ginsim installation issue on Linux

[deriteidavid]

Hey!

I hope you are doing well! I'm not 100% this is the right repo to report my problem but I hope you can help. Recently I've had an issue installing ginsim and its python interface on Linux machines. I've just tried it with a fresh Ubuntu 20.04 install in a python 3.7 environment.
This is the error:

conda install -c colomoto ginsim-python
Collecting package metadata (current_repodata.json): done
Solving environment: failed with initial frozen solve. Retrying with flexible solve.
Solving environment: failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): done
Solving environment: failed with initial frozen solve. Retrying with flexible solve.
Solving environment: \ 
Found conflicts! Looking for incompatible packages.
This can take several minutes.  Press CTRL-C to abort.
failed                                                                                                                         

UnsatisfiableError: The following specifications were found to be incompatible with each other:

Output in format: Requested package -> Available versions

This is the list of packages I installed previous to ginsim:

pip install git+https://github.com/hklarner/PyBoolNet
conda install jupyter
conda install sympy
conda install matplotlib
conda install pandas
pip install pygraphviz
conda install -c colomoto stablemotifs-python

All this worked just a few months ago on my other machine but I can't get it working with a fresh install. I wonder if there are other dependencies I'm not aware of.

I hope we can help each other!

Thanks
Dávid

[aurelien-naldi]

Hi David,

the repository for ginsim-python (https://github.com/GINsim/GINsim-python) is the one you are looking for, but the question is also relevant here.

GINsim and some other tools in the colomoto conda channel depend on some conda packages which are not in available the default channels. To be able to install them, you need to specify a couple of additional channels. THe following command should work:

conda install -c colomoto -c conda-forge -c potassco ginsim-python

[deriteidavid]

Hi Aurelien,

Thanks for the quick reply, and sorry for taking so long to get back to you. The solution you suggested works, however, I encountered some unexpected issues with other Colomoto packages, right after using these additional channels (e.g. the stablemotif package stopped working properly). It could be unrelated so I think you can close this issue, and unless I figure out a solution to the others I will open new issues at the appropriate repositories.
Thanks!
David