pythonPackages: fix native / check inputs

pkgs/development/python-modules/beautifulsoup4/default.nix

@@ -9,7 +9,7 @@ buildPythonPackage rec {
     sha256 = "90f8e61121d6ae58362ce3bed8cd997efb00c914eae0ff3d363c32f9a9822d10";
   };
 
-  buildInputs = [ nose ];
+  checkInputs = [ nose ];
   checkPhase = ''
     nosetests build
   '';

pkgs/development/python-modules/cffi/default.nix

@@ -12,7 +12,7 @@ if isPyPy then null else buildPythonPackage rec {
   outputs = [ "out" "dev" ];
 
   propagatedBuildInputs = [ libffi pycparser ];
-  buildInputs = [ pytest ];
+  checkInputs = [ pytest ];
 
   # On Darwin, the cffi tests want to hit libm a lot, and look for it in a global
   # impure search path. It's obnoxious how much repetition there is, and how difficult

pkgs/development/python-modules/distro/default.nix

@@ -4,7 +4,7 @@ buildPythonPackage rec {
   pname = "distro";
   version = "1.3.0";
 
-  buildInputs = [ pytest pytestcov tox];
+  checkInputs = [ pytest pytestcov tox];
 
   checkPhase = ''
     touch tox.ini

pkgs/development/python-modules/ecdsa/default.nix

@@ -14,7 +14,7 @@ buildPythonPackage rec {
   };
 
   # Only needed for tests
-  buildInputs = [ pkgs.openssl ];
+  checkInputs = [ pkgs.openssl ];
 
   meta = with stdenv.lib; {
     description = "ECDSA cryptographic signature library";

pkgs/development/python-modules/et_xmlfile/default.nix

@@ -14,7 +14,7 @@ buildPythonPackage rec {
     sha256="0nrkhcb6jdrlb6pwkvd4rycw34y3s931hjf409ij9xkjsli9fkb1";
   };
 
-  buildInputs = [ lxml pytest ];
+  checkInputs = [ lxml pytest ];
   checkPhase = ''
     py.test $out
   '';

pkgs/development/python-modules/httpretty/default.nix

@@ -11,6 +11,8 @@
 , urllib3
 , rednose
 , nose-randomly
+, six
+, mock
 }:
 
 buildPythonPackage rec {
@@ -22,8 +24,11 @@ buildPythonPackage rec {
     sha256 = "01b52d45077e702eda491f4fe75328d3468fd886aed5dcc530003e7b2b5939dc";
   };
 
-  checkInputs = [ tornado requests httplib2 sure nose nose-randomly rednose coverage certifi ];
-  propagatedBuildInputs = [ urllib3 ];
+  checkInputs = [ nose sure coverage mock rednose
+  # Following not declared in setup.py
+    nose-randomly requests tornado httplib2
+  ];
+  propagatedBuildInputs = [ six ];
 
   meta = with stdenv.lib; {
     homepage = "https://falcao.it/HTTPretty/";

pkgs/development/python-modules/jsonref/default.nix

@@ -10,7 +10,7 @@ buildPythonPackage rec {
     sha256 = "15v69rg2lkcykb2spnq6vbbirv9sfq480fnwmfppw9gn3h95pi7k";
   };
 
-  buildInputs = [ pytest mock ];
+  checkInputs = [ pytest mock ];
 
   checkPhase = ''
     py.test tests.py

pkgs/development/python-modules/jsonschema/default.nix

@@ -10,15 +10,17 @@ buildPythonPackage rec {
     sha256 = "00kf3zmpp9ya4sydffpifn0j0mzm342a2vzh82p6r0vh10cg7xbg";
   };
 
-  buildInputs = [ nose mock vcversioner ];
+  checkInputs = [ nose mock vcversioner ];
   propagatedBuildInputs = [ functools32 ];
 
-  patchPhase = ''
+  postPatch = ''
     substituteInPlace jsonschema/tests/test_jsonschema_test_suite.py \
-      --replace "python" "${python}/bin/${python.executable}"
+      --replace "python" "${python.pythonForBuild.interpreter}"
   '';
 
-  checkPhase = "nosetests";
+  checkPhase = ''
+    nosetests
+  '';
 
   meta = with stdenv.lib; {
     homepage = https://github.com/Julian/jsonschema;

pkgs/development/python-modules/kerberos/default.nix

@@ -1,7 +1,7 @@
 { stdenv
 , buildPythonPackage
 , fetchPypi
-, pkgs
+, kerberos
 }:
 
 buildPythonPackage rec {
@@ -13,7 +13,10 @@ buildPythonPackage rec {
     sha256 = "19663qxmma0i8bfbjc2iwy5hgq0g4pfb75r023v5dps68zfvffgh";
   };
 
-  buildInputs = [ pkgs.kerberos ];
+  nativeBuildInputs = [ kerberos ];
+
+  # No tests in archive
+  doCheck = false;
 
   meta = with stdenv.lib; {
     description = "Kerberos high-level interface";

pkgs/development/python-modules/ldap3/default.nix

@@ -1,4 +1,4 @@
-{ stdenv, fetchPypi, fetchFromGitHub, buildPythonPackage, gssapi, pyasn1 }:
+{ stdenv, fetchPypi, fetchFromGitHub, buildPythonPackage, pyasn1 }:
 
 buildPythonPackage rec {
   version = "2.5.2";
@@ -17,8 +17,6 @@ buildPythonPackage rec {
     sha256 = "0p5l4bhy6j2nvvlxz5zvznbaqb72x791v9la2jr2wpwr60mzz9hw";
   };
 
-  buildInputs = [ gssapi ];
-
   propagatedBuildInputs = [ pyasn1 ];
 
   doCheck = false; # requires network

pkgs/development/python-modules/llfuse/default.nix

@@ -13,17 +13,15 @@ buildPythonPackage rec {
   };
 
   nativeBuildInputs = [ pkgconfig ];
-  buildInputs = [ pytest fuse attr which ];
+  buildInputs = [ fuse ];
+  checkInputs = [ pytest attr which ];
 
   propagatedBuildInputs = [ contextlib2 ];
 
   checkPhase = ''
-    py.test
+    py.test -k "not test_listdir"
   '';
 
-  # FileNotFoundError: [Errno 2] No such file or directory: '/usr/bin'
-  doCheck = false;
-
   meta = with stdenv.lib; {
     description = "Python bindings for the low-level FUSE API";
     homepage = https://code.google.com/p/python-llfuse/;

pkgs/development/python-modules/llvmlite/default.nix

@@ -19,7 +19,8 @@ buildPythonPackage rec {
     sha256 = "fd64def9a51dd7dc61913a7a08eeba5b9785522740bec5a7c5995b2a90525025";
   };
 
-  propagatedBuildInputs = [ llvm ] ++ stdenv.lib.optional (pythonOlder "3.4") enum34;
+  nativeBuildInputs = [ llvm ];
+  propagatedBuildInputs = [ ] ++ stdenv.lib.optional (pythonOlder "3.4") enum34;
 
   # Disable static linking
   # https://github.com/numba/llvmlite/issues/93

pkgs/development/python-modules/lxml/default.nix

@@ -14,6 +14,7 @@ buildPythonPackage rec {
     sha256 = "36720698c29e7a9626a0dc802ef8885f8f0239bfd1689628ecd459a061f2807f";
   };
 
+  nativeBuildInputs = [ libxml2.dev libxslt.dev ];
   buildInputs = [ libxml2 libxslt ];
 
   hardeningDisable = stdenv.lib.optional stdenv.isDarwin "format";

pkgs/development/python-modules/minimock/default.nix

@@ -13,9 +13,11 @@ buildPythonPackage rec {
     sha256 = "c88fa8a7120623f23990a7f086a9657f6ced09025a55e3be8649a30b4945441a";
   };
 
-  buildInputs = [ nose ];
+  checkInputs = [ nose ];
 
-  checkPhase = "./test";
+  checkPhase = ''
+    ./test
+  '';
 
   meta = with stdenv.lib; {
     description = "A minimalistic mocking library for python";

pkgs/development/python-modules/netaddr/default.nix

@@ -2,7 +2,8 @@
 , buildPythonPackage
 , fetchPypi
 , pytest
-, pkgs
+, fetchpatch
+, glibcLocales
 }:
 
 buildPythonPackage rec {
@@ -15,7 +16,7 @@ buildPythonPackage rec {
   };
 
   LC_ALL = "en_US.UTF-8";
-  buildInputs = [ pkgs.glibcLocales pytest ];
+  checkInputs = [ glibcLocales pytest ];
 
   checkPhase = ''
     # fails on python3.7: https://github.com/drkjam/netaddr/issues/182
@@ -25,7 +26,7 @@ buildPythonPackage rec {
   '';
 
   patches = [
-    (pkgs.fetchpatch {
+    (fetchpatch {
       url = https://github.com/drkjam/netaddr/commit/2ab73f10be7069c9412e853d2d0caf29bd624012.patch;
       sha256 = "0s1cdn9v5alpviabhcjmzc0m2pnpq9dh2fnnk2x96dnry1pshg39";
     })

pkgs/development/python-modules/nose-randomly/default.nix

@@ -14,10 +14,7 @@ buildPythonPackage rec {
     sha256 = "361f4c2fbb090ec2bc8e5e4151e21409a09ac13f364e3448247cc01f326d89b3";
   };
 
-  checkInputs = [ numpy ];
-  propagatedBuildInputs = [
-    nose
-  ];
+  checkInputs = [ numpy nose ];
 
   checkPhase = ''
     nosetests

pkgs/development/python-modules/nose_warnings_filters/default.nix

@@ -18,6 +18,7 @@ buildPythonPackage rec {
 
   propagatedBuildInputs = [ nose ];
 
+  checkInputs = [ nose ];
   checkPhase = ''
     nosetests -v
   '';

pkgs/development/python-modules/nosejs/default.nix

@@ -13,7 +13,7 @@ buildPythonPackage rec {
     sha256 = "0qrhkd3sga56qf6k0sqyhwfcladwi05gl6aqmr0xriiq1sgva5dy";
   };
 
-  buildInputs = [ nose ];
+  checkInputs = [ nose ];
 
   checkPhase = ''
     nosetests -v

pkgs/development/python-modules/pep257/default.nix

@@ -8,7 +8,7 @@ buildPythonPackage rec {
     sha256 = "1ldpgil0kaf6wz5gvl9xdx35a62vc6bmgi3wbh9320dj5v2qk4wh";
   };
 
-  buildInputs = [ pytest mock ];
+  checkInputs = [ pytest mock ];
 
   checkPhase = ''
     py.test

pkgs/development/python-modules/podcastparser/default.nix

@@ -11,11 +11,11 @@ buildPythonPackage rec {
     sha256 = "10bk93fqsws360q1gkjvfzjda3351169zbr6v5lq9raa3mg1ln52";
   };
 
-  propagatedBuildInputs = [ ];
+  checkInputs = [ nose ];
 
-  buildInputs = [ nose ];
-
-  checkPhase = "nosetests test_*.py";
+  checkPhase = ''
+    nosetests test_*.py
+  '';
 
   meta = {
     description = "podcastparser is a simple, fast and efficient podcast parser written in Python.";

pkgs/development/python-modules/pydispatcher/default.nix

@@ -13,7 +13,7 @@ buildPythonPackage rec {
     sha256 = "1bswbmhlbqdxlgbxlb6xrlm4k253sg8nvpl1whgsys8p3fg0cw2m";
   };
 
-  buildInputs = [ pytest ];
+  checkInputs = [ pytest ];
 
   checkPhase = ''
     py.test

pkgs/development/python-modules/pygobject/3.nix

@@ -18,7 +18,7 @@ buildPythonPackage rec {
     "-Dpython=python${if isPy3k then "3" else "2" }"
   ];
 
-  nativeBuildInputs = [ pkgconfig meson ninja ];
+  nativeBuildInputs = [ pkgconfig meson ninja gobject-introspection ];
   buildInputs = [ glib gobject-introspection ]
                  ++ stdenv.lib.optionals stdenv.isDarwin [ which ncurses ];
   propagatedBuildInputs = [ pycairo cairo ];

pkgs/development/python-modules/pyopenssl/default.nix

@@ -68,7 +68,7 @@ buildPythonPackage rec {
   # for one example, but I've also seen ContextTests.test_set_verify_callback_exception fail.
   doCheck = !stdenv.isDarwin;
 
-  buildInputs = [ openssl ];
+  nativeBuildInputs = [ openssl ];
   propagatedBuildInputs = [ cryptography pyasn1 idna ];
 
   checkInputs = [ pytest pretend flaky glibcLocales ];

pkgs/development/python-modules/pytest-cram/default.nix

@@ -4,7 +4,7 @@ buildPythonPackage rec {
   version = "0.2.0";
   pname = "pytest-cram";
 
-  buildInputs = [ pytest ];
+  checkInputs = [ pytest ];
   propagatedBuildInputs = [ cram ];
 
   src = fetchPypi {

pkgs/development/python-modules/pytest-django/default.nix

@@ -17,8 +17,8 @@ buildPythonPackage rec {
     sha256 = "07zl2438gavrcykva6i2lpxmzgf90h4xlm3nqgd7wsqz2yh727zy";
   };
 
-  buildInputs = [ pytest setuptools_scm ];
-  checkInputs = [ django-configurations pytest_xdist six ];
+  nativeBuildInputs = [ pytest setuptools_scm ];
+  checkInputs = [ pytest django-configurations pytest_xdist six ];
   propagatedBuildInputs = [ django ];
 
   # Complicated. Requires Django setup.

pkgs/development/python-modules/pytest-flake8/default.nix

@@ -7,7 +7,7 @@ buildPythonPackage rec {
   # although pytest is a runtime dependency, do not add it as
   # propagatedBuildInputs in order to allow packages depend on another version
   # of pytest more easily
-  buildInputs = [ pytest ];
+  checkInputs = [ pytest ];
   propagatedBuildInputs = [ flake8 ];
 
   src = fetchPypi {

pkgs/development/python-modules/pytestrunner/default.nix

@@ -9,7 +9,7 @@ buildPythonPackage rec {
     sha256 = "d23f117be39919f00dd91bffeb4f15e031ec797501b717a245e377aee0f577be";
   };
 
-  buildInputs = [ setuptools_scm pytest ];
+  nativeBuildInputs = [ setuptools_scm pytest ];
 
   postPatch = ''
     rm pytest.ini

pkgs/development/python-modules/pyudev/default.nix

@@ -16,7 +16,7 @@ buildPythonPackage rec {
       --replace "find_library(name)" "'${systemd.lib}/lib/libudev.so'"
     '';
 
-  buildInputs = [ pytest mock hypothesis docutils ];
+  checkInputs = [ pytest mock hypothesis docutils ];
   propagatedBuildInputs = [ systemd six ];
 
   checkPhase = ''

pkgs/development/python-modules/sqlparse/default.nix

@@ -14,7 +14,7 @@ buildPythonPackage rec {
     sha256 = "ce028444cfab83be538752a2ffdb56bc417b7784ff35bb9a3062413717807dec";
   };
 
-  buildInputs = [ pytest ];
+  checkInputs = [ pytest ];
   checkPhase = ''
     py.test
   '';

pkgs/development/python-modules/tlsh/default.nix

@@ -1,7 +1,7 @@
 { stdenv
 , buildPythonPackage
 , fetchFromGitHub
-, pkgs
+, cmake
 }:
 
 buildPythonPackage rec {
@@ -15,7 +15,7 @@ buildPythonPackage rec {
     sha256 = "1ydliir308xn4ywy705mmsh7863ldlixdvpqwdhbipzq9vfpmvll";
   };
 
-  buildInputs = [ pkgs.cmake ];
+  nativeBuildInputs = [ cmake ];
 
   # no test data
   doCheck = false;

pkgs/development/python-modules/whoosh/default.nix

@@ -7,7 +7,8 @@ buildPythonPackage rec {
     inherit pname version;
     sha256 = "10qsqdjpbc85fykc1vgcs8xwbgn4l2l52c8d83xf1q59pwyn79bw";
   };
-  buildInputs = [ pytest ];
+
+  checkInputs = [ pytest ];
 
   # Wrong encoding
   postPatch = ''

pkgs/development/python-modules/xlrd/default.nix

@@ -13,7 +13,7 @@ buildPythonPackage rec {
     sha256 = "8a21885513e6d915fe33a8ee5fdfa675433b61405ba13e2a69e62ee36828d7e2";
   };
 
-  buildInputs = [ nose ];
+  checkInputs = [ nose ];
 
   checkPhase = ''
     nosetests -v

pkgs/tools/backup/tarsnapper/default.nix

@@ -11,7 +11,7 @@ python3Packages.buildPythonApplication rec {
     sha256 = "03db49188f4v1946c8mqqj30ah10x68hbg3a58js0syai32v12pm";
   };
 
-  buildInputs = with python3Packages; [ nose pytest ];
+  checkInputs = with python3Packages; [ nose pytest ];
 
   checkPhase = ''
     py.test .

pkgs/top-level/python-packages.nix

@@ -534,7 +534,9 @@ in {
 
   pyaxmlparser = callPackage ../development/python-modules/pyaxmlparser { };
 
-  pycairo = callPackage ../development/python-modules/pycairo { };
+  pycairo = callPackage ../development/python-modules/pycairo {
+    inherit (pkgs) pkgconfig;
+  };
 
   pycangjie = disabledIf (!isPy3k) (callPackage ../development/python-modules/pycangjie { });
 
@@ -572,9 +574,13 @@ in {
 
   pygmo = callPackage ../development/python-modules/pygmo { };
 
-  pygobject2 = callPackage ../development/python-modules/pygobject { };
+  pygobject2 = callPackage ../development/python-modules/pygobject {
+    inherit (pkgs) pkgconfig;
+  };
 
-  pygobject3 = callPackage ../development/python-modules/pygobject/3.nix { };
+  pygobject3 = callPackage ../development/python-modules/pygobject/3.nix {
+    inherit (pkgs) pkgconfig;
+  };
 
   pygtail = callPackage ../development/python-modules/pygtail { };
 
@@ -2839,7 +2845,9 @@ in {
 
   jsonpath_rw = callPackage ../development/python-modules/jsonpath_rw { };
 
-  kerberos = callPackage ../development/python-modules/kerberos { };
+  kerberos = callPackage ../development/python-modules/kerberos {
+    inherit (pkgs) kerberos;
+  };
 
   lazy-object-proxy = callPackage ../development/python-modules/lazy-object-proxy { };
 
@@ -2902,7 +2910,7 @@ in {
   livereload = callPackage ../development/python-modules/livereload { };
 
   llfuse = callPackage ../development/python-modules/llfuse {
-    fuse = pkgs.fuse;  # use "real" fuse, not the python module
+    inherit (pkgs) fuse pkgconfig; # use "real" fuse and pkgconfig, not the python modules
   };
 
   locustio = callPackage ../development/python-modules/locustio { };
@@ -4625,7 +4633,7 @@ in {
   };
 
   libvirt = callPackage ../development/python-modules/libvirt {
-    inherit (pkgs) libvirt;
+    inherit (pkgs) libvirt pkgconfig;
   };
 
   rpdb = callPackage ../development/python-modules/rpdb { };