Create a github actions that run through the workflow every time you do a pull request

bcgsc / Canadian_Biogenome_Project

This repo contains the pipeline used by the Canadian Biogenome Project (http://earthbiogenome.ca) to generate assemblies

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Create a github actions that run through the workflow every time you do a pull request #3

Open scorreard opened 1 year ago

oneillkza commented 1 year ago

I think this would be a good idea. I would try it with a small example, though. Maybe select reads from just one region of an assembly (both PacBio and Hi-C) to use as input for that.

scorreard commented 1 year ago

Thanks Kieran. There is already minimal test dataset, it is always necessary with nextflow pipeline :)

The problem is more the GitHub test, they have limited software / memory / cpus

scorreard commented 1 year ago

Indeed, the free version of GitHub Actions do not allow to process such pipeline (too low memory / CPUs) Pipeline get cancelled by GitHub action