Merge pull request #113098 from SuperSandro2000/fix-collection12

pkgs/applications/editors/spacevim/default.nix

···
-{ ripgrep, git, fzf, makeWrapper, vim_configurable, vimPlugins, fetchFromGitHub, writeTextDir
-, lib, stdenv, runCommandNoCC, remarshal, formats, spacevim_config ? import ./init.nix }:
-with stdenv;
+{ ripgrep, git, fzf, makeWrapper, vim_configurable, vimPlugins, fetchFromGitHub
+, lib, stdenv, formats, spacevim_config ? import ./init.nix }:
+
 let
   format = formats.toml {};
   vim-customized = vim_configurable.customize {
···
     vimrcConfig.packages.myVimPackage = with vimPlugins; { start = [ ]; };
   };
   spacevimdir = format.generate "init.toml" spacevim_config;
-in mkDerivation rec {
+in stdenv.mkDerivation rec {
   pname = "spacevim";
   version = "1.5.0";
   src = fetchFromGitHub {

pkgs/applications/misc/xygrib/default.nix

···
-{ lib, stdenv, fetchFromGitHub, wrapQtAppsHook, cmake, bzip2, qtbase, qttools, libnova, proj, libpng, openjpeg } :
+{ lib, stdenv, fetchFromGitHub, wrapQtAppsHook, cmake, bzip2, qtbase, qttools, libnova, proj, libpng, openjpeg }:
 
 stdenv.mkDerivation rec {
   version = "1.2.6.1";
···
 
   nativeBuildInputs = [ cmake qttools wrapQtAppsHook ];
   buildInputs = [ bzip2 qtbase libnova proj openjpeg libpng ];
-  cmakeFlags = [ "-DOPENJPEG_INCLUDE_DIR=${openjpeg.dev}/include/openjpeg-2.3" ]
+  cmakeFlags = [ "-DOPENJPEG_INCLUDE_DIR=${openjpeg.dev}/include/openjpeg-${lib.versions.majorMinor openjpeg.version}" ]
     ++ lib.optionals stdenv.isDarwin [ "-DLIBNOVA_LIBRARY=${libnova}/lib/libnova.dylib" ];
 
-  postInstall = if stdenv.isDarwin then ''
-    mkdir -p "$out/Applications" "$out/XyGrib/XyGrib.app/Contents/Resources"
-    cp "../data/img/xyGrib.icns" "$out/XyGrib/XyGrib.app/Contents/Resources/xyGrib.icns"
-    mv $out/XyGrib/XyGrib.app $out/Applications
-    wrapQtApp "$out/Applications/XyGrib.app/Contents/MacOS/XyGrib"
-  '' else ''
-    wrapQtApp $out/XyGrib/XyGrib
-    mkdir -p $out/bin
-    ln -s $out/XyGrib/XyGrib $out/bin/xygrib
-  '';
+  postInstall =
+    if stdenv.isDarwin then ''
+      mkdir -p "$out/Applications" "$out/XyGrib/XyGrib.app/Contents/Resources"
+      cp "../data/img/xyGrib.icns" "$out/XyGrib/XyGrib.app/Contents/Resources/xyGrib.icns"
+      mv $out/XyGrib/XyGrib.app $out/Applications
+      wrapQtApp "$out/Applications/XyGrib.app/Contents/MacOS/XyGrib"
+    '' else ''
+      wrapQtApp $out/XyGrib/XyGrib
+      mkdir -p $out/bin
+      ln -s $out/XyGrib/XyGrib $out/bin/xygrib
+    '';
 
   meta = with lib; {
     homepage = "https://opengribs.org";
     description = "Weather Forecast Visualization";
-    longDescription = ''XyGrib is a leading opensource weather visualization package.
-                        It interacts with OpenGribs's Grib server providing a choice
-                        of global and large area atmospheric and wave models.'';
+    longDescription = ''
+      XyGrib is a leading opensource weather visualization package.
+      It interacts with OpenGribs's Grib server providing a choice
+      of global and large area atmospheric and wave models.
+    '';
     license = licenses.gpl3;
     platforms = platforms.all;
     maintainers = with maintainers; [ j03 SuperSandro2000 ];

pkgs/applications/networking/dnscontrol/default.nix

···
 
   subPackages = [ "." ];
 
+  buildFlagsArray = [ "-ldflags=-s -w" ];
+
   meta = with lib; {
     description = "Synchronize your DNS to multiple providers from a simple DSL";
     homepage = "https://stackexchange.github.io/dnscontrol/";

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

···
     export ASPELL_CONF="dict-dir ${aspellDicts.en}/lib/aspell"
   '';
 
-  # tries to run not rully installed script
+  # tries to run not fully installed script
   disabledTests = [ "test_command" ];
 
   pythonImportsCheck = [ "codespell_lib" ];

pkgs/development/python-modules/google-i18n-address/default.nix

···
-{ buildPythonPackage, fetchPypi, lib, requests, pytestCheckHook, mock }:
+{ buildPythonPackage, fetchPypi, pythonAtLeast, lib, requests, pytestCheckHook, mock }:
 
 buildPythonPackage rec {
   pname = "google-i18n-address";
   version = "2.4.0";
+  disabled = pythonAtLeast "3.9";
 
   src = fetchPypi {
     inherit pname version;
···
 
   meta = with lib; {
     description = "Google's i18n address data packaged for Python";
-    homepage = "https://pypi.org/project/google-i18n-address/";
+    homepage = "https://github.com/mirumee/google-i18n-address";
     maintainers = with maintainers; [ SuperSandro2000 ];
     license = licenses.bsd3;
   };

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

···
 
 buildPythonPackage rec {
   pname = "hstspreload";
-  version = "2020.12.22";
+  version = "2021.2.1";
   disabled = isPy27;
 
   src = fetchFromGitHub {
     owner = "sethmlarson";
     repo = pname;
     rev = version;
-    sha256 = "1jzcw4clmpbyw67pzskms5rq5b7285iwh42jzc4ly6jz9amggdzc";
+    sha256 = "sha256-R6tqGxGd6JymFgQX+deDPOtlKlwUjL7uf+zGdNxUW/s=";
   };
 
   # tests require network connection
···
     description = "Chromium HSTS Preload list as a Python package and updated daily";
     homepage = "https://github.com/sethmlarson/hstspreload";
     license = licenses.bsd3;
-    maintainers = [ maintainers.costrouc ];
+    maintainers = with maintainers; [ costrouc SuperSandro2000 ];
   };
 }

pkgs/development/python-modules/imbalanced-learn/default.nix

···
     "_generator"
     "show_versions"
     "test_make_imbalanced_iris"
+    "test_rusboost[SAMME.R]"
   ];
 
   meta = with lib; {

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

···
     PATH=$out/bin:$PATH
   '';
 
-  # disable tests which touch network
-  disabledTests = ''
+  disabledTests = [
+    # disable tests which touch network
     "test_discover"
     "test_filtered_compressed_cache"
     "test_get_dir"
     "test_remote_cat"
     "http"
-  '';
+
+    # broken test
+    "test_read_pattern_with"
+  ];
 
   meta = with lib; {
     description = "Data load and catalog system";

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

···
     license= licenses.bsd3;
     maintainers = with maintainers; [ evax ];
     platforms = platforms.unix;
+    # incompatible with nixpkgs scikitlearn version
+    broken = true;
   };
 }

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

···
 # Test Inputs
 , glibcLocales
 , hypothesis
-, moto
 , pytestCheckHook
 # Darwin inputs
 , runtimeShell
···
     xlwt
   ];
 
-  checkInputs = [ pytestCheckHook glibcLocales moto hypothesis ];
+  checkInputs = [ pytestCheckHook glibcLocales hypothesis ];
 
   # doesn't work with -Werror,-Wunused-command-line-argument
   # https://github.com/NixOS/nixpkgs/issues/39687

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

···
     changelog = "https://github.com/skorch-dev/skorch/blob/master/CHANGES.md";
     license = licenses.bsd3;
     maintainers = with maintainers; [ bcdarwin ];
+    # TypeError: __init__() got an unexpected keyword argument 'iid'
+    broken = true;
   };
 }

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

···
     homepage = "https://github.com/TileDB-Inc/TileDB-Py";
     license = licenses.mit;
     maintainers = with maintainers; [ fridh ];
+    # tiledb/core.cc:556:30: error: ‘struct std::array<long unsigned int, 2>’ has no member named ‘second’
+    broken = true;
   };
-
 }

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

···
     description = "PyTorch vision library";
     homepage = "https://pytorch.org/";
     license = licenses.bsd3;
-    maintainers = with maintainers; [ ericsagnes SuperSandro2000 ];
+    maintainers = with maintainers; [ ericsagnes ];
   };
 }

pkgs/development/python-modules/uproot3/default.nix

···
 { lib, fetchFromGitHub, buildPythonPackage, isPy27
 , awkward0, backports_lzma, cachetools, lz4, pandas
-, pytestCheckHook, pytestrunner, pkgconfig, mock
+, pytestCheckHook, pkgconfig, mock
 , numpy, requests, uproot3-methods, xxhash, zstandard
 }:
 
 buildPythonPackage rec {
   pname = "uproot3";
-  version = "3.14.2";
+  version = "3.14.4";
 
   src = fetchFromGitHub {
     owner = "scikit-hep";
     repo = "uproot3";
     rev = version;
-    sha256 = "sha256-6/e+qMgwyFUo8MRRTAaGp9WLPxE2fqMEK4paq26Epzc=";
+    sha256 = "sha256-hVJpKdYvyoCPyqgZzKYp30SvkYm+HWSNBdd9bYCYACE=";
   };
 
-  nativeBuildInputs = [ pytestrunner ];
+  postPatch = ''
+    substituteInPlace setup.py \
+      --replace '"pytest-runner"' ""
+  '';
 
   propagatedBuildInputs = [
     awkward0

pkgs/misc/vim-plugins/overrides.nix

···
 , ruby
 , which
 , fetchFromGitHub
-, fetchgit
 , fetchurl
-, fetchzip
 , fetchpatch
 , llvmPackages
 , rustPlatform

pkgs/tools/misc/expect/default.nix

···
     done
   '';
 
+  outputs = [ "out" "dev" ];
+
   meta = with lib; {
     description = "A tool for automating interactive applications";
     homepage = "http://expect.sourceforge.net/";

pkgs/tools/misc/parallel/default.nix

···
     substituteInPlace src/parallel --subst-var-by coreutils ${coreutils}
   '';
 
-  outputs = [ "out" "man" ];
+  outputs = [ "out" "man" "doc" ];
 
   nativeBuildInputs = [ makeWrapper ];
   buildInputs = [ perl procps ];

pkgs/tools/text/source-highlight/default.nix

···
 
   enableParallelBuilding = false;
 
+  outputs = [ "out" "doc" "dev" ];
+
   meta = with lib; {
     description = "Source code renderer with syntax highlighting";
     longDescription = ''