Merge branch 'master' into staging-next

Hydra: ?compare=1477053

33 files changed, 310 insertions, 111 deletions

diff --git a/pkgs/applications/audio/lollypop/default.nix b/pkgs/applications/audio/lollypop/default.nix
index ffaa94575275..2256fa1893db 100644
--- a/pkgs/applications/audio/lollypop/default.nix
+++ b/pkgs/applications/audio/lollypop/default.nix
@@ -19,6 +19,7 @@ stdenv.mkDerivation rec  {
     gobjectIntrospection
     meson
     ninja
+    python36Packages.python
     pkgconfig
     wrapGAppsHook
     wrapPython
diff --git a/pkgs/applications/audio/pulseeffects/default.nix b/pkgs/applications/audio/pulseeffects/default.nix
index 0949611224df..46d4f971420a 100644
--- a/pkgs/applications/audio/pulseeffects/default.nix
+++ b/pkgs/applications/audio/pulseeffects/default.nix
@@ -4,6 +4,7 @@
 , ninja
 , pkgconfig
 , itstool
+, python3
 , libxml2
 , desktop-file-utils
 , wrapGAppsHook
@@ -58,6 +59,7 @@ in stdenv.mkDerivation rec {
     pkgconfig
     libxml2
     itstool
+    python3
     desktop-file-utils
     wrapGAppsHook
   ];
diff --git a/pkgs/applications/audio/sayonara/default.nix b/pkgs/applications/audio/sayonara/default.nix
index 1bf1a8b2c49e..fbe90c5377df 100644
--- a/pkgs/applications/audio/sayonara/default.nix
+++ b/pkgs/applications/audio/sayonara/default.nix
@@ -1,14 +1,14 @@
 { stdenv, fetchurl, cmake, qt5, zlib, taglib, pkgconfig, pcre, gst_all_1 }:
 
 let
-  version = "1.0.0-git5-20180115";
+  version = "1.1.1-git1-20180828";
 in
 stdenv.mkDerivation {
   name = "sayonara-player-${version}";
 
   src = fetchurl {
     url = "https://sayonara-player.com/sw/sayonara-player-${version}.tar.gz";
-    sha256 = "1fl7zplnrrvbv1xm4g348bpd46jj39jvbm808hyjjq92i64wqg37";
+    sha256 = "0rvy47qvavrp03zjdrw025dmq9fq5aaii3q1qq8b94byarl0c5kn";
   };
 
   nativeBuildInputs = [ cmake pkgconfig ];
@@ -39,7 +39,7 @@ stdenv.mkDerivation {
     { description = "Sayonara music player";
       homepage = https://sayonara-player.com/;
       license = licenses.gpl3;
-      platforms = qt5.qtbase.meta.platforms;
+      platforms = platforms.linux;
       maintainers = [ maintainers.deepfire ];
     };
 }
diff --git a/pkgs/applications/editors/android-studio/common.nix b/pkgs/applications/editors/android-studio/common.nix
index cd031ce5ac8c..23e0584cb7f0 100644
--- a/pkgs/applications/editors/android-studio/common.nix
+++ b/pkgs/applications/editors/android-studio/common.nix
@@ -31,9 +31,10 @@
 , stdenv
 , unzip
 , which
-, writeTextFile
+, runCommand
 , xkeyboard_config
 , zlib
+, makeDesktopItem
 }:
 
 let
@@ -113,6 +114,17 @@ let
     '';
   };
 
+  desktopItem = makeDesktopItem {
+    name = drvName;
+    exec = pname;
+    icon = drvName;
+    desktopName = "Android Studio (${channel} channel)";
+    comment = "The official Android IDE";
+    categories = "Development;IDE;";
+    startupNotify = "true";
+    extraEntries="StartupWMClass=jetbrains-studio";
+  };
+
   # Android Studio downloads prebuilt binaries as part of the SDK. These tools
   # (e.g. `mksdcard`) have `/lib/ld-linux.so.2` set as the interpreter. An FHS
   # environment is used as a work around for that.
@@ -120,18 +132,15 @@ let
     name = "${drvName}-fhs-env";
     multiPkgs = pkgs: [ pkgs.ncurses5 ];
   };
-
-in
-  writeTextFile {
-    name = "${drvName}-wrapper";
-    # TODO: Rename preview -> beta (and add -stable suffix?):
-    destination = "/bin/${pname}";
-    executable = true;
-    text = ''
+in runCommand
+  "${drvName}-wrapper"
+  {
+    startScript = ''
       #!${bash}/bin/bash
       ${fhsEnv}/bin/${drvName}-fhs-env ${androidStudio}/bin/studio.sh
     '';
-  } // {
+    preferLocalBuild = true;
+    allowSubstitutes = false;
     meta = with stdenv.lib; {
       description = "The Official IDE for Android (${channel} channel)";
       longDescription = ''
@@ -146,3 +155,12 @@ in
       maintainers = with maintainers; [ primeos ];
     };
   }
+  ''
+    mkdir -p $out/{bin,share/pixmaps}
+
+    # TODO: Rename preview -> beta (and add -stable suffix?):
+    echo -n "$startScript" > $out/bin/${pname}
+    chmod +x $out/bin/${pname}
+    ln -s ${androidStudio}/bin/studio.png $out/share/pixmaps/${drvName}.png
+    ln -s ${desktopItem}/share/applications $out/share/applications
+  ''
diff --git a/pkgs/applications/editors/emacs-modes/melpa-packages.nix b/pkgs/applications/editors/emacs-modes/melpa-packages.nix
index bec845b815ce..addae2674684 100644
--- a/pkgs/applications/editors/emacs-modes/melpa-packages.nix
+++ b/pkgs/applications/editors/emacs-modes/melpa-packages.nix
@@ -146,6 +146,12 @@ self:
           (attrs.nativeBuildInputs or []) ++ [ external.git ];
       });
 
+      magit-todos = super.magit-todos.overrideAttrs (attrs: {
+        # searches for Git at build time
+        nativeBuildInputs =
+          (attrs.nativeBuildInputs or []) ++ [ external.git ];
+      });
+
       # missing OCaml
       merlin = markBroken super.merlin;
 
diff --git a/pkgs/applications/editors/emacs-modes/melpa-stable-packages.nix b/pkgs/applications/editors/emacs-modes/melpa-stable-packages.nix
index 61086b96230e..98927cbd9873 100644
--- a/pkgs/applications/editors/emacs-modes/melpa-stable-packages.nix
+++ b/pkgs/applications/editors/emacs-modes/melpa-stable-packages.nix
@@ -151,6 +151,12 @@ self:
             (attrs.nativeBuildInputs or []) ++ [ external.git ];
         });
 
+      magit-todos = super.magit-todos.overrideAttrs (attrs: {
+        # searches for Git at build time
+        nativeBuildInputs =
+          (attrs.nativeBuildInputs or []) ++ [ external.git ];
+      });
+
       # missing OCaml
       merlin = markBroken super.merlin;
 
diff --git a/pkgs/applications/editors/gnome-builder/default.nix b/pkgs/applications/editors/gnome-builder/default.nix
index db2d07db31e7..6fcf9d7d3a9d 100644
--- a/pkgs/applications/editors/gnome-builder/default.nix
+++ b/pkgs/applications/editors/gnome-builder/default.nix
@@ -52,6 +52,7 @@ in stdenv.mkDerivation {
     meson
     ninja
     pkgconfig
+    python3
     python3.pkgs.wrapPython
     wrapGAppsHook
   ];
diff --git a/pkgs/applications/graphics/gcolor3/default.nix b/pkgs/applications/graphics/gcolor3/default.nix
index 09d1a86db8e3..cd43cd2fe723 100644
--- a/pkgs/applications/graphics/gcolor3/default.nix
+++ b/pkgs/applications/graphics/gcolor3/default.nix
@@ -1,7 +1,7 @@
-{ stdenv, fetchFromGitHub, gnome3, libtool, intltool, pkgconfig, gtk3, hicolor-icon-theme, wrapGAppsHook } :
+{ stdenv, fetchFromGitHub, fetchpatch, gnome3, meson, ninja, gettext, pkgconfig, libxml2, gtk3, hicolor-icon-theme, wrapGAppsHook }:
 
 let
-  version = "2.2";
+  version = "2.3";
 in stdenv.mkDerivation {
   name = "gcolor3-${version}";
 
@@ -9,23 +9,35 @@ in stdenv.mkDerivation {
     owner = "hjdskes";
     repo = "gcolor3";
     rev = "v${version}";
-    sha256 = "1rbahsi33pfggpj5cigy6wy5333g3rpm8v2q0b35c6m7pwhmf2gr";
+    sha256 = "186j72kwsqdcakvdik9jl18gz3csdj53j3ylwagr9gfwmy0nmyjb";
   };
 
-  nativeBuildInputs = [ gnome3.gnome-common libtool intltool pkgconfig hicolor-icon-theme wrapGAppsHook ];
+  patches = [
+    # Fix darwin build
+    (fetchpatch {
+      url = https://github.com/Hjdskes/gcolor3/commit/9130ffeff091fbafff6a0c8f06b09f54657d5dfd.patch;
+      sha256 = "1kn5hx536wivafb4awg7lsa8h32njy0lynmn7ci9y78dlp54057r";
+    })
+    (fetchpatch {
+      url = https://github.com/Hjdskes/gcolor3/commit/8d89081a8e13749f5a9051821114bc5fe814eaf3.patch;
+      sha256 = "1ldyr84dl2g6anqkp2mpxsrcr41fcqwi6ck14rfhai7rgrm8yar3";
+    })
+  ];
 
-  buildInputs = [ gtk3 ];
+  nativeBuildInputs = [ meson ninja gettext pkgconfig libxml2 wrapGAppsHook ];
 
-  configureScript = "./autogen.sh";
+  buildInputs = [ gtk3 hicolor-icon-theme ];
 
-  # clang-4.0: error: argument unused during compilation: '-pthread'
-  NIX_CFLAGS_COMPILE = stdenv.lib.optional stdenv.cc.isClang "-Wno-error=unused-command-line-argument";
+  postPatch = ''
+    chmod +x meson_install.sh # patchShebangs requires executable file
+    patchShebangs meson_install.sh
+  '';
 
-  meta = {
+  meta = with stdenv.lib; {
     description = "A simple color chooser written in GTK3";
     homepage = https://hjdskes.github.io/projects/gcolor3/;
-    license = stdenv.lib.licenses.gpl2;
-    maintainers = with stdenv.lib.maintainers; [ jtojnar ];
-    platforms = stdenv.lib.platforms.unix;
+    license = licenses.gpl2;
+    maintainers = with maintainers; [ jtojnar ];
+    platforms = platforms.unix;
   };
 }
diff --git a/pkgs/applications/graphics/imgcat/default.nix b/pkgs/applications/graphics/imgcat/default.nix
index ad2cb4198d2d..a98029dd5807 100644
--- a/pkgs/applications/graphics/imgcat/default.nix
+++ b/pkgs/applications/graphics/imgcat/default.nix
@@ -4,7 +4,7 @@ stdenv.mkDerivation rec {
   name = "imgcat-${version}";
   version = "2.3.0";
 
-  buildTools = [ autoconf automake libtool ncurses ];
+  buildInputs = [ autoconf automake libtool ncurses ];
 
   preConfigure = ''
     ${autoconf}/bin/autoconf
diff --git a/pkgs/applications/graphics/imv/default.nix b/pkgs/applications/graphics/imv/default.nix
index e9a0dccd30a9..9def3f16ad03 100644
--- a/pkgs/applications/graphics/imv/default.nix
+++ b/pkgs/applications/graphics/imv/default.nix
@@ -1,25 +1,32 @@
-{ stdenv, fetchgit, SDL2, SDL2_ttf, freeimage, fontconfig }:
+{ stdenv, fetchFromGitHub, SDL2, SDL2_ttf
+, freeimage, fontconfig, pkgconfig
+, asciidoc, docbook_xsl, libxslt, cmocka
+}:
 
 stdenv.mkDerivation rec {
   name = "imv-${version}";
-  version = "2.1.3";
+  version = "3.0.0";
 
-  src = fetchgit {
-    url = "https://github.com/eXeC64/imv.git";
-    rev = "e59d0e9e120f1dbde9ab068748a190e93978e5b7";
-    sha256 = "0j48dk1bcbh5541522qkn487637wcx104zckrnxa5g3nirfqa7r7";
+  src = fetchFromGitHub {
+    owner  = "eXeC64";
+    repo   = "imv";
+    rev    = "v${version}";
+    sha256 = "0j5aykdkm1g518ism5y5flhwxvjvl92ksq989fhl2wpnv0la82jp";
   };
 
-  buildInputs = [ SDL2 SDL2_ttf freeimage fontconfig ];
+  buildInputs = [
+    SDL2 SDL2_ttf freeimage fontconfig pkgconfig
+    asciidoc docbook_xsl libxslt cmocka
+  ];
 
-  configurePhase = "substituteInPlace Makefile --replace /usr $out";
+  installFlags = [ "PREFIX=$(out)" "CONFIGPREFIX=$(out)/etc" ];
 
   meta = with stdenv.lib; {
     description = "A command line image viewer for tiling window managers";
     homepage    = https://github.com/eXeC64/imv; 
     license     = licenses.gpl2;
     maintainers = with maintainers; [ rnhmjoj ];
-    platforms   = platforms.unix;
+    platforms   = [ "x86_64-linux" ];
   };
 }
 
diff --git a/pkgs/applications/graphics/photoflow/default.nix b/pkgs/applications/graphics/photoflow/default.nix
index ffef558e84dd..6f3bf69889c5 100644
--- a/pkgs/applications/graphics/photoflow/default.nix
+++ b/pkgs/applications/graphics/photoflow/default.nix
@@ -1,13 +1,13 @@
 { stdenv, fetchFromGitHub, gettext, glib, libxml2, pkgconfig, swig, automake, gobjectIntrospection, cmake, ninja, libtiff, libjpeg, fftw, exiv2, lensfun, gtkmm2, libraw, lcms2, libexif, vips, expat, pcre, pugixml }:
 
 stdenv.mkDerivation {
-  name = "photoflow-unstable-2018-03-06";
+  name = "photoflow-unstable-2018-08-28";
 
   src = fetchFromGitHub {
     owner = "aferrero2707";
     repo = "PhotoFlow";
-    rev = "f9bbea183fa02412d1d17075955d2284eeaf8174";
-    sha256 = "1fsk7kdmlkd64wcswbxrl87aqwmzqak6p3s38ggxzx2h51fa7lmf";
+    rev = "df03f2538ddd232e693c307db4ab63eb5bdfea38";
+    sha256 = "08ybhv08h24y4li8wb4m89xgrz1szlwpksf6vjharp8cznn4y4x9";
   };
 
   nativeBuildInputs = [
@@ -50,6 +50,7 @@ stdenv.mkDerivation {
     homepage = https://aferrero2707.github.io/PhotoFlow/;
     license = licenses.gpl3Plus;
     maintainers = [ maintainers.MtP ];
-    platforms = platforms.all;
+    platforms = platforms.linux;
+    broken = stdenv.isAarch64;
   };
 }
diff --git a/pkgs/applications/misc/fbreader/default.nix b/pkgs/applications/misc/fbreader/default.nix
index 6fa34a008e77..548966764fe6 100644
--- a/pkgs/applications/misc/fbreader/default.nix
+++ b/pkgs/applications/misc/fbreader/default.nix
@@ -1,38 +1,68 @@
-{ stdenv, fetchurl, pkgconfig, bzip2, curl, expat, fribidi
-, libunibreak, qt4, sqlite, zlib }:
+{ stdenv, fetchFromGitHub, pkgconfig
+, bzip2, curl, expat, fribidi, libunibreak, sqlite, zlib
+, uiTarget ? if !stdenv.isDarwin then "desktop" else "macosx"
+, uiType ? if !stdenv.isDarwin then "qt4" else "cocoa"
+, qt4, gtk2
+, AppKit, Cocoa
+}:
+
+with stdenv.lib;
+
+assert elem uiTarget [ "desktop" "macosx" ];
+assert elem uiType [ "qt4" "gtk" "cocoa" ];
+assert uiTarget == "macosx" -> uiType == "cocoa";
+
+# Note: "qt" uiType option mentioned in ${src}/README.build is qt3,
+# which is way to old and no longer in nixpkgs.
 
 stdenv.mkDerivation {
-  name = "fbreader-0.99.4";
+  name = "fbreader-${uiType}-0.99.6";
 
-  src = fetchurl {
-    url = https://fbreader.org/files/desktop/fbreader-sources-0.99.4.tgz;
-    sha256 = "1sdq3vvwkq4bkyrvh0p884d66gaddz8hlab3m798ji9ixbak2z1x";
+  src = fetchFromGitHub {
+    owner = "geometer";
+    repo = "FBReader";
+    rev = "9e608db14372ae580beae4976eec7241fa069e75";
+    sha256 = "0lzafk02mv0cf2l2a61q5y4743zi913byik4bw1ix0gr1drnsa7y";
   };
 
+  patches = [ ./typecheck.patch ];
+
+  postPatch = ''
+    cat << EOF > makefiles/target.mk
+    TARGET_ARCH = ${uiTarget}
+    TARGET_STATUS = release
+    UI_TYPE = ${uiType}
+    EOF
+
+    substituteInPlace makefiles/arch/desktop.mk \
+      --replace ccache "" \
+      --replace moc-qt4 moc
+
+    # libunibreak supersedes liblinebreak
+    substituteInPlace zlibrary/text/Makefile \
+      --replace -llinebreak -lunibreak
+  '';
+
   nativeBuildInputs = [ pkgconfig ];
+
   buildInputs = [
-    bzip2 curl expat fribidi libunibreak
-    qt4 sqlite zlib
-  ];
+    bzip2 curl expat fribidi libunibreak sqlite zlib
+  ]
+  ++ optional (uiType == "qt4") qt4
+  ++ optional (uiType == "gtk") gtk2
+  ++ optionals (uiType == "cocoa") [ AppKit Cocoa ];
 
   makeFlags = "INSTALLDIR=$(out)";
 
   NIX_CFLAGS_COMPILE = [ "-Wno-error=narrowing" ]; # since gcc-6
 
-  patchPhase = ''
-    # don't try to use ccache
-    substituteInPlace makefiles/arch/desktop.mk \
-      --replace "CCACHE = " "# CCACHE = "
-
-    substituteInPlace fbreader/desktop/Makefile \
-      --replace "/usr/share" "$out/share"
-  '';
-
   meta = with stdenv.lib; {
     description = "An e-book reader for Linux";
     homepage = http://www.fbreader.org/;
     license = licenses.gpl3;
-    platforms = platforms.linux; # possibly also on unix general
+    broken = stdenv.isDarwin  # untested, might work
+          || uiType == "gtk"; # builds, but the result is unusable, hangs a lot
+    platforms = platforms.unix;
     maintainers = [ maintainers.coroa ];
-  }; 
+  };
 }
diff --git a/pkgs/applications/misc/fbreader/typecheck.patch b/pkgs/applications/misc/fbreader/typecheck.patch
new file mode 100644
index 000000000000..cbac290e69c2
--- /dev/null
+++ b/pkgs/applications/misc/fbreader/typecheck.patch
@@ -0,0 +1,11 @@
+diff --git a/fbreader/src/database/booksdb/BooksDB.cpp b/fbreader/src/database/booksdb/BooksDB.cpp
+index e33a22e76..1b6092800 100644
+--- a/fbreader/src/database/booksdb/BooksDB.cpp
++++ b/fbreader/src/database/booksdb/BooksDB.cpp
+@@ -146,5 +146,5 @@ shared_ptr<Book> BooksDB::loadBook(const std::string &fileName) {
+ 	myFindFileId->setFileName(fileName);
+ 	if (!myFindFileId->run()) {
+-		return false;
++		return 0;
+ 	}
+ 	((DBIntValue&)*myLoadBook->parameter("@file_id").value()) = myFindFileId->fileId();
diff --git a/pkgs/applications/misc/gpxsee/default.nix b/pkgs/applications/misc/gpxsee/default.nix
index ed0dd3ba5be3..33ffb6b5acb3 100644
--- a/pkgs/applications/misc/gpxsee/default.nix
+++ b/pkgs/applications/misc/gpxsee/default.nix
@@ -2,29 +2,34 @@
 
 stdenv.mkDerivation rec {
   name = "gpxsee-${version}";
-  version = "4.19";
+  version = "5.17";
 
   src = fetchFromGitHub {
     owner = "tumic0";
     repo = "GPXSee";
     rev = version;
-    sha256 = "1xjf2aawf633c1ydhpcsjhdlfkjkfsjbcgjd737xpfv1wjz99l4l";
+    sha256 = "0fr835glvwnpq6sy181z0gskvwfrmvh7115r3d92xy71v8b1l5ib";
   };
 
-  nativeBuildInputs = [ qmake qttools ];
+  nativeBuildInputs = [ qmake ];
+  buildInputs = [ qttools ];
 
   preConfigure = ''
     substituteInPlace src/config.h --replace /usr/share/gpxsee $out/share/gpxsee
     lrelease lang/*.ts
   '';
 
-  preFixup = ''
+  installPhase = ''
     install -Dm755 GPXSee $out/bin/GPXSee
-
     mkdir -p $out/share/gpxsee
-    cp pkg/maps.txt $out/share/gpxsee
+    cp -r pkg/csv $out/share/gpxsee/
+    cp -r pkg/maps $out/share/gpxsee/
+    mkdir -p $out/share/gpxsee/translations
+    cp -r lang/*.qm $out/share/gpxsee/translations
   '';
 
+  enableParallelBuilding = true;
+
   meta = with stdenv.lib; {
     homepage = http://www.gpxsee.org/;
     description = "GPX viewer and analyzer";
diff --git a/pkgs/applications/misc/kitty/default.nix b/pkgs/applications/misc/kitty/default.nix
index d3fff65a3995..c34167b4ddb8 100644
--- a/pkgs/applications/misc/kitty/default.nix
+++ b/pkgs/applications/misc/kitty/default.nix
@@ -26,6 +26,8 @@ buildPythonApplication rec {
 
   nativeBuildInputs = [ pkgconfig which sphinx ];
 
+  outputs = [ "out" "terminfo" ];
+
   postPatch = ''
     substituteInPlace kitty/utils.py \
       --replace "find_library('startup-notification-1')" "'${libstartup_notification}/lib/libstartup-notification-1.so'"
@@ -47,11 +49,19 @@ buildPythonApplication rec {
     runHook postInstall
   '';
 
+  postInstall = ''
+    mkdir -p $terminfo/share
+    mv $out/share/terminfo $terminfo/share/terminfo
+
+    mkdir -p $out/nix-support
+    echo "$terminfo" >> $out/nix-support/propagated-user-env-packages
+  '';
+
   meta = with stdenv.lib; {
     homepage = https://github.com/kovidgoyal/kitty;
     description = "A modern, hackable, featureful, OpenGL based terminal emulator";
     license = licenses.gpl3;
     platforms = platforms.linux;
-    maintainers = with maintainers; [ tex ];
+    maintainers = with maintainers; [ tex rvolosatovs ];
   };
 }
diff --git a/pkgs/applications/misc/sequeler/default.nix b/pkgs/applications/misc/sequeler/default.nix
index 35242822d4a0..cc676bb28e2e 100644
--- a/pkgs/applications/misc/sequeler/default.nix
+++ b/pkgs/applications/misc/sequeler/default.nix
@@ -1,5 +1,5 @@
 { stdenv, fetchFromGitHub
-, meson, ninja, pkgconfig, vala, gobjectIntrospection, gettext, wrapGAppsHook, desktop-file-utils
+, meson, ninja, pkgconfig, vala, gobjectIntrospection, gettext, wrapGAppsHook, python3, desktop-file-utils
 , gtk3, glib, granite, libgee, libgda, gtksourceview, libxml2, libsecret }:
 
 
@@ -20,7 +20,7 @@ in stdenv.mkDerivation rec {
     sha256 = "04x3fg665201g3zy66sicfna4vac4n1pmrahbra90gvfzaia1cai";
   };
 
-  nativeBuildInputs = [ meson ninja pkgconfig vala gobjectIntrospection gettext wrapGAppsHook desktop-file-utils ];
+  nativeBuildInputs = [ meson ninja pkgconfig vala gobjectIntrospection gettext wrapGAppsHook python3 desktop-file-utils ];
 
   buildInputs = [ gtk3 glib granite libgee sqlGda gtksourceview libxml2 libsecret ];
 
diff --git a/pkgs/applications/misc/tootle/default.nix b/pkgs/applications/misc/tootle/default.nix
index b2aab54c1047..d15b8111fb0b 100644
--- a/pkgs/applications/misc/tootle/default.nix
+++ b/pkgs/applications/misc/tootle/default.nix
@@ -1,5 +1,5 @@
 { stdenv, fetchFromGitHub
-, meson, ninja, pkgconfig
+, meson, ninja, pkgconfig, python3
 , gnome3, vala, gobjectIntrospection, wrapGAppsHook
 , gtk3, granite
 , json-glib, glib, glib-networking
@@ -18,7 +18,7 @@ in stdenv.mkDerivation rec {
     sha256 = "022h1rh1jk3m1f9al0s1rylmnqnkydyc81idfc8jf1g0frnvn5i6";
   };
 
-  nativeBuildInputs = [ meson ninja pkgconfig vala gobjectIntrospection wrapGAppsHook ];
+  nativeBuildInputs = [ meson ninja pkgconfig python3 vala gobjectIntrospection wrapGAppsHook ];
   buildInputs = [
     gtk3 granite json-glib glib glib-networking
     gnome3.libgee gnome3.libsoup gnome3.gsettings-desktop-schemas
diff --git a/pkgs/applications/networking/corebird/default.nix b/pkgs/applications/networking/corebird/default.nix
index 56947d6650e4..5dd4cbb52c2a 100644
--- a/pkgs/applications/networking/corebird/default.nix
+++ b/pkgs/applications/networking/corebird/default.nix
@@ -1,6 +1,6 @@
 { stdenv, fetchFromGitHub, glib, gtk3, json-glib, sqlite, libsoup, gettext, vala_0_40
 , meson, ninja, pkgconfig, gnome3, gst_all_1, wrapGAppsHook, gobjectIntrospection
-, glib-networking }:
+, glib-networking, python3 }:
 
 stdenv.mkDerivation rec {
   version = "1.7.4";
@@ -14,7 +14,7 @@ stdenv.mkDerivation rec {
   };
 
   nativeBuildInputs = [
-    meson ninja vala_0_40 pkgconfig wrapGAppsHook
+    meson ninja vala_0_40 pkgconfig wrapGAppsHook python3
     gobjectIntrospection # for setup hook
   ];
 
diff --git a/pkgs/applications/networking/feedreaders/feedreader/default.nix b/pkgs/applications/networking/feedreaders/feedreader/default.nix
index d2991c3ba1c9..158b02cff5b9 100644
--- a/pkgs/applications/networking/feedreaders/feedreader/default.nix
+++ b/pkgs/applications/networking/feedreaders/feedreader/default.nix
@@ -1,4 +1,4 @@
-{ stdenv, fetchFromGitHub, meson, ninja, pkgconfig, vala_0_40, gettext
+{ stdenv, fetchFromGitHub, meson, ninja, pkgconfig, vala_0_40, gettext, python3
 , appstream-glib, desktop-file-utils, glibcLocales, wrapGAppsHook
 , curl, glib, gnome3, gst_all_1, json-glib, libnotify, libsecret, sqlite
 }:
@@ -18,7 +18,7 @@ in stdenv.mkDerivation {
 
   nativeBuildInputs = [
     meson ninja pkgconfig vala_0_40 gettext appstream-glib desktop-file-utils
-    glibcLocales wrapGAppsHook
+    python3 glibcLocales wrapGAppsHook
   ];
 
   buildInputs = [
diff --git a/pkgs/applications/networking/instant-messengers/SkypeExport/default.nix b/pkgs/applications/networking/instant-messengers/SkypeExport/default.nix
index 9ec9a3451bef..163f0ba3f497 100644
--- a/pkgs/applications/networking/instant-messengers/SkypeExport/default.nix
+++ b/pkgs/applications/networking/instant-messengers/SkypeExport/default.nix
@@ -1,4 +1,4 @@
-{ stdenv, fetchFromGitHub, cmake, boost }:
+{ stdenv, fetchFromGitHub, cmake, boost166 }:
 
 stdenv.mkDerivation rec {
   name = "SkypeExport-${version}";
@@ -12,7 +12,7 @@ stdenv.mkDerivation rec {
   };
 
   nativeBuildInputs = [ cmake ];
-  buildInputs = [ boost ];
+  buildInputs = [ boost166 ];
 
   preConfigure = "cd src/SkypeExport/_gccbuild/linux";
   installPhase = "install -Dt $out/bin SkypeExport";
diff --git a/pkgs/applications/networking/instant-messengers/pidgin-plugins/purple-matrix/default.nix b/pkgs/applications/networking/instant-messengers/pidgin-plugins/purple-matrix/default.nix
index a6d893fd95a4..d4a26a266c30 100644
--- a/pkgs/applications/networking/instant-messengers/pidgin-plugins/purple-matrix/default.nix
+++ b/pkgs/applications/networking/instant-messengers/pidgin-plugins/purple-matrix/default.nix
@@ -1,30 +1,32 @@
-{ stdenv, fetchgit, pkgconfig, pidgin, json-glib, glib, http-parser } :
+{ stdenv, fetchgit, pkgconfig, pidgin, json-glib, glib, http-parser, sqlite, olm, libgcrypt } :
 
 let
-  version = "2016-07-11";
+  version = "2018-08-03";
 in
 stdenv.mkDerivation rec {
   name = "purple-matrix-unstable-${version}";
 
   src = fetchgit {
     url = "https://github.com/matrix-org/purple-matrix";
-    rev = "f9d36198a57de1cd1740a3ae11c2ad59b03b724a";
-    sha256 = "1mmyvc70gslniphmcpk8sfl6ylik6dnprqghx4n47gsj1sb1cy00";
+    rev = "5a7166a3f54f85793c6b60662f8d12196aeaaeb0";
+    sha256 = "0ph0s24b37d1c50p8zbzgf4q2xns43a8v6vk85iz633wdd72zsa0";
   };
 
   nativeBuildInputs = [ pkgconfig ];
-  buildInputs = [ pidgin json-glib glib http-parser ];
+  buildInputs = [ pidgin json-glib glib http-parser sqlite olm libgcrypt ];
 
-  installPhase = ''
-    install -Dm755 -t $out/lib/pidgin/ libmatrix.so
-    for size in 16 22 48; do
-      install -TDm644 matrix-"$size"px.png $out/pixmaps/pidgin/protocols/$size/matrix.png
-    done
-  '';
+  hardeningDisable = [ "fortify" ]; # upstream compiles with -O0
 
-  meta = {
+  makeFlags = [
+    "DESTDIR=$(out)"
+    "PLUGIN_DIR_PURPLE=/lib/pidgin/"
+    "DATA_ROOT_DIR_PURPLE=/share"
+  ];
+
+  meta = with stdenv.lib; {
     homepage = https://github.com/matrix-org/purple-matrix;
     description = "Matrix support for Pidgin / libpurple";
-    license = stdenv.lib.licenses.gpl2;
+    license = licenses.gpl2;
+    maintainers = with maintainers; [ symphorien ];
   };
 }
diff --git a/pkgs/applications/networking/instant-messengers/psi-plus/default.nix b/pkgs/applications/networking/instant-messengers/psi-plus/default.nix
index 7c6f33935dc0..0fdd8dfb4bd3 100644
--- a/pkgs/applications/networking/instant-messengers/psi-plus/default.nix
+++ b/pkgs/applications/networking/instant-messengers/psi-plus/default.nix
@@ -1,24 +1,24 @@
 { stdenv, fetchFromGitHub, cmake
 , qt5, libidn, qca2-qt5, libXScrnSaver, hunspell
-, libgcrypt, libotr, html-tidy, libgpgerror
+, libgcrypt, libotr, html-tidy, libgpgerror, libsignal-protocol-c
 }:
 
 stdenv.mkDerivation rec {
   name = "psi-plus-${version}";
-  version = "1.2.235";
+  version = "1.3.410";
 
   src = fetchFromGitHub {
     owner = "psi-plus";
     repo = "psi-plus-snapshots";
     rev = "${version}";
-    sha256 = "0rc65gs6m3jxg407r99kikdylvrar5mq7x5m66ma604yk5igwg47";
+    sha256 = "02m984z2dfmlx522q9x1z0aalvi2mi48s5ghhs80hr5afnfyc5w6";
   };
 
   resources = fetchFromGitHub {
     owner = "psi-plus";
     repo = "resources";
-    rev = "8f5038380e1be884b04b5a1ad3cc3385e793f668";
-    sha256 = "1b8a2aixg966fzjwp9hz51rc31imyvpx014mp2fsm47k8na4470d";
+    rev = "c0bfb8a025eeec82cd0a23a559e0aa3da15c3ec3";
+    sha256 = "1q7v01w085vk7ml6gwis7j409w6f5cplpm7c0ajs4i93c4j53xdf";
   };
 
   postUnpack = ''
@@ -34,7 +34,7 @@ stdenv.mkDerivation rec {
   buildInputs = [
     qt5.qtbase qt5.qtmultimedia qt5.qtx11extras qt5.qttools qt5.qtwebkit
     libidn qca2-qt5 libXScrnSaver hunspell
-    libgcrypt libotr html-tidy libgpgerror
+    libgcrypt libotr html-tidy libgpgerror libsignal-protocol-c
   ];
 
   enableParallelBuilding = true;
@@ -42,6 +42,7 @@ stdenv.mkDerivation rec {
   meta = with stdenv.lib; {
     description = "XMPP (Jabber) client";
     maintainers = with maintainers; [ orivej ];
+    license = licenses.gpl2;
     platforms = platforms.linux;
   };
 }
diff --git a/pkgs/applications/networking/instant-messengers/psi/default.nix b/pkgs/applications/networking/instant-messengers/psi/default.nix
index 37d9de8794e5..daa9d04cfb53 100644
--- a/pkgs/applications/networking/instant-messengers/psi/default.nix
+++ b/pkgs/applications/networking/instant-messengers/psi/default.nix
@@ -22,9 +22,10 @@ stdenv.mkDerivation rec {
 
   enableParallelBuilding = true;
 
-  meta = {
+  meta = with stdenv.lib; {
     description = "Psi, an XMPP (Jabber) client";
-    maintainers = [ stdenv.lib.maintainers.raskin ];
+    maintainers = [ maintainers.raskin ];
+    license = licenses.gpl2;
     platforms = stdenv.lib.platforms.linux;
   };
 }
diff --git a/pkgs/applications/networking/ipfs-cluster/default.nix b/pkgs/applications/networking/ipfs-cluster/default.nix
new file mode 100644
index 000000000000..33b9f6151399
--- /dev/null
+++ b/pkgs/applications/networking/ipfs-cluster/default.nix
@@ -0,0 +1,41 @@
+{ stdenv, buildGoPackage, fetchFromGitHub, fetchgx, gx-go }:
+
+buildGoPackage rec {
+  name = "ipfs-cluster-${version}";
+  version = "0.5.0";
+  rev = "v${version}";
+
+  goPackagePath = "github.com/ipfs/ipfs-cluster";
+
+  extraSrcPaths = [
+    (fetchgx {
+      inherit name src;
+      sha256 = "0jwz3kd07i5fs0sxds80j8d338skhgxgxra377qxsk0cr2hhj2vm";
+    })
+  ];
+
+  src = fetchFromGitHub {
+    owner = "ipfs";
+    repo = "ipfs-cluster";
+    inherit rev;
+    sha256 = "132whjyplcifq8747hcdrgbc0amhp618dg049jq5nyslcxfgdypm";
+  };
+
+  nativeBuildInputs = [ gx-go ];
+
+  preBuild = ''
+    # fetchgx stores packages by their ipfs hash
+    # this will rewrite github.com/ imports to gx/ipfs/
+    cd go/src/${goPackagePath}
+    gx-go rewrite
+  '';
+
+  meta = with stdenv.lib; {
+    description = "Allocate, replicate, and track Pins across a cluster of IPFS daemons";
+    homepage = https://cluster.ipfs.io/;
+    license = licenses.mit;
+    platforms = platforms.unix;
+    maintainers = with maintainers; [ jglukasik ];
+  };
+}
+
diff --git a/pkgs/applications/networking/sync/casync/default.nix b/pkgs/applications/networking/sync/casync/default.nix
index bea6a0780ed9..8d9b941e26e4 100644
--- a/pkgs/applications/networking/sync/casync/default.nix
+++ b/pkgs/applications/networking/sync/casync/default.nix
@@ -1,5 +1,5 @@
 { stdenv, fetchFromGitHub
-, meson, ninja, pkgconfig, sphinx
+, meson, ninja, pkgconfig, python3, sphinx
 , acl, curl, fuse, libselinux, udev, xz, zstd
 , fuseSupport ? true
 , selinuxSupport ? true
@@ -22,7 +22,7 @@ stdenv.mkDerivation rec {
                 ++ stdenv.lib.optionals (fuseSupport) [ fuse ]
                 ++ stdenv.lib.optionals (selinuxSupport) [ libselinux ]
                 ++ stdenv.lib.optionals (udevSupport) [ udev ];
-  nativeBuildInputs = [ meson ninja pkgconfig sphinx ];
+  nativeBuildInputs = [ meson ninja pkgconfig python3 sphinx ];
   checkInputs = [ glibcLocales rsync ];
 
   postPatch = ''
diff --git a/pkgs/applications/networking/sync/rclone/default.nix b/pkgs/applications/networking/sync/rclone/default.nix
index 337c166a79ac..54d612387ac4 100644
--- a/pkgs/applications/networking/sync/rclone/default.nix
+++ b/pkgs/applications/networking/sync/rclone/default.nix
@@ -2,7 +2,7 @@
 
 buildGoPackage rec {
   name = "rclone-${version}";
-  version = "1.42";
+  version = "1.43";
 
   goPackagePath = "github.com/ncw/rclone";
 
@@ -10,7 +10,7 @@ buildGoPackage rec {
     owner = "ncw";
     repo = "rclone";
     rev = "v${version}";
-    sha256 = "0r85d45q0jdfwcrblq1rd698cw3h6mc9h4dmlhzl982zpkncijqj";
+    sha256 = "1khg5jsrjmnblv8zg0zqs1n0hmjv05pjj94m9d7jbp9d936lxsxx";
   };
 
   outputs = [ "bin" "out" "man" ];
diff --git a/pkgs/applications/networking/transporter/default.nix b/pkgs/applications/networking/transporter/default.nix
index d084461a9b2d..55abd22b605c 100644
--- a/pkgs/applications/networking/transporter/default.nix
+++ b/pkgs/applications/networking/transporter/default.nix
@@ -5,6 +5,7 @@
 , pkgconfig
 , granite
 , vala_0_40
+, python3
 , gnome3
 , libxml2
 , gettext
@@ -37,6 +38,7 @@ in stdenv.mkDerivation rec {
     ninja
     pkgconfig
     vala_0_40
+    python3
     wrapGAppsHook
   ];
 
diff --git a/pkgs/applications/science/misc/snakemake/default.nix b/pkgs/applications/science/misc/snakemake/default.nix
new file mode 100644
index 000000000000..6b0570814f2b
--- /dev/null
+++ b/pkgs/applications/science/misc/snakemake/default.nix
@@ -0,0 +1,41 @@
+{
+  stdenv
+, python
+}:
+
+python.buildPythonPackage rec {
+  pname = "snakemake";
+  version = "5.2.2";
+
+  propagatedBuildInputs = with python; [
+    appdirs
+    ConfigArgParse
+    datrie
+    docutils
+    jsonschema
+    pyyaml
+    ratelimiter
+    requests
+    wrapt
+  ];
+
+  src = python.fetchPypi {
+    inherit pname version;
+    sha256 = "adffe7e24b4a613a9e8bf0a2a320b3cea236d86afb9132bb0bbbc08b8e35a3a3";
+  };
+
+  doCheck = false; # Tests depend on Google Cloud credentials at ${HOME}/gcloud-service-key.json
+
+  meta = with stdenv.lib; {
+    homepage = http://snakemake.bitbucket.io;
+    license = licenses.mit;
+    description = "Python-based execution environment for make-like workflows";
+    longDescription = ''
+      Snakemake is a workflow management system that aims to reduce the complexity of
+      creating workflows by providing a fast and comfortable execution environment,
+      together with a clean and readable specification language in Python style. Snakemake
+      workflows are essentially Python scripts extended by declarative code to define
+      rules. Rules describe how to create output files from input files.
+    '';
+  };
+}
diff --git a/pkgs/applications/version-management/gitea/default.nix b/pkgs/applications/version-management/gitea/default.nix
index 592b348d03fd..c6eb563155f6 100644
--- a/pkgs/applications/version-management/gitea/default.nix
+++ b/pkgs/applications/version-management/gitea/default.nix
@@ -7,13 +7,13 @@ with stdenv.lib;
 
 buildGoPackage rec {
   name = "gitea-${version}";
-  version = "1.5.0";
+  version = "1.5.1";
 
   src = fetchFromGitHub {
     owner = "go-gitea";
     repo = "gitea";
     rev = "v${version}";
-    sha256 = "0gp777x8yjbqvz9i79qv3bn3hrlp1bn7ib57r7w5a7jmr9rd0nca";
+    sha256 = "06h6v9py35mm0xk9l8xrq02vvr5vzl15gfbw9qqvpn8kiamkn53r";
   };
 
   patches = [ ./static-root-path.patch ];
diff --git a/pkgs/applications/video/gnome-mpv/default.nix b/pkgs/applications/video/gnome-mpv/default.nix
index 1bb77ffc4a80..75a299d46c7d 100644
--- a/pkgs/applications/video/gnome-mpv/default.nix
+++ b/pkgs/applications/video/gnome-mpv/default.nix
@@ -1,4 +1,4 @@
-{ stdenv, fetchFromGitHub, meson, ninja
+{ stdenv, fetchFromGitHub, meson, ninja, python3
 , gettext, pkgconfig, desktop-file-utils, wrapGAppsHook
 , appstream-glib, epoxy, glib, gtk3, mpv
 }:
@@ -15,13 +15,14 @@ stdenv.mkDerivation rec {
     sha256 = "1cjhw3kz163iwj2japhnv354i1lr112xyyfkxw82cwy2554cfim4";
   };
 
-  nativeBuildInputs = [ meson ninja appstream-glib gettext pkgconfig desktop-file-utils wrapGAppsHook ];
+  nativeBuildInputs = [ meson ninja python3 appstream-glib gettext pkgconfig desktop-file-utils wrapGAppsHook ];
   buildInputs = [ epoxy glib gtk3 mpv ];
 
   enableParallelBuilding = true;
 
   postPatch = ''
-    patchShebangs .
+    patchShebangs meson_post_install.py
+    patchShebangs src/generate_authors.py
     sed -i '/gtk-update-icon-cache/s/^/#/' meson_post_install.py
   '';
 
diff --git a/pkgs/applications/video/kodi/default.nix b/pkgs/applications/video/kodi/default.nix
index 5ca678a2e175..454665455c51 100644
--- a/pkgs/applications/video/kodi/default.nix
+++ b/pkgs/applications/video/kodi/default.nix
@@ -189,7 +189,7 @@ in stdenv.mkDerivation rec {
         wrapProgram $out/bin/$p \
           --prefix PATH            ":" "${lib.makeBinPath [ python2 glxinfo xdpyinfo ]}" \
           --prefix LD_LIBRARY_PATH ":" "${lib.makeLibraryPath
-              [ curl systemd libmad libvdpau libcec libcec_platform rtmpdump libass ]}"
+              ([ curl systemd libmad libvdpau libcec libcec_platform rtmpdump libass ] ++ lib.optional nfsSupport libnfs)}"
       done
 
       substituteInPlace $out/share/xsessions/kodi.desktop \
diff --git a/pkgs/applications/video/mkvtoolnix/default.nix b/pkgs/applications/video/mkvtoolnix/default.nix
index ef01ac4cdae3..3f0fb0e8022c 100644
--- a/pkgs/applications/video/mkvtoolnix/default.nix
+++ b/pkgs/applications/video/mkvtoolnix/default.nix
@@ -12,13 +12,13 @@ with stdenv.lib;
 
 stdenv.mkDerivation rec {
   name = "mkvtoolnix-${version}";
-  version = "25.0.0";
+  version = "26.0.0";
 
   src = fetchFromGitLab {
     owner  = "mbunkus";
     repo   = "mkvtoolnix";
     rev    = "release-${version}";
-    sha256 = "04m57719q7q0h0gcj1b2bh8xbdcl5bijic4hw71xf9xd19a95k78";
+    sha256 = "0dq0lbr6kzj455mv4z6a851n7ff3xlmsxklijiyp4drn1jf0q1pb";
   };
 
   nativeBuildInputs = [
diff --git a/pkgs/applications/video/pitivi/default.nix b/pkgs/applications/video/pitivi/default.nix
index cea85f553b5f..adb5d237f54f 100644
--- a/pkgs/applications/video/pitivi/default.nix
+++ b/pkgs/applications/video/pitivi/default.nix
@@ -1,4 +1,4 @@
-{ stdenv, fetchurl, pkgconfig, intltool, itstool, wrapGAppsHook
+{ stdenv, fetchurl, pkgconfig, intltool, itstool, python3, wrapGAppsHook
 , python3Packages, gst, gtk3
 , gobjectIntrospection, librsvg, gnome3, libnotify
 , meson, ninja
@@ -43,7 +43,7 @@ in python3Packages.buildPythonApplication rec {
     patchShebangs ./getenvvar.py
   '';
 
-  nativeBuildInputs = [ meson ninja pkgconfig intltool itstool wrapGAppsHook ];
+  nativeBuildInputs = [ meson ninja pkgconfig intltool itstool python3 wrapGAppsHook ];
 
   buildInputs = [
     gobjectIntrospection gtk3 librsvg gnome3.gnome-desktop gnome3.gsound