12 files changed, 210 insertions, 32 deletions
diff --git a/pkgs/development/python-modules/GitPython/default.nix b/pkgs/development/python-modules/GitPython/default.nix
new file mode 100644
index 000000000000..c2f3706923a3
--- /dev/null
+++ b/pkgs/development/python-modules/GitPython/default.nix
@@ -0,0 +1,24 @@
+{ lib, buildPythonPackage, fetchPypi, gitdb2, mock, nose, ddt }:
+
+buildPythonPackage rec {
+  version = "2.1.9";
+  pname = "GitPython";
+
+  src = fetchPypi {
+    inherit pname version;
+    sha256 = "0a9in1jfv9ssxhckl6sasw45bhm762y2r5ikgb2pk2g8yqdc6z64";
+  };
+
+  checkInputs = [ mock nose ddt ];
+  propagatedBuildInputs = [ gitdb2 ];
+
+  # Tests require a git repo
+  doCheck = false;
+
+  meta = {
+    description = "Python Git Library";
+    maintainers = [ ];
+    homepage = https://github.com/gitpython-developers/GitPython;
+    license = lib.licenses.bsd3;
+  };
+}
diff --git a/pkgs/development/python-modules/Theano/default.nix b/pkgs/development/python-modules/Theano/default.nix
index 03dc825218e2..9eb04782d6f8 100644
--- a/pkgs/development/python-modules/Theano/default.nix
+++ b/pkgs/development/python-modules/Theano/default.nix
@@ -15,17 +15,24 @@
 , libgpuarray
 , cudaSupport ? false, cudatoolkit
 , cudnnSupport ? false, cudnn
+, nvidia_x11
 }:
 
 assert cudnnSupport -> cudaSupport;
 
+assert cudaSupport -> nvidia_x11 != null
+                   && cudatoolkit != null
+                   && cudnn != null;
+
 let
   extraFlags =
     lib.optionals cudaSupport [ "-I ${cudatoolkit}/include" "-L ${cudatoolkit}/lib" ]
-    ++ lib.optionals cudnnSupport [ "-I ${cudnn}/include" "-L ${cudnn}/lib" ];
+    ++ lib.optionals cudnnSupport [ "-I ${cudnn}/include" "-L ${cudnn}/lib" ]
+    ++ lib.optionals cudaSupport [ "-I ${libgpuarray}/include" "-L ${libgpuarray}/lib" ];
 
   gcc_ = writeScriptBin "g++" ''
     #!${stdenv.shell}
+    export NIX_CC_WRAPPER_${stdenv.cc.infixSalt}_TARGET_HOST=1
     export NIX_CFLAGS_COMPILE="$NIX_CFLAGS_COMPILE ${toString extraFlags}"
     exec ${gcc}/bin/g++ "$@"
   '';
diff --git a/pkgs/development/python-modules/gitdb/default.nix b/pkgs/development/python-modules/gitdb/default.nix
new file mode 100644
index 000000000000..ceca6e3719b4
--- /dev/null
+++ b/pkgs/development/python-modules/gitdb/default.nix
@@ -0,0 +1,23 @@
+{ lib, buildPythonPackage, fetchPypi, smmap }:
+
+buildPythonPackage rec {
+  pname = "gitdb";
+  version = "0.6.4";
+
+  src = fetchPypi {
+    inherit pname version;
+    sha256 = "0n4n2c7rxph9vs2l6xlafyda5x1mdr8xy16r9s3jwnh3pqkvrsx3";
+  };
+
+  propagatedBuildInputs = [ smmap ];
+
+  # Bunch of tests fail because they need an actual git repo
+  doCheck = false;
+
+  meta = {
+    description = "Git Object Database";
+    maintainers = [ ];
+    homepage = https://github.com/gitpython-developers/gitdb;
+    license = lib.licenses.bsd3;
+  };
+}
diff --git a/pkgs/development/python-modules/gitdb2/default.nix b/pkgs/development/python-modules/gitdb2/default.nix
new file mode 100644
index 000000000000..1ebbd3de7850
--- /dev/null
+++ b/pkgs/development/python-modules/gitdb2/default.nix
@@ -0,0 +1,23 @@
+{ lib, buildPythonPackage, fetchPypi, smmap2 }:
+
+buildPythonPackage rec {
+  pname = "gitdb2";
+  version = "2.0.3";
+
+  src = fetchPypi {
+    inherit pname version;
+    sha256 = "02azg62mr99b7cllyjrly77np3vw32y8nrxpa2xjapiyaga2j3mn";
+  };
+
+  propagatedBuildInputs = [ smmap2 ];
+
+  # Bunch of tests fail because they need an actual git repo
+  doCheck = false;
+
+  meta = {
+    description = "Git Object Database";
+    maintainers = [ ];
+    homepage = https://github.com/gitpython-developers/gitdb;
+    license = lib.licenses.bsd3;
+  };
+}
diff --git a/pkgs/development/python-modules/ipython/5.nix b/pkgs/development/python-modules/ipython/5.nix
index 083c1f3b08dd..a91988bd97d0 100644
--- a/pkgs/development/python-modules/ipython/5.nix
+++ b/pkgs/development/python-modules/ipython/5.nix
@@ -27,11 +27,11 @@
 
 buildPythonPackage rec {
   pname = "ipython";
-  version = "5.6.0";
+  version = "5.7.0";
 
   src = fetchPypi {
     inherit pname version;
-    sha256 = "00g696r9rk1c4p3sycnv7by55cp9mm7r6zkkdqbiw9l0mk8k58wb";
+    sha256 = "0g1jm06qriq48m58311cs7askp83ipq3yq96hv4kg431nxzkmd4d";
   };
 
   prePatch = stdenv.lib.optionalString stdenv.isDarwin ''
diff --git a/pkgs/development/python-modules/isort/default.nix b/pkgs/development/python-modules/isort/default.nix
new file mode 100644
index 000000000000..5a7e50d43322
--- /dev/null
+++ b/pkgs/development/python-modules/isort/default.nix
@@ -0,0 +1,28 @@
+{ lib, buildPythonPackage, fetchPypi, isPy27, futures, mock, pytest }:
+
+buildPythonPackage rec {
+  pname = "isort";
+  version = "4.3.4";
+
+  src = fetchPypi {
+    inherit pname version;
+    sha256 = "1y0yfv56cqyh9wyg7kxxv9y5wmfgcq18n7a49mp7xmzka2bhxi5r";
+  };
+
+  propagatedBuildInputs = lib.optional isPy27 futures;
+
+  checkInputs = [ mock pytest ];
+
+  checkPhase = ''
+    py.test test_isort.py -k "not test_long_line_comments \
+                          and not test_import_case_produces_inconsistent_results_issue_472 \
+                          and not test_no_extra_lines_issue_557"
+  '';
+
+  meta = with lib; {
+    description = "A Python utility / library to sort Python imports";
+    homepage = https://github.com/timothycrosley/isort;
+    license = licenses.mit;
+    maintainers = with maintainers; [ couchemar nand0p ];
+  };
+}
diff --git a/pkgs/development/python-modules/libgpuarray/default.nix b/pkgs/development/python-modules/libgpuarray/default.nix
index 26fe33995ed8..14e83584678c 100644
--- a/pkgs/development/python-modules/libgpuarray/default.nix
+++ b/pkgs/development/python-modules/libgpuarray/default.nix
@@ -9,10 +9,13 @@
 , nose
 , Mako
 , python
-, cudaSupport ? false, cudatoolkit
+, cudaSupport ? false, cudatoolkit , nvidia_x11
 , openclSupport ? true, ocl-icd, clblas
 }:
 
+assert cudaSupport -> nvidia_x11 != null
+                   && cudatoolkit != null;
+
 buildPythonPackage rec {
   pname = "libgpuarray";
   version = "0.7.5";
@@ -32,7 +35,7 @@ buildPythonPackage rec {
 
   libraryPath = lib.makeLibraryPath (
     []
-    ++ lib.optionals cudaSupport [ cudatoolkit.lib cudatoolkit.out ]
+    ++ lib.optionals cudaSupport [ cudatoolkit.lib cudatoolkit.out nvidia_x11 ]
     ++ lib.optionals openclSupport ([ clblas ] ++ lib.optional (!stdenv.isDarwin) ocl-icd)
   );
 
diff --git a/pkgs/development/python-modules/podcats/default.nix b/pkgs/development/python-modules/podcats/default.nix
new file mode 100644
index 000000000000..a1b8312b134f
--- /dev/null
+++ b/pkgs/development/python-modules/podcats/default.nix
@@ -0,0 +1,28 @@
+{ lib, buildPythonPackage, fetchFromGitHub, flask, mutagen }:
+
+buildPythonPackage rec {
+  pname = "podcats";
+  version = "v0.5.0";
+  name = "${pname}-${version}";
+
+  src = fetchFromGitHub {
+    owner = "jakubroztocil";
+    repo = "podcats";
+    rev = version;
+    sha256 = "0zjdgry5n209rv19kj9yaxy7c7zq5gxr488izrgs4sc75vdzz8xc";
+  };
+
+  patchPhase = ''
+    substituteInPlace podcats.py \
+      --replace 'debug=True' 'debug=True, use_reloader=False'
+  '';
+
+  propagatedBuildInputs = [ flask mutagen ];
+
+  meta = {
+    description = "Application that generates RSS feeds for podcast episodes from local audio files";
+    homepage = https://github.com/jakubroztocil/podcats;
+    license = lib.licenses.bsd2;
+    maintainers = with lib.maintainers; [ the-kenny ];
+  };
+}
diff --git a/pkgs/development/python-modules/pytorch/default.nix b/pkgs/development/python-modules/pytorch/default.nix
index c8376196d3ac..b0ac4e070935 100644
--- a/pkgs/development/python-modules/pytorch/default.nix
+++ b/pkgs/development/python-modules/pytorch/default.nix
@@ -1,7 +1,7 @@
-{ buildPythonPackage,
+{ buildPythonPackage, pythonOlder,
   cudaSupport ? false, cudatoolkit ? null, cudnn ? null,
-  fetchFromGitHub, fetchpatch, lib, numpy, pyyaml, cffi, cmake,
-  git, stdenv, linkFarm, symlinkJoin,
+  fetchFromGitHub, fetchpatch, lib, numpy, pyyaml, cffi, typing, cmake,
+  stdenv, linkFarm, symlinkJoin,
   utillinux, which }:
 
 assert cudnn == null || cudatoolkit != null;
@@ -25,7 +25,7 @@ let
     "LD_LIBRARY_PATH=${cudaStub}\${LD_LIBRARY_PATH:+:$LD_LIBRARY_PATH} ";
 
 in buildPythonPackage rec {
-  version = "0.3.1";
+  version = "0.4.0";
   pname = "pytorch";
   name = "${pname}-${version}";
 
@@ -34,36 +34,17 @@ in buildPythonPackage rec {
     repo   = "pytorch";
     rev    = "v${version}";
     fetchSubmodules = true;
-    sha256 = "1k8fr97v5pf7rni5cr2pi21ixc3pdj3h3lkz28njbjbgkndh7mr3";
+    sha256 = "12d5vqqaprk0igmih7fwa65ldmaawgijxl58h6dnw660wysc132j";
   };
 
-  patches = [
-    (fetchpatch {
-      # make sure stdatomic.h is included when checking for ATOMIC_INT_LOCK_FREE
-      # Fixes this test failure:
-      # RuntimeError: refcounted file mapping not supported on your system at /tmp/nix-build-python3.6-pytorch-0.3.0.drv-0/source/torch/lib/TH/THAllocator.c:525
-      url = "https://github.com/pytorch/pytorch/commit/502aaf39cf4a878f9e4f849e5f409573aa598aa9.patch";
-      stripLen = 3;
-      extraPrefix = "torch/lib/";
-      sha256 = "1miz4lhy3razjwcmhxqa4xmlcmhm65lqyin1czqczj8g16d3f62f";
-    })
-  ];
-
-  postPatch = ''
-    substituteInPlace test/run_test.sh --replace \
-      "INIT_METHOD='file://'\$TEMP_DIR'/shared_init_file' \$PYCMD ./test_distributed.py" \
-      "echo Skipped for Nix package"
-  '';
-
   preConfigure = lib.optionalString cudaSupport ''
-    export CC=${cudatoolkit.cc}/bin/gcc
+    export CC=${cudatoolkit.cc}/bin/gcc CXX=${cudatoolkit.cc}/bin/g++
   '' + lib.optionalString (cudaSupport && cudnn != null) ''
     export CUDNN_INCLUDE_DIR=${cudnn}/include
   '';
 
   buildInputs = [
      cmake
-     git
      numpy.blas
      utillinux
      which
@@ -73,10 +54,10 @@ in buildPythonPackage rec {
     cffi
     numpy
     pyyaml
-  ];
+  ] ++ lib.optional (pythonOlder "3.5") typing;
 
   checkPhase = ''
-    ${cudaStubEnv}${stdenv.shell} test/run_test.sh
+    ${cudaStubEnv}python test/run_test.py --exclude distributed
   '';
 
   meta = {
diff --git a/pkgs/development/python-modules/smmap/default.nix b/pkgs/development/python-modules/smmap/default.nix
new file mode 100644
index 000000000000..366897d3e198
--- /dev/null
+++ b/pkgs/development/python-modules/smmap/default.nix
@@ -0,0 +1,19 @@
+{ lib, fetchPypi, buildPythonPackage, nosexcover }:
+
+buildPythonPackage rec {
+  pname = "smmap";
+  version = "0.9.0";
+  src = fetchPypi {
+    inherit pname version;
+    sha256 = "0qlx25f6n2n9ff37w9gg62f217fzj16xlbh0pkz0lpxxjys64aqf";
+  };
+
+  checkInputs = [ nosexcover ];
+
+  meta = {
+    description = "A pure python implementation of a sliding window memory map manager";
+    homepage = https://github.com/gitpython-developers/smmap;
+    maintainers = [ ];
+    license = lib.licenses.bsd3;
+  };
+}
diff --git a/pkgs/development/python-modules/smmap2/default.nix b/pkgs/development/python-modules/smmap2/default.nix
new file mode 100644
index 000000000000..ea0f0859bbd2
--- /dev/null
+++ b/pkgs/development/python-modules/smmap2/default.nix
@@ -0,0 +1,20 @@
+{ lib, fetchPypi, buildPythonPackage, nosexcover }:
+
+buildPythonPackage rec {
+  pname = "smmap2";
+  version = "2.0.3";
+
+  src = fetchPypi {
+    inherit pname version;
+    sha256 = "1hvn28p3zvxa98sbi9lrqvv2ps4q284j4jq9a619zw0m7yv0sly7";
+  };
+
+  checkInputs = [ nosexcover ];
+
+  meta = {
+    description = "A pure python implementation of a sliding window memory map manager";
+    homepage = https://pypi.org/project/smmap2;
+    maintainers = [ ];
+    license = lib.licenses.bsd3;
+  };
+}
diff --git a/pkgs/development/python-modules/uproot/default.nix b/pkgs/development/python-modules/uproot/default.nix
new file mode 100644
index 000000000000..e58bbde1353f
--- /dev/null
+++ b/pkgs/development/python-modules/uproot/default.nix
@@ -0,0 +1,22 @@
+{lib, fetchPypi, buildPythonPackage, numpy}:
+
+buildPythonPackage rec {
+  pname = "uproot";
+  version = "2.8.23";
+
+  src = fetchPypi {
+    inherit pname version;
+    sha256 = "121ggyl5s0q66yrbdfznvzrc793zq1w2xnr3baadlzfvqdlkhgj7";
+  };
+
+  propagatedBuildInputs = [
+    numpy
+  ];
+
+  meta = with lib; {
+    homepage = https://github.com/scikit-hep/uproot;
+    description = "ROOT I/O in pure Python and Numpy";
+    license = licenses.bsd3;
+    maintainers = with maintainers; [ ktf ];
+  };
+}