98 lines
2.2 KiB
Nix
98 lines
2.2 KiB
Nix
{ lib
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, buildPythonPackage
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, fetchFromGitHub
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, substituteAll
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, fetchpatch
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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 = "1.2.0";
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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${version}";
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hash = "sha256-1/X5JDvCx21qLNamNQXpg+w3d3DdSRlB+liIv2fThs4=";
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};
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patches = [
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(substituteAll {
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src = ./use-nix-cmdstan-path.patch;
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cmdstan = "${cmdstan}/opt/cmdstan";
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})
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(fetchpatch {
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name = "stan-2.34-fix-parsing-of-unit_e-output-files.patch";
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url = "https://github.com/stan-dev/cmdstanpy/commit/144d641739ccd1109055d13b5b96e4e76607305d.patch";
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hash = "sha256-21hcbK3Xs7vGBNRs4hMfY5g7jIwEG49WYnsOxYJ6ccs=";
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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 = [
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pytestCheckHook
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] ++ 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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"test_lp_good" # Fails for some reason
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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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] ++ 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 = "A 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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