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bhattlab / phanta

Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes
MIT License
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Environment file #28

Closed telatin closed 1 year ago

telatin commented 1 year ago

Hi, I tried to create the environment using the environment file but got some issues:

1) When conda is configured for strict channel priority, it fails.

2) When removing the strict channel priority setting, I get an error related to openssl. I guess the version that was installed at the time of the generation of the YAML file is no longer available

 - package cryptography-37.0.1-py310h9ce1e76_0 requires openssl <1.1.2a, but none of the providers can be installed

3) When tweaking the file to install cryptography 38.0, the pipeline fails. Checking the logs is because a script uses bc which is not installed with the conda environment (and may not be available on the system). The missing bc didn't cause an error, but rather and empty value in the file which led to a failure downstream (prep_to_merge_normed.py).

I made a PR to address these issues if needed

yipinto commented 1 year ago

Thank you! We will review the PR and merge.

meenachakra commented 1 year ago

Thanks, done!