forked from mirrors/nixpkgs
117 lines
2 KiB
Nix
117 lines
2 KiB
Nix
{ stdenv
|
|
, buildPythonPackage
|
|
, fetchPypi
|
|
, isPy3k
|
|
, isPy38
|
|
# python dependencies
|
|
, click
|
|
, configparser ? null
|
|
, dateutil
|
|
, etelemetry
|
|
, filelock
|
|
, funcsigs
|
|
, future
|
|
, futures
|
|
, mock
|
|
, networkx
|
|
, nibabel
|
|
, numpy
|
|
, packaging
|
|
, pathlib2
|
|
, prov
|
|
, psutil
|
|
, pybids
|
|
, pydot
|
|
, pytest
|
|
, pytest_xdist
|
|
, pytest-forked
|
|
, scipy
|
|
, simplejson
|
|
, traits
|
|
, xvfbwrapper
|
|
, pytestcov
|
|
, codecov
|
|
# other dependencies
|
|
, which
|
|
, bash
|
|
, glibcLocales
|
|
, callPackage
|
|
}:
|
|
|
|
assert !isPy3k -> configparser != null;
|
|
|
|
let
|
|
|
|
# This is a temporary convenience package for changes waiting to be merged into the primary rdflib repo.
|
|
neurdflib = callPackage ./neurdflib.nix { };
|
|
|
|
in
|
|
|
|
buildPythonPackage rec {
|
|
pname = "nipype";
|
|
version = "1.3.1";
|
|
|
|
src = fetchPypi {
|
|
inherit pname version;
|
|
sha256 = "bb190964b568d64b04b73d2aa7eae31061fdbc3051d8c27bb34b1632db07ec71";
|
|
};
|
|
|
|
postPatch = ''
|
|
substituteInPlace nipype/interfaces/base/tests/test_core.py \
|
|
--replace "/usr/bin/env bash" "${bash}/bin/bash"
|
|
'';
|
|
|
|
propagatedBuildInputs = [
|
|
click
|
|
dateutil
|
|
etelemetry
|
|
filelock
|
|
funcsigs
|
|
future
|
|
networkx
|
|
neurdflib
|
|
nibabel
|
|
numpy
|
|
packaging
|
|
prov
|
|
psutil
|
|
pydot
|
|
scipy
|
|
simplejson
|
|
traits
|
|
xvfbwrapper
|
|
] ++ stdenv.lib.optionals (!isPy3k) [
|
|
configparser
|
|
futures
|
|
pathlib2 # darwin doesn't receive this transitively, but it is in install_requires
|
|
];
|
|
|
|
checkInputs = [
|
|
pybids
|
|
codecov
|
|
glibcLocales
|
|
mock
|
|
pytest
|
|
pytest-forked
|
|
pytest_xdist
|
|
pytestcov
|
|
which
|
|
];
|
|
|
|
# checks on darwin inspect memory which doesn't work in build environment
|
|
doCheck = !stdenv.isDarwin;
|
|
# ignore tests which incorrect fail to detect xvfb
|
|
checkPhase = ''
|
|
LC_ALL="en_US.UTF-8" pytest -v nipype -k 'not display'
|
|
'';
|
|
|
|
meta = with stdenv.lib; {
|
|
homepage = https://nipy.org/nipype/;
|
|
description = "Neuroimaging in Python: Pipelines and Interfaces";
|
|
license = licenses.bsd3;
|
|
maintainers = with maintainers; [ ashgillman ];
|
|
# tests hang, blocking reviews of other packages
|
|
broken = isPy38;
|
|
};
|
|
}
|