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Kernel dies running tutorial example
See original GitHub issueI am running the tutorial at https://xesmf.readthedocs.io/en/latest/Curvilinear_grid.html and the kernel dies. I updated all packages and still have issues. Does anybody have any idea where the incompatibility is coming from? here is the environment I am running in:
name: pangeo
channels:
- conda-forge
- defaults
dependencies:
- asn1crypto=0.24.0=py36_3
- bleach=2.1.3=py_0
- bokeh=0.13.0=py36_0
- bottleneck=1.2.1=py36h7eb728f_1
- cffi=1.11.5=py36h5e8e0c9_1
- cftime=1.0.1=py36h7eb728f_0
- chardet=3.0.4=py36_3
- click=6.7=py_1
- cloudpickle=0.5.2=py_0
- cryptography=2.3.1=py36hdffb7b8_0
- cryptography-vectors=2.3.1=py36_0
- curl=7.59.0=0
- cycler=0.10.0=py36_0
- cytoolz=0.9.0.1=py36_0
- dask=0.17.1=py_2
- dask-core=0.17.1=py_0
- dask-jobqueue=0.1.1=py_0
- decorator=4.2.1=py36_0
- distributed=1.21.3=py36_0
- docrep=0.2.3=py36_0
- entrypoints=0.2.3=py36_1
- esmf=7.1.0r=1
- esmpy=7.1.0r=py36_1
- expat=2.2.5=0
- fontconfig=2.13.1=h65d0f4c_0
- freetype=2.9.1=h6debe1e_4
- geos=3.6.2=hfc679d8_3
- gettext=0.19.8.1=0
- gmp=6.1.2=0
- h5netcdf=0.6.2=py_0
- h5py=2.8.0=py36h470a237_0
- hdf4=4.2.13=0
- hdf5=1.10.1=2
- heapdict=1.0.0=py36_0
- html5lib=1.0.1=py_0
- icu=58.2=0
- idna=2.7=py36_2
- ipykernel=4.8.2=py36_0
- ipython=6.2.1=py36_1
- ipython_genutils=0.2.0=py36_0
- jedi=0.11.1=py36_0
- jinja2=2.10=py36_0
- jpeg=9c=h470a237_1
- jsonschema=2.6.0=py36_1
- jupyter_client=5.2.3=py36_0
- jupyter_core=4.4.0=py_0
- jupyterlab=0.31.12=py36_1
- jupyterlab_launcher=0.10.5=py36_0
- kiwisolver=1.0.1=py36_1
- krb5=1.14.2=0
- libedit=3.1.20170329=0
- libffi=3.2.1=3
- libiconv=1.15=0
- libnetcdf=4.5.0=3
- libpng=1.6.34=0
- libsodium=1.0.15=1
- libssh2=1.8.0=2
- libtiff=4.0.9=he6b73bb_1
- libuuid=2.32.1=h470a237_2
- libxcb=1.13=0
- libxml2=2.9.8=0
- libxslt=1.1.32=h88dbc4e_2
- locket=0.2.0=py36_1
- lxml=4.2.4=py36hc9114bc_0
- markupsafe=1.0=py36_0
- mistune=0.8.3=py_0
- mpi=1.0=mpich
- mpi4py=3.0.0=py36_0
- mpich=3.2.1=0
- msgpack-python=0.5.5=py36_0
- nbconvert=5.3.1=py_1
- nbformat=4.4.0=py36_0
- nbserverproxy=0.8.3=py36_0
- ncurses=5.9=10
- netcdf-fortran=4.4.4=7
- netcdf4=1.4.0=py36_0
- notebook=5.4.1=py36_0
- olefile=0.45.1=py_1
- openblas=0.2.20=8
- owslib=0.16.0=py_1
- packaging=17.1=py_0
- pandas=0.23.4=py36hf8a1672_0
- pandoc=2.1.3=0
- pandocfilters=1.4.1=py36_0
- parso=0.1.1=py_0
- partd=0.3.8=py36_0
- pexpect=4.4.0=py36_0
- pickleshare=0.7.4=py36_0
- pillow=5.2.0=py36hc736899_1
- pip=9.0.2=py36_0
- proj4=4.9.3=h470a237_8
- prompt_toolkit=1.0.15=py36_0
- psutil=5.4.3=py36_0
- ptyprocess=0.5.2=py36_0
- pycparser=2.18=py_1
- pyepsg=0.3.2=py_1
- pygments=2.2.0=py36_0
- pyopenssl=18.0.0=py36_0
- pyparsing=2.2.0=py36_0
- pyproj=1.9.5.1=py36h508ed2a_3
- pyshp=1.2.12=py_0
- pysocks=1.6.8=py36_2
- python-dateutil=2.7.0=py_0
- pytz=2018.3=py_0
- pyyaml=3.12=py36_1
- pyzmq=17.0.0=py36_3
- readline=7.0=0
- requests=2.19.1=py36_1
- send2trash=1.5.0=py_0
- setuptools=39.0.1=py36_0
- shapely=1.6.4=py36h164cb2d_1
- simplegeneric=0.8.1=py36_0
- six=1.11.0=py36_1
- sortedcontainers=1.5.9=py36_0
- tblib=1.3.2=py36_0
- terminado=0.8.1=py36_0
- testpath=0.3.1=py36_0
- tk=8.6.8=ha92aebf_0
- toolz=0.9.0=py_0
- tornado=5.0.1=py36_1
- traitlets=4.3.2=py36_0
- urllib3=1.23=py36_1
- wcwidth=0.1.7=py36_0
- webencodings=0.5=py36_0
- wheel=0.30.0=py36_2
- xarray=0.10.8=py36_0
- xorg-libxau=1.0.8=3
- xorg-libxdmcp=1.1.2=3
- xz=5.2.4=h470a237_1
- yaml=0.1.7=0
- zeromq=4.2.3=2
- zict=0.1.3=py_0
- zlib=1.2.11=0
- blas=1.0=mkl
- ca-certificates=2018.03.07=0
- cartopy=0.16.0=py36hf32a85a_0
- certifi=2018.8.24=py36_1
- dbus=1.13.2=h714fa37_1
- glib=2.56.1=h000015b_0
- gst-plugins-base=1.14.0=hbbd80ab_1
- gstreamer=1.14.0=hb453b48_1
- intel-openmp=2018.0.0=hc7b2577_8
- libgcc=7.2.0=h69d50b8_2
- libgcc-ng=7.2.0=hdf63c60_3
- libgfortran=3.0.0=1
- libgfortran-ng=7.2.0=hdf63c60_3
- libopenblas=0.2.20=h9ac9557_7
- libstdcxx-ng=7.2.0=hdf63c60_3
- matplotlib=2.2.3=py36hb69df0a_0
- mkl=2019.0=117
- mkl_fft=1.0.4=py36h4414c95_1
- mkl_random=1.0.1=py36h4414c95_1
- numpy=1.15.0=py36h1b885b7_0
- numpy-base=1.15.0=py36h3dfced4_0
- openssl=1.0.2p=h14c3975_0
- pcre=8.42=h439df22_0
- pyqt=5.9.2=py36h22d08a2_0
- python=3.6.3=h1284df2_4
- qt=5.9.6=h52aff34_0
- scikit-learn=0.19.1=py36h7aa7ec6_0
- scipy=1.1.0=py36hc49cb51_0
- sip=4.19.8=py36hf484d3e_0
- sqlite=3.24.0=h84994c4_0
prefix: /glade/u/home/gloege/miniconda3/envs/pangeo
pip packages
Package Version
-------------------- -----------
asn1crypto 0.24.0
bleach 2.1.3
bokeh 0.13.0
Bottleneck 1.2.1
Cartopy 0.16.0
certifi 2018.8.24
cffi 1.11.5
cftime 1.0.1
chardet 3.0.4
click 6.7
cloudpickle 0.5.2
cryptography 2.3.1
cryptography-vectors 2.3.1
cycler 0.10.0
Cython 0.28.3
cytoolz 0.9.0.1
dask 0.17.1
dask-jobqueue 0.1.1
decorator 4.2.1
distributed 1.21.3
docrep 0.2.3
entrypoints 0.2.3
ESMPy 7.1.0.dev0
h5netcdf 0.6.2
h5py 2.8.0
heapdict 1.0.0
html5lib 1.0.1
idna 2.7
ipykernel 4.8.2
ipython 6.2.1
ipython-genutils 0.2.0
jedi 0.11.1
Jinja2 2.10
jsonschema 2.6.0
jupyter-client 5.2.3
jupyter-core 4.4.0
jupyterlab 0.31.12
jupyterlab-launcher 0.10.5
kiwisolver 1.0.1
locket 0.2.0
lxml 4.2.4
MarkupSafe 1.0
matplotlib 2.2.3
mistune 0.8.3
mkl-fft 1.0.4
mkl-random 1.0.1
mpi4py 3.0.0
msgpack-python 0.5.5
nbconvert 5.3.1
nbformat 4.4.0
nbserverproxy 0.8.3
netCDF4 1.4.0
notebook 5.4.1
numpy 1.15.0
olefile 0.45.1
OWSLib 0.16.0
packaging 17.1
pandas 0.23.4
pandocfilters 1.4.1
parso 0.1.1
partd 0.3.8
pexpect 4.4.0
pickleshare 0.7.4
Pillow 5.2.0
pip 18.0
prompt-toolkit 1.0.15
psutil 5.4.3
ptyprocess 0.5.2
pycparser 2.18
pyepsg 0.3.2
Pygments 2.2.0
pyOpenSSL 18.0.0
pyparsing 2.2.0
pyproj 1.9.5.1
pyshp 1.2.12
PySocks 1.6.8
python-dateutil 2.7.0
pytz 2018.3
PyYAML 3.12
pyzmq 17.0.0
requests 2.19.1
scikit-learn 0.19.1
scipy 1.1.0
Send2Trash 1.5.0
setuptools 39.0.1
Shapely 1.6.4.post1
simplegeneric 0.8.1
six 1.11.0
sortedcontainers 1.5.9
tblib 1.3.2
terminado 0.8.1
testpath 0.3.1
toolz 0.9.0
tornado 5.0.1
traitlets 4.3.2
urllib3 1.23
wcwidth 0.1.7
webencodings 0.5
wheel 0.30.0
xarray 0.10.8
xesmf 0.1.1
zict 0.1.3
Issue Analytics
- State:
- Created 5 years ago
- Comments:21 (9 by maintainers)
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@lgloege update, this works:
Im having the same issues with a mac. so far i have tried v= 8.1.0 mpi and openmpi without success