Add 'infra/libkookie/' from commit 'd661aa56a8843e991261510c1bb28fdc2f6975ae'

git-subtree-dir: infra/libkookie
git-subtree-mainline: 49f735974dd103039ddc4cb576bb76555164a9e7
git-subtree-split: d661aa56a8843e991261510c1bb28fdc2f6975ae

1 files changed, 120 insertions, 0 deletions

diff --git a/infra/libkookie/nixpkgs/pkgs/development/python-modules/nipype/default.nix b/infra/libkookie/nixpkgs/pkgs/development/python-modules/nipype/default.nix
new file mode 100644
index 000000000000..80ee7691a1a5
--- /dev/null
+++ b/infra/libkookie/nixpkgs/pkgs/development/python-modules/nipype/default.nix
@@ -0,0 +1,120 @@
+{ 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
+, sphinx
+# 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 = "1.5.1";
+
+  src = fetchPypi {
+    inherit pname version;
+    sha256 = "3d6aa37186e1d2f90917dfdf1faf5aeff469912554990e5d182ffe8435f250d5";
+  };
+
+  postPatch = ''
+    substituteInPlace nipype/interfaces/base/tests/test_core.py \
+      --replace "/usr/bin/env bash" "${bash}/bin/bash"
+  '';
+
+  nativeBuildInputs = [
+    sphinx
+  ];
+
+  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 nipype/tests -k 'not display'
+  '';
+  pythonImportsCheck = [ "nipype" ];
+
+  meta = with stdenv.lib; {
+    homepage = "https://nipy.org/nipype/";
+    description = "Neuroimaging in Python: Pipelines and Interfaces";
+    license = licenses.bsd3;
+    maintainers = with maintainers; [ ashgillman ];
+  };
+}