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linzhi2013 / MitoZ

MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes
https://doi.org/10.1093/nar/gkz173
GNU General Public License v3.0
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Hello. Platyhelminthes clade and taxa. #182

Open Mav-Erick54 opened 1 year ago

Mav-Erick54 commented 1 year ago

Hello Lin.

I wanted to thank you for making MitoZ. It has certainly helped me out quite a lot and I am thankful. I have a query to ask however. I am using Docker to run my analysis as it takes care of all the dependencies. I wanted to ask that I looked into the databases provided inside, I did find a Platyhelminthes file. I am now trying to run a analysis which belongs to Platyhelminthes, however the there isn't any option for the clade. So is there any way I can run it in docker images for Platyhelminthes samples?

linzhi2013 commented 1 year ago

Hi,

This question is similar to https://github.com/linzhi2013/MitoZ/issues/181 .

Cheers

Mav-Erick54 commented 1 year ago

Ok. So just to clarify its the same thing for docker images as well right. I don't have to make any other specific changes just because I'm on docker? Thank you so much for your speedy reply.

linzhi2013 commented 1 year ago

Anything that changes within a docker container will disappear after the program exits.

Therefore, you need to make a customized database outside of the docker first. for example (https://github.com/linzhi2013/MitoZ/wiki/Installation),

image

And then specify the database path via the --profiles_dir parameter, e.g. --profiles_dir ~/mitoz_custom_db/profiles

Mav-Erick54 commented 1 year ago

Thank you so much! Will certainly try this! Thank you once again!