"package humann-3.0.0 is excluded by strict repo priority"

[emaxortiz]

Dear Nick,
Thank you so much for this tool. I tried the customized gtdb database (r202) in humann3 and It's improving my results by a lot.

Now, I'm trying to customize the last gtdb release (r207v2) using struo2. I managed to download everything and prepared the sample table and linked files. I also tested the snakemake dryrun mode and everything seems to be in order. However, when I run the pipeline using 5 genomes from the test data, I'm getting the following error:

---

CreateCondaEnvironmentException:
Your conda installation is not configured to use strict channel priorities. This is however crucial for having robust and correct environments (for details, see https://conda-forge.org/docs/user/tipsandtricks.html). Please configure strict priorities by executing 'conda config --set channel_priority strict'.

---

I changed it to strict priority and then, I'm getting this:

---

Creating conda environment bin/envs/humann3.yaml...
Downloading and installing remote packages.
CreateCondaEnvironmentException:
Could not create conda environment from /home/eortiz/Software/Struo2/bin/db_create/humann3/query/dmnd/../../../../envs/humann3.yaml:
Command:
mamba env create --quiet --file "/home/eortiz/Software/Struo2/.snakemake/conda/9ca7f54adf4ee41e2ed703f6dd2b2fc0.yaml" --prefix "/home/eortiz/Software/Struo2/.snakemake/conda/9ca7f54adf4ee41e2ed703f6dd2b2fc0"
Output:
Encountered problems while solving:
  - package humann-3.0.0-pyheec8a34_0 is excluded by strict repo priority

  - --------------------------------------------

Any suggestions to fix this?
Thank you.

[nick-youngblut]

What is in your ~/.condarc? It should at least include:

channels:
  - conda-forge
  - bioconda

[emaxortiz]

Here it is. I'm having the same exact error in 2 different Unix machines. If I "Skip" humann db, the pipeline is running but it's giving me other different errors later. I can come back to this later if I have to, we only need the customized humann db. Thanks.

channels:

• bioconda
• conda-forge
• defaults
• ursky
• biobakery
  restore_free_channel: true
  channel_priority: strict