Dependency Conflict: Installation of pyGenomeTracks Causes ResolutionImpossible Error

[asmdhabibullah]

Dependency Conflict: Installation of pyGenomeTracks Causes ResolutionImpossible Error

[lldelisle]

Hi @asmdhabibullah ,
I don't know the GeneMaster project but indeed, in the current version we do not support matplotlib 3.9 as we prefer to test it before allowing it.
I think there are 2 options for you:

• If you need pyGenomeTracks but not necessarily in the same environment as the other python packages you have, you can create a conda environment with pygenometracks: conda create -n pgt -c conda-forge -c bioconda pygenometracks=3.9 then conda activate pgt and then use it. Or a virtual environment with pygenometracks python -m venv ~/.pgt then . ~/.pgt/bin/activate then pip install pygenometracks==3.9 and then use it.
• If you really need pyGenomeTracks in the same environment, then you should clone the repository, modify this line

  pyGenomeTracks/pyproject.toml

  Line 21 in a644372

  "matplotlib >=3.1.1,<3.9",

  and do pip install . (no need to install the requirements, pip will take care of it).

[asmdhabibullah]

I'm not too fond of this solution :( cause I'm using "venv" environment, no conda

[lldelisle]

I gave you 3 solutions, only one is using conda.
Have you checked the third one?
If none is convenient for you, you need to wait for a new release.