Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

medaka: add linux-aarch64 build #46801

Closed
wants to merge 10 commits into from
Closed

Conversation

martin-g
Copy link
Contributor

Describe your pull request here


Please read the guidelines for Bioconda recipes before opening a pull request (PR).

General instructions

  • If this PR adds or updates a recipe, use "Add" or "Update" appropriately as the first word in its title.
  • New recipes not directly relevant to the biological sciences need to be submitted to the conda-forge channel instead of Bioconda.
  • PRs require reviews prior to being merged. Once your PR is passing tests and ready to be merged, please issue the @BiocondaBot please add label command.
  • Please post questions on Gitter or ping @bioconda/core in a comment.

Instructions for avoiding API, ABI, and CLI breakage issues

Conda is able to record and lock (a.k.a. pin) dependency versions used at build time of other recipes.
This way, one can avoid that expectations of a downstream recipe with regards to API, ABI, or CLI are violated by later changes in the recipe.
If not already present in the meta.yaml, make sure to specify run_exports (see here for the rationale and comprehensive explanation).
Add a run_exports section like this:

build:
  run_exports:
    - ...

with ... being one of:

Case run_exports statement
semantic versioning {{ pin_subpackage("myrecipe", max_pin="x") }}
semantic versioning (0.x.x) {{ pin_subpackage("myrecipe", max_pin="x.x") }}
known breakage in minor versions {{ pin_subpackage("myrecipe", max_pin="x.x") }} (in such a case, please add a note that shortly mentions your evidence for that)
known breakage in patch versions {{ pin_subpackage("myrecipe", max_pin="x.x.x") }} (in such a case, please add a note that shortly mentions your evidence for that)
calendar versioning {{ pin_subpackage("myrecipe", max_pin=None) }}

while replacing "myrecipe" with either name if a name|lower variable is defined in your recipe or with the lowercase name of the package in quotes.

Bot commands for PR management

Please use the following BiocondaBot commands:

Everyone has access to the following BiocondaBot commands, which can be given in a comment:

@BiocondaBot please update Merge the master branch into a PR.
@BiocondaBot please add label Add the please review & merge label.
@BiocondaBot please fetch artifacts Post links to CI-built packages/containers.
You can use this to test packages locally.

Note that the @BiocondaBot please merge command is now depreciated. Please just squash and merge instead.

Also, the bot watches for comments from non-members that include @bioconda/<team> and will automatically re-post them to notify the addressed <team>.

@martin-g
Copy link
Contributor Author

martin-g commented Mar 27, 2024

Depends on:

@mencian mencian added the aarch64 Related to adding linux-aarch64 support label Mar 28, 2024
@martin-g martin-g force-pushed the aarch64-medaka branch 2 times, most recently from 51a4e77 to c2e1e61 Compare May 13, 2024 12:12
@martin-g
Copy link
Contributor Author

martin-g commented May 13, 2024

@mencian with my last two commits now the issue with OpenSSL is resolved, but now it needs https://anaconda.org/conda-forge/tensorflow-estimator for Linux ARM64.

Update: The latest version of tensorflow-estimator is noarch but Medaka depends on tensorflow >=2.10,<2.11 this is the reason why it fails for tensorflow-estimator 2.10.*.
But https://anaconda.org/search?q=tensorflow shows that latest conda-forrge/tensorflow does not support linux-aarch64, while anaconda/tensorflow does provide a package for linux-aarch64.
https://github.com/conda-forge/conda-forge-pinning-feedstock/blob/5c1bda34072ebc74cf72d588a8999649d4322ee9/recipe/migrations/arch_rebuild.txt#L970-L971 says that someone requested support for Linux aarch64 but according to https://conda-forge.org/status/migration/aarch64andppc64leaddition it depends on conda-forge/dgl-feedstock#14

martin-g and others added 10 commits June 3, 2024 14:11
Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
The build currently fails with:
```

The reported errors are:
- Encountered problems while solving:
-   - nothing provides openssl >=1.0.2p,<1.0.3a needed by libcurl-7.63.0-h01ee5af_1000
-
```

Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
@martin-g
Copy link
Contributor Author

closing in favor of #51375

@martin-g martin-g closed this Oct 14, 2024
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
aarch64 Related to adding linux-aarch64 support
Projects
None yet
Development

Successfully merging this pull request may close these issues.

2 participants