Docker image not able to run ggCaller

[samuelmontgomery]

Hi, Similar to #13, I am not able to run ggCaller using the docker image when using the commands listed in the documentation Running Ubuntu 22.04, no error messages or output, but it will run ggCaller --help I am installing from source to see if that helps, but there is still an issue with the docker image Thanks!

[samuelmontgomery]

I have installed from source and it is able to run ggcaller --help, but when trying to run ggcaller --refs input.txt, it fails with no output

[samhorsfield96]

Hi, would you be able to provide the error message (if there was one) you ran into when you installed from source and ran ggCaller, please?

[samuelmontgomery]

I'm afraid there was no error message Running again, i think it's giving exit code 132 but it doesn't spit anything out into stdout

[samhorsfield96]

Hi, could you give me the commands you used to install from source and run ggCaller, please? Also could you show me the installed packages using conda/mamba in the ggc_env environment? This can be run with:

mamba activate ggc_env
mamba info --envs > mamba_env.txt

If you could then share the mamba_env.txt file with me that would be great, thank you.

[samuelmontgomery]

Apologies for the delay!

I installed from souce following the wiki and was trying to run the test data included in the repo

mamba env create -f environment_linux.yml mamba activate ggc_env

git clone --recursive https://github.com/samhorsfield96/ggCaller && cd ggCaller python setup.py install

env file attached mamba_env.txt

[samhorsfield96]

Was there an error message printed when you ran python setup.py install? If you reinstall again and rerun python setup.py install > install.txt this information should be placed into install.txt. If you could share this file that would be very helpful, thank you.

[samhorsfield96]

Closing due to inactivity.