110 lines
2 KiB
Nix
110 lines
2 KiB
Nix
{
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lib,
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stdenv,
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buildPythonPackage,
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fetchPypi,
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pythonOlder,
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# python dependencies
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click,
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python-dateutil,
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etelemetry,
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filelock,
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funcsigs,
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future,
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looseversion,
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mock,
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networkx,
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nibabel,
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numpy,
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packaging,
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prov,
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psutil,
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pybids,
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pydot,
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pytest,
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pytest-xdist,
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pytest-forked,
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rdflib,
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scipy,
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simplejson,
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traits,
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xvfbwrapper,
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codecov,
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# other dependencies
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which,
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bash,
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glibcLocales,
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# causes Python packaging conflict with any package requiring rdflib,
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# so use the unpatched rdflib by default (disables Nipype provenance tracking);
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# see https://github.com/nipy/nipype/issues/2888:
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useNeurdflib ? false,
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}:
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buildPythonPackage rec {
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pname = "nipype";
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version = "1.8.6";
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disabled = pythonOlder "3.7";
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format = "setuptools";
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src = fetchPypi {
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inherit pname version;
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hash = "sha256-l3sTFej3D5QWPsB+MeVXG+g/Kt1gIxQcWgascAEm+NE=";
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};
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postPatch = ''
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substituteInPlace nipype/interfaces/base/tests/test_core.py \
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--replace "/usr/bin/env bash" "${bash}/bin/bash"
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'';
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pythonRelaxDeps = [ "traits" ];
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propagatedBuildInputs = [
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click
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python-dateutil
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etelemetry
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filelock
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funcsigs
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future
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looseversion
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networkx
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nibabel
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numpy
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packaging
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prov
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psutil
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pydot
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rdflib
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scipy
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simplejson
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traits
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xvfbwrapper
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];
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nativeCheckInputs = [
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pybids
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codecov
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glibcLocales
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mock
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pytest
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pytest-forked
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pytest-xdist
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which
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];
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# checks on darwin inspect memory which doesn't work in build environment
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doCheck = !stdenv.hostPlatform.isDarwin;
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# ignore tests which incorrect fail to detect xvfb
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checkPhase = ''
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LC_ALL="en_US.UTF-8" pytest nipype/tests -k 'not display and not test_no_et_multiproc'
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'';
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pythonImportsCheck = [ "nipype" ];
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meta = with lib; {
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homepage = "https://nipy.org/nipype/";
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description = "Neuroimaging in Python: Pipelines and Interfaces";
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mainProgram = "nipypecli";
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license = licenses.bsd3;
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maintainers = with maintainers; [ ashgillman ];
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};
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}
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