ensure conda execution is enabled in configuration

[cpauvert]

Hi,
Here's a tentative PR for #4, but in the issue I was misleading in trying to change how the command line for nextflow was called, when in fact, the key was in the configuration file.

I ensure that conda is enabled as per https://www.nextflow.io/docs/stable/config.html#config-conda

Let me know if you prefer edits to be made differently.
Best,

[cpauvert]

It seems the issue for the checks is about the rate limit for codecov.

There was an error fetching the storage URL during POST
ErrorDetail(string='Rate limit reached. Please upload with 
the Codecov repository upload token to resolve issue.

The code coverage report seems to be correctly generated in the ubuntu image but I do not know how to fetch this report. Any suggestions?

BEst,

[beardymcjohnface]

Yeah, I had this issue with another repo of mine. Let me push an update real quick.

[beardymcjohnface]

Hi @cpauvert can you update your PR branch please?

[cpauvert]

Hi @cpauvert can you update your PR branch please?

Yep, done! Thanks for the fix

[beardymcjohnface]

Awesome, thanks!