Conda installation

[manolis2023]

Hi,

I'm trying to install rgi from conda but the installation never finish. Last time was running all the night, without any warning/error, looking for the packages.

I used your conda code as also the simply "conda install ", but nothing.

Best

[karla-vasco]

Hi, the same happened to me yesterday, but I finally solved it based on https://stackoverflow.com/questions/69187142/solving-environment-failed-with-current-repodata-json-will-retry-with-next-rep

1. First, update your conda conda update conda

2. Make sure you added the necessary channels conda config --add channels defaults conda config --add channels bioconda conda config --add channels conda-forge

3. Update a package called conda-canary (I'm not sure what it does) conda update conda -c conda-canary

4. Change your channel priority to false conda config --set channel_priority false

5. create your environment conda create -n rgi

6. activate the new environment conda activate rgi

7. Install the last version of rgi conda install rgi=6.0.2

8. Test that rgi works rgi main -v

I hope it works!

[weiguanyue]

Hi, I tried to use your method , but it does not work , the same reaction as before. When conda install rgi=6.0.2, it has been parked at solving environment:

Collecting package metadata (current_repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: failed with repodata from current_repodata.json, will retry with next repodata source. Collecting package metadata (repodata.json): done Solving environment: |

Best

[karla-vasco]

I got exactly those messages. It took some minutes to solve the environment but it finally worked after being patient

[weiguanyue]

ok,I'll wait and see what happens today. How long did it take you to finally install it?

[karla-vasco]

I don't remember exactly, but it was like ~20 mins...

[weiguanyue]

Hi，I tried many times today and still stopped solving the environment for hours with no change. Is there any other way to install rgi?

[karla-vasco]

Some people solved the issue using mamba instead of conda https://github.com/arpcard/rgi/issues/178 https://github.com/arpcard/rgi/issues/203

[weiguanyue]

Thank you. I did it successfully.

Best wishes

[weiguanyue]

Hi, I have another problem. I don't know if you have

When running code：rgi main -i faa -o CARD -n 5 --debug -t protein -a DIAMOND --clean --local Something wrong were happened:

INFO 2023-02-18 11:36:33,974 : create blast DB. INFO 2023-02-18 11:36:34,526 : create diamond DB. Error: Accession file not found. BLAST databases require preprocessing using this command line: diamond prepdb -d DATABASE_PATH INFO 2023-02-18 11:36:34,825 : run filter ERROR 2023-02-18 11:36:34,825 : missing blast xml file. Please check if input_type: 'protein' correspond with input file: ‘--low_quality' flag for short contigs to predicts partial genes.

However，when I nonuse the option ,-a DIAMOND,there were nothing wrong happened.

What is the reason for this? Thank you very much.

[aaronmussig]

This is specific to mamba, but I was only able to get it to install by adding --no-channel-priority:

mamba install -c conda-forge -c bioconda -c defaults --no-channel-priority rgi==6.0.2

[github-actions[bot]]

Issue is stale and will be closed in 7 days unless there is new activity