Hello everyone,
I used this commands:
conda create -n fenicsx
conda activate fenicsx
conda install -c conda-forge fenics-dolfinx mpich pyvista
Here is the full error:init .py”, line 30, in
Can you help me solve this?
Thank you in advance for your help!
minrk
November 4, 2024, 8:50pm
2
I’ll have a look. Seems like there might be something wrong with the slepc build.
Can you share the output of conda env export?
1 Like
Thank you very much for the answer.
Here is the output:
(fenicsx) rogalski@mbpdenirogalski ~ % conda env export
name: fenicsx
channels:
- conda-forge
- https://repo.anaconda.com/pkgs/main
- https://repo.anaconda.com/pkgs/r
dependencies:
- aiohappyeyeballs=2.4.3=pyhd8ed1ab_0
- aiohttp=3.10.10=py313h9c6a887_0
- aiosignal=1.3.1=pyhd8ed1ab_0
- aom=3.9.1=h7bae524_0
- attrs=24.2.0=pyh71513ae_0
- blosc=1.21.6=h5499902_0
- brotli=1.1.0=hd74edd7_2
- brotli-bin=1.1.0=hd74edd7_2
- brotli-python=1.1.0=py313h3579c5c_2
- bzip2=1.0.8=h99b78c6_7
- c-ares=1.34.2=h7ab814d_0
- c-blosc2=2.15.1=h5063078_0
- ca-certificates=2024.8.30=hf0a4a13_0
- cairo=1.18.0=hb4a6bf7_3
- cctools_osx-arm64=1010.6=hfaac078_1
- certifi=2024.8.30=pyhd8ed1ab_0
- cffi=1.17.1=py313hc845a76_0
- charset-normalizer=3.4.0=pyhd8ed1ab_0
- clang=18.1.8=default_h675cc0c_5
- clang-18=18.1.8=default_h5c12605_5
- clang_impl_osx-arm64=18.1.8=h2ae9ea5_21
- clang_osx-arm64=18.1.8=h54d7cd3_21
- clangxx=18.1.8=default_h675cc0c_5
- compiler-rt=18.1.8=h856b3c1_1
- compiler-rt_osx-arm64=18.1.8=h832e737_1
- contourpy=1.3.0=py313hc846e5e_2
- cycler=0.12.1=pyhd8ed1ab_0
- cyrus-sasl=2.1.27=h60b93bd_7
- dav1d=1.2.1=hb547adb_0
- double-conversion=3.3.0=h13dd4ca_0
- eigen=3.4.0=h1995070_0
- expat=2.6.3=hf9b8971_0
- fenics-basix=0.9.0=py313hd7981f8_2
- fenics-basix-nanobind-abi=0.2.1.18=h9b63b7c_2
- fenics-dolfinx=0.9.0=py313hb8db8a6_105
- fenics-ffcx=0.9.0=pyh2e48890_0
- fenics-libbasix=0.9.0=hf7ae0cd_2
- fenics-libdolfinx=0.9.0=ha5ec493_105
- fenics-ufcx=0.9.0=hb7f7608_0
- fenics-ufl=2024.2.0=pyhd8ed1ab_0
- ffmpeg=7.1.0=gpl_hd730352_103
- fftw=3.3.10=mpi_mpich_hd148bab_10
- fmt=11.0.2=h420ef59_0
- font-ttf-dejavu-sans-mono=2.37=hab24e00_0
- font-ttf-inconsolata=3.000=h77eed37_0
- font-ttf-source-code-pro=2.038=h77eed37_0
- font-ttf-ubuntu=0.83=h77eed37_3
- fontconfig=2.15.0=h1383a14_1
- fonts-conda-ecosystem=1=0
- fonts-conda-forge=1=0
- fonttools=4.54.1=py313heb2b014_1
- freetype=2.12.1=hadb7bae_2
- fribidi=1.0.10=h27ca646_0
- frozenlist=1.5.0=py313h63a2874_0
- gdk-pixbuf=2.42.12=h7ddc832_0
- gl2ps=1.4.2=hc97c1ff_1
- glew=2.1.0=h9f76cd9_2
- gmp=6.3.0=h7bae524_2
- graphite2=1.3.13=hebf3989_1003
- h2=4.1.0=pyhd8ed1ab_0
- harfbuzz=9.0.0=h997cde5_1
- hdf4=4.2.15=h2ee6834_7
- hdf5=1.14.4=mpi_mpich_h37ba8a5_1
- hpack=4.0.0=pyh9f0ad1d_0
- hyperframe=6.0.1=pyhd8ed1ab_0
- hypre=2.32.0=mpi_mpich_h189fe77_1
- icu=75.1=hfee45f7_0
- idna=3.10=pyhd8ed1ab_0
- jsoncpp=1.9.6=h7b3277c_0
- kahip=3.16=py313hb16cd43_4
- kiwisolver=1.4.7=py313hf9c7212_0
- krb5=1.21.3=h237132a_0
- lame=3.100=h1a8c8d9_1003
- lcms2=2.16=ha0e7c42_0
- ld64_osx-arm64=951.9=hdd277f2_1
- lerc=4.0.0=h9a09cb3_0
- libabseil=20240722.0=cxx17_hf9b8971_1
- libadios2=2.10.2=mpi_mpich_h91f8644_0
- libaec=1.1.3=hebf3989_0
- libass=0.17.3=hf20b609_0
- libblas=3.9.0=25_osxarm64_openblas
- libboost=1.86.0=h29978a0_2
- libboost-devel=1.86.0=hf450f58_2
- libboost-headers=1.86.0=hce30654_2
- libbrotlicommon=1.1.0=hd74edd7_2
- libbrotlidec=1.1.0=hd74edd7_2
- libbrotlienc=1.1.0=hd74edd7_2
- libcblas=3.9.0=25_osxarm64_openblas
- libclang-cpp17=17.0.6=default_h146c034_7
- libclang-cpp18.1=18.1.8=default_h5c12605_5
- libclang13=19.1.3=default_h5f28f6d_0
- libcurl=8.10.1=h13a7ad3_0
- libcxx=19.1.3=ha82da77_0
- libcxx-devel=18.1.8=h6dc3340_7
- libdeflate=1.22=hd74edd7_0
- libedit=3.1.20191231=hc8eb9b7_2
- libev=4.33=h93a5062_2
- libexpat=2.6.3=hf9b8971_0
- libffi=3.4.2=h3422bc3_5
- libgfortran=5.0.0=13_2_0_hd922786_3
- libgfortran5=13.2.0=hf226fd6_3
- libglib=2.82.2=h07bd6cf_0
- libhwloc=2.11.2=default_h3f80f97_1000
- libiconv=1.17=h0d3ecfb_2
- libintl=0.22.5=h8414b35_3
- libjpeg-turbo=3.0.0=hb547adb_1
- liblapack=3.9.0=25_osxarm64_openblas
- libllvm17=17.0.6=h5090b49_2
- libllvm18=18.1.8=h5090b49_2
- libllvm19=19.1.3=haf57ff0_0
- libmpdec=4.0.0=h99b78c6_0
- libnetcdf=4.9.2=nompi_h853a48d_115
- libnghttp2=1.64.0=h6d7220d_0
- libntlm=1.4=h3422bc3_1002
- libogg=1.3.5=h99b78c6_0
- libopenblas=0.3.28=openmp_h8b6c093_0
- libopenvino=2024.4.0=hbfeda7a_2
- libopenvino-arm-cpu-plugin=2024.4.0=hbfeda7a_2
- libopenvino-auto-batch-plugin=2024.4.0=hf276634_2
- libopenvino-auto-plugin=2024.4.0=hf276634_2
- libopenvino-hetero-plugin=2024.4.0=h03892cd_2
- libopenvino-ir-frontend=2024.4.0=h03892cd_2
- libopenvino-onnx-frontend=2024.4.0=h7f5a098_2
- libopenvino-paddle-frontend=2024.4.0=h7f5a098_2
- libopenvino-pytorch-frontend=2024.4.0=h5833ebf_2
- libopenvino-tensorflow-frontend=2024.4.0=h9d544f2_2
- libopenvino-tensorflow-lite-frontend=2024.4.0=h5833ebf_2
- libopus=1.3.1=h27ca646_1
- libpng=1.6.44=hc14010f_0
- libpq=17.0=h9fd3c6c_4
- libprotobuf=5.28.2=h8f0b736_0
- libptscotch=7.0.5=he82f32e_2
- librsvg=2.58.4=h40956f1_0
- libscotch=7.0.5=h9f781f6_2
- libsodium=1.0.20=h99b78c6_0
- libsqlite=3.47.0=hbaaea75_1
- libssh2=1.11.0=h7a5bd25_0
- libtheora=1.1.1=h99b78c6_1006
- libtiff=4.7.0=hfce79cd_1
- libvorbis=1.3.7=h9f76cd9_0
- libvpx=1.14.1=h7bae524_0
- libwebp-base=1.4.0=h93a5062_0
- libxcb=1.17.0=hdb1d25a_0
- libxml2=2.13.4=h8424949_2
- libzip=1.11.2=h1336266_0
- libzlib=1.3.1=h8359307_2
- llvm-openmp=19.1.3=hb52a8e5_0
- llvm-tools=18.1.8=h5090b49_2
- llvm-tools-18=18.1.8=h5090b49_2
- loguru=0.7.2=py313h8f79df9_2
- lz4-c=1.9.4=hb7217d7_0
- matplotlib-base=3.9.2=py313h3f078ce_1
- metis=5.1.0=h15f6cfe_1007
- mpfr=4.2.1=hb693164_3
- mpi=1.0.1=mpich
- mpi4py=4.0.1=py313h41ff552_0
- mpich=4.2.3=he5dbaa7_100
- msgpack-python=1.1.0=py313hf9c7212_0
- multidict=6.1.0=py313h6347b5a_1
- mumps-include=5.7.3=hce30654_5
- mumps-mpi=5.7.3=h83d4000_5
- munkres=1.1.4=pyh9f0ad1d_0
- mysql-common=9.0.1=h0887d5e_2
- mysql-libs=9.0.1=he9bc4e1_2
- ncurses=6.5=h7bae524_1
- nlohmann_json=3.11.3=h00cdb27_1
- numpy=2.1.3=py313hca4752e_0
- openh264=2.4.1=hebf3989_0
- openjpeg=2.5.2=h9f1df11_0
- openldap=2.6.8=h50f2afc_0
- openssl=3.3.2=h8359307_0
- packaging=24.1=pyhd8ed1ab_0
- pango=1.54.0=h9ee27a3_2
- parmetis=4.0.3=ha4b917a_1007
- pcre2=10.44=h297a79d_2
- petsc=3.22.1=real_hda3b05f_101
- petsc4py=3.22.1=py313h712231a_0
- pillow=11.0.0=py313h97432e1_0
- pip=24.3.1=pyh145f28c_0
- pixman=0.43.4=hebf3989_0
- pkg-config=0.29.2=hde07d2e_1009
- platformdirs=4.3.6=pyhd8ed1ab_0
- pooch=1.8.2=pyhd8ed1ab_0
- proj=9.5.0=h61a8e3e_0
- propcache=0.2.0=py313h20a7fcf_2
- pthread-stubs=0.4=hd74edd7_1002
- pugixml=1.14=h13dd4ca_0
- pycparser=2.22=pyhd8ed1ab_0
- pyparsing=3.2.0=pyhd8ed1ab_1
- pysocks=1.7.1=pyha2e5f31_6
- python=3.13.0=h75c3a9f_100_cp313
- python-dateutil=2.9.0=pyhd8ed1ab_0
- python_abi=3.13=5_cp313
- pyvista=0.44.1=pyhd8ed1ab_0
- qhull=2020.2=h420ef59_5
- qt6-main=6.7.3=h2fbab7f_1
- readline=8.2=h92ec313_1
- requests=2.32.3=pyhd8ed1ab_0
- scalapack=2.2.0=h71a4f75_4
- scooby=0.10.0=pyhd8ed1ab_0
- setuptools=75.3.0=pyhd8ed1ab_0
- sigtool=0.1.3=h44b9a77_0
- six=1.16.0=pyh6c4a22f_0
- slepc=3.22.1=real_hf0b33f3_300
- slepc4py=3.22.1=py313h3bb7f59_0
- snappy=1.2.1=hd02b534_0
- spdlog=1.14.1=h6d8af72_1
- sqlite=3.47.0=hcd14bea_1
- suitesparse=7.8.3=hcefb574_0
- superlu=5.2.2=hc615359_0
- superlu_dist=9.0.0=h2cb61f8_1
- svt-av1=2.3.0=hf24288c_0
- tapi=1300.6.5=h03f4b80_0
- tbb=2022.0.0=h0cbf7ec_0
- tbb-devel=2022.0.0=h6e261d1_0
- tk=8.6.13=h5083fa2_1
- typing-extensions=4.12.2=hd8ed1ab_0
- typing_extensions=4.12.2=pyha770c72_0
- tzdata=2024b=hc8b5060_0
- urllib3=2.2.3=pyhd8ed1ab_0
- utfcpp=4.0.6=h54c0426_0
- vtk=9.3.1=qt_py313h8d5bf7a_209
- vtk-base=9.3.1=qt_py313hc8fffa2_209
- vtk-io-ffmpeg=9.3.1=qt_py313hf99a90b_209
- wslink=2.2.1=pyhd8ed1ab_0
- x264=1!164.3095=h57fd34a_2
- x265=3.5=hbc6ce65_3
- xorg-libxau=1.0.11=hd74edd7_1
- xorg-libxdmcp=1.1.5=hd74edd7_0
- xz=5.2.6=h57fd34a_0
- yaml=0.2.5=h3422bc3_2
- yarl=1.16.0=py313h63a2874_0
- zeromq=4.3.5=h9f5b81c_6
- zfp=0.5.5=hcfdfaf5_8
- zlib=1.3.1=h8359307_2
- zlib-ng=2.2.2=hf9b8971_0
- zstandard=0.23.0=py313hf2da073_1
- zstd=1.5.6=hb46c0d2_0
prefix: /opt/miniconda3/envs/fenicsx
(fenicsx) rogalski@mbpdenirogalski ~ %
minrk
November 5, 2024, 12:45pm
4
it is a problem in the latest build of slepc that caused the latest dolfinx (build 105) to have incorrect linkage to slepc, which slipped through because of the minimal amount of testing the cross-compiled builds can get on conda-forge. This has been fixed, so once build 106 of dolfinx is available, you should be able to get it with conda upgrade fenics-dolfinx. It should be available within an hour or two. In the meantime, build 104 should not have this problem:
conda install 'fenics-dolfinx=0.9.0=*_104'
1 Like