Continuous integration with some testing?

[cmkobel]

Running a few tests.

• [x] Installing, both with conda and apptainer
• [x] Downloading databases.
• [ ] Running a few tests and checking that everything is produced correctly:
  • [ ] Single sample
  • [ ] Handful of samples
• [ ] Set up on thylakoid with cron
  • [ ] Enable error reporting through email or something..

[cmkobel]

Should be integrated in the conda test. Right now it is just "asscom2 --dry-run" because I had some weird lock? problems on the azure server.

[cmkobel]

As I have now experienced, downloads of some databases and also installation of some conda environments is unstable over time, so this really needs to be highly prioritized.

[cmkobel]

Maybe setting this up on thylakoid through cron is a good option.

• [ ] todo

[cmkobel]

I have made a separate repository for this. Can't decide if it should be part of the ac2 repository, feels like it might become a bit bloated.

https://github.com/cmkobel/ac2-test-battery

[cmkobel]

It is going well with this but still haven't set up a cron job on Johans.