availability of pybel: from openbabel import pybel

[feiranl]

Comment:

Hi,

I met the issue cannot import name 'pybel' from 'openbabel'. I am following the intruction for installation using :

conda config --add channels conda-forge
conda config --set channel_priority strict
conda install openbabel

it was shown successfully installed. I can import openbabel just fine. Is there something that I miss? Thanks for your help!

I have checked the previous issue #8 , but it is not the same.

Environment (conda list):

``` packages in environment at /opt/anaconda3/envs/equcc: Name Version Build Channel bzip2 1.0.8 h0d85af4_4 conda-forge ca-certificates 2021.10.8 h033912b_0 conda-forge cairo 1.16.0 h9e0e54b_1010 conda-forge expat 2.4.7 h96cf925_0 conda-forge font-ttf-dejavu-sans-mono 2.37 hab24e00_0 conda-forge font-ttf-inconsolata 3.000 h77eed37_0 conda-forge font-ttf-source-code-pro 2.038 h77eed37_0 conda-forge font-ttf-ubuntu 0.83 hab24e00_0 conda-forge fontconfig 2.13.96 h676cef8_2 conda-forge fonts-conda-ecosystem 1 0 conda-forge fonts-conda-forge 1 0 conda-forge freetype 2.10.4 h4cff582_1 conda-forge gettext 0.19.8.1 hd1a6beb_1008 conda-forge icu 69.1 he49afe7_0 conda-forge libcxx 13.0.1 hc203e6f_0 conda-forge libffi 3.4.2 h0d85af4_5 conda-forge libglib 2.70.2 hf1fb8c0_4 conda-forge libiconv 1.16 haf1e3a3_0 conda-forge libpng 1.6.37 h7cec526_2 conda-forge libxml2 2.9.12 h7e28ab6_1 conda-forge libzlib 1.2.11 h9173be1_1013 conda-forge ncurses 6.3 he49afe7_0 conda-forge openbabel 3.1.1 py310he467037_3 conda-forge openssl 3.0.2 h6c3fc93_1 conda-forge pcre 8.45 he49afe7_0 conda-forge pip 22.0.4 pyhd8ed1ab_0 conda-forge pixman 0.40.0 hbcb3906_0 conda-forge python 3.10.4 h1cc4136_0_cpython conda-forge python_abi 3.10 2_cp310 conda-forge readline 8.1 h05e3726_0 conda-forge setuptools 60.10.0 pypi_0 pypi sqlite 3.37.1 hb516253_0 conda-forge tk 8.6.12 h5dbffcc_0 conda-forge tzdata 2022a h191b570_0 conda-forge wheel 0.37.1 pyhd8ed1ab_0 conda-forge xz 5.2.5 haf1e3a3_1 conda-forge zlib 1.2.11 h9173be1_1013 conda-forge ```

Details about conda and system ( conda info ):

``` active environment : equcc active env location : /opt/anaconda3/envs/equcc shell level : 2 user config file : /Users/feiranl/.condarc populated config files : /Users/feiranl/.condarc conda version : 4.8.5 conda-build version : 3.18.9 python version : 3.7.4.final.0 virtual packages : __osx=10.16 base environment : /opt/anaconda3 (writable) channel URLs : https://conda.anaconda.org/conda-forge/osx-64 https://conda.anaconda.org/conda-forge/noarch https://repo.anaconda.com/pkgs/main/osx-64 https://repo.anaconda.com/pkgs/main/noarch https://repo.anaconda.com/pkgs/r/osx-64 https://repo.anaconda.com/pkgs/r/noarch package cache : /opt/anaconda3/pkgs /Users/feiranl/.conda/pkgs envs directories : /opt/anaconda3/envs /Users/feiranl/.conda/envs platform : osx-64 user-agent : conda/4.8.5 requests/2.22.0 CPython/3.7.4 Darwin/21.3.0 OSX/10.16 UID:GID : 45692255:20 netrc file : None offline mode : False ```

[fredrikw]

Hello,

When you say that you can import openbabel, did you use that wording? Non from openbabel import openbabel? In that case, there seems like you have a mismatch between the conda environment and the python used to run the code.

[feiranl]

Thanks! It has been solved!

[fredrikw]

For future measurement, could you elaborate on how it was solved? I'm closing this issue btw.

[feiranl]

I was trying to import openbabel in Python3.8.8 before. After changing to python3.10.4, it was ok.

[lzhzzzzwill]

I have the question, I met the issue - [ cannot import name 'pybel' from 'openbabel'] when I use - [ from 'openbabel' import 'pybel'] as well. So I tried to use - [ import 'openbabel' as 'op'], which was succeed. However, I was faild when I use - [ from 'openbabel' import 'openbabel'].

[fredrikw]

Then you have an old version of OpenBabel installed. How did you install? Did you use conda install -c conda-forge openbabel? Are you sure that you have the correct conda environment activated? If so, you could try conda update -c conda-forge openbabel to get a newer OpenBabel.

[lzhzzzzwill]

Thank you, let me try.^^

At 2022-07-08 17:03:18, "fredrikw" @.***> wrote:

Then you have an old version of OpenBabel installed. How did you install? Did you use conda install -c conda-forge openbabel? Are you sure that you have the correct conda environment activated? If so, you could try conda update -c conda-forge openbabel to get a newer OpenBabel.

— Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you commented.Message ID: @.***>

[lzhzzzzwill]

Thank you for your help, I have followed your advice but I still haven't succeed. Python is too difficult for me. ：(