python313Packages.nipype: 1.10.0 -> 1.11.0

  stdenv,

  buildPythonPackage,

  fetchPypi,

  # build-system

  hatchling,

  hatch-vcs,

  # python dependencies

  acres,

  click,

  python-dateutil,

  etelemetry,

  filelock,

  looseversion,

  mock,

  lxml,

  networkx,

  nibabel,

  numpy,

  packaging,

  prov,

  psutil,

  puremagic,

  pybids,

  pydot,

  pytest,

  pytestCheckHook,

  pytest-xdist,

  pytest-forked,

  pytest-cov-stub,

  rdflib,

  scipy,

  simplejson,

  traits,

  # optional-dependencies

  datalad,

  duecredit,

  pandas,

  paramiko,

  psutil,

  sphinx,

  xvfbwrapper,

  # other dependencies

  which,

  bash,

  glibcLocales,

  # causes Python packaging conflict with any package requiring rdflib,

  # so use the unpatched rdflib by default (disables Nipype provenance tracking);

  # see https://github.com/nipy/nipype/issues/2888:

  useNeurdflib ? false,

}:

buildPythonPackage rec {

  pname = "nipype";

  version = "1.10.0";

  format = "setuptools";

  version = "1.11.0";

  pyproject = true;

  src = fetchPypi {

    inherit pname version;

    hash = "sha256-GeXWzvpwmXGY94vGZe9NPTy1MyW1uYpy5Rrvra9rPg4=";

    hash = "sha256-ZwfsTDz44Zg673+O6nlifue3q0qklkmZFVDhKcFlt6c=";

  };

  postPatch = ''

    substituteInPlace nipype/interfaces/base/tests/test_core.py \

      --replace-fail "/usr/bin/env bash" "${bash}/bin/bash"

    substituteInPlace nipype/pipeline/engine/tests/test_nodes.py \

      --replace-fail "/bin/bash" "${bash}/bin/bash"

  '';

  pythonRelaxDeps = [ "traits" ];

  build-system = [

    hatchling

    hatch-vcs

  ];

  dependencies = [

    acres

    click

    python-dateutil

    etelemetry

    filelock

    looseversion

    lxml

    networkx

    nibabel

    numpy

    packaging

    prov

    psutil

    puremagic

    pydot

    python-dateutil

    rdflib

    scipy

    simplejson

    traits

    xvfbwrapper

  ];

  passthru.optional-dependencies = {

    data = [ datalad ];

    duecredit = [ duecredit ];

    profiler = [ psutil ];

    pybids = [ pybids ];

    ssh = [ paramiko ];

    xvfbwrapper = [ xvfbwrapper ];

  };

  nativeCheckInputs = [

    pybids

    glibcLocales

    mock

    pytest

    pytest-forked

    pandas

    pytestCheckHook

    pytest-cov-stub

    pytest-xdist

    sphinx

    which

  ];

  # checks on darwin inspect memory which doesn't work in build environment

  doCheck = !stdenv.hostPlatform.isDarwin;

  # ignore tests which incorrect fail to detect xvfb

  checkPhase = ''

    pytest nipype/tests -k 'not display and not test_no_et_multiproc'

  '';

  pythonImportsCheck = [ "nipype" ];

  pythonImportsCheck = [

    "nipype"

    "nipype.algorithms"

    "nipype.interfaces"

  ];

  meta = {

    homepage = "https://nipy.org/nipype";