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I've managed to end up with an incompatible environment. I'm guessing that some package is missing some restriction on the version of numpy it works with.
$ python -c 'import scipy.special'
Traceback (most recent call last):
File "<string>", line 1, in <module>
File "/opt/anaconda/envs/scipy36-intel/lib/python3.6/site-packages/scipy/__init__.py", line 62, in <module>
from numpy import show_config as show_numpy_config
File "/opt/anaconda/envs/scipy36-intel/lib/python3.6/site-packages/numpy/__init__.py", line 180, in <module>
from . import fft
File "/opt/anaconda/envs/scipy36-intel/lib/python3.6/site-packages/numpy/fft/__init__.py", line 14, in <module>
import mkl_fft._numpy_fft as _nfft
File "/opt/anaconda/envs/scipy36-intel/lib/python3.6/site-packages/mkl_fft/__init__.py", line 27, in <module>
from ._pydfti import (fft, ifft, fft2, ifft2, fftn, ifftn, rfft, irfft,
File "__init__.pxd", line 918, in init mkl_fft._pydfti
ValueError: numpy.ufunc size changed, may indicate binary incompatibility. Expected 216 from C header, got 192 from PyObject
# packages in environment at /opt/anaconda/envs/scipy36-intel:
#
# Name Version Build Channel
_libgcc_mutex 0.1 main main
absl-py 0.13.0 py36h06a4308_0 main
alembic 1.6.4 pyhd3eb1b0_0 main
appdirs 1.4.4 py_0 main
asn1crypto 0.24.0 py36_3 intel
astor 0.8.1 py36h06a4308_0 main
astropy 3.2.3 py36h7b6447c_0 main
async_generator 1.10 py36h28b3542_0 main
atomicwrites 1.4.0 py_0 main
attrs 21.2.0 pyhd3eb1b0_0 main
backcall 0.1.0 py36_2 intel
backports 1.0 py36_9 intel
basemap 1.2.0 py36h705c2d8_0 main
beautifulsoup4 4.9.3 pyha847dfd_0 main
black 19.10b0 py_0 main
blas 1.0 openblas main
bleach 2.1.3 py36_2 intel
bzip2 1.0.8 hb9a14ef_8 intel
c-ares 1.17.1 hff3d592_1 intel
certifi 2018.1.18 py36_2 intel
cffi 1.11.5 py36_3 intel
chardet 3.0.4 py36_3 intel
click 8.0.0 pyhd3eb1b0_0 main
common_cmplr_lib_rt 2021.3.0 intel_3350 intel
common_cmplr_lic_rt 2021.3.0 intel_3350 intel
configurable-http-proxy 4.0.1 node6_0 main
contextlib2 0.6.0.post1 py_0 main
cryptography 2.3 py36_2 intel
curl 7.61.0 h84994c4_0 main
cycler 0.10.0 py36_7 intel
daal 2018.0.3.20180405 0 intel
decorator 4.3.0 py36_3 intel
dpcpp-cpp-rt 2021.3.0 intel_3350 intel
dpcpp_cpp_rt 2021.3.0 intel_3350 intel
drms 0.5.7 py_0 conda-forge
entrypoints 0.2.3 py36_2 intel
freetype 2.9 4 intel
gast 0.5.1 pyhd3eb1b0_0 main
geos 3.6.2 heeff764_2 main
get_terminal_size 1.0.0 py36_7 intel
ghost.py 0.2.3 py36_0 conda-forge
grpcio 1.14.1 py36h9ba97e2_0 main
h5py 2.7.1 np114py36_intel_0 [intel] intel
hdf4 4.2.13 h3ca952b_2 main
hdf5 1.10.1 intel_0 [intel] intel
html5lib 1.0.1 py36_4 intel
hypothesis 6.14.1 pyhd3eb1b0_0 main
icc_rt 2021.3.0 intel_3350 intel
icu 59.1 intel_0 [intel] intel
idna 2.6 py36_3 intel
importlib_metadata 1.5.0 py36_0 main
importlib_resources 5.2.0 pyhd3eb1b0_1 main
intel-cmplr-lib-rt 2021.3.0 intel_3350 intel
intel-cmplr-lic-rt 2021.3.0 intel_3350 intel
intel-opencl-rt 2021.3.0 intel_3350 intel
intel-openmp 2021.3.0 intel_3350 intel
intelpython 2021.3.0 7 intel
ipykernel 4.6.1 py36_2 intel
ipython 6.3.1 py36_3 intel
ipython_genutils 0.2.0 py36_2 intel
ipywidgets 7.0.0 py36_2 intel
jedi 0.12.0 py36_2 intel
jinja2 2.9.6 py36_2 intel
jpeg 9d h36c2ea0_0 intel
jsonschema 2.6.0 py36_2 intel
jupyter 1.0.0 py36_7 intel
jupyter_client 5.1.0 py36_5 intel
jupyter_console 5.1.0 py36_2 intel
jupyter_core 4.4.0 py36_6 intel
keras-applications 1.0.8 py_1 main
keras-preprocessing 1.1.2 pyhd3eb1b0_0 main
kiwisolver 1.0.1 py36_2 intel
libblas 3.8.0 17_openblas conda-forge
libcblas 3.8.0 17_openblas conda-forge
libcurl 7.61.0 h1ad7b7a_0 main
libedit 3.1.20210216 h27cfd23_1 main
libffi 3.3 13 intel
libgcc 7.2.0 h69d50b8_2 main
libgcc-ng 9.3.0 hdf63c60_101 intel
libgfortran 3.0.0 1 conda-forge
libgfortran-ng 7.5.0 ha8ba4b0_17 main
libgfortran4 7.5.0 ha8ba4b0_17 main
liblapack 3.8.0 17_openblas conda-forge
libnetcdf 4.5.0 hc9a163a_7 main
libopenblas 0.3.10 h5a2b251_0 main
libpng 1.6.37 7 intel
libprotobuf 3.6.0 hdbcaa40_0 main
libsodium 1.0.16 3 intel
libssh2 1.8.0 h9cfc8f7_4 main
libstdcxx-ng 9.3.0 hdf63c60_101 intel
libtiff 4.0.9 intel_2 [intel] intel
libxml2 2.9.12 h7681594_0 intel
llvmlite 0.24.0 py36_0 intel
mako 1.1.4 pyhd3eb1b0_0 main
markdown 3.1.1 py36_0 main
markupsafe 1.0 py36_3 intel
matplotlib 2.2.2 np114py36_4 intel
metis 5.1.0 hf484d3e_4 main
metpy 0.9.2 py36_1001 conda-forge
mistune 0.8.3 py36_2 intel
mkl 2021.3.0 intel_520 intel
mkl-service 2.1.0 py36_2 intel
mkl_fft 1.0.14 py36ha68da19_1 intel
mkl_random 1.0.4 py36ha68da19_2 intel
mock 2.0.0 py36_intel_4 [intel] intel
more-itertools 8.8.0 pyhd3eb1b0_0 main
mpmath 1.0.0 py36_2 intel
mypy_extensions 0.4.3 py36_0 main
mysql-connector-c 6.1.11 hf4847fb_0 main
mysql-connector-python 8.0.18 py36h9c95fcb_1 main
nbbrowserpdf 0.2.0 py36_0 conda-forge
nbconvert 5.2.1 py36_2 intel
nbformat 4.4.0 py36_2 intel
ncurses 6.2 he6710b0_1 main
netcdf4 1.3.1 py36h73d701b_2 main
networkx 2.0 py36_intel_0 [intel] intel
nodejs 6.11.2 h3db8ef7_0 main
nomkl 3.0 0 main
notebook 5.2.2 py36_1 intel
numba 0.39.0 np114py36_0 intel
numexpr 2.6.5 np114py36_2 intel
numpy 1.14.3 py36_5 intel
numpy-base 1.17.0 py36_13 intel
oct2py 5.2.0 pypi_0 pypi
octave-kernel 0.32.0 pypi_0 pypi
olefile 0.44 py36_intel_0 [intel] intel
openblas 0.3.10 0 main
openblas-devel 0.3.10 0 main
opencl_rt 2021.3.0 intel_3350 intel
openjpeg 2.3.0 h05c96fa_1 main
openssl 1.0.2s 0 intel
packaging 21.0 pyhd3eb1b0_0 main
pamela 1.0.0 py_0 main
pandas 0.23.0 np114py36_1 intel
pandocfilters 1.4.1 py36_2 intel
parso 0.2.0 py36_2 intel
path.py 11.0.1 py36_2 intel
pathspec 0.7.0 py_0 main
patsy 0.5.1 py36_0 main
pbr 1.10.0 py36_intel_4 [intel] intel
pexpect 4.2.1 py36_4 intel
pickleshare 0.7.4 py36_3 intel
pillow 5.1.0 py36_intel_2 [intel] intel
pint 0.17 pyhd8ed1ab_0 conda-forge
pip 19.1.1 py36_0 intel
pluggy 0.13.1 py36h06a4308_0 main
pooch 0.2.1 py36_1000 conda-forge
portpicker 1.1.1 py36_0 intel
proj4 5.2.0 he6710b0_1 main
prometheus_client 0.11.0 pyhd3eb1b0_0 main
prompt_toolkit 1.0.15 py36_2 intel
protobuf 3.5.2 py36_intel_0 [intel] intel
psutil 5.8.0 py36h27cfd23_1 main
ptyprocess 0.5.2 py36_2 intel
py 1.10.0 pyhd3eb1b0_0 main
pycparser 2.18 py36_2 intel
pycurl 7.43.0.2 py36hb7f436b_0 main
pydaal 2018.0.3.20180405 np114py36_intel_0 [intel] intel
pyepsg 0.4.0 py36_0 main
pygments 2.2.0 py36_5 intel
pymp-pypi 0.4.3 pypi_0 pypi
pyodbc 4.0.31 py36h295c915_0 main
pyopenssl 17.5.0 py36_2 intel
pyparsing 2.2.0 py36_2 intel
pypdf2 1.26.0 py36_1 conda-forge
pyproj 1.9.6 py36h14380d9_0 main
pyshp 2.1.3 pyhd3eb1b0_0 main
pysocks 1.6.7 py36_1 intel
pytest 5.4.3 py36h06a4308_0 main
pytest-arraydiff 0.3 py36h39e3cac_0 main
pytest-astropy 0.8.0 pyhd3eb1b0_0 main
pytest-astropy-header 0.1.2 pyhd3eb1b0_0 main
pytest-doctestplus 0.9.0 pyhd3eb1b0_0 main
pytest-openfiles 0.5.0 pyhd3eb1b0_0 main
pytest-remotedata 0.3.2 py36_0 main
python 3.6.3 intel_12 [intel] intel
python-dateutil 2.8.0 py36_0 intel
python-editor 1.0.4 py_0 main
python-oauth2 1.1.1 py_0 main
pytz 2019.1 py36_0 intel
pywavelets 0.5.2 np114py36_intel_3 [intel] intel
pyyaml 5.1.1 py36_0 intel
pyzmq 16.0.2 py36_6 intel
regex 2021.7.6 py36h7f8727e_0 main
requests 2.20.1 py36_1 intel
scikit-image 0.13.1 np114py36_intel_3 [intel] intel
scikit-learn 0.19.1 np114py36_intel_29 [intel] intel
scikit-umfpack 0.3.2 py36h8b7e671_1001 conda-forge
scipy 1.1.0 np114py36_6 intel
seaborn 0.11.1 pyhd3eb1b0_0 main
setuptools 41.0.1 py36_0 intel
shapely 1.6.4 py36h7ef4460_0 main
simplegeneric 0.8.1 py36_7 intel
six 1.12.0 py36_0 intel
sortedcontainers 2.4.0 pyhd3eb1b0_0 main
soupsieve 2.2.1 pyhd3eb1b0_0 main
sqlalchemy 1.4.4 py36h27cfd23_0 main
sqlite 3.23.1 1 intel
statsmodels 0.10.1 py36hdd07704_0 main
suds-jurko 0.6 py36h06a4308_3 main
suitesparse 5.2.0 h2ffa06c_0 main
sunpy 0.7.7 py36_1 conda-forge
sympy 1.3 py36_1 intel
tbb 2021.3.0 intel_511 intel
tbb4py 2021.3.0 py36_intel_511 intel
tcl 8.6.4 24 intel
tensorboard 1.12.2 py36he6710b0_0 main
tensorflow 1.3.1 np114py36_5 intel
tensorflow-base 2.3.0 0 intel
tensorflow-estimator 2.3.0 pyheb71bc4_0 main
termcolor 1.1.0 py36h06a4308_1 main
terminado 0.8.1 py36_2 intel
testpath 0.3.1 py36_2 intel
tk 8.6.4 29 intel
toml 0.10.2 pyhd3eb1b0_0 main
tornado 4.5.2 py36_5 intel
traitlets 4.3.2 py36_3 intel
typed-ast 1.4.3 py36h7f8727e_1 main
typing_extensions 3.7.4.3 pyha847dfd_0 intel
unixodbc 2.3.9 h7b6447c_0 main
urllib3 1.24.1 py36_2 intel
wcwidth 0.1.7 py36_6 intel
weakref 1.0.post1 py36_0 intel
webencodings 0.5.1 py36_0 intel
werkzeug 0.14.1 py36_0 intel
wheel 0.31.0 py36_3 intel
widgetsnbextension 3.2.0 py36_1 intel
xarray 0.13.0 py_0 main
xz 5.2.5 h74280d8_2 intel
yaml 0.1.7 7 intel
zeromq 4.2.3 2 intel
zipp 3.5.0 pyhd3eb1b0_0 main
zlib 1.2.11.1 h047b5d8_3 intel
1 Solution
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Hi,
You can uninstall the numpy and reinstall the same. This helps to resolve the version issue. Same for other packages also.
If you have any further issue, please let us know.
Thanks.
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8 Replies
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I'm guessing that numpy and numpy-base really need to be at the same version, but there doesn't seem to be any requirement on that in the packages, at least in the numpy-1.14 packages which predate numpy-base.
Looks like it's the h5py package that is limiting me to numpy-1.14*.
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pydaal also appears to require numpy-1.14*
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Hi,
Thanks for reaching out to us.
The version changes are due to the installation of too many packages in your environment. Also we could see that the some of the packages are outdated.
We suggest you to either install packages in a new environment or to install Intel® oneAPI AI Analytics Toolkit.
To insatll Intel® oneAPI AI Analytics Toolkit using conda, please refer the below link:
If you have any further issue, please let us know.
Thanks.
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With the morass of packages that compromise the full anaconda universe, I can appreciate you wanting to limit use to specific, well defined cases. But I think that side steps issues within the intel channel - namely the ability to install incompatible packages like numpy-1.14.3 and numpy-base-1.17.0 or tensorflow 1.3.1 and tensorflow-base 2.3.0 that really should be addressed.
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Hi,
You can uninstall the numpy and reinstall the same. This helps to resolve the version issue. Same for other packages also.
If you have any further issue, please let us know.
Thanks.
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I think there are still issues with being able to install incompatible packages, but I'm not able to easily reproduce at the moment. Reinstalling has worked for now.
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Hi,
Could you please give us an update? Has the solution provided helped?
Thanks.
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Hi,
Thanks for accepting our solution. If you need any additional information, please post a new question as this thread will no longer be monitored by Intel.
Thanks
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