I have installed snakemake with conda as following:
conda create --yes -c conda-forge -c bioconda -n snakemake snakemake
But the environment has not the name "snakemake" I have put in the above command. There is only the full path indicated.
conda info --envs
# conda environments:
# base * /mnt/shared/home/usr/mambaforge
mamba /mnt/shared/home/usr/mambaforge/envs/mamba
/mnt/shared/scratch/usr/apps/conda
/mnt/shared/scratch/usr/apps/conda/envs/snakemake
And I have to call it using the full path to call the snakemake environment.
Would anyone know why the environment is not named?
•
written
by
Begonia_pavonina •
There are two different conda installations on your system. When you are activating an environment from one conda (/shared/home/usr/mambaforge) the other (/mnt/shared/scratch/usr/apps/conda) is not loading properly, as it may have misconfigured with the same configuration file in /home/user/.conda. This could be one of the possible explanations.
I think you can still activate these environments using a complete path.
Regards,
Nitin N.
•
written
by
Nitin Narwade
Thank you Nitin. I though that /mnt/shared/home/usr/mambaforge was just in my base environment, and /mnt/shared/scratch/usr/apps/conda just accessible in the mamba environment.
In this case, do you think the best fix would be to erase the /mnt/shared/scratch/usr/apps/conda file?
Yes, I would prefer keeping only one conda installation on a system.
Regards,
Nitin N.
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