101 lines
2.3 KiB
Nix
101 lines
2.3 KiB
Nix
{
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lib,
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buildPythonPackage,
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fetchFromGitHub,
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fetchpatch,
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substituteAll,
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cmdstan,
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pythonRelaxDepsHook,
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setuptools,
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pandas,
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numpy,
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tqdm,
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stanio,
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xarray,
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pytestCheckHook,
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stdenv,
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}:
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buildPythonPackage rec {
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pname = "cmdstanpy";
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version = "1.2.3";
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pyproject = true;
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src = fetchFromGitHub {
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owner = "stan-dev";
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repo = "cmdstanpy";
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rev = "refs/tags/v${version}";
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hash = "sha256-PV7W1H4QYIOx1EHrGljrGUhCH1Y8ZPd9gEtCocc7x64=";
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};
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patches = [
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(substituteAll {
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src = ./use-nix-cmdstan-path.patch;
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cmdstan = "${cmdstan}/opt/cmdstan";
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})
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# Fix seed-dependent tests
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(fetchpatch {
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url = "https://github.com/stan-dev/cmdstanpy/commit/c72acd0b8123c02b47d5d583bdd7d8408b04562c.patch";
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hash = "sha256-cliyDDko4spYa62DMwWBavy5pePkofJo4Kf8I0RzueM=";
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})
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];
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postPatch = ''
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# conftest.py would have used git to clean up, which is unnecessary here
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rm test/conftest.py
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'';
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nativeBuildInputs = [
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setuptools
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pythonRelaxDepsHook
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];
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propagatedBuildInputs = [
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pandas
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numpy
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tqdm
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stanio
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];
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passthru.optional-dependencies = {
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all = [ xarray ];
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};
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pythonRelaxDeps = [ "stanio" ];
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preCheck = ''
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export HOME=$(mktemp -d)
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'';
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nativeCheckInputs = [ pytestCheckHook ] ++ passthru.optional-dependencies.all;
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disabledTestPaths = [
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# No need to test these when using Nix
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"test/test_install_cmdstan.py"
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"test/test_cxx_installation.py"
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];
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disabledTests =
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[
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"test_serialization" # Pickle class mismatch errors
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# These tests use the flag -DSTAN_THREADS which doesn't work in cmdstan (missing file)
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"test_multi_proc_threads"
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"test_compile_force"
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# These tests require a writeable cmdstan source directory
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"test_pathfinder_threads"
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"test_save_profile"
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]
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++ lib.optionals stdenv.isDarwin [
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"test_init_types" # CmdStan error: error during processing Operation not permitted
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];
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pythonImportsCheck = [ "cmdstanpy" ];
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meta = {
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homepage = "https://github.com/stan-dev/cmdstanpy";
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description = "Lightweight interface to Stan for Python users";
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changelog = "https://github.com/stan-dev/cmdstanpy/releases/tag/v${version}";
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license = lib.licenses.bsd3;
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maintainers = with lib.maintainers; [ tomasajt ];
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};
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}
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