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{
lib,
stdenv,
buildPythonPackage,
fetchPypi,
pythonOlder,
# python dependencies
click,
python-dateutil,
etelemetry,
filelock,
looseversion,
mock,
networkx,
nibabel,
numpy,
packaging,
prov,
psutil,
puremagic,
pybids,
pydot,
pytest,
pytest-xdist,
pytest-forked,
rdflib,
scipy,
simplejson,
traits,
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";
src = fetchPypi {
inherit pname version;
hash = "sha256-GeXWzvpwmXGY94vGZe9NPTy1MyW1uYpy5Rrvra9rPg4=";
};
postPatch = ''
substituteInPlace nipype/interfaces/base/tests/test_core.py \
--replace-fail "/usr/bin/env bash" "${bash}/bin/bash"
'';
pythonRelaxDeps = [ "traits" ];
dependencies = [
click
python-dateutil
etelemetry
filelock
looseversion
networkx
nibabel
numpy
packaging
prov
psutil
puremagic
pydot
rdflib
scipy
simplejson
traits
xvfbwrapper
];
nativeCheckInputs = [
pybids
glibcLocales
mock
pytest
pytest-forked
pytest-xdist
which
];
# checks on darwin inspect memory which doesn't work in build environment
doCheck = !stdenv.hostPlatform.isDarwin;
# ignore tests which incorrect fail to detect xvfb
checkPhase = ''
pytest nipype/tests -k 'not display and not test_no_et_multiproc'
'';
pythonImportsCheck = [ "nipype" ];
meta = {
homepage = "https://nipy.org/nipype";
description = "Neuroimaging in Python: Pipelines and Interfaces";
changelog = "https://github.com/nipy/nipype/releases/tag/${version}";
mainProgram = "nipypecli";
license = lib.licenses.bsd3;
maintainers = with lib.maintainers; [ ashgillman ];
};
}
|
