Merge remote-tracking branch 'origin/master' into haskell-updates

nixos/doc/manual/release-notes/rl-2111.section.md

@@ -20,6 +20,8 @@ In addition to numerous new and upgraded packages, this release has the followin
   This allows activation scripts to output what they would change if the activation was really run.
   The users/modules activation script supports this and outputs some of is actions.
 
+- KDE Plasma now finally works on Wayland.
+
 - bash now defaults to major version 5.
 
 - Systemd was updated to version 249 (from 247).
@@ -342,6 +344,7 @@ In addition to numerous new and upgraded packages, this release has the followin
   configuration file. For details, see the [upstream changelog](https://github.com/DataDog/datadog-agent/blob/main/CHANGELOG.rst).
 
 - `opencv2` no longer includes the non-free libraries by default, and consequently `pfstools` no longer includes OpenCV support by default.  Both packages now support an `enableUnfree` option to re-enable this functionality.
+- `services.xserver.displayManager.defaultSession = "plasma5"` does not work anymore, instead use either `"plasma"` for the Plasma X11 session or `"plasmawayland"` for the Plasma Wayland sesison.
 
 ## Other Notable Changes {#sec-release-21.11-notable-changes}
 

nixos/modules/services/misc/nix-daemon.nix

@@ -555,6 +555,22 @@ in
             + "\n"
           ) cfg.buildMachines;
       };
+    assertions =
+      let badMachine = m: m.system == null && m.systems == [];
+      in [
+        {
+          assertion = !(builtins.any badMachine cfg.buildMachines);
+          message = ''
+            At least one system type (via <varname>system</varname> or
+              <varname>systems</varname>) must be set for every build machine.
+              Invalid machine specifications:
+          '' + "      " +
+          (builtins.concatStringsSep "\n      "
+            (builtins.map (m: m.hostName)
+              (builtins.filter (badMachine) cfg.buildMachines)));
+        }
+      ];
+
 
     systemd.packages = [ nix ];
 

nixos/modules/services/misc/sickbeard.nix

@@ -86,7 +86,7 @@ in
       serviceConfig = {
         User = cfg.user;
         Group = cfg.group;
-        ExecStart = "${sickbeard}/SickBeard.py --datadir ${cfg.dataDir} --config ${cfg.configFile} --port ${toString cfg.port}";
+        ExecStart = "${sickbeard}/bin/${sickbeard.pname} --datadir ${cfg.dataDir} --config ${cfg.configFile} --port ${toString cfg.port}";
       };
     };
   };

nixos/modules/services/x11/desktop-managers/plasma5.nix

@@ -13,7 +13,6 @@ let
 
   pulseaudio = config.hardware.pulseaudio;
   pactl = "${getBin pulseaudio.package}/bin/pactl";
-  startplasma-x11 = "${getBin plasma5.plasma-workspace}/bin/startplasma-x11";
   sed = "${getBin pkgs.gnused}/bin/sed";
 
   gtkrc2 = writeText "gtkrc-2.0" ''
@@ -136,9 +135,6 @@ let
           fi
       fi
 
-    ''
-    + ''
-      exec "${startplasma-x11}"
     '';
 
 in
@@ -172,6 +168,12 @@ in
           disabled by default.
         '';
       };
+
+      useQtScaling = mkOption {
+        type = types.bool;
+        default = false;
+        description = "Enable HiDPI scaling in Qt.";
+      };
     };
 
   };
@@ -183,6 +185,7 @@ in
 
   config = mkMerge [
     (mkIf cfg.enable {
+
       # Seed our configuration into nixos-generate-config
       system.nixos-generate-config.desktopConfiguration = [''
         # Enable the Plasma 5 Desktop Environment.
@@ -190,11 +193,7 @@ in
         services.xserver.desktopManager.plasma5.enable = true;
       ''];
 
-      services.xserver.desktopManager.session = singleton {
+      services.xserver.displayManager.sessionPackages = [ pkgs.libsForQt5.plasma5.plasma-workspace ];
-        name = "plasma5";
-        bgSupport = true;
-        start = startplasma;
-      };
 
       security.wrappers = {
         kcheckpass =
@@ -347,6 +346,8 @@ in
 
       environment.etc."X11/xkb".source = xcfg.xkbDir;
 
+      environment.sessionVariables.PLASMA_USE_QT_SCALING = mkIf cfg.useQtScaling "1";
+
       # Enable GTK applications to load SVG icons
       services.xserver.gdk-pixbuf.modulePackages = [ pkgs.librsvg ];
 
@@ -389,6 +390,7 @@ in
 
       # Update the start menu for each user that is currently logged in
       system.userActivationScripts.plasmaSetup = activationScript;
+      services.xserver.displayManager.setupCommands = startplasma;
 
       nixpkgs.config.firefox.enablePlasmaBrowserIntegration = true;
     })

nixos/tests/plasma5.nix

@@ -12,7 +12,7 @@ import ./make-test-python.nix ({ pkgs, ...} :
     imports = [ ./common/user-account.nix ];
     services.xserver.enable = true;
     services.xserver.displayManager.sddm.enable = true;
-    services.xserver.displayManager.defaultSession = "plasma5";
+    services.xserver.displayManager.defaultSession = "plasma";
     services.xserver.desktopManager.plasma5.enable = true;
     services.xserver.displayManager.autoLogin = {
       enable = true;

pkgs/applications/editors/emacs/elisp-packages/sv-kalender/default.nix

@@ -2,14 +2,11 @@
 
 trivialBuild {
   pname = "sv-kalender";
-  version = "1.9";
+  version = "1.11";
 
   src = fetchurl {
     url = "http://bigwalter.net/daniel/elisp/sv-kalender.el";
-    sha256 = "0kilp0nyhj67qscy13s0g07kygz2qwmddklhan020sk7z7jv3lpi";
+    sha256 = "0mcx7g1pg6kfp0i4b9rh3q9csgdf3054ijswy368bxwdxsjgfz2m";
-    postFetch = ''
-      echo "(provide 'sv-kalender)" >> $out
-    '';
   };
 
   meta = with lib; {

pkgs/applications/editors/rstudio/clang-location.patch

@@ -1,25 +1,61 @@
-diff --git i/src/cpp/core/libclang/LibClang.cpp w/src/cpp/core/libclang/LibClang.cpp
+diff --git a/src/cpp/core/libclang/LibClang.cpp b/src/cpp/core/libclang/LibClang.cpp
-index ec12a3a1ff..8c81b633ae 100644
+index 1186f3a..58e8cc7 100644
---- i/src/cpp/core/libclang/LibClang.cpp
+--- a/src/cpp/core/libclang/LibClang.cpp
-+++ w/src/cpp/core/libclang/LibClang.cpp
++++ b/src/cpp/core/libclang/LibClang.cpp
-@@ -54,7 +54,7 @@ std::vector<std::string> defaultCompileArgs(LibraryVersion version)
+@@ -58,7 +58,7 @@ std::vector<std::string> defaultCompileArgs(LibraryVersion version)
  
     // we need to add in the associated libclang headers as
     // they are not discovered / used by default during compilation
--   FilePath llvmPath = s_libraryPath.parent().parent();
+-   FilePath llvmPath = s_libraryPath.getParent().getParent();
 +   FilePath llvmPath("@libclang@");
     boost::format fmt("%1%/lib/clang/%2%/include");
-    fmt % llvmPath.absolutePath() % version.asString();
+    fmt % llvmPath.getAbsolutePath() % version.asString();
     std::string includePath = fmt.str();
-@@ -77,10 +77,7 @@ std::vector<std::string> systemClangVersions()
+@@ -70,46 +70,7 @@ std::vector<std::string> defaultCompileArgs(LibraryVersion version)
- #elif defined(__unix__)
+ 
-    // default set of versions
+ std::vector<std::string> systemClangVersions()
-    clangVersions = {
+ {
+-   std::vector<std::string> clangVersions;
+-   
+-#if defined(__APPLE__)
+-   // NOTE: the version of libclang.dylib bundled with Xcode
+-   // doesn't seem to work well when loaded as a library
+-   // (there seems to be extra orchestration required to get
+-   // include paths set up; easier to just depend on command
+-   // line tools since we request their installation in other
+-   // contexts as well)
+-   clangVersions = {
+-      "/Library/Developer/CommandLineTools/usr/lib/libclang.dylib"
+-   };
+-#elif defined(__unix__)
+-   // default set of versions
+-   clangVersions = {
 -      "/usr/lib/libclang.so",
 -      "/usr/lib/llvm/libclang.so",
 -      "/usr/lib64/libclang.so",
 -      "/usr/lib64/llvm/libclang.so",
-+      "@libclang.so@"
+-   };
-    };
+-   
-    
+-   // iterate through the set of available 'llvm' directories
-    // iterate through the set of available 'llvm' directories
+-   for (const char* prefix : {"/usr/lib", "/usr/lib64"})
+-   {
+-      FilePath prefixPath(prefix);
+-      if (!prefixPath.exists())
+-         continue;
+-      
+-      std::vector<FilePath> directories;
+-      Error error = prefixPath.getChildren(directories);
+-      if (error)
+-         LOG_ERROR(error);
+-
+-      // generate a path for each 'llvm' directory
+-      for (const FilePath& path : directories)
+-         if (path.getFilename().find("llvm") == 0)
+-            clangVersions.push_back(path.completePath("lib/libclang.so.1").getAbsolutePath());
+-   }
+-#endif
+-   
++   std::vector<std::string> clangVersions = { "@libclang.so@" };
+    return clangVersions;
+ }
+

pkgs/applications/editors/rstudio/default.nix

@@ -1,141 +1,209 @@
-{ lib, mkDerivation, fetchurl, fetchpatch, fetchFromGitHub, makeDesktopItem, cmake, boost, zlib
+{ lib
-, openssl, R, qtbase, qtxmlpatterns, qtsensors, qtwebengine, qtwebchannel
+, mkDerivation
-, libuuid, hunspellDicts, unzip, ant, jdk, gnumake, makeWrapper, pandoc
+, fetchurl
+, fetchpatch
+, fetchFromGitHub
+, makeDesktopItem
+, copyDesktopItems
+, cmake
+, boost
+, zlib
+, openssl
+, R
+, qtbase
+, qtxmlpatterns
+, qtsensors
+, qtwebengine
+, qtwebchannel
+, libuuid
+, hunspellDicts
+, unzip
+, ant
+, jdk
+, gnumake
+, makeWrapper
+, pandoc
 , llvmPackages
+, libyamlcpp
+, soci
+, postgresql
+, nodejs
+, mkYarnModules
+, qmake
 }:
 
-with lib;
 let
-  verMajor = "1";
-  verMinor = "2";
-  verPatch = "5042";
-  version = "${verMajor}.${verMinor}.${verPatch}";
-  ginVer = "2.1.2";
-  gwtVer = "2.8.1";
-in
-mkDerivation rec {
   pname = "RStudio";
-  inherit version;
+  version = "1.4.1717";
-
+  RSTUDIO_VERSION_MAJOR = lib.versions.major version;
-  nativeBuildInputs = [ cmake unzip ant jdk makeWrapper pandoc ];
+  RSTUDIO_VERSION_MINOR = lib.versions.minor version;
-
+  RSTUDIO_VERSION_PATCH = lib.versions.patch version;
-  buildInputs = [ boost zlib openssl R qtbase qtxmlpatterns qtsensors
-                  qtwebengine qtwebchannel libuuid ];
 
   src = fetchFromGitHub {
     owner = "rstudio";
     repo = "rstudio";
-    rev = "v${version}";
+    rev = version;
-    sha256 = "1n67fa357v51j3z1ma8v2ydfsx3y8n10k2svmfcf4mdzsi8w0kc5";
+    sha256 = "sha256-9c1bNsf8kJjpcZ2cMV/pPNtXQkFOntX29a1cdnXpllE=";
   };
 
-  # Hack RStudio to only use the input R and provided libclang.
-  patches = [ ./r-location.patch ./clang-location.patch
-              (fetchpatch {
-                # Fetch a patch to ensure Rstudio compiles against R
-                # 4.0.0, should be removed next 1.2.X Rstudio update
-                # or possibly 1.3.X
-                url = "https://github.com/rstudio/rstudio/commit/3fb2397c2f208bb8ace0bbaf269481ccb96b5b20.patch";
-                sha256 = "0qpgjy6aash0fc0xbns42cwpj3nsw49nkbzwyq8az01xwg81g0f3";
-              })
-            ];
-  postPatch = ''
-    substituteInPlace src/cpp/core/r_util/REnvironmentPosix.cpp --replace '@R@' ${R}
-    substituteInPlace src/cpp/core/libclang/LibClang.cpp \
-      --replace '@libclang@' ${llvmPackages.libclang.lib} \
-      --replace '@libclang.so@' ${llvmPackages.libclang.lib}/lib/libclang.so
-  '';
-
-  ginSrc = fetchurl {
-    url = "https://s3.amazonaws.com/rstudio-buildtools/gin-${ginVer}.zip";
-    sha256 = "16jzmljravpz6p2rxa87k5f7ir8vs7ya75lnfybfajzmci0p13mr";
-  };
-
-  gwtSrc = fetchurl {
-    url = "https://s3.amazonaws.com/rstudio-buildtools/gwt-${gwtVer}.zip";
-    sha256 = "19x000m3jwnkqgi6ic81lkzyjvvxcfacw2j0vcfcaknvvagzhyhb";
-  };
-
-  hunspellDictionaries = filter isDerivation (unique (attrValues hunspellDicts));
-  # These dicts contain identically-named dict files, so we only keep the
-  # -large versions in case of clashes
-  largeDicts = filter (d: hasInfix "-large-wordlist" d) hunspellDictionaries;
-  otherDicts = filter (d: !(hasAttr "dictFileName" d &&
-                            elem d.dictFileName (map (d: d.dictFileName) largeDicts))) hunspellDictionaries;
-  dictionaries = largeDicts ++ otherDicts;
-
   mathJaxSrc = fetchurl {
-    url = "https://s3.amazonaws.com/rstudio-buildtools/mathjax-26.zip";
+    url = "https://s3.amazonaws.com/rstudio-buildtools/mathjax-27.zip";
-    sha256 = "0wbcqb9rbfqqvvhqr1pbqax75wp8ydqdyhp91fbqfqp26xzjv6lk";
+    sha256 = "sha256-xWy6psTOA8H8uusrXqPDEtL7diajYCVHcMvLiPsgQXY=";
   };
 
   rsconnectSrc = fetchFromGitHub {
     owner = "rstudio";
     repo = "rsconnect";
-    rev = "984745d8";
+    rev = "f5854bb71464f6e3017da9855f058fe3d5b32efd";
-    sha256 = "037z0y32k1gdda192y5qn5hi7wp8wyap44mkjlklrgcqkmlcylb9";
+    sha256 = "sha256-ULyWdSgGPSAwMt0t4QPuzeUE6Bo6IJh+5BMgW1bFN+Y=";
   };
 
-  preConfigure =
+  panmirrorModules = mkYarnModules {
-    ''
+    inherit pname version;
-      export RSTUDIO_VERSION_MAJOR=${verMajor}
+    packageJSON = ./package.json;
-      export RSTUDIO_VERSION_MINOR=${verMinor}
+    yarnLock =  ./yarn.lock;
-      export RSTUDIO_VERSION_PATCH=${verPatch}
+    yarnNix = ./yarndeps.nix;
-
-      GWT_LIB_DIR=src/gwt/lib
-
-      mkdir -p $GWT_LIB_DIR/gin/${ginVer}
-      unzip ${ginSrc} -d $GWT_LIB_DIR/gin/${ginVer}
-
-      unzip ${gwtSrc}
-      mkdir -p $GWT_LIB_DIR/gwt
-      mv gwt-${gwtVer} $GWT_LIB_DIR/gwt/${gwtVer}
-
-      mkdir dependencies/common/dictionaries
-      for dict in ${builtins.concatStringsSep " " dictionaries}; do
-        for i in "$dict/share/hunspell/"*; do
-          ln -sv $i dependencies/common/dictionaries/
-        done
-      done
-
-      unzip ${mathJaxSrc} -d dependencies/common/mathjax-26
-
-      mkdir -p dependencies/common/pandoc
-      cp ${pandoc}/bin/pandoc dependencies/common/pandoc/
-
-      cp -r ${rsconnectSrc} dependencies/common/rsconnect
-      pushd dependencies/common
-      ${R}/bin/R CMD build -d --no-build-vignettes rsconnect
-      popd
-    '';
-
-  cmakeFlags = [ "-DRSTUDIO_TARGET=Desktop" "-DQT_QMAKE_EXECUTABLE=$NIX_QT5_TMP/bin/qmake" ];
-
-  desktopItem = makeDesktopItem {
-    name = "${pname}-${version}";
-    exec = "rstudio %F";
-    icon = "rstudio";
-    desktopName = "RStudio";
-    genericName = "IDE";
-    comment = meta.description;
-    categories = "Development;";
-    mimeType = "text/x-r-source;text/x-r;text/x-R;text/x-r-doc;text/x-r-sweave;text/x-r-markdown;text/x-r-html;text/x-r-presentation;application/x-r-data;application/x-r-project;text/x-r-history;text/x-r-profile;text/x-tex;text/x-markdown;text/html;text/css;text/javascript;text/x-chdr;text/x-csrc;text/x-c++hdr;text/x-c++src;";
   };
 
-  qtWrapperArgs = [ "--suffix PATH : ${gnumake}/bin" ];
+in
+mkDerivation rec {
+  inherit pname version src RSTUDIO_VERSION_MAJOR RSTUDIO_VERSION_MINOR RSTUDIO_VERSION_PATCH;
 
-  postInstall = ''
+  nativeBuildInputs = [
-      mkdir $out/share
+    cmake
-      cp -r ${desktopItem}/share/applications $out/share
+    unzip
-      mkdir $out/share/icons
+    ant
-      ln $out/rstudio.png $out/share/icons
+    jdk
+    makeWrapper
+    pandoc
+    nodejs
+    copyDesktopItems
+  ];
+
+  buildInputs = [
+    boost
+    zlib
+    openssl
+    R
+    qtbase
+    qtxmlpatterns
+    qtsensors
+    qtwebengine
+    qtwebchannel
+    libuuid
+    libyamlcpp
+    soci
+    postgresql
+  ];
+
+  cmakeFlags = [
+    "-DRSTUDIO_TARGET=Desktop"
+    "-DCMAKE_BUILD_TYPE=Release"
+    "-DQT_QMAKE_EXECUTABLE=${qmake}/bin/qmake"
+    "-DRSTUDIO_USE_SYSTEM_SOCI=ON"
+    "-DRSTUDIO_USE_SYSTEM_BOOST=ON"
+    "-DRSTUDIO_USE_SYSTEM_YAML_CPP=ON"
+    "-DPANDOC_VERSION=${pandoc.version}"
+    "-DCMAKE_INSTALL_PREFIX=${placeholder "out"}/lib/rstudio"
+  ];
+
+  # Hack RStudio to only use the input R and provided libclang.
+  patches = [
+    ./r-location.patch
+    ./clang-location.patch
+    # postFetch doesn't work with this | error: unexpected end-of-file
+    # replacing /usr/bin/node is done in postPatch
+    # https://src.fedoraproject.org/rpms/rstudio/tree/rawhide
+    (fetchpatch {
+      name = "system-node.patch";
+      url = "https://src.fedoraproject.org/rpms/rstudio/raw/5bda2e290c9e72305582f2011040938d3e356906/f/0004-use-system-node.patch";
+      sha256 = "sha256-P1Y07RB/ceFNa749nyBUWSE41eiiZgt43zVcmahvfZM=";
+    })
+  ];
+
+  postPatch = ''
+    substituteInPlace src/cpp/core/r_util/REnvironmentPosix.cpp --replace '@R@' ${R}
+
+    substituteInPlace src/cpp/CMakeLists.txt \
+      --replace 'SOCI_LIBRARY_DIR "/usr/lib"' 'SOCI_LIBRARY_DIR "${soci}/lib"'
+
+    substituteInPlace src/gwt/build.xml \
+      --replace '/usr/bin/node' '${nodejs}/bin/node'
+
+    substituteInPlace src/cpp/core/libclang/LibClang.cpp \
+      --replace '@libclang@' ${llvmPackages.libclang.lib} \
+      --replace '@libclang.so@' ${llvmPackages.libclang.lib}/lib/libclang.so
+
+      substituteInPlace src/cpp/session/include/session/SessionConstants.hpp \
+        --replace "bin/pandoc" "${pandoc}/bin/pandoc"
   '';
 
-  meta = with lib;
+  hunspellDictionaries = with lib; filter isDerivation (unique (attrValues hunspellDicts));
-    { description = "Set of integrated tools for the R language";
+  # These dicts contain identically-named dict files, so we only keep the
-      homepage = "https://www.rstudio.com/";
+  # -large versions in case of clashes
-      license = licenses.agpl3;
+  largeDicts = with lib; filter (d: hasInfix "-large-wordlist" d) hunspellDictionaries;
-      maintainers = with maintainers; [ ciil ];
+  otherDicts = with lib; filter
-      platforms = platforms.linux;
+    (d: !(hasAttr "dictFileName" d &&
-    };
+      elem d.dictFileName (map (d: d.dictFileName) largeDicts)))
+    hunspellDictionaries;
+  dictionaries = largeDicts ++ otherDicts;
+
+  preConfigure = ''
+    mkdir dependencies/dictionaries
+    for dict in ${builtins.concatStringsSep " " dictionaries}; do
+      for i in "$dict/share/hunspell/"*; do
+        ln -s $i dependencies/dictionaries/
+      done
+    done
+
+    unzip -q ${mathJaxSrc} -d dependencies/mathjax-27
+
+    mkdir -p dependencies/pandoc/${pandoc.version}
+    cp ${pandoc}/bin/pandoc dependencies/pandoc/${pandoc.version}/pandoc
+
+    cp -r ${rsconnectSrc} dependencies/rsconnect
+    ( cd dependencies && ${R}/bin/R CMD build -d --no-build-vignettes rsconnect )
+
+    cp -r "${panmirrorModules}" src/gwt/panmirror/src/editor/node_modules
+  '';
+
+  postInstall = ''
+    mkdir -p $out/share/icons $out/bin
+    ln $out/lib/rstudio/rstudio.png $out/share/icons
+
+    for f in {diagnostics,rpostback,rstudio}; do
+      ln -s $out/lib/rstudio/bin/$f $out/bin
+    done
+
+    for f in .gitignore .Rbuildignore LICENSE README; do
+      find . -name $f -delete
+    done
+    rm -r $out/lib/rstudio/{INSTALL,COPYING,NOTICE,README.md,SOURCE,VERSION}
+    rm -r $out/lib/rstudio/bin/{pandoc/pandoc,pandoc}
+  '';
+
+  qtWrapperArgs = [
+    "--suffix PATH : ${lib.makeBinPath [ gnumake ]}"
+  ];
+
+  desktopItems = [
+    (makeDesktopItem {
+      name = "${pname}";
+      exec = "rstudio %F";
+      icon = "rstudio";
+      desktopName = "RStudio";
+      genericName = "IDE";
+      comment = meta.description;
+      categories = "Development;";
+      mimeType = "text/x-r-source;text/x-r;text/x-R;text/x-r-doc;text/x-r-sweave;text/x-r-markdown;text/x-r-html;text/x-r-presentation;application/x-r-data;application/x-r-project;text/x-r-history;text/x-r-profile;text/x-tex;text/x-markdown;text/html;text/css;text/javascript;text/x-chdr;text/x-csrc;text/x-c++hdr;text/x-c++src;";
+    })
+  ];
+
+  meta = with lib; {
+    description = "Set of integrated tools for the R language";
+    homepage = "https://www.rstudio.com/";
+    license = licenses.agpl3Only;
+    maintainers = with maintainers; [ ciil ];
+    platforms = platforms.linux;
+  };
 }

pkgs/applications/editors/rstudio/package.json

@@ -0,0 +1,83 @@
+{
+  "name": "panmirror",
+  "version": "0.1.0",
+  "private": true,
+  "license": "agpl-3.0",
+  "dependencies": {
+    "@types/ace": "^0.0.43",
+    "@types/clipboard": "^2.0.1",
+    "@types/diff-match-patch": "^1.0.32",
+    "@types/js-yaml": "^3.12.3",
+    "@types/lodash.debounce": "^4.0.6",
+    "@types/lodash.uniqby": "^4.7.6",
+    "@types/orderedmap": "^1.0.0",
+    "@types/prosemirror-commands": "^1.0.3",
+    "@types/prosemirror-dev-tools": "^2.1.0",
+    "@types/prosemirror-dropcursor": "^1.0.0",
+    "@types/prosemirror-gapcursor": "^1.0.1",
+    "@types/prosemirror-history": "^1.0.1",
+    "@types/prosemirror-inputrules": "^1.0.3",
+    "@types/prosemirror-keymap": "^1.0.3",
+    "@types/prosemirror-model": "^1.7.2",
+    "@types/prosemirror-schema-list": "^1.0.1",
+    "@types/prosemirror-state": "^1.2.5",
+    "@types/prosemirror-tables": "^0.9.1",
+    "@types/prosemirror-transform": "^1.1.1",
+    "@types/react": "^16.9.32",
+    "@types/react-dom": "^16.9.6",
+    "@types/react-window": "^1.8.2",
+    "@types/zenscroll": "^4.0.0",
+    "biblatex-csl-converter": "^1.9.1",
+    "clipboard": "^2.0.6",
+    "diff-match-patch": "^1.0.4",
+    "fuse.js": "^6.0.4",
+    "js-yaml": "^3.13.1",
+    "lodash.debounce": "^4.0.8",
+    "lodash.uniqby": "^4.7.0",
+    "orderedmap": "^1.0.0",
+    "prosemirror-changeset": "^2.1.2",
+    "prosemirror-commands": "^1.1.4",
+    "prosemirror-dev-tools": "^2.1.1",
+    "prosemirror-dropcursor": "^1.3.2",
+    "prosemirror-gapcursor": "^1.1.5",
+    "prosemirror-history": "^1.1.3",
+    "prosemirror-inputrules": "^1.1.2",
+    "prosemirror-keymap": "^1.1.4",
+    "prosemirror-model": "^1.11.0",
+    "prosemirror-schema-list": "^1.1.4",
+    "prosemirror-state": "^1.3.3",
+    "prosemirror-tables": "^1.1.1",
+    "prosemirror-transform": "^1.2.8",
+    "prosemirror-utils": "^0.9.6",
+    "prosemirror-view": "^1.15.6",
+    "react": "^16.13.1",
+    "react-dom": "^16.13.1",
+    "react-window": "^1.8.5",
+    "sentence-splitter": "^3.2.0",
+    "thenby": "^1.3.3",
+    "tlite": "^0.1.9",
+    "typescript": "3.8.3",
+    "zenscroll": "^4.0.2"
+  },
+  "scripts": {
+    "format": "prettier --write \"src/**/*.ts\" \"src/**/*.tsx\"",
+    "lint": "tslint -c tslint.json 'src/**/*.{ts,tsx}'",
+    "watch": "tsc --watch --noEmit --project './tsconfig.json'",
+    "generate-symbols": "ts-node tools/generate-symbols.ts"
+  },
+  "devDependencies": {
+    "@types/node": "^14.0.4",
+    "@types/unzip": "^0.1.1",
+    "fast-xml-parser": "^3.17.1",
+    "fuse-box": "^3.7.1",
+    "prettier": "^1.18.2",
+    "terser": "^4.6.2",
+    "ts-node": "^8.10.2",
+    "tslint": "^5.20.0",
+    "tslint-config-prettier": "^1.18.0",
+    "tslint-react": "^5.0.0",
+    "typescript-tslint-plugin": "^0.5.5",
+    "uglify-js": "^3.7.4",
+    "unzip": "^0.1.11"
+  }
+}

pkgs/applications/editors/rstudio/r-location.patch

@@ -1,19 +1,23 @@
-diff -ur rstudio-1.1.216-old/src/cpp/core/CMakeLists.txt rstudio-1.1.216-new/src/cpp/core/CMakeLists.txt
+diff --git a/src/cpp/core/r_util/REnvironmentPosix.cpp b/src/cpp/core/r_util/REnvironmentPosix.cpp
---- rstudio-1.1.216-old/src/cpp/core/r_util/REnvironmentPosix.cpp	2017-04-30 03:37:26.669418665 -0400
+index dbc9a9a1..9a526a86 100644
-+++ rstudio-1.1.216-new/src/cpp/core/r_util/REnvironmentPosix.cpp	2017-04-30 03:36:33.590726185 -0400
+--- a/src/cpp/core/r_util/REnvironmentPosix.cpp
-@@ -87,10 +87,7 @@
++++ b/src/cpp/core/r_util/REnvironmentPosix.cpp
+@@ -107,12 +107,9 @@ FilePath systemDefaultRScript(std::string* pErrMsg)
  {
-    // define potential paths
+    // check fallback paths
-    std::vector<std::string> rScriptPaths;
+    std::vector<std::string> rScriptPaths = {
--   rScriptPaths.push_back("/usr/bin/R");
+-      "/usr/bin/R",
--   rScriptPaths.push_back("/usr/local/bin/R");
+-      "/usr/local/bin/R",
--   rScriptPaths.push_back("/opt/local/bin/R");
+-      "/opt/local/bin/R",
--   rScriptPaths.push_back("/Library/Frameworks/R.framework/Resources/bin/R");
++      "@R@/bin/R"
-+   rScriptPaths.push_back("@R@/bin/R");
+    #ifdef __APPLE__
-    return scanForRScript(rScriptPaths, pErrMsg);
+-      "/opt/homebrew/bin/R",
- }
+-      "/Library/Frameworks/R.framework/Resources/bin/R",
++      "@R@/bin/R",
+    #endif
+    };
  
-@@ -226,8 +223,7 @@
+@@ -225,8 +222,7 @@ FilePath systemDefaultRScript(std::string* pErrMsg)
        // scan in standard locations as a fallback
        std::string scanErrMsg;
        std::vector<std::string> rScriptPaths;
@@ -21,5 +25,6 @@ diff -ur rstudio-1.1.216-old/src/cpp/core/CMakeLists.txt rstudio-1.1.216-new/src
 -      rScriptPaths.push_back("/usr/bin/R");
 +      rScriptPaths.push_back("@R@/bin/R");
        FilePath scriptPath = scanForRScript(rScriptPaths, &scanErrMsg);
-       if (scriptPath.empty())
+       if (scriptPath.isEmpty())
        {
+

pkgs/applications/graphics/shotwell/default.nix

@@ -41,11 +41,11 @@
 
 stdenv.mkDerivation rec {
   pname = "shotwell";
-  version = "0.31.3";
+  version = "0.30.14";
 
   src = fetchurl {
     url = "mirror://gnome/sources/${pname}/${lib.versions.majorMinor version}/${pname}-${version}.tar.xz";
-    sha256 = "1wkahbnnfxmi1jc5zmm3h761nrnkdks8lk0rj38bfkwg90h6zqwd";
+    sha256 = "sha256-McLkgzkI02GcssNnWgXw2lnCuqduKLkFOF/VbADBKJU=";
   };
 
   nativeBuildInputs = [

pkgs/applications/networking/cluster/nerdctl/default.nix

@@ -10,16 +10,16 @@
 
 buildGoModule rec {
   pname = "nerdctl";
-  version = "0.11.2";
+  version = "0.12.1";
 
   src = fetchFromGitHub {
     owner = "containerd";
     repo = pname;
     rev = "v${version}";
-    sha256 = "sha256-QkUE4oImP0eg5tofGEUonKzffICG4b3SuPJz9S2ZNfE=";
+    sha256 = "sha256-FRu1h6DT43rPaa9dcgz83w9K+xtzJgB4l/eTu+Fbb+c=";
   };
 
-  vendorSha256 = "sha256-mPOyF1S/g1FpUHHNc+cy0nxk6rK9txnZPYHOSvvfu70=";
+  vendorSha256 = "sha256-QFACe1/5MVbXKTknEyqjWclEQgJSZAJ/QljhLq/tWe4=";
 
   nativeBuildInputs = [ makeWrapper installShellFiles ];
 

pkgs/applications/networking/cluster/nixops/poetry.lock

@@ -38,14 +38,14 @@ python-versions = "*"
 
 [[package]]
 name = "boto3"
-version = "1.18.36"
+version = "1.18.60"
 description = "The AWS SDK for Python"
 category = "main"
 optional = false
 python-versions = ">= 3.6"
 
 [package.dependencies]
-botocore = ">=1.21.36,<1.22.0"
+botocore = ">=1.21.60,<1.22.0"
 jmespath = ">=0.7.1,<1.0.0"
 s3transfer = ">=0.5.0,<0.6.0"
 
@@ -54,7 +54,7 @@ crt = ["botocore[crt] (>=1.21.0,<2.0a0)"]
 
 [[package]]
 name = "botocore"
-version = "1.21.36"
+version = "1.21.60"
 description = "Low-level, data-driven core of boto 3."
 category = "main"
 optional = false
@@ -70,7 +70,7 @@ crt = ["awscrt (==0.11.24)"]
 
 [[package]]
 name = "certifi"
-version = "2021.5.30"
+version = "2021.10.8"
 description = "Python package for providing Mozilla's CA Bundle."
 category = "main"
 optional = false
@@ -89,7 +89,7 @@ pycparser = "*"
 
 [[package]]
 name = "charset-normalizer"
-version = "2.0.4"
+version = "2.0.7"
 description = "The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet."
 category = "main"
 optional = false
@@ -151,7 +151,7 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 
 [[package]]
 name = "jinja2"
-version = "3.0.1"
+version = "3.0.2"
 description = "A very fast and expressive template engine."
 category = "dev"
 optional = false
@@ -173,7 +173,7 @@ python-versions = ">=2.6, !=3.0.*, !=3.1.*, !=3.2.*"
 
 [[package]]
 name = "libvirt-python"
-version = "7.7.0"
+version = "7.8.0"
 description = "The libvirt virtualization API python binding"
 category = "main"
 optional = false
@@ -391,7 +391,7 @@ six = ">=1.5"
 
 [[package]]
 name = "pytz"
-version = "2021.1"
+version = "2021.3"
 description = "World timezone definitions, modern and historical"
 category = "dev"
 optional = false
@@ -549,7 +549,7 @@ test = ["pytest"]
 
 [[package]]
 name = "typeguard"
-version = "2.12.1"
+version = "2.13.0"
 description = "Run-time type checker for Python"
 category = "main"
 optional = false
@@ -569,7 +569,7 @@ python-versions = "*"
 
 [[package]]
 name = "urllib3"
-version = "1.26.6"
+version = "1.26.7"
 description = "HTTP library with thread-safe connection pooling, file post, and more."
 category = "main"
 optional = false
@@ -603,16 +603,16 @@ boto = [
     {file = "boto-2.49.0.tar.gz", hash = "sha256:ea0d3b40a2d852767be77ca343b58a9e3a4b00d9db440efb8da74b4e58025e5a"},
 ]
 boto3 = [
-    {file = "boto3-1.18.36-py3-none-any.whl", hash = "sha256:a7fccb61d95230322dd812629455df14167307c569077fa89d297eae73605ffb"},
+    {file = "boto3-1.18.60-py3-none-any.whl", hash = "sha256:8f3face72d2ac6ad36bd7724410548891ce338b350e6f98574890a7b1d425d78"},
-    {file = "boto3-1.18.36.tar.gz", hash = "sha256:4df1085f5c24504a1b1a6584947f27b67c26eda123f29d3cecce9b2fd683e09b"},
+    {file = "boto3-1.18.60.tar.gz", hash = "sha256:45709a04ec5fb67ce5a8eaade3eb0ab24d6eb08d9a9ca6bdb2153047896197fc"},
 ]
 botocore = [
-    {file = "botocore-1.21.36-py3-none-any.whl", hash = "sha256:e3e522fbe0bad1197aa7182451dc05f650310e77cf0a77749f6a5e82794c53de"},
+    {file = "botocore-1.21.60-py3-none-any.whl", hash = "sha256:890a5835ac00415ff78f1c7118a774aae83c0c70742284b68abd1176f9d05761"},
-    {file = "botocore-1.21.36.tar.gz", hash = "sha256:5b9a7d30e44b8a0a2bbbde62ae01bf6c349017e836985a0248552b00bbce7fae"},
+    {file = "botocore-1.21.60.tar.gz", hash = "sha256:3e746ca75fb7539ba3f001169264fa54dfaded2477ffc8bd979ce1e1df200620"},
 ]
 certifi = [
-    {file = "certifi-2021.5.30-py2.py3-none-any.whl", hash = "sha256:50b1e4f8446b06f41be7dd6338db18e0990601dce795c2b1686458aa7e8fa7d8"},
+    {file = "certifi-2021.10.8-py2.py3-none-any.whl", hash = "sha256:d62a0163eb4c2344ac042ab2bdf75399a71a2d8c7d47eac2e2ee91b9d6339569"},
-    {file = "certifi-2021.5.30.tar.gz", hash = "sha256:2bbf76fd432960138b3ef6dda3dde0544f27cbf8546c458e60baf371917ba9ee"},
+    {file = "certifi-2021.10.8.tar.gz", hash = "sha256:78884e7c1d4b00ce3cea67b44566851c4343c120abd683433ce934a68ea58872"},
 ]
 cffi = [
     {file = "cffi-1.14.6-cp27-cp27m-macosx_10_9_x86_64.whl", hash = "sha256:22b9c3c320171c108e903d61a3723b51e37aaa8c81255b5e7ce102775bd01e2c"},
@@ -662,8 +662,8 @@ cffi = [
     {file = "cffi-1.14.6.tar.gz", hash = "sha256:c9a875ce9d7fe32887784274dd533c57909b7b1dcadcc128a2ac21331a9765dd"},
 ]
 charset-normalizer = [
-    {file = "charset-normalizer-2.0.4.tar.gz", hash = "sha256:f23667ebe1084be45f6ae0538e4a5a865206544097e4e8bbcacf42cd02a348f3"},
+    {file = "charset-normalizer-2.0.7.tar.gz", hash = "sha256:e019de665e2bcf9c2b64e2e5aa025fa991da8720daa3c1138cadd2fd1856aed0"},
-    {file = "charset_normalizer-2.0.4-py3-none-any.whl", hash = "sha256:0c8911edd15d19223366a194a513099a302055a962bca2cec0f54b8b63175d8b"},
+    {file = "charset_normalizer-2.0.7-py3-none-any.whl", hash = "sha256:f7af805c321bfa1ce6714c51f254e0d5bb5e5834039bc17db7ebe3a4cec9492b"},
 ]
 colorama = [
     {file = "colorama-0.4.4-py2.py3-none-any.whl", hash = "sha256:9f47eda37229f68eee03b24b9748937c7dc3868f906e8ba69fbcbdd3bc5dc3e2"},
@@ -676,6 +676,8 @@ cryptography = [
     {file = "cryptography-3.4.8-cp36-abi3-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:34dae04a0dce5730d8eb7894eab617d8a70d0c97da76b905de9efb7128ad7085"},
     {file = "cryptography-3.4.8-cp36-abi3-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:1eb7bb0df6f6f583dd8e054689def236255161ebbcf62b226454ab9ec663746b"},
     {file = "cryptography-3.4.8-cp36-abi3-manylinux_2_24_x86_64.whl", hash = "sha256:9965c46c674ba8cc572bc09a03f4c649292ee73e1b683adb1ce81e82e9a6a0fb"},
+    {file = "cryptography-3.4.8-cp36-abi3-musllinux_1_1_aarch64.whl", hash = "sha256:3c4129fc3fdc0fa8e40861b5ac0c673315b3c902bbdc05fc176764815b43dd1d"},
+    {file = "cryptography-3.4.8-cp36-abi3-musllinux_1_1_x86_64.whl", hash = "sha256:695104a9223a7239d155d7627ad912953b540929ef97ae0c34c7b8bf30857e89"},
     {file = "cryptography-3.4.8-cp36-abi3-win32.whl", hash = "sha256:21ca464b3a4b8d8e86ba0ee5045e103a1fcfac3b39319727bc0fc58c09c6aff7"},
     {file = "cryptography-3.4.8-cp36-abi3-win_amd64.whl", hash = "sha256:3520667fda779eb788ea00080124875be18f2d8f0848ec00733c0ec3bb8219fc"},
     {file = "cryptography-3.4.8-pp36-pypy36_pp73-manylinux_2_12_x86_64.manylinux2010_x86_64.whl", hash = "sha256:d2a6e5ef66503da51d2110edf6c403dc6b494cc0082f85db12f54e9c5d4c3ec5"},
@@ -701,15 +703,15 @@ imagesize = [
     {file = "imagesize-1.2.0.tar.gz", hash = "sha256:b1f6b5a4eab1f73479a50fb79fcf729514a900c341d8503d62a62dbc4127a2b1"},
 ]
 jinja2 = [
-    {file = "Jinja2-3.0.1-py3-none-any.whl", hash = "sha256:1f06f2da51e7b56b8f238affdd6b4e2c61e39598a378cc49345bc1bd42a978a4"},
+    {file = "Jinja2-3.0.2-py3-none-any.whl", hash = "sha256:8569982d3f0889eed11dd620c706d39b60c36d6d25843961f33f77fb6bc6b20c"},
-    {file = "Jinja2-3.0.1.tar.gz", hash = "sha256:703f484b47a6af502e743c9122595cc812b0271f661722403114f71a79d0f5a4"},
+    {file = "Jinja2-3.0.2.tar.gz", hash = "sha256:827a0e32839ab1600d4eb1c4c33ec5a8edfbc5cb42dafa13b81f182f97784b45"},
 ]
 jmespath = [
     {file = "jmespath-0.10.0-py2.py3-none-any.whl", hash = "sha256:cdf6525904cc597730141d61b36f2e4b8ecc257c420fa2f4549bac2c2d0cb72f"},
     {file = "jmespath-0.10.0.tar.gz", hash = "sha256:b85d0567b8666149a93172712e68920734333c0ce7e89b78b3e987f71e5ed4f9"},
 ]
 libvirt-python = [
-    {file = "libvirt-python-7.7.0.tar.gz", hash = "sha256:cc8d6528cef7cf395c5d97566328f16faef6b5653a500b0e88c9c0fc36b72cdb"},
+    {file = "libvirt-python-7.8.0.tar.gz", hash = "sha256:9d07416d66805bf1a17f34491b3ced2ac6c42b6a012ddf9177e0e3ae1b103fd5"},
 ]
 markupsafe = [
     {file = "MarkupSafe-2.0.1-cp310-cp310-macosx_10_9_universal2.whl", hash = "sha256:d8446c54dc28c01e5a2dbac5a25f071f6653e6e40f3a8818e8b45d790fe6ef53"},
@@ -804,8 +806,8 @@ python-dateutil = [
     {file = "python_dateutil-2.8.2-py2.py3-none-any.whl", hash = "sha256:961d03dc3453ebbc59dbdea9e4e11c5651520a876d0f4db161e8674aae935da9"},
 ]
 pytz = [
-    {file = "pytz-2021.1-py2.py3-none-any.whl", hash = "sha256:eb10ce3e7736052ed3623d49975ce333bcd712c7bb19a58b9e2089d4057d0798"},
+    {file = "pytz-2021.3-py2.py3-none-any.whl", hash = "sha256:3672058bc3453457b622aab7a1c3bfd5ab0bdae451512f6cf25f64ed37f5b87c"},
-    {file = "pytz-2021.1.tar.gz", hash = "sha256:83a4a90894bf38e243cf052c8b58f381bfe9a7a483f6a9cab140bc7f702ac4da"},
+    {file = "pytz-2021.3.tar.gz", hash = "sha256:acad2d8b20a1af07d4e4c9d2e9285c5ed9104354062f275f3fcd88dcef4f1326"},
 ]
 requests = [
     {file = "requests-2.26.0-py2.py3-none-any.whl", hash = "sha256:6c1246513ecd5ecd4528a0906f910e8f0f9c6b8ec72030dc9fd154dc1a6efd24"},
@@ -852,8 +854,8 @@ sphinxcontrib-serializinghtml = [
     {file = "sphinxcontrib_serializinghtml-1.1.5-py2.py3-none-any.whl", hash = "sha256:352a9a00ae864471d3a7ead8d7d79f5fc0b57e8b3f95e9867eb9eb28999b92fd"},
 ]
 typeguard = [
-    {file = "typeguard-2.12.1-py3-none-any.whl", hash = "sha256:cc15ef2704c9909ef9c80e19c62fb8468c01f75aad12f651922acf4dbe822e02"},
+    {file = "typeguard-2.13.0-py3-none-any.whl", hash = "sha256:0bc44d1ff865b522eda969627868b0e001c8329296ce50aededbea03febc79ee"},
-    {file = "typeguard-2.12.1.tar.gz", hash = "sha256:c2af8b9bdd7657f4bd27b45336e7930171aead796711bc4cfc99b4731bb9d051"},
+    {file = "typeguard-2.13.0.tar.gz", hash = "sha256:04e38f92eb59410c9375d3be23df65e0a7643f2e8bcbd421423d808d2f9e99df"},
 ]
 typing-extensions = [
     {file = "typing_extensions-3.10.0.2-py2-none-any.whl", hash = "sha256:d8226d10bc02a29bcc81df19a26e56a9647f8b0a6d4a83924139f4a8b01f17b7"},
@@ -861,6 +863,6 @@ typing-extensions = [
     {file = "typing_extensions-3.10.0.2.tar.gz", hash = "sha256:49f75d16ff11f1cd258e1b988ccff82a3ca5570217d7ad8c5f48205dd99a677e"},
 ]
 urllib3 = [
-    {file = "urllib3-1.26.6-py2.py3-none-any.whl", hash = "sha256:39fb8672126159acb139a7718dd10806104dec1e2f0f6c88aab05d17df10c8d4"},
+    {file = "urllib3-1.26.7-py2.py3-none-any.whl", hash = "sha256:c4fdf4019605b6e5423637e01bc9fe4daef873709a7973e195ceba0a62bbc844"},
-    {file = "urllib3-1.26.6.tar.gz", hash = "sha256:f57b4c16c62fa2760b7e3d97c35b255512fb6b59a259730f36ba32ce9f8e342f"},
+    {file = "urllib3-1.26.7.tar.gz", hash = "sha256:4987c65554f7a2dbf30c18fd48778ef124af6fab771a377103da0585e2336ece"},
 ]

pkgs/applications/networking/flexget/default.nix

@@ -2,14 +2,14 @@
 
 python3Packages.buildPythonApplication rec {
   pname = "flexget";
-  version = "3.1.137";
+  version = "3.1.138";
 
   # Fetch from GitHub in order to use `requirements.in`
   src = fetchFromGitHub {
     owner = "flexget";
     repo = "flexget";
     rev = "v${version}";
-    sha256 = "15zl97laijn42rhh524rfb3h1rky461hwfnlny2maa3h61889xrv";
+    sha256 = "0xjcvq7c6rrgqw8cfcfl7af122lm428cqz3v6ssxi595qxq1rg44";
   };
 
   postPatch = ''

pkgs/applications/science/logic/yices/default.nix

@@ -2,13 +2,14 @@
 
 stdenv.mkDerivation rec {
   pname = "yices";
-  version = "2.6.3";
+  # We never want X.Y.${odd} versions as they are moving development tags.
+  version = "2.6.2";
 
   src = fetchFromGitHub {
     owner  = "SRI-CSL";
     repo   = "yices2";
     rev    = "Yices-${version}";
-    sha256 = "01fi818lbkwilfcf1dz2dpxkcc1kh8ls0sl5aynyx9pwfn2v03zl";
+    sha256 = "1jx3854zxvfhxrdshbipxfgyq1yxb9ll9agjc2n0cj4vxkjyh9mn";
   };
 
   nativeBuildInputs = [ autoreconfHook ];
@@ -25,12 +26,16 @@ stdenv.mkDerivation rec {
   # Usual shenanigans
   patchPhase = "patchShebangs tests/regress/check.sh";
 
-  # Includes a fix for the embedded soname being libyices.so.2.5, but
+  # Includes a fix for the embedded soname being libyices.so.X.Y, but
-  # only installing the libyices.so.2.5.x file.
+  # only installing the libyices.so.X.Y.Z file.
   installPhase = let
     ver_XdotY = lib.versions.majorMinor version;
   in ''
       make install LDCONFIG=true
+      # guard against packaging of unstable versions: they
+      # have a soname of hext (not current) release.
+      echo "Checking expected library version to be ${version}"
+      [ -f $out/lib/libyices.so.${version} ]
       ln -sfr $out/lib/libyices.so.{${version},${ver_XdotY}}
   '';
 

pkgs/desktops/plasma-5/plasma-workspace/default.nix

@@ -24,6 +24,7 @@ let inherit (lib) getBin getLib; in
 
 mkDerivation {
   name = "plasma-workspace";
+  passthru.providedSessions = [ "plasma" "plasmawayland" ];
 
   nativeBuildInputs = [ extra-cmake-modules kdoctools ];
   buildInputs = [

pkgs/development/compilers/llvm/13/libcxxabi/default.nix

@@ -14,8 +14,6 @@ stdenv.mkDerivation rec {
 
   postUnpack = lib.optionalString stdenv.isDarwin ''
     export TRIPLE=x86_64-apple-darwin
-  '' + lib.optionalString stdenv.hostPlatform.isMusl ''
-    patch -p1 -d libcxx -i ${../../libcxx-0001-musl-hacks.patch}
   '' + lib.optionalString stdenv.hostPlatform.isWasm ''
     patch -p1 -d llvm -i ${./wasm.patch}
   '';

pkgs/development/compilers/llvm/git/libcxxabi/default.nix

@@ -14,8 +14,6 @@ stdenv.mkDerivation rec {
 
   postUnpack = lib.optionalString stdenv.isDarwin ''
     export TRIPLE=x86_64-apple-darwin
-  '' + lib.optionalString stdenv.hostPlatform.isMusl ''
-    patch -p1 -d libcxx -i ${../../libcxx-0001-musl-hacks.patch}
   '' + lib.optionalString stdenv.hostPlatform.isWasm ''
     patch -p1 -d llvm -i ${./wasm.patch}
   '';

pkgs/development/libraries/liblinphone/default.nix

@@ -35,6 +35,7 @@
 , python3
 , readline
 , soci
+, boost
 , speex
 , sqlite
 , lib, stdenv
@@ -93,6 +94,7 @@ stdenv.mkDerivation rec {
     pango
     readline
     soci
+    boost
     speex
     sqlite
     udev

pkgs/development/libraries/libvirt/default.nix

@@ -84,23 +84,24 @@ let
 in
 stdenv.mkDerivation rec {
   pname = "libvirt";
-  version = "7.7.0";
+  version = "7.8.0";
 
   src =
     if buildFromTarball then
       fetchurl
         {
           url = "https://libvirt.org/sources/${pname}-${version}.tar.xz";
-          sha256 = "1cjj48dn4ww13ayicd2g863a5kz0sc5jlbv2991bj54dq6cn0q8v";
+          sha256 = "sha256-pyfNCke/ok+n3ih00j86n58Czra0m6FSiPbZoJixmSE=";
         }
     else
-      fetchFromGitLab {
+      fetchFromGitLab
-        owner = pname;
+        {
-        repo = pname;
+          owner = pname;
-        rev = "v${version}";
+          repo = pname;
-        sha256 = "sha256-gv/tORDlzZP3L3YcU6/YPEpqHQSLzEWa6kEX8EzZM28=";
+          rev = "v${version}";
-        fetchSubmodules = true;
+          sha256 = "sha256-/tSMJFgLPAiQXcZ2qZLM4XZqf96NtW3+zwKyrwGho2s=";
-      };
+          fetchSubmodules = true;
+        };
 
   patches = [
     ./0001-meson-patch-in-an-install-prefix-for-building-on-nix.patch

pkgs/development/libraries/libyaml-cpp/0.3.0.nix

@@ -0,0 +1,32 @@
+{ lib, stdenv, fetchFromGitHub, cmake }:
+
+stdenv.mkDerivation rec {
+  pname = "libyaml-cpp";
+  version = "0.3.0";
+
+  src = fetchFromGitHub {
+    owner = "jbeder";
+    repo = "yaml-cpp";
+    rev = "release-${version}";
+    sha256 = "sha256-pmgcULTXhl83+Wc8ZsGebnJ1t0XybHhUEJxDnEZE5x8=";
+  };
+
+  # implement https://github.com/jbeder/yaml-cpp/commit/52a1378e48e15d42a0b755af7146394c6eff998c
+  postPatch = ''
+    substituteInPlace CMakeLists.txt \
+      --replace 'option(YAML_BUILD_SHARED_LIBS "Build Shared Libraries" OFF)' \
+                'option(YAML_BUILD_SHARED_LIBS "Build yaml-cpp shared library" ''${BUILD_SHARED_LIBS})'
+  '';
+
+  nativeBuildInputs = [ cmake ];
+
+  cmakeFlags = [ "-DBUILD_SHARED_LIBS=ON" "-DYAML_CPP_BUILD_TESTS=OFF" ];
+
+  meta = with lib; {
+    inherit (src.meta) homepage;
+    description = "A YAML parser and emitter for C++";
+    license = licenses.mit;
+    platforms = platforms.unix;
+    maintainers = with maintainers; [ andir ];
+  };
+}

pkgs/development/libraries/libyaml-cpp/default.nix

@@ -1,4 +1,4 @@
-{ lib, stdenv, fetchFromGitHub, cmake }:
+{ lib, stdenv, fetchFromGitHub, cmake, fetchpatch }:
 
 stdenv.mkDerivation rec {
   pname = "libyaml-cpp";
@@ -11,12 +11,14 @@ stdenv.mkDerivation rec {
     sha256 = "sha256-2tFWccifn0c2lU/U1WNg2FHrBohjx8CXMllPJCevaNk=";
   };
 
-  # implement https://github.com/jbeder/yaml-cpp/commit/52a1378e48e15d42a0b755af7146394c6eff998c
+  patches = [
-  postPatch = ''
+    # https://github.com/jbeder/yaml-cpp/issues/774
-    substituteInPlace CMakeLists.txt \
+    # https://github.com/jbeder/yaml-cpp/pull/1037
-      --replace 'option(YAML_BUILD_SHARED_LIBS "Build Shared Libraries" OFF)' \
+    (fetchpatch {
-                'option(YAML_BUILD_SHARED_LIBS "Build yaml-cpp shared library" ''${BUILD_SHARED_LIBS})'
+      url = "https://github.com/jbeder/yaml-cpp/commit/4f48727b365962e31451cd91027bd797bc7d2ee7.patch";
-  '';
+      sha256 = "sha256-jarZAh7NgwL3xXzxijDiAQmC/EC2WYfNMkYHEIQBPhM=";
+    })
+  ];
 
   nativeBuildInputs = [ cmake ];
 

pkgs/development/libraries/lime/default.nix

@@ -5,6 +5,7 @@
 , lib
 , soci
 , sqlite
+, boost
 , stdenv
 }:
 
@@ -21,7 +22,7 @@ stdenv.mkDerivation rec {
     sha256 = "sha256-11vvvA+pud/eOyYsbRKVvGfiyhwdhNPfRQSfaquUro8=";
   };
 
-  buildInputs = [ bctoolbox soci belle-sip sqlite ];
+  buildInputs = [ bctoolbox soci belle-sip sqlite boost ];
   nativeBuildInputs = [ cmake ];
 
   # Do not build static libraries

pkgs/development/libraries/newt/default.nix

@@ -8,7 +8,7 @@ stdenv.mkDerivation rec {
   version = "0.52.21";
 
   src = fetchurl {
-    url = "https://fedorahosted.org/releases/n/e/${pname}/${pname}-${version}.tar.gz";
+    url = "https://releases.pagure.org/${pname}/${pname}-${version}.tar.gz";
     sha256 = "0cdvbancr7y4nrj8257y5n45hmhizr8isynagy4fpsnpammv8pi6";
   };
 
@@ -41,7 +41,7 @@ stdenv.mkDerivation rec {
   ];
 
   meta = with lib; {
-    homepage = "https://fedorahosted.org/newt/";
+    homepage = "https://pagure.io/newt";
     description = "Library for color text mode, widget based user interfaces";
 
     license = licenses.lgpl2;

pkgs/development/libraries/soci/default.nix

@@ -1,25 +1,31 @@
 { cmake
 , fetchFromGitHub
 , sqlite
+, postgresql
+, boost
 , lib, stdenv
 }:
 
 stdenv.mkDerivation rec {
   pname = "soci";
-  version = "4.0.1";
+  version = "4.0.2";
 
   src = fetchFromGitHub {
     owner = "SOCI";
     repo = pname;
-    rev = version;
+    rev = "v${version}";
-    sha256 = "sha256-d4GtxDaB+yGfyCnbvnLRUYcrPSMkUF7Opu6+SZd8opM=";
+    sha256 = "sha256-NE0ApbX8HG2VAQ9cg9+kX3kJQ4PR1XvWL9BlT8NphmE=";
   };
 
   # Do not build static libraries
   cmakeFlags = [ "-DSOCI_STATIC=OFF" "-DCMAKE_CXX_STANDARD=11" ];
 
   nativeBuildInputs = [ cmake ];
-  buildInputs = [ sqlite ];
+  buildInputs = [
+    sqlite
+    postgresql
+    boost
+  ];
 
   meta = with lib; {
     description = "Database access library for C++";

pkgs/development/libraries/usbredir/default.nix

@@ -11,14 +11,14 @@
 
 stdenv.mkDerivation rec {
   pname = "usbredir";
-  version = "0.10.0";
+  version = "0.11.0";
 
   src = fetchFromGitLab {
     domain = "gitlab.freedesktop.org";
     owner = "spice";
     repo = "usbredir";
     rev = "${pname}-${version}";
-    sha256 = "1dz8jms9l6gg2hw0k6p1p1lnchc9mcgmskgvm5gbdvw3j7wrhdbz";
+    sha256 = "1ra8vpi6wdq1fvvqzx4ny2ga0p0q1cwz72gr15nghyfp75y3d31l";
   };
 
   nativeBuildInputs = [

pkgs/development/python-modules/adafruit-platformdetect/default.nix

@@ -6,12 +6,12 @@
 
 buildPythonPackage rec {
   pname = "adafruit-platformdetect";
-  version = "3.15.3";
+  version = "3.16.0";
 
   src = fetchPypi {
     pname = "Adafruit-PlatformDetect";
     inherit version;
-    sha256 = "sha256-cmeCh54dwYwbL1AwGrPwTDp4F6VONclV7iu2Sm1g33Q=";
+    sha256 = "sha256-/60f++CemVbeUwRSzQ5dZpoQE4btRiRhnVHHDPIn3Xc=";
   };
 
   nativeBuildInputs = [ setuptools-scm ];

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

@@ -12,14 +12,14 @@
 
 buildPythonPackage rec {
   pname = "apycula";
-  version = "0.0.1a9";
+  version = "0.0.1a11";
 
   disabled = pythonOlder "3.8";
 
   src = fetchPypi {
     inherit version;
     pname = "Apycula";
-    sha256 = "01shkaxakisgg253jdwjkd81vnjgfws3gi2wyrdxmkcg95wphk5y";
+    sha256 = "0fwk1pgphpgj0lazjy40ii08xq2qi6bvrfc30rwfj52yff1s9akn";
   };
 
   nativeBuildInputs = [ setuptools-scm ];

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

@@ -4,7 +4,6 @@
 , stdenv
 , zlib
 , xz
-, ncompress
 , gzip
 , bzip2
 , gnutar
@@ -31,7 +30,7 @@ buildPythonPackage rec {
     sha256 = "sha256-lfHXutAp06Xr/TSBpDwBUBC/mWI9XuyImoKwA3inqgU=";
   };
 
-  propagatedBuildInputs = [ zlib xz ncompress gzip bzip2 gnutar p7zip cabextract squashfsTools xz pycrypto ]
+  propagatedBuildInputs = [ zlib xz gzip bzip2 gnutar p7zip cabextract squashfsTools xz pycrypto ]
   ++ lib.optionals visualizationSupport [ matplotlib pyqtgraph ]
   ++ lib.optionals (!stdenv.isDarwin) [ cramfsprogs cramfsswap sasquatch ];
 

pkgs/development/python-modules/cramjam/Cargo.lock

@@ -1,520 +0,0 @@
-# This file is automatically @generated by Cargo.
-# It is not intended for manual editing.
-[[package]]
-name = "adler"
-version = "1.0.2"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "f26201604c87b1e01bd3d98f8d5d9a8fcbb815e8cedb41ffccbeb4bf593a35fe"
-
-[[package]]
-name = "autocfg"
-version = "1.0.1"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "cdb031dd78e28731d87d56cc8ffef4a8f36ca26c38fe2de700543e627f8a464a"
-
-[[package]]
-name = "bitflags"
-version = "1.2.1"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "cf1de2fe8c75bc145a2f577add951f8134889b4795d47466a54a5c846d691693"
-
-[[package]]
-name = "brotli-sys"
-version = "0.3.2"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "4445dea95f4c2b41cde57cc9fee236ae4dbae88d8fcbdb4750fc1bb5d86aaecd"
-dependencies = [
- "cc",
- "libc",
-]
-
-[[package]]
-name = "brotli2"
-version = "0.3.2"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "0cb036c3eade309815c15ddbacec5b22c4d1f3983a774ab2eac2e3e9ea85568e"
-dependencies = [
- "brotli-sys",
- "libc",
-]
-
-[[package]]
-name = "cc"
-version = "1.0.68"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "4a72c244c1ff497a746a7e1fb3d14bd08420ecda70c8f25c7112f2781652d787"
-dependencies = [
- "jobserver",
-]
-
-[[package]]
-name = "cfg-if"
-version = "0.1.10"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "4785bdd1c96b2a846b2bd7cc02e86b6b3dbf14e7e53446c4f54c92a361040822"
-
-[[package]]
-name = "cfg-if"
-version = "1.0.0"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "baf1de4339761588bc0619e3cbc0120ee582ebb74b53b4efbf79117bd2da40fd"
-
-[[package]]
-name = "cramjam"
-version = "2.3.2"
-dependencies = [
- "brotli2",
- "flate2",
- "lz4",
- "mimalloc",
- "numpy",
- "pyo3",
- "snap",
- "zstd",
-]
-
-[[package]]
-name = "crc32fast"
-version = "1.2.1"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "81156fece84ab6a9f2afdb109ce3ae577e42b1228441eded99bd77f627953b1a"
-dependencies = [
- "cfg-if 1.0.0",
-]
-
-[[package]]
-name = "ctor"
-version = "0.1.20"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "5e98e2ad1a782e33928b96fc3948e7c355e5af34ba4de7670fe8bac2a3b2006d"
-dependencies = [
- "quote",
- "syn",
-]
-
-[[package]]
-name = "flate2"
-version = "1.0.20"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "cd3aec53de10fe96d7d8c565eb17f2c687bb5518a2ec453b5b1252964526abe0"
-dependencies = [
- "cfg-if 1.0.0",
- "crc32fast",
- "libc",
- "miniz_oxide",
-]
-
-[[package]]
-name = "ghost"
-version = "0.1.2"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "1a5bcf1bbeab73aa4cf2fde60a846858dc036163c7c33bec309f8d17de785479"
-dependencies = [
- "proc-macro2",
- "quote",
- "syn",
-]
-
-[[package]]
-name = "indoc"
-version = "0.3.6"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "47741a8bc60fb26eb8d6e0238bbb26d8575ff623fdc97b1a2c00c050b9684ed8"
-dependencies = [
- "indoc-impl",
- "proc-macro-hack",
-]
-
-[[package]]
-name = "indoc-impl"
-version = "0.3.6"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "ce046d161f000fffde5f432a0d034d0341dc152643b2598ed5bfce44c4f3a8f0"
-dependencies = [
- "proc-macro-hack",
- "proc-macro2",
- "quote",
- "syn",
- "unindent",
-]
-
-[[package]]
-name = "instant"
-version = "0.1.9"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "61124eeebbd69b8190558df225adf7e4caafce0d743919e5d6b19652314ec5ec"
-dependencies = [
- "cfg-if 1.0.0",
-]
-
-[[package]]
-name = "inventory"
-version = "0.1.10"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "0f0f7efb804ec95e33db9ad49e4252f049e37e8b0a4652e3cd61f7999f2eff7f"
-dependencies = [
- "ctor",
- "ghost",
- "inventory-impl",
-]
-
-[[package]]
-name = "inventory-impl"
-version = "0.1.10"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "75c094e94816723ab936484666968f5b58060492e880f3c8d00489a1e244fa51"
-dependencies = [
- "proc-macro2",
- "quote",
- "syn",
-]
-
-[[package]]
-name = "jobserver"
-version = "0.1.22"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "972f5ae5d1cb9c6ae417789196c803205313edde988685da5e3aae0827b9e7fd"
-dependencies = [
- "libc",
-]
-
-[[package]]
-name = "libc"
-version = "0.2.95"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "789da6d93f1b866ffe175afc5322a4d76c038605a1c3319bb57b06967ca98a36"
-
-[[package]]
-name = "libmimalloc-sys"
-version = "0.1.21"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "2396cf99d2f58611cd69f0efeee4af3d2e2c7b61bed433515029163aa567e65c"
-dependencies = [
- "cc",
-]
-
-[[package]]
-name = "lock_api"
-version = "0.4.4"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "0382880606dff6d15c9476c416d18690b72742aa7b605bb6dd6ec9030fbf07eb"
-dependencies = [
- "scopeguard",
-]
-
-[[package]]
-name = "lz4"
-version = "1.23.2"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "aac20ed6991e01bf6a2e68cc73df2b389707403662a8ba89f68511fb340f724c"
-dependencies = [
- "libc",
- "lz4-sys",
-]
-
-[[package]]
-name = "lz4-sys"
-version = "1.9.2"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "dca79aa95d8b3226213ad454d328369853be3a1382d89532a854f4d69640acae"
-dependencies = [
- "cc",
- "libc",
-]
-
-[[package]]
-name = "matrixmultiply"
-version = "0.2.4"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "916806ba0031cd542105d916a97c8572e1fa6dd79c9c51e7eb43a09ec2dd84c1"
-dependencies = [
- "rawpointer",
-]
-
-[[package]]
-name = "mimalloc"
-version = "0.1.25"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "1e7c6b11afd1e5e689ac96b6d18b1fc763398fe3d7eed99e8773426bc2033dfb"
-dependencies = [
- "libmimalloc-sys",
-]
-
-[[package]]
-name = "miniz_oxide"
-version = "0.4.4"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "a92518e98c078586bc6c934028adcca4c92a53d6a958196de835170a01d84e4b"
-dependencies = [
- "adler",
- "autocfg",
-]
-
-[[package]]
-name = "ndarray"
-version = "0.14.0"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "6c0d5c9540a691d153064dc47a4db2504587a75eae07bf1d73f7a596ebc73c04"
-dependencies = [
- "matrixmultiply",
- "num-complex",
- "num-integer",
- "num-traits",
- "rawpointer",
-]
-
-[[package]]
-name = "num-complex"
-version = "0.3.1"
-source = "registry+https://github.com/rust-lang/crates.io-index"
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-dependencies = [
- "num-traits",
-]
-
-[[package]]
-name = "num-integer"
-version = "0.1.44"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "d2cc698a63b549a70bc047073d2949cce27cd1c7b0a4a862d08a8031bc2801db"
-dependencies = [
- "autocfg",
- "num-traits",
-]
-
-[[package]]
-name = "num-traits"
-version = "0.2.14"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "9a64b1ec5cda2586e284722486d802acf1f7dbdc623e2bfc57e65ca1cd099290"
-dependencies = [
- "autocfg",
-]
-
-[[package]]
-name = "numpy"
-version = "0.13.1"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "a7073fae1e0b82409533a29c6f804b79783d7b2d3c07728fdc4d884eda8cd4f0"
-dependencies = [
- "cfg-if 0.1.10",
- "libc",
- "ndarray",
- "num-complex",
- "num-traits",
- "pyo3",
-]
-
-[[package]]
-name = "parking_lot"
-version = "0.11.1"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "6d7744ac029df22dca6284efe4e898991d28e3085c706c972bcd7da4a27a15eb"
-dependencies = [
- "instant",
- "lock_api",
- "parking_lot_core",
-]
-
-[[package]]
-name = "parking_lot_core"
-version = "0.8.3"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "fa7a782938e745763fe6907fc6ba86946d72f49fe7e21de074e08128a99fb018"
-dependencies = [
- "cfg-if 1.0.0",
- "instant",
- "libc",
- "redox_syscall",
- "smallvec",
- "winapi",
-]
-
-[[package]]
-name = "paste"
-version = "0.1.18"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "45ca20c77d80be666aef2b45486da86238fabe33e38306bd3118fe4af33fa880"
-dependencies = [
- "paste-impl",
- "proc-macro-hack",
-]
-
-[[package]]
-name = "paste-impl"
-version = "0.1.18"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "d95a7db200b97ef370c8e6de0088252f7e0dfff7d047a28528e47456c0fc98b6"
-dependencies = [
- "proc-macro-hack",
-]
-
-[[package]]
-name = "proc-macro-hack"
-version = "0.5.19"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "dbf0c48bc1d91375ae5c3cd81e3722dff1abcf81a30960240640d223f59fe0e5"
-
-[[package]]
-name = "proc-macro2"
-version = "1.0.27"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "f0d8caf72986c1a598726adc988bb5984792ef84f5ee5aa50209145ee8077038"
-dependencies = [
- "unicode-xid",
-]
-
-[[package]]
-name = "pyo3"
-version = "0.13.2"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "4837b8e8e18a102c23f79d1e9a110b597ea3b684c95e874eb1ad88f8683109c3"
-dependencies = [
- "cfg-if 1.0.0",
- "ctor",
- "indoc",
- "inventory",
- "libc",
- "parking_lot",
- "paste",
- "pyo3-macros",
- "unindent",
-]
-
-[[package]]
-name = "pyo3-macros"
-version = "0.13.2"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "a47f2c300ceec3e58064fd5f8f5b61230f2ffd64bde4970c81fdd0563a2db1bb"
-dependencies = [
- "pyo3-macros-backend",
- "quote",
- "syn",
-]
-
-[[package]]
-name = "pyo3-macros-backend"
-version = "0.13.2"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "87b097e5d84fcbe3e167f400fbedd657820a375b034c78bd852050749a575d66"
-dependencies = [
- "proc-macro2",
- "quote",
- "syn",
-]
-
-[[package]]
-name = "quote"
-version = "1.0.9"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "c3d0b9745dc2debf507c8422de05d7226cc1f0644216dfdfead988f9b1ab32a7"
-dependencies = [
- "proc-macro2",
-]
-
-[[package]]
-name = "rawpointer"
-version = "0.2.1"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "60a357793950651c4ed0f3f52338f53b2f809f32d83a07f72909fa13e4c6c1e3"
-
-[[package]]
-name = "redox_syscall"
-version = "0.2.8"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "742739e41cd49414de871ea5e549afb7e2a3ac77b589bcbebe8c82fab37147fc"
-dependencies = [
- "bitflags",
-]
-
-[[package]]
-name = "scopeguard"
-version = "1.1.0"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "d29ab0c6d3fc0ee92fe66e2d99f700eab17a8d57d1c1d3b748380fb20baa78cd"
-
-[[package]]
-name = "smallvec"
-version = "1.6.1"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "fe0f37c9e8f3c5a4a66ad655a93c74daac4ad00c441533bf5c6e7990bb42604e"
-
-[[package]]
-name = "snap"
-version = "1.0.5"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "45456094d1983e2ee2a18fdfebce3189fa451699d0502cb8e3b49dba5ba41451"
-
-[[package]]
-name = "syn"
-version = "1.0.72"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "a1e8cdbefb79a9a5a65e0db8b47b723ee907b7c7f8496c76a1770b5c310bab82"
-dependencies = [
- "proc-macro2",
- "quote",
- "unicode-xid",
-]
-
-[[package]]
-name = "unicode-xid"
-version = "0.2.2"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "8ccb82d61f80a663efe1f787a51b16b5a51e3314d6ac365b08639f52387b33f3"
-
-[[package]]
-name = "unindent"
-version = "0.1.7"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "f14ee04d9415b52b3aeab06258a3f07093182b88ba0f9b8d203f211a7a7d41c7"
-
-[[package]]
-name = "winapi"
-version = "0.3.9"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "5c839a674fcd7a98952e593242ea400abe93992746761e38641405d28b00f419"
-dependencies = [
- "winapi-i686-pc-windows-gnu",
- "winapi-x86_64-pc-windows-gnu",
-]
-
-[[package]]
-name = "winapi-i686-pc-windows-gnu"
-version = "0.4.0"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "ac3b87c63620426dd9b991e5ce0329eff545bccbbb34f3be09ff6fb6ab51b7b6"
-
-[[package]]
-name = "winapi-x86_64-pc-windows-gnu"
-version = "0.4.0"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "712e227841d057c1ee1cd2fb22fa7e5a5461ae8e48fa2ca79ec42cfc1931183f"
-
-[[package]]
-name = "zstd"
-version = "0.6.1+zstd.1.4.9"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "5de55e77f798f205d8561b8fe2ef57abfb6e0ff2abe7fd3c089e119cdb5631a3"
-dependencies = [
- "zstd-safe",
-]
-
-[[package]]
-name = "zstd-safe"
-version = "3.0.1+zstd.1.4.9"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "1387cabcd938127b30ce78c4bf00b30387dddf704e3f0881dbc4ff62b5566f8c"
-dependencies = [
- "libc",
- "zstd-sys",
-]
-
-[[package]]
-name = "zstd-sys"
-version = "1.4.20+zstd.1.4.9"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "ebd5b733d7cf2d9447e2c3e76a5589b4f5e5ae065c22a2bc0b023cbc331b6c8e"
-dependencies = [
- "cc",
- "libc",
-]

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

@@ -1,35 +1,34 @@
 { lib
-, stdenv
 , buildPythonPackage
-, fetchPypi
+, fetchFromGitHub
 , rustPlatform
+, stdenv
 , libiconv
-, pytestCheckHook
 , brotli
 , lz4
 , memory_profiler
 , numpy
 , pytest-benchmark
+, pytestCheckHook
 , python-snappy
 , zstd
 }:
 
 buildPythonPackage rec {
   pname = "cramjam";
-  version = "2.3.2";
+  version = "2.4.0";
   format = "pyproject";
 
-  src = fetchPypi {
+  src = fetchFromGitHub {
-    inherit pname version;
+    owner = "milesgranger";
-    sha256 = "577955f1510d99df0e4d61379c3f05568f594f91e12bc6a7e147d0abfa643a3b";
+    repo = "pyrus-cramjam";
+    rev = "v${version}";
+    sha256 = "sha256-00KvbiTf8PxYWljLKTRZmPIAbb+PnBleDM4p0AzZhHw=";
   };
 
-  postPatch = ''
+  cargoDeps = rustPlatform.fetchCargoTarball {
-    cp ${./Cargo.lock} ./Cargo.lock
+    inherit src;
-  '';
+    sha256 = "sha256-4y/jeEZjVUbaXtBx5l3Hrbnj3iNYX089K4xexRP+5v0=";
-
-  cargoDeps = rustPlatform.importCargoLock {
-    lockFile = ./Cargo.lock;
   };
 
   nativeBuildInputs = with rustPlatform; [
@@ -39,12 +38,12 @@ buildPythonPackage rec {
   buildInputs = lib.optional stdenv.isDarwin libiconv;
 
   checkInputs = [
-    pytestCheckHook
     brotli
     lz4
     memory_profiler
     numpy
     pytest-benchmark
+    pytestCheckHook
     python-snappy
     zstd
   ];
@@ -53,7 +52,7 @@ buildPythonPackage rec {
 
   meta = with lib; {
     description = "Thin Python bindings to de/compression algorithms in Rust";
-    homepage = "https://crates.io/crates/cramjam";
+    homepage = "https://github.com/milesgranger/pyrus-cramjam";
     license = with licenses; [ mit ];
     maintainers = with maintainers; [ veprbl ];
   };

pkgs/development/python-modules/fido2/default.nix

@@ -9,11 +9,11 @@
 
 buildPythonPackage rec {
   pname = "fido2";
-  version = "0.9.1";
+  version = "0.9.2";
 
   src = fetchPypi {
     inherit pname version;
-    sha256 = "8680ee25238e2307596eb3900a0f8c0d9cc91189146ed8039544f1a3a69dfe6e";
+    sha256 = "f491c47bb2d74fa157f9d127a1cbb2753a15939a21e78ba8b0bd323d7d101c61";
   };
 
   propagatedBuildInputs = [ six cryptography ];

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

@@ -2,13 +2,13 @@
 
 buildPythonPackage rec {
   pname = "libvirt";
-  version = "7.7.0";
+  version = "7.8.0";
 
   src = assert version == libvirt.version; fetchFromGitLab {
     owner = "libvirt";
     repo = "libvirt-python";
     rev = "v${version}";
-    sha256 = "sha256-KIeo4CvJS8ZPlEHmrt7BPXdgA2RplHpb0j2ha4gyUxU=";
+    sha256 = "sha256-GuV++CFkywW0LGconyahfBGY+jjFA27Qu9JGIFt4bus=";
   };
 
   nativeBuildInputs = [ pkg-config ];

pkgs/os-specific/linux/numad/default.nix

@@ -1,12 +1,13 @@
-{ lib, stdenv, fetchurl }:
+{ lib, stdenv, fetchgit }:
 
 stdenv.mkDerivation rec {
   pname = "numad";
   version = "0.5";
 
-  src = fetchurl {
+  src = fetchgit {
-    url = "https://git.fedorahosted.org/cgit/numad.git/snapshot/numad-${version}.tar.xz";
+    url = "https://pagure.io/numad.git";
-    sha256 = "08zd1yc3w00yv4mvvz5sq1gf91f6p2s9ljcd72m33xgnkglj60v4";
+    rev = "334278ff3d774d105939743436d7378a189e8693";
+    sha256 = "sha256-6nrbfooUI1ufJhsPf68li5584oKQcznXQlxfpStuX5I=";
   };
 
   hardeningDisable = [ "format" ];

pkgs/servers/headphones/default.nix

@@ -2,13 +2,13 @@
 
 python2.pkgs.buildPythonApplication rec {
   pname = "headphones";
-  version = "0.5.19";
+  version = "0.5.20";
 
   src = fetchFromGitHub {
     owner = "rembo10";
     repo = "headphones";
     rev = "v${version}";
-    sha256 = "0z39gyan3ksdhnjxxs7byamrzmrk8cn15g300iqigzvgidff1lq0";
+    sha256 = "0m234fr1i8bb8mgmjsdpkbaa3l16y23ca6s7nyyl5ismmjxhi4mz";
   };
 
   dontBuild = true;
@@ -18,10 +18,12 @@ python2.pkgs.buildPythonApplication rec {
   buildInputs = [ python2 ];
 
   installPhase = ''
-    mkdir -p $out/bin
+    mkdir -p $out/bin $out/opt/headphones
-    cp -R {data,headphones,lib,Headphones.py} $out/
+    cp -R {data,headphones,lib,Headphones.py} $out/opt/headphones
 
-    makeWrapper $out/Headphones.py $out/bin/headphones
+    echo v${version} > $out/opt/headphones/version.txt
+
+    makeWrapper $out/opt/headphones/Headphones.py $out/bin/headphones
   '';
 
   meta = with lib; {

pkgs/tools/compression/ncompress/builder.sh

@@ -1,15 +0,0 @@
-source $stdenv/setup
-installFlags="PREFIX=$out"
-
-preBuild() {
-    cp Makefile.def Makefile
-    sed -i GNUmakefile -e 's/compress %/%/g'
-}
-
-postInstall() {
-    rm $out/bin/uncompress* $out/bin/zcat*
-    ln -s compress $out/bin/uncompress
-    ln -s compress $out/bin/zcat
-}
-
-genericBuild

pkgs/tools/compression/ncompress/default.nix

@@ -1,20 +1,27 @@
-{lib, stdenv, fetchurl}:
+{ lib, stdenv, fetchFromGitHub }:
 
 stdenv.mkDerivation rec {
   pname = "ncompress";
   version = "5.0";
 
-  builder = ./builder.sh;
+  src = fetchFromGitHub {
-
+    owner = "vapier";
-  src = fetchurl {
+    repo = "ncompress";
-    url = "mirror://sourceforge/project/ncompress/${pname}-${version}.tar.gz";
+    rev = "v${version}";
-    sha256 = "004r086c11sw9vg2j3srgxpz98w8pycjl33bk3pgqnd0s92igrn4";
+    sha256 = "sha256-Yhs3C5/kR7Ve56E84usYJprxIMAIwXVahLi1N9TIfj0=";
   };
 
-  meta = {
+  makeFlags = [ "PREFIX=$(out)" ];
+  installTargets = "install_core";
+
+  postInstall = ''
+    mv $out/bin/uncompress $out/bin/uncompress-ncompress
+  '';
+
+  meta = with lib; {
     homepage = "http://ncompress.sourceforge.net/";
-    license = lib.licenses.publicDomain;
+    license = licenses.publicDomain;
     description = "A fast, simple LZW file compressor";
-    platforms = lib.platforms.unix;
+    platforms = platforms.unix;
   };
 }

pkgs/tools/graphics/directx-shader-compiler/default.nix

@@ -2,7 +2,7 @@
 
 stdenv.mkDerivation rec {
   pname = "directx-shader-compiler";
-  version = "1.5.2010";
+  version = "1.6.2106";
 
   # Put headers in dev, there are lot of them which aren't necessary for
   # using the compiler binary.
@@ -12,7 +12,7 @@ stdenv.mkDerivation rec {
     owner = "microsoft";
     repo = "DirectXShaderCompiler";
     rev = "v${version}";
-    sha256 = "0ccfy1bfp0cm0pq63ri4yl1sr3fdn1a526bsnakg4bl6z4fwrnnj";
+    sha256 = "6kQgAESYiQ06LkiGTfDBYwd/ORLSm1W+BcO+OUp4yXY=";
     # We rely on the side effect of leaving the .git directory here for the
     # version-grabbing functionality of the build system.
     fetchSubmodules = true;

pkgs/tools/misc/ding-libs/default.nix

@@ -5,7 +5,7 @@ stdenv.mkDerivation rec {
   version = "0.6.1";
 
   src = fetchurl {
-    url = "https://fedorahosted.org/released/ding-libs/ding-libs-${version}.tar.gz";
+    url = "https://releases.pagure.org/SSSD/${pname}/${pname}-${version}.tar.gz";
     sha256 = "1h97mx2jdv4caiz4r7y8rxfsq78fx0k4jjnfp7x2s7xqvqks66d3";
   };
 
@@ -16,7 +16,7 @@ stdenv.mkDerivation rec {
 
   meta = {
     description = "'D is not GLib' utility libraries";
-    homepage = "https://fedorahosted.org/sssd/";
+    homepage = "https://pagure.io/SSSD/ding-libs";
     platforms = with lib.platforms; linux;
     maintainers = with lib.maintainers; [ e-user ];
     license = [ lib.licenses.gpl3 lib.licenses.lgpl3 ];

pkgs/tools/misc/plantuml/default.nix

@@ -1,12 +1,12 @@
 { lib, stdenv, fetchurl, makeWrapper, jre, graphviz }:
 
 stdenv.mkDerivation rec {
-  version = "1.2021.9";
+  version = "1.2021.12";
   pname = "plantuml";
 
   src = fetchurl {
     url = "mirror://sourceforge/project/plantuml/${version}/plantuml.${version}.jar";
-    sha256 = "sha256-ezyQGrJwMl2Tqv14GSQzApdDqg1RV8OWdnp4K8a1A5k=";
+    sha256 = "sha256-t9IQ1D2QJHrQmt/0EWofrqSf6o2YMUdpxFILsV5muog=";
   };
 
   nativeBuildInputs = [ makeWrapper ];

pkgs/tools/misc/tmpwatch/default.nix

@@ -5,14 +5,14 @@ stdenv.mkDerivation rec {
   version = "2.11";
 
   src = fetchurl {
-    url = "https://fedorahosted.org/releases/t/m/tmpwatch/tmpwatch-${version}.tar.bz2";
+    url = "https://releases.pagure.org/${pname}/${pname}-${version}.tar.bz2";
     sha256 = "1m5859ngwx61l1i4s6fja2avf1hyv6w170by273w8nsin89825lk";
   };
 
   configureFlags = [ "--with-fuser=${psmisc}/bin/fuser" ];
 
   meta = with lib; {
-    homepage = "https://fedorahosted.org/tmpwatch/";
+    homepage = "https://pagure.io/tmpwatch";
     description = "Recursively searches through specified directories and removes files which have not been accessed in a specified period of time";
     license = licenses.gpl2;
     maintainers = with maintainers; [ vlstill ];

pkgs/tools/networking/swec/default.nix

@@ -1,74 +0,0 @@
-{ fetchurl, lib, stdenv, makeWrapper, perlPackages }:
-
-stdenv.mkDerivation rec {
-  pname = "swec";
-  version = "0.4";
-
-  src = fetchurl {
-    url = "http://files.zerodogg.org/swec/swec-${version}.tar.bz2";
-    sha256 = "1m3971z4z1wr0paggprfz0n8ng8vsnkc9m6s3bdplgyz7qjk6jwx";
-  };
-
-  nativeBuildInputs = [ makeWrapper ];
-  buildInputs = [ perlPackages.perl perlPackages.LWP perlPackages.URI perlPackages.HTMLParser ];
-  checkInputs = [ perlPackages.HTTPServerSimple perlPackages.Parent ];
-
-  configurePhase = ''
-    for i in swec tests/{runTests,testServer}
-    do
-      sed -i "$i" -e's|/usr/bin/perl|${perlPackages.perl}/bin/perl|g'
-    done
-  '';
-
-  dontBuild = true;
-
-  installPhase = ''
-    make install prefix="$out"
-
-    mkdir -p "$out/share/swec-${version}"
-    cp -v default.sdf "$out/share/swec-${version}"
-    sed -i "$out/bin/swec" -e"s|realpath(\$0)|'$out/share/swec-${version}/swec'|g"
-
-    wrapProgram "$out/bin/swec" \
-      --prefix PERL5LIB : ${with perlPackages; makePerlPath [ LWP URI HTMLParser ]}
-  '';
-
-  doCheck = true;
-  checkPhase = "make test";
-
-  meta = {
-    homepage = "https://random.zerodogg.org/swec/";
-
-    description = "Simple Web Error Checker (SWEC)";
-
-    longDescription =
-      '' SWEC (Simple Web Error Checker) is a program that automates testing
-         of dynamic websites.  It parses each HTML file it finds for links,
-         and if those links are within the site specified (ie. local, not
-         external), it will check that page as well.  In this respect it
-         works a lot like a crawler, in that it'll click on any link it finds
-         (more notes about this later).
-
-         In addition to parsing and locating links, it will also parse the
-         pages looking for known errors and report those (such as Mason or
-         PHP errors), and will report if a page can not be read (by either
-         returning a 404, 500 or similar).
-
-         Since you may often want SWEC to be logged in on your site, you have
-         to be careful.  When logged in, SWEC will still click on all links
-         it finds, including things like 'join group' or 'delete account'
-         (though it has some magic trying to avoid the latter).  Therefore it
-         is highly recommended that when you run SWEC as a logged-in user on
-         a site, use a test server, not the live one.
-
-         Running SWEC on a live site without being logged in as a user is
-         perfectly fine, it won't do anything a normal crawler wouldn't do
-         (well, not exactly true, SWEC will ignore robots.txt).
-      '';
-
-    license = lib.licenses.gpl3Plus;
-
-    maintainers = [ ];
-    platforms = lib.platforms.linux;
-  };
-}

pkgs/tools/system/logrotate/default.nix

@@ -26,7 +26,7 @@ stdenv.mkDerivation rec {
   buildInputs = [ popt ] ++ lib.optionals aclSupport [ acl ];
 
   meta = with lib; {
-    homepage = "https://fedorahosted.org/releases/l/o/logrotate/";
+    homepage = "https://github.com/logrotate/logrotate";
     description = "Rotates and compresses system logs";
     license = licenses.gpl2Plus;
     maintainers = [ maintainers.viric ];

pkgs/tools/typesetting/xmlto/default.nix

@@ -46,7 +46,7 @@ stdenv.mkDerivation rec {
     '';
 
     license = lib.licenses.gpl2Plus;
-    homepage = "https://fedorahosted.org/xmlto/";
+    homepage = "https://pagure.io/xmlto/";
     platforms = lib.platforms.unix;
   };
 }

pkgs/top-level/aliases.nix

@@ -897,6 +897,7 @@ mapAliases ({
   stumpwm-git = throw "stumpwm-git has been broken for a long time and lispPackages.stumpwm follows Quicklisp that is close to git version"; # added 2021-05-09
   surf-webkit2 = surf; # added 2017-04-02
   sup = throw "sup was deprecated on 2019-09-10: abandoned by upstream";
+  swec = throw "swec has been removed; broken and abandoned upstream."; # added 2021-10-14
   swfdec = throw "swfdec has been removed as broken and unmaintained."; # added 2020-08-23
   swtpm-tpm2 = swtpm; # added 2021-02-26
   syncthing-cli = syncthing; # added 2021-04-06

pkgs/top-level/all-packages.nix

@@ -9588,8 +9588,6 @@ with pkgs;
 
   swapview = callPackage ../os-specific/linux/swapview/default.nix { };
 
-  swec = callPackage ../tools/networking/swec { };
-
   swtpm = callPackage ../tools/security/swtpm { };
 
   svn2git = callPackage ../applications/version-management/git-and-tools/svn2git {
@@ -18169,17 +18167,12 @@ with pkgs;
 
   libyamlcpp = callPackage ../development/libraries/libyaml-cpp { };
 
+  libyamlcpp_0_3 = callPackage ../development/libraries/libyaml-cpp/0.3.0.nix { };
+
   libcyaml = callPackage ../development/libraries/libcyaml { };
 
   rang = callPackage ../development/libraries/rang { };
 
-  libyamlcpp_0_3 = pkgs.libyamlcpp.overrideAttrs (oldAttrs: {
-    src = pkgs.fetchurl {
-      url = "https://github.com/jbeder/yaml-cpp/archive/release-0.3.0.tar.gz";
-      sha256 = "12aszqw6svwlnb6nzhsbqhz3c7vnd5ahd0k6xlj05w8lm83hx3db";
-      };
-  });
-
   libykclient = callPackage ../development/libraries/libykclient { };
 
   libykneomgr = callPackage ../development/libraries/libykneomgr { };
@@ -27495,9 +27488,7 @@ with pkgs;
   rsclock = callPackage ../applications/misc/rsclock { };
 
   rstudio = libsForQt5.callPackage ../applications/editors/rstudio {
-    boost = boost166;
+    jdk = jdk8;
-    llvmPackages = llvmPackages_7;
-    jdk = jdk8; # TODO: remove override https://github.com/NixOS/nixpkgs/pull/89731
   };
 
   rsync = callPackage ../applications/networking/sync/rsync (config.rsync or {});

pkgs/top-level/perl-packages.nix

@@ -20141,12 +20141,12 @@ let
 
   SysVirt = buildPerlModule rec {
     pname = "Sys-Virt";
-    version = "7.7.0";
+    version = "7.8.0";
     src = fetchFromGitLab {
       owner = "libvirt";
       repo = "libvirt-perl";
-      rev = "v7.7.0";
+      rev = "v7.8.0";
-      sha256 = "sha256-rcokZm4pKZrLlkpAZCpECCepNWm+UyXemJGklokiSzM=";
+      sha256 = "sha256-D/sVIKMWy3WnDM97+ofG3ClgGhJJuK2a6NJLC03S4LI=";
     };
     nativeBuildInputs = [ pkgs.pkg-config ];
     buildInputs = [ pkgs.libvirt CPANChanges TestPod TestPodCoverage XMLXPath ];