76e2a397c2
This treewide change targets Python packages that specifies pytest flags with pytestFlagsArray, and whose flags cannot be consructed by other pytestCheckHook-honoured arguments. Use the __structuredAttrs-agnostic argument pytestFlags instead of the deprecated pytestFlagsArray. For flags with option arguments, join each flag and their option argument into a single command-line argument following POSIX Utility Argument Syntax[1] for easier overriding (remove/replace). Examples: * [ "-W" "ignore:message:WarningClass" ] -> [ "-Wignore:message:WarningClass" ] * [ "--reruns" "3" ] -> [ "--reruns=3" ] [1]: https://pubs.opengroup.org/onlinepubs/009695399/basedefs/xbd_chap12.html
115 lines
2.7 KiB
Nix
115 lines
2.7 KiB
Nix
{
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lib,
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stdenv,
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buildPythonPackage,
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fetchFromGitHub,
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# build-system
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setuptools,
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# dependencies
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jax,
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jaxlib,
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multipledispatch,
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numpy,
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tqdm,
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# tests
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dm-haiku,
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flax,
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funsor,
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graphviz,
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optax,
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pyro-api,
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pytest-xdist,
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pytestCheckHook,
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scikit-learn,
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tensorflow-probability,
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}:
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buildPythonPackage rec {
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pname = "numpyro";
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version = "0.18.0";
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pyproject = true;
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src = fetchFromGitHub {
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owner = "pyro-ppl";
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repo = "numpyro";
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tag = version;
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hash = "sha256-0X/ta2yfzjf3JnZYdUAzQmXvbsDpwFCJe/bArMSWQgU=";
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};
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build-system = [ setuptools ];
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dependencies = [
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jax
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jaxlib
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multipledispatch
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numpy
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tqdm
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];
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nativeCheckInputs = [
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dm-haiku
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flax
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funsor
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graphviz
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optax
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pyro-api
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pytest-xdist
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pytestCheckHook
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scikit-learn
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tensorflow-probability
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];
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pythonImportsCheck = [ "numpyro" ];
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pytestFlags = [
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# Tests memory consumption grows significantly with the number of parallel processes (reaches ~200GB with 80 jobs)
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"--maxprocesses=8"
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# A few tests fail with:
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# UserWarning: There are not enough devices to run parallel chains: expected 2 but got 1.
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# Chains will be drawn sequentially. If you are running MCMC in CPU, consider using `numpyro.set_host_device_count(2)` at the beginning of your program.
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# You can double-check how many devices are available in your system using `jax.local_device_count()`.
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"-Wignore::UserWarning"
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];
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disabledTests =
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[
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# AssertionError, assert GLOBAL["count"] == 4 (assert 5 == 4)
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"test_mcmc_parallel_chain"
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# AssertionError due to tolerance issues
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"test_bijective_transforms"
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"test_cpu"
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"test_entropy_categorical"
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"test_gaussian_model"
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# > with pytest.warns(UserWarning, match="Hessian of log posterior"):
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# E Failed: DID NOT WARN. No warnings of type (<class 'UserWarning'>,) were emitted.
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# E Emitted warnings: [].
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"test_laplace_approximation_warning"
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# ValueError: compiling computation that requires 2 logical devices, but only 1 XLA devices are available (num_replicas=2)
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"test_chain"
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]
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++ lib.optionals stdenv.hostPlatform.isDarwin [
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# AssertionError: Not equal to tolerance rtol=0.06, atol=0
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"test_functional_map"
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];
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disabledTestPaths = [
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# Require internet access
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"test/test_example_utils.py"
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];
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meta = {
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description = "Library for probabilistic programming with NumPy";
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homepage = "https://num.pyro.ai/";
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changelog = "https://github.com/pyro-ppl/numpyro/releases/tag/${version}";
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license = lib.licenses.asl20;
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maintainers = with lib.maintainers; [ fab ];
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};
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}
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