openproblems-bio / openproblems

Formalizing and benchmarking open problems in single-cell genomics
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Bump jaxlib from 0.3.22 to 0.3.25 in /docker/openproblems-python-pytorch #737

Closed dependabot[bot] closed 1 year ago

dependabot[bot] commented 1 year ago

Bumps jaxlib from 0.3.22 to 0.3.25.

Changelog

Sourced from jaxlib's changelog.

jax 0.3.25 (Nov 15, 2022)

  • Changes
    • {func}jax.numpy.linalg.pinv now supports the hermitian option.
    • {func}jax.scipy.linalg.hessenberg is now supported on CPU only. Requires jaxlib > 0.3.24.
    • New functions {func}jax.lax.linalg.hessenberg, {func}jax.lax.linalg.tridiagonal, and {func}jax.lax.linalg.householder_product were added. Householder reduction is currently CPU-only and tridiagonal reductions are supported on CPU and GPU only.
    • The gradients of svd and jax.numpy.linalg.pinv are now computed more economically for non-square matrices.
  • Breaking Changes
    • Deleted the jax_experimental_name_stack config option.
    • Convert a string axis_names arguments to the {class}jax.experimental.maps.Mesh constructor into a singleton tuple instead of unpacking the string into a sequence of character axis names.

jaxlib 0.3.25 (Nov 15, 2022)

  • Changes
    • Added support for tridiagonal reductions on CPU and GPU.
    • Added support for upper Hessenberg reductions on CPU.
  • Bugs
    • Fixed a bug that meant that frames in tracebacks captured by JAX were incorrectly mapped to source lines under Python 3.10+

jax 0.3.24 (Nov 4, 2022)

  • Changes
    • JAX should be faster to import. We now import scipy lazily, which accounted for a significant fraction of JAX's import time.
    • Setting the env var JAX_PERSISTENT_CACHE_MIN_COMPILE_TIME_SECS=$N can be used to limit the number of cache entries written to the persistent cache. By default, computations that take 1 second or more to compile will be cached.
      • Added {func}jax.scipy.stats.mode.
    • The default device order used by pmap on TPU if no order is specified now matches jax.devices() for single-process jobs. Previously the two orderings differed, which could lead to unnecessary copies or out-of-memory errors. Requiring the orderings to agree simplifies matters.
  • Breaking Changes
    • {func}jax.numpy.gradient now behaves like most other functions in {mod}jax.numpy, and forbids passing lists or tuples in place of arrays ({jax-issue}[#12958](https://github.com/google/jax/issues/12958))
    • Functions in {mod}jax.numpy.linalg and {mod}jax.numpy.fft now uniformly require inputs to be array-like: i.e. lists and tuples cannot be used in place of arrays. Part of {jax-issue}[#7737](https://github.com/google/jax/issues/7737).
  • Deprecations
    • jax.sharding.MeshPspecSharding has been renamed to jax.sharding.NamedSharding. jax.sharding.MeshPspecSharding name will be removed in 3 months.

jaxlib 0.3.24 (Nov 4, 2022)

... (truncated)

Commits
  • a683186 Use the 11/09 libtpu build for jaxlib release since that passes all the tests.
  • 7635df8 Remove custom potrf kernels in favor of native XLA cholesky support.
  • f36084a Update the values for jaxlib release (again)
  • 0da02dd Update the values needed for a jaxlib release
  • 465d4ec Merge pull request #13243 from google:yashk2810-patch-19
  • 50f7512 Update WORKSPACE for jaxlib release
  • e6c4d4a Add docstrings for Sharding classes. Right now I am only documenting `Shard...
  • c42bad8 Make MeshPspecSharding an alias for NamedSharding (it was the other way a...
  • d1e26d9 Merge pull request #13139 from mattjj:djax-vmap4
  • f715ca6 Merge pull request #13236 from skye:build_chat
  • Additional commits viewable in compare view


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codecov[bot] commented 1 year ago

Codecov Report

Base: 94.73% // Head: 94.73% // No change to project coverage :thumbsup:

Coverage data is based on head (e592c4b) compared to base (d31f78c). Patch has no changes to coverable lines.

Additional details and impacted files ```diff @@ Coverage Diff @@ ## main #737 +/- ## ======================================= Coverage 94.73% 94.73% ======================================= Files 155 155 Lines 4119 4119 Branches 213 213 ======================================= Hits 3902 3902 Misses 144 144 Partials 73 73 ``` | Flag | Coverage Δ | | |---|---|---| | unittests | `94.73% <ø> (ø)` | | Flags with carried forward coverage won't be shown. [Click here](https://docs.codecov.io/docs/carryforward-flags?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=openproblems-bio#carryforward-flags-in-the-pull-request-comment) to find out more. Help us with your feedback. Take ten seconds to tell us [how you rate us](https://about.codecov.io/nps?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=openproblems-bio). Have a feature suggestion? [Share it here.](https://app.codecov.io/gh/feedback/?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=openproblems-bio)

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