Update test_cli.py

[emprzy]

I am curious if this is all that I needed to do. I changed some other things (inlcuding adding a clause in ci.yml) that I thought would be necessary, but upon second thought I deleted them because I suspected them to be unnecessary.
Now, the only change here is that I added the function we talked about to test_cli.py.
Please let me know what changes need to be made, if any.

[emprzy]

I changed a typo in the code. Still failing. Will take another look later

[jcblemai]

Yes @emprzy , this is enough (no need to change the ci.yml). The test fails because inference_main calls inference_slot on the wrong path, because FLEPI_PATH is not set. Add to your command line: --flepi_path ../../ to tell it that the root of the flepiMoP repo is two directory backwards

[jcblemai]

The tests are failing because of #197

[jcblemai]

@emprzy did this get merged or not ? this seems very useful ?

[emprzy]

@emprzy did this get merged or not ? this seems very useful ?

Ah, I forgot about this PR. This is totally my fault because I did a horrible job properly documenting within the actual PR, but do you know what this was intended to address?

[jcblemai]

This was adding a test of the R inference as part of the automatic test suite, I can look in ways to finish it, I think it was failing because it was blocked by another issue which is now resolved. Perhaps it even works now without doing anything. Let's see.

[pearsonca]

I recommend close this PR, but don't chuck the branch.

Once we've dealt with #336, I'm planning to integrate inference into the CLI, including support to use the R scripts. The skeleton here will be useful, but the core invocation is going to be different.

[TimothyWillard]

@emprzy @pearsonca I think this PR has fallen quite a way behind main at this point. I think we might be better off closing this off and re-addressing from the original issue. What is the GitHub issue for this PR (if there is one)?

[pearsonca]

@emprzy @pearsonca I think this PR has fallen quite a way behind main at this point. I think we might be better off closing this off and re-addressing from the original issue. What is the GitHub issue for this PR (if there is one)?

I'll grab the inference test into my work on flepimop calibrate ..., so this can be closed as OBE. Should be under #378 now.

[emprzy]

@emprzy @pearsonca I think this PR has fallen quite a way behind main at this point. I think we might be better off closing this off and re-addressing from the original issue. What is the GitHub issue for this PR (if there is one)?

I'm very much in favor of closing it. I think perhaps we should check with @jcblemai though?

[TimothyWillard]

@jcblemai is not going to be as involved day-to-day, I think we are safe closing this without waiting.