micromamba list runs indefinitely on Micromamba v2.0.0

[mrvisscher]

Our Github runners timed out last night running micromamba list. Fix for us right now is pinning the last Micromamba release before v2.0.0 but something is definitely up. Runner logs

[pavelzw]

i think this is an issue for the mamba repository, right @jjerphan @JohanMabille?
could you transfer it?

[mikemhenry]

Related to mamba-org/micromamba-releases#58 probably, see if explicitly pulling in 2.0 fixes it

      - name: Setup micromamba
        uses: mamba-org/[email protected]
        with:
          micromamba-version: '2.0.0-0'

[bhperry]

pinning 2.0.0-0 did not fix for me. It seems like it's always using the same micromamba version no matter what I pin.

I see this in the logs Will use pre-installed micromamba at /home/runner/micromamba-bin/micromamba

How do I get it to not use the pre-installed version?

[bhperry]

Looks like there is a pre-installed version on the runner, and setup-micromamba will completely ignore your pinned version if that exists.

Also had to got through and delete all of the github actions caches for micromamba because otherwise even with the correct binary, it would still fail to list when pulling the previous cache.

[bhperry]

This is what fixed it for me

      - name: Set up micromamba
        uses: mamba-org/[email protected]
        with:
          # https://github.com/mamba-org/setup-micromamba/issues/225
          micromamba-version: 1.5.10-0
          micromamba-binary-path: /home/runner/micromamba-bin-versioned/micromamba

And then delete every previous micromamba cache from github actions cache

[jjerphan]

I have not been able to reproduce the error yet, can you open an issue upstream with a specification of your environment? Thank you a lot.

[maresb]

@jjerphan, please find a minimal example in https://github.com/maresb/setup-micromamba-gh225

[jjerphan]

I still cannot reproduce the error with micromamba 2.0.0.

[maresb]

@jjerphan are you trying to reproduce it locally or on GHA? If GHA then is my example deficient in any way to reproduce?

[jjerphan]

We observe errors with GHA, as if it picks release candidates builds instead of the actual release builds.

[pavelzw]

are you sure it uses rcs? it should just use the latest version from micromamba-releases

[jjerphan]

The latest build are not the actual latest one (we do not understand why).

[pavelzw]

are you sure?

❯ curl -Ls https://github.com/mamba-org/micromamba-releases/releases/latest/download/micromamba-linux-64 | sha256sum
b1b8b7a445b5bac0d7417c45f2eb3a29280567975d0185e7d9f4c5a94e2ef784  -
~
❯ curl -Ls https://github.com/mamba-org/micromamba-releases/releases/download/2.0.0-1/micromamba-linux-64 | sha256sum
b1b8b7a445b5bac0d7417c45f2eb3a29280567975d0185e7d9f4c5a94e2ef784  -
~
❯ curl -Ls https://github.com/mamba-org/micromamba-releases/releases/download/2.0.0rc6-0/micromamba-linux-64 | sha256sum
34354f0feebbb450905fc0fe55d4227c2c7a69eab3587a5b905d1d1dfc2d3ca7  -

this looks fine to me 🤔

or is the 2.0.0-1 release already faulty?

[jjerphan]

We have had observed problem with the "latest" builds when the version of micromamba was not explicitly specified (hence our recommendation to pin 2.0.0-0).

[orbeckst]

micromamba-version: 1.5.10-0 worked for me after deleting all GH caches.

[jjerphan]

I can reproduce the issue with 2.0.1 and the following environment:

name: repro
channels:
  - conda-forge
dependencies:
  - python=3.10
  - httpx>=0.25.0
  - pandas[version=">=0.25.2,<3"]
  - pytz
  - cartopy>=0.21
  - cartopy_offlinedata
  - check-manifest
  - geopandas
  - interrogate
  - joblib
  - jupyter
  - nbclassic
  - nbconvert
  - nbsphinx
  - netcdf4
  - pendulum>=2.0.1
  - pooch
  - pre-commit
  - pyarrow
  - pytest
  - pytest-cov
  - pytest-sugar
  - pytest-vcr
  - regionmask>=0.9
  - scitools-iris>=3.3.0
  - setuptools_scm
  - sphinx
  - twine
  - types-pytz
  - types-requests
  - wheel
  - xarray

from https://github.com/ioos/erddapy/actions/runs/11124942088/job/30911568849?pr=353.

[ricardoV94]

Does not seem to be specific to v2, also failed with v1 here for us: https://github.com/pymc-devs/pytensor/actions/runs/11141222416/job/30961688938?pr=1008

[pavelzw]

might be because of caching? #225 (comment)

[maresb]

Does not seem to be specific to v2, also failed with v1 here for us: https://github.com/pymc-devs/pytensor/actions/runs/11141222416/job/30961688938?pr=1008

False alarm, I just chatted with @ricardoV94, and he was referring to v1 of the setup-micromamba GHA rather than v2.0.1 of micromamba. So the problem is indeed related in his case to the v2 release of micromamba since he has micromamba-version: "latest".

[ricardoV94]

Thanks for clarifying. And to answer the other comment if still relevant I tried deleting the caches related to micromamba and that still hanged

[bhperry]

Thanks for clarifying. And to answer the other comment if still relevant I tried deleting the caches related to micromamba and that still hanged

Try 1.5.10-0 from a clean cache

[ricardoV94]

Thanks for clarifying. And to answer the other comment if still relevant I tried deleting the caches related to micromamba and that still hanged

Try 1.5.10-0 from a clean cache

Yes that works

[jmccreight]

@SylvainCorlay I dont understand why this issue is closed as completed. Is there a resolution? My understanding is that we have to effectively pin "1.5.10-0" and that dosent seem to be a solution going forward. But hopefully I missed something. Or is it because this is an issue external to setup-micromamba?
thanks!

[SylvainCorlay]

Hi @jmccreight this should be resolved with micromamba 2.0.2. Are you still seeing this issue with the latest micromamba?