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cmayer / MitoGeneExtractor

The MitoGeneExtractor can be used to extract protein coding mitochondrial genes, such as COI and others from short and long read sequencing libraries.
GNU Affero General Public License v3.0
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installation #3

Closed jbernst closed 1 year ago

jbernst commented 1 year ago

Apologies! Can this be deleted? I accidentally submitted an issue here.

Best, Justin

cmayer commented 1 year ago

I just contacted Mrs Brasseur since we should also provide the commands to create the environment from scratch. YAML files created on one platform do not necessarily work on another platform. Maybe you can tell us how you solved your problem. This could save time for other users.

cmayer commented 1 year ago

I just verified that we do not provide a yaml file for a conda environment creation. I think we did not do this since it did not work on different platforms. But maybe we should provide the conda command that installs all dependencies for cutadapt and Snakemake.

jbernst commented 1 year ago

Hi,

Yes, that was my mistake! Sorry about that. I was able to get MGE to successfully install. When I installed Exonerate, though, I ran into an error. But updating the base conda environment and channels, followed by rerunning the installation for Exonerate (on the make step) worked for me. Thank you for replying!

Best, Justin

cmayer commented 1 year ago

Thanks for your feedback! Best Christoph