search

opain / GenoPred

Genotype-based Prediction (GenoPred)
https://opain.github.io/GenoPred/
GNU General Public License v3.0
68 stars 23 forks source link

Downloading dependencies: Unrecognized --params overwrite arguments #83

Closed Felicia648 closed 8 months ago

Felicia648 commented 8 months ago

Hi, I was following the Installation document when I encountered a problem with downloading the dependencies using this code: snakemake --restart-times 3 -j 1 --use-conda --conda-frontend mamba get_dependencies

When I ran it, it output the error message "Change in version of GenoPred detected from v0.0 to v2.1. Use --params overwrite=true to proceed." so I tried to add --params overwrite=true to the code as suggested. Unfortunately, the error message "snakemake: error: unrecognized arguments: --params overwrite=true" appeared instead.

What did I miss or did wrong? Thanks in advance!

opain commented 8 months ago

Hello,

Thank you for raising this. This is to warn users that their version of GenoPred has changed after it has already been run. However, there should be no warning if the user has not run the pipeline before (I will fix this). I also need to update the instructions it shows to overwrite - It should instead be --config overwrite=true. So the full command with the current version (2.1.0) would be:

snakemake --restart-times 3 -j 1 --use-conda --conda-frontend mamba get_dependencies --config overwrite=true

Sorry for the bug and thank you for contacting me.

opain commented 8 months ago

I have resolved the issue in the latest version (v2.1.1)

https://github.com/opain/GenoPred/releases/tag/v2.1.1

Feel free to reopen if need be.