Installation and running about camitax

[abremges]

My mistake (and bad practice, sorry), should be fixed with 3ed20c1

I forgot to push the local config file after I committed a broken version to main. 👎
We are currently testing a new release candidate, should be online in 1-2 days...
So either give it another try or wait for the tested version. Sorry again & thank you!

[tenguzame]

Dear Andreas,
Thanks for the quick reply. I fixed the config file as you showed, but now nextflow complains it cannot pull anything because there are uncommitted changes. I guess I'll wait for your new release.

[abremges]

Possibly a side effect from cloning the repository first (which you don't need). Delete the cloned repository, then run nextflow drop CAMI-challenge/CAMITAX and nextflow pull CAMI-challenge/CAMITAX

But might be a good idea to wait a couple of days, the new release will also come with updated reference data = better results. I'll ask @AlphaSquad to also test it extensively in case I mess up things again. ;)

[tenguzame]

Well, then, I'll give it an immediate try to see if everything goes well, then I'll be using the updated version for the real thing. Thanks for your efforts!

[abremges]

Great, let me know if and how things work out! Notice that installation will take a while because 40 GB of reference data need to be downloaded first...

[tenguzame]

Managed to pull it yesterday evening! However, it throws me the following error, which prevents me from running it:
WARN: There's no process matching config selector: centrifuge
I checked everything but I can't see any error!

[abremges]

This is just a warning, no error, because there is no process centrifuge in init.nf (the database download). I'll try to find a better way but it should still run.

[abremges]

While the ugly warning is still in place, I just updated CAMITAX and confirmed that everything is working (for me). Please answer here or open a new issue if you run into trouble. Thanks!