7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/bzip2/1.0.6-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/zlib/1.2.11-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/libreadline/7.0-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/ncurses/6.1-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/SQLite/3.24.0-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/GMP/6.1.2-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/libffi/3.2.1-GCCcore-7.3.0/lib64
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/libffi/3.2.1-GCCcore-7.3.0/lib
-O2 -ftree-vectorize -march=native -fno-math-errno -fPIC
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/include
build/temp.linux-x86_64-2.7/scipy/sparse/csgraph/_traversal.o
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib
-Lbuild/temp.linux-x86_64-2.7 -lpython2.7 -o
build/lib.linux-x86_64-2.7/scipy/sparse/csgraph/_traversal.so
-Wl,--version-script=build/temp.linux-x86_64-2.7/link-version-scipy.sparse.csgraph._traversal.map
building 'scipy.sparse.csgraph._min_spanning_tree' extension
compiling C sources
C compiler: gcc -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes
-O2 -ftree-vectorize -march=native -fno-math-errno -fPIC
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/include
-fPIC
compile options:
'-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/include/python2.7
-c'
gcc: scipy/sparse/csgraph/_min_spanning_tree.c
In file included from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/ndarraytypes.h:1816:0,
from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/ndarrayobject.h:18,
from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/arrayobject.h:4,
from scipy/sparse/csgraph/_min_spanning_tree.c:566:
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2:
warning: #warning "Using deprecated NumPy API, disable it by "
"#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^~~~~~~
scipy/sparse/csgraph/_min_spanning_tree.c: In function
'__pyx_pf_5scipy_6sparse_7csgraph_18_min_spanning_tree_minimum_spanning_tree':
scipy/sparse/csgraph/_min_spanning_tree.c:2583:3: warning:
dereferencing type-punned pointer will break strict-aliasing rules
[-Wstrict-aliasing]
__Pyx_INCREF(Py_True);
^~~~~~~~~~~~
scipy/sparse/csgraph/_min_spanning_tree.c:2601:3: warning:
dereferencing type-punned pointer will break strict-aliasing rules
[-Wstrict-aliasing]
__pyx_t_5 = __Pyx_PyBool_FromLong((!__pyx_t_4)); if
(unlikely(!__pyx_t_5)) __PYX_ERR(0, 86, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/csgraph/_min_spanning_tree.c:2601:3: warning:
dereferencing type-punned pointer will break strict-aliasing rules
[-Wstrict-aliasing]
scipy/sparse/csgraph/_min_spanning_tree.c: In function
'__pyx_array_get_memview':
scipy/sparse/csgraph/_min_spanning_tree.c:7301:3: warning:
dereferencing type-punned pointer will break strict-aliasing rules
[-Wstrict-aliasing]
__pyx_t_2 =
__Pyx_PyBool_FromLong(__pyx_v_self->dtype_is_object); if
(unlikely(!__pyx_t_2)) __PYX_ERR(2, 227, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/csgraph/_min_spanning_tree.c:7301:3: warning:
dereferencing type-punned pointer will break strict-aliasing rules
[-Wstrict-aliasing]
scipy/sparse/csgraph/_min_spanning_tree.c: In function
'__pyx_memoryview_is_slice':
scipy/sparse/csgraph/_min_spanning_tree.c:9551:9: warning:
dereferencing type-punned pointer will break strict-aliasing rules
[-Wstrict-aliasing]
__pyx_t_7 =
__Pyx_PyBool_FromLong(__pyx_v_self->dtype_is_object); if
(unlikely(!__pyx_t_7)) __PYX_ERR(2, 430, __pyx_L4_error)
^~~~~~~~~
scipy/sparse/csgraph/_min_spanning_tree.c:9551:9: warning:
dereferencing type-punned pointer will break strict-aliasing rules
[-Wstrict-aliasing]
scipy/sparse/csgraph/_min_spanning_tree.c: In function
'__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_16is_c_contig':
scipy/sparse/csgraph/_min_spanning_tree.c:12037:3: warning:
dereferencing type-punned pointer will break strict-aliasing rules
[-Wstrict-aliasing]
__pyx_t_1 =
__Pyx_PyBool_FromLong(__pyx_memviewslice_is_contig((__pyx_v_mslice[0]),
'C', __pyx_v_self->view.ndim)); if (unlikely(!__pyx_t_1))
__PYX_ERR(2, 618, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/csgraph/_min_spanning_tree.c:12037:3: warning:
dereferencing type-punned pointer will break strict-aliasing rules
[-Wstrict-aliasing]
scipy/sparse/csgraph/_min_spanning_tree.c: In function
'__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_18is_f_contig':
scipy/sparse/csgraph/_min_spanning_tree.c:12108:3: warning:
dereferencing type-punned pointer will break strict-aliasing rules
[-Wstrict-aliasing]
__pyx_t_1 =
__Pyx_PyBool_FromLong(__pyx_memviewslice_is_contig((__pyx_v_mslice[0]),
'F', __pyx_v_self->view.ndim)); if (unlikely(!__pyx_t_1))
__PYX_ERR(2, 624, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/csgraph/_min_spanning_tree.c:12108:3: warning:
dereferencing type-punned pointer will break strict-aliasing rules
[-Wstrict-aliasing]
scipy/sparse/csgraph/_min_spanning_tree.c: In function
'__pyx_memoryview_new':
scipy/sparse/csgraph/_min_spanning_tree.c:12449:3: warning:
dereferencing type-punned pointer will break strict-aliasing rules
[-Wstrict-aliasing]
__pyx_t_2 = __Pyx_PyBool_FromLong(__pyx_v_dtype_is_object); if
(unlikely(!__pyx_t_2)) __PYX_ERR(2, 653, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/csgraph/_min_spanning_tree.c:12449:3: warning:
dereferencing type-punned pointer will break strict-aliasing rules
[-Wstrict-aliasing]
scipy/sparse/csgraph/_min_spanning_tree.c: In function '_unellipsify':
scipy/sparse/csgraph/_min_spanning_tree.c:12953:5: warning:
dereferencing type-punned pointer will break strict-aliasing rules
[-Wstrict-aliasing]
__pyx_t_4 = __Pyx_PyBool_FromLong(__pyx_v_have_slices); if
(unlikely(!__pyx_t_4)) __PYX_ERR(2, 693, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/csgraph/_min_spanning_tree.c:12953:5: warning:
dereferencing type-punned pointer will break strict-aliasing rules
[-Wstrict-aliasing]
scipy/sparse/csgraph/_min_spanning_tree.c: In function
'__pyx_memoryview_fromslice':
scipy/sparse/csgraph/_min_spanning_tree.c:15353:3: warning:
dereferencing type-punned pointer will break strict-aliasing rules
[-Wstrict-aliasing]
__pyx_t_2 = __Pyx_PyBool_FromLong(__pyx_v_dtype_is_object); if
(unlikely(!__pyx_t_2)) __PYX_ERR(2, 1008, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/csgraph/_min_spanning_tree.c:15353:3: warning:
dereferencing type-punned pointer will break strict-aliasing rules
[-Wstrict-aliasing]
gcc -shared
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/GCCcore/7.3.0/lib64
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/GCCcore/7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/bzip2/1.0.6-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/zlib/1.2.11-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/libreadline/7.0-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/ncurses/6.1-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/SQLite/3.24.0-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/GMP/6.1.2-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/libffi/3.2.1-GCCcore-7.3.0/lib64
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/libffi/3.2.1-GCCcore-7.3.0/lib
-O2 -ftree-vectorize -march=native -fno-math-errno -fPIC
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/include
build/temp.linux-x86_64-2.7/scipy/sparse/csgraph/_min_spanning_tree.o
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib
-Lbuild/temp.linux-x86_64-2.7 -lpython2.7 -o
build/lib.linux-x86_64-2.7/scipy/sparse/csgraph/_min_spanning_tree.so
-Wl,--version-script=build/temp.linux-x86_64-2.7/link-version-scipy.sparse.csgraph._min_spanning_tree.map
building 'scipy.sparse.csgraph._reordering' extension
compiling C sources
C compiler: gcc -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes
-O2 -ftree-vectorize -march=native -fno-math-errno -fPIC
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/include
-fPIC
compile options:
'-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/include/python2.7
-c'
gcc: scipy/sparse/csgraph/_reordering.c
In file included from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/ndarraytypes.h:1816:0,
from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/ndarrayobject.h:18,
from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/arrayobject.h:4,
from scipy/sparse/csgraph/_reordering.c:566:
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2:
warning: #warning "Using deprecated NumPy API, disable it by "
"#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^~~~~~~
scipy/sparse/csgraph/_reordering.c: In function
'__pyx_array_get_memview':
scipy/sparse/csgraph/_reordering.c:14462:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__pyx_t_2 =
__Pyx_PyBool_FromLong(__pyx_v_self->dtype_is_object); if
(unlikely(!__pyx_t_2)) __PYX_ERR(2, 227, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/csgraph/_reordering.c:14462:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
scipy/sparse/csgraph/_reordering.c: In function
'__pyx_memoryview_is_slice':
scipy/sparse/csgraph/_reordering.c:16712:9: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__pyx_t_7 =
__Pyx_PyBool_FromLong(__pyx_v_self->dtype_is_object); if
(unlikely(!__pyx_t_7)) __PYX_ERR(2, 430, __pyx_L4_error)
^~~~~~~~~
scipy/sparse/csgraph/_reordering.c:16712:9: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
scipy/sparse/csgraph/_reordering.c: In function
'__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_16is_c_contig':
scipy/sparse/csgraph/_reordering.c:19198:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__pyx_t_1 =
__Pyx_PyBool_FromLong(__pyx_memviewslice_is_contig((__pyx_v_mslice[0]),
'C', __pyx_v_self->view.ndim)); if (unlikely(!__pyx_t_1))
__PYX_ERR(2, 618, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/csgraph/_reordering.c:19198:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
scipy/sparse/csgraph/_reordering.c: In function
'__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_18is_f_contig':
scipy/sparse/csgraph/_reordering.c:19269:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__pyx_t_1 =
__Pyx_PyBool_FromLong(__pyx_memviewslice_is_contig((__pyx_v_mslice[0]),
'F', __pyx_v_self->view.ndim)); if (unlikely(!__pyx_t_1))
__PYX_ERR(2, 624, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/csgraph/_reordering.c:19269:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
scipy/sparse/csgraph/_reordering.c: In function '__pyx_memoryview_new':
scipy/sparse/csgraph/_reordering.c:19610:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__pyx_t_2 = __Pyx_PyBool_FromLong(__pyx_v_dtype_is_object); if
(unlikely(!__pyx_t_2)) __PYX_ERR(2, 653, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/csgraph/_reordering.c:19610:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
scipy/sparse/csgraph/_reordering.c: In function '_unellipsify':
scipy/sparse/csgraph/_reordering.c:20114:5: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__pyx_t_4 = __Pyx_PyBool_FromLong(__pyx_v_have_slices); if
(unlikely(!__pyx_t_4)) __PYX_ERR(2, 693, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/csgraph/_reordering.c:20114:5: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
scipy/sparse/csgraph/_reordering.c: In function
'__pyx_memoryview_fromslice':
scipy/sparse/csgraph/_reordering.c:22514:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__pyx_t_2 = __Pyx_PyBool_FromLong(__pyx_v_dtype_is_object); if
(unlikely(!__pyx_t_2)) __PYX_ERR(2, 1008, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/csgraph/_reordering.c:22514:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
scipy/sparse/csgraph/_reordering.c: In function '__Pyx_PyInt_EqObjC':
scipy/sparse/csgraph/_reordering.c:29199:9: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_TRUE;
^~~~~~~~~~~~~~
scipy/sparse/csgraph/_reordering.c:29206:13: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_TRUE;
^~~~~~~~~~~~~~
scipy/sparse/csgraph/_reordering.c:29208:13: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_FALSE;
^~~~~~~~~~~~~~~
scipy/sparse/csgraph/_reordering.c:29262:17: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
default: Py_RETURN_FALSE;
^~~~~~~
scipy/sparse/csgraph/_reordering.c:29267:17: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_TRUE;
^~~~~~~~~~~~~~
scipy/sparse/csgraph/_reordering.c:29269:17: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_FALSE;
^~~~~~~~~~~~~~~
scipy/sparse/csgraph/_reordering.c:29277:17: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_TRUE;
^~~~~~~~~~~~~~
scipy/sparse/csgraph/_reordering.c:29279:17: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_FALSE;
^~~~~~~~~~~~~~~
gcc -shared
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/GCCcore/7.3.0/lib64
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/GCCcore/7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/bzip2/1.0.6-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/zlib/1.2.11-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/libreadline/7.0-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/ncurses/6.1-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/SQLite/3.24.0-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/GMP/6.1.2-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/libffi/3.2.1-GCCcore-7.3.0/lib64
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/libffi/3.2.1-GCCcore-7.3.0/lib
-O2 -ftree-vectorize -march=native -fno-math-errno -fPIC
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/include
build/temp.linux-x86_64-2.7/scipy/sparse/csgraph/_reordering.o
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib
-Lbuild/temp.linux-x86_64-2.7 -lpython2.7 -o
build/lib.linux-x86_64-2.7/scipy/sparse/csgraph/_reordering.so
-Wl,--version-script=build/temp.linux-x86_64-2.7/link-version-scipy.sparse.csgraph._reordering.map
building 'scipy.sparse.csgraph._tools' extension
compiling C sources
C compiler: gcc -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes
-O2 -ftree-vectorize -march=native -fno-math-errno -fPIC
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/include
-fPIC
compile options:
'-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/include/python2.7
-c'
gcc: scipy/sparse/csgraph/_tools.c
In file included from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/ndarraytypes.h:1816:0,
from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/ndarrayobject.h:18,
from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/arrayobject.h:4,
from scipy/sparse/csgraph/_tools.c:566:
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2:
warning: #warning "Using deprecated NumPy API, disable it by "
"#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^~~~~~~
scipy/sparse/csgraph/_tools.c: In function
'__pyx_pf_5scipy_6sparse_7csgraph_6_tools_2csgraph_masked_from_dense':
scipy/sparse/csgraph/_tools.c:2899:7: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__Pyx_INCREF(Py_True);
^~~~~~~~~~~~
scipy/sparse/csgraph/_tools.c:2988:7: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__Pyx_INCREF(Py_True);
^~~~~~~~~~~~
scipy/sparse/csgraph/_tools.c: In function
'__pyx_pf_5scipy_6sparse_7csgraph_6_tools_12construct_dist_matrix':
scipy/sparse/csgraph/_tools.c:5944:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__pyx_t_3 = __Pyx_PyBool_FromLong((!__pyx_t_4)); if
(unlikely(!__pyx_t_3)) __PYX_ERR(0, 405, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/csgraph/_tools.c:5944:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
scipy/sparse/csgraph/_tools.c: In function '__Pyx_PyInt_EqObjC':
scipy/sparse/csgraph/_tools.c:11883:9: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_TRUE;
^~~~~~~~~~~~~~
scipy/sparse/csgraph/_tools.c:11890:13: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_TRUE;
^~~~~~~~~~~~~~
scipy/sparse/csgraph/_tools.c:11892:13: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_FALSE;
^~~~~~~~~~~~~~~
scipy/sparse/csgraph/_tools.c:11946:17: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
default: Py_RETURN_FALSE;
^~~~~~~
scipy/sparse/csgraph/_tools.c:11951:17: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_TRUE;
^~~~~~~~~~~~~~
scipy/sparse/csgraph/_tools.c:11953:17: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_FALSE;
^~~~~~~~~~~~~~~
scipy/sparse/csgraph/_tools.c:11961:17: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_TRUE;
^~~~~~~~~~~~~~
scipy/sparse/csgraph/_tools.c:11963:17: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_FALSE;
^~~~~~~~~~~~~~~
gcc -shared
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/GCCcore/7.3.0/lib64
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/GCCcore/7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/bzip2/1.0.6-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/zlib/1.2.11-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/libreadline/7.0-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/ncurses/6.1-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/SQLite/3.24.0-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/GMP/6.1.2-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/libffi/3.2.1-GCCcore-7.3.0/lib64
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/libffi/3.2.1-GCCcore-7.3.0/lib
-O2 -ftree-vectorize -march=native -fno-math-errno -fPIC
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/include
build/temp.linux-x86_64-2.7/scipy/sparse/csgraph/_tools.o
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib
-Lbuild/temp.linux-x86_64-2.7 -lpython2.7 -o
build/lib.linux-x86_64-2.7/scipy/sparse/csgraph/_tools.so
-Wl,--version-script=build/temp.linux-x86_64-2.7/link-version-scipy.sparse.csgraph._tools.map
building 'scipy.sparse._csparsetools' extension
compiling C sources
C compiler: gcc -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes
-O2 -ftree-vectorize -march=native -fno-math-errno -fPIC
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/include
-fPIC
compile options:
'-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/include/python2.7
-c'
gcc: scipy/sparse/_csparsetools.c
In file included from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/ndarraytypes.h:1816:0,
from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/ndarrayobject.h:18,
from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/arrayobject.h:4,
from scipy/sparse/_csparsetools.c:566:
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2:
warning: #warning "Using deprecated NumPy API, disable it by "
"#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^~~~~~~
scipy/sparse/_csparsetools.c: In function '__pyx_array_get_memview':
scipy/sparse/_csparsetools.c:18564:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__pyx_t_2 =
__Pyx_PyBool_FromLong(__pyx_v_self->dtype_is_object); if
(unlikely(!__pyx_t_2)) __PYX_ERR(2, 227, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/_csparsetools.c:18564:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
scipy/sparse/_csparsetools.c: In function '__pyx_memoryview_is_slice':
scipy/sparse/_csparsetools.c:20814:9: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__pyx_t_7 =
__Pyx_PyBool_FromLong(__pyx_v_self->dtype_is_object); if
(unlikely(!__pyx_t_7)) __PYX_ERR(2, 430, __pyx_L4_error)
^~~~~~~~~
scipy/sparse/_csparsetools.c:20814:9: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
scipy/sparse/_csparsetools.c: In function
'__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_16is_c_contig':
scipy/sparse/_csparsetools.c:23300:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__pyx_t_1 =
__Pyx_PyBool_FromLong(__pyx_memviewslice_is_contig((__pyx_v_mslice[0]),
'C', __pyx_v_self->view.ndim)); if (unlikely(!__pyx_t_1))
__PYX_ERR(2, 618, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/_csparsetools.c:23300:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
scipy/sparse/_csparsetools.c: In function
'__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_18is_f_contig':
scipy/sparse/_csparsetools.c:23371:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__pyx_t_1 =
__Pyx_PyBool_FromLong(__pyx_memviewslice_is_contig((__pyx_v_mslice[0]),
'F', __pyx_v_self->view.ndim)); if (unlikely(!__pyx_t_1))
__PYX_ERR(2, 624, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/_csparsetools.c:23371:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
scipy/sparse/_csparsetools.c: In function '__pyx_memoryview_new':
scipy/sparse/_csparsetools.c:23712:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__pyx_t_2 = __Pyx_PyBool_FromLong(__pyx_v_dtype_is_object); if
(unlikely(!__pyx_t_2)) __PYX_ERR(2, 653, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/_csparsetools.c:23712:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
scipy/sparse/_csparsetools.c: In function '_unellipsify':
scipy/sparse/_csparsetools.c:24216:5: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__pyx_t_4 = __Pyx_PyBool_FromLong(__pyx_v_have_slices); if
(unlikely(!__pyx_t_4)) __PYX_ERR(2, 693, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/_csparsetools.c:24216:5: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
scipy/sparse/_csparsetools.c: In function '__pyx_memoryview_fromslice':
scipy/sparse/_csparsetools.c:26616:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
__pyx_t_2 = __Pyx_PyBool_FromLong(__pyx_v_dtype_is_object); if
(unlikely(!__pyx_t_2)) __PYX_ERR(2, 1008, __pyx_L1_error)
^~~~~~~~~
scipy/sparse/_csparsetools.c:26616:3: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
scipy/sparse/_csparsetools.c: In function '__Pyx_PyInt_EqObjC':
scipy/sparse/_csparsetools.c:35323:9: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_TRUE;
^~~~~~~~~~~~~~
scipy/sparse/_csparsetools.c:35330:13: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_TRUE;
^~~~~~~~~~~~~~
scipy/sparse/_csparsetools.c:35332:13: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_FALSE;
^~~~~~~~~~~~~~~
scipy/sparse/_csparsetools.c:35386:17: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
default: Py_RETURN_FALSE;
^~~~~~~
scipy/sparse/_csparsetools.c:35391:17: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_TRUE;
^~~~~~~~~~~~~~
scipy/sparse/_csparsetools.c:35393:17: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_FALSE;
^~~~~~~~~~~~~~~
scipy/sparse/_csparsetools.c:35401:17: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_TRUE;
^~~~~~~~~~~~~~
scipy/sparse/_csparsetools.c:35403:17: warning: dereferencing
type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
Py_RETURN_FALSE;
^~~~~~~~~~~~~~~
gcc -shared
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/GCCcore/7.3.0/lib64
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/GCCcore/7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/bzip2/1.0.6-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/zlib/1.2.11-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/libreadline/7.0-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/ncurses/6.1-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/SQLite/3.24.0-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/GMP/6.1.2-GCCcore-7.3.0/lib
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/libffi/3.2.1-GCCcore-7.3.0/lib64
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/libffi/3.2.1-GCCcore-7.3.0/lib
-O2 -ftree-vectorize -march=native -fno-math-errno -fPIC
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/include
build/temp.linux-x86_64-2.7/scipy/sparse/_csparsetools.o
-L/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib
-Lbuild/temp.linux-x86_64-2.7 -lpython2.7 -o
build/lib.linux-x86_64-2.7/scipy/sparse/_csparsetools.so
-Wl,--version-script=build/temp.linux-x86_64-2.7/link-version-scipy.sparse._csparsetools.map
building 'scipy.sparse._sparsetools' extension
compiling C++ sources
C compiler: g++ -DNDEBUG -g -fwrapv -O3 -Wall -O2 -ftree-vectorize
-march=native -fno-math-errno -fPIC
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/include
-fPIC
creating build/temp.linux-x86_64-2.7/scipy/sparse/sparsetools
compile options: '-D__STDC_FORMAT_MACROS=1
-Iscipy/sparse/sparsetools
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/include/python2.7
-c'
g++: scipy/sparse/sparsetools/sparsetools.cxx
In file included from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/ndarraytypes.h:1816:0,
from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/ndarrayobject.h:18,
from scipy/sparse/sparsetools/sparsetools.cxx:34:
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2:
warning: #warning "Using deprecated NumPy API, disable it by "
"#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^~~~~~~
g++: scipy/sparse/sparsetools/csr.cxx
In file included from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/ndarraytypes.h:1816:0,
from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/ndarrayobject.h:18,
from scipy/sparse/sparsetools/sparsetools.h:5,
from scipy/sparse/sparsetools/csr.cxx:4:
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2:
warning: #warning "Using deprecated NumPy API, disable it by "
"#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^~~~~~~
g++: scipy/sparse/sparsetools/bsr.cxx
In file included from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/ndarraytypes.h:1816:0,
from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/ndarrayobject.h:18,
from scipy/sparse/sparsetools/sparsetools.h:5,
from scipy/sparse/sparsetools/bsr.cxx:4:
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2:
warning: #warning "Using deprecated NumPy API, disable it by "
"#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^~~~~~~
g++: internal compiler error: Killed (program cc1plus)
Please submit a full bug report,
with preprocessed source if appropriate.
See <https://gcc.gnu.org/bugs/> for instructions.
In file included from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/ndarraytypes.h:1816:0,
from
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/ndarrayobject.h:18,
from scipy/sparse/sparsetools/sparsetools.h:5,
from scipy/sparse/sparsetools/bsr.cxx:4:
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2:
warning: #warning "Using deprecated NumPy API, disable it by "
"#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^~~~~~~
g++: internal compiler error: Killed (program cc1plus)
Please submit a full bug report,
with preprocessed source if appropriate.
See <https://gcc.gnu.org/bugs/> for instructions.
error: Command "g++ -DNDEBUG -g -fwrapv -O3 -Wall -O2
-ftree-vectorize -march=native -fno-math-errno -fPIC
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/OpenBLAS/0.3.1-GCC-7.3.0-2.30/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/FFTW/3.3.8-gompi-2018b/include
-fPIC -D__STDC_FORMAT_MACROS=1 -Iscipy/sparse/sparsetools
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/lib/python2.7/site-packages/numpy-1.14.5-py2.7-linux-x86_64.egg/numpy/core/include
-I/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/include/python2.7
-c scipy/sparse/sparsetools/bsr.cxx -o
build/temp.linux-x86_64-2.7/scipy/sparse/sparsetools/bsr.o -MMD -MF
build/temp.linux-x86_64-2.7/scipy/sparse/sparsetools/bsr.o.d" failed
with exit status 4
(at
easybuild/software/EasyBuild/3.9.0/lib/python2.7/site-packages/easybuild_framework-3.9.0-py2.7.egg/easybuild/tools/run.py:501
in parse_cmd_output)
== 2019-04-26 23:58:44,463 easyblock.py:3010 WARNING build failed
(first 300 chars): cmd " unset LDFLAGS &&
/sNow/easybuild/centos/7.3.1611/Broadwell/software/Python/2.7.15-foss-2018b/bin/python
setup.py build --fcompiler=gnu95 " exited with exit code 1 and output:
lapack_opt_info:
lapack_mkl_info:
customize UnixCCompiler
libraries mkl_rt not found in ['/sNow/easybuild/centos/7
Can anyone please help me with error.
With Regards
Sona
