Merge branch 'master' into staging-next

nixos/doc/manual/Makefile

@@ -24,7 +24,7 @@ fix-misc-xml:
 clean:
 	rm -f manual-combined.xml generated
 
-generated: ./options-to-docbook.xsl
+generated:
 	nix-build ../../release.nix \
 		--attr manualGeneratedSources.x86_64-linux \
 		--out-link ./generated

nixos/doc/manual/release-notes/rl-1909.xml

@@ -63,10 +63,10 @@
       like games.
       <itemizedlist>
       <para>This can be achieved with the following options which the desktop manager default enables, excluding <literal>games</literal>.</para>
-      <listitem><para><link linkend="opt-services.gnome3.core-os-services.enable"><literal>services.gnome3.core-os-services.enable</literal></link></para></listitem>
+      <listitem><para><xref linkend="opt-services.gnome3.core-os-services.enable"/></para></listitem>
-      <listitem><para><link linkend="opt-services.gnome3.core-shell.enable"><literal>services.gnome3.core-shell.enable</literal></link></para></listitem>
+      <listitem><para><xref linkend="opt-services.gnome3.core-shell.enable"/></para></listitem>
-      <listitem><para><link linkend="opt-services.gnome3.core-utilities.enable"><literal>services.gnome3.core-utilities.enable</literal></link></para></listitem>
+      <listitem><para><xref linkend="opt-services.gnome3.core-utilities.enable"/></para></listitem>
-      <listitem><para><link linkend="opt-services.gnome3.games.enable"><literal>services.gnome3.games.enable</literal></link></para></listitem>
+      <listitem><para><xref linkend="opt-services.gnome3.games.enable"/></para></listitem>
       </itemizedlist>
       With these options we hope to give users finer grained control over their systems. Prior to this change you'd either have to manually
       disable options or use <option>environment.gnome3.excludePackages</option> which only excluded the optional applications.
@@ -428,6 +428,16 @@
      any updates from upstream and depends on outdated Python2-based modules.
     </para>
    </listitem>
+   <listitem>
+    <para>
+     Old unsupported versions (<literal>logstash5</literal>,
+     <literal>kibana5</literal>,
+     <literal>filebeat5</literal>,
+     <literal>heartbeat5</literal>,
+     <literal>metricbeat5</literal>,
+     <literal>packetbeat5</literal>) of the ELK-stack and Elastic beats have been removed.
+    </para>
+   </listitem>
 
   </itemizedlist>
  </section>

nixos/modules/services/logging/logstash.nix

@@ -53,7 +53,7 @@ in
         type = types.package;
         default = pkgs.logstash;
         defaultText = "pkgs.logstash";
-        example = literalExample "pkgs.logstash5";
+        example = literalExample "pkgs.logstash";
         description = "Logstash package to use.";
       };
 

nixos/modules/services/search/kibana.nix

@@ -150,7 +150,7 @@ in {
       description = "Kibana package to use";
       default = pkgs.kibana;
       defaultText = "pkgs.kibana";
-      example = "pkgs.kibana5";
+      example = "pkgs.kibana";
       type = types.package;
     };
 

nixos/tests/ceph.nix

@@ -1,7 +1,7 @@
 import ./make-test.nix ({pkgs, lib, ...}: {
   name = "All-in-one-basic-ceph-cluster";
   meta = with pkgs.stdenv.lib.maintainers; {
-    maintainers = [ lejonet ];
+    maintainers = [ johanot lejonet ];
   };
 
   nodes = {

nixos/tests/elk.nix

@@ -178,12 +178,6 @@ let
     '';
   };
 in mapAttrs mkElkTest {
-  ELK-5 = {
-    elasticsearch = pkgs.elasticsearch5;
-    logstash      = pkgs.logstash5;
-    kibana        = pkgs.kibana5;
-    journalbeat   = pkgs.journalbeat5;
-  };
   ELK-6 =
     if enableUnfree
     then {

pkgs/applications/audio/sfxr-qt/default.nix

@@ -1,11 +1,14 @@
-{ stdenv, fetchFromGitHub
+{ lib
+, mkDerivation
+, fetchFromGitHub
 , cmake
-, qtbase, qtquickcontrols2
+, qtbase
+, qtquickcontrols2
 , SDL
 , python3
 }:
 
-stdenv.mkDerivation rec {
+mkDerivation rec {
   pname = "sfxr-qt";
   version = "1.2.0";
   src = fetchFromGitHub {
@@ -20,12 +23,13 @@ stdenv.mkDerivation rec {
     (python3.withPackages (pp: with pp; [ pyyaml jinja2 ]))
   ];
   buildInputs = [
-    qtbase qtquickcontrols2
+    qtbase
+    qtquickcontrols2
     SDL
   ];
   configurePhase = "cmake . -DCMAKE_INSTALL_PREFIX=$out";
 
-  meta = with stdenv.lib; {
+  meta = with lib; {
     homepage = https://github.com/agateau/sfxr-qt;
     description = "A sound effect generator, QtQuick port of sfxr";
     license = licenses.gpl2;

pkgs/applications/graphics/drawpile/default.nix

@@ -1,4 +1,5 @@
-{ stdenv
+{ lib
+, mkDerivation
 , fetchurl
 , cmake
 , extra-cmake-modules
@@ -31,7 +32,7 @@
 , enableKisTablet ? false # enable improved graphics tablet support
 }:
 
-with stdenv.lib;
+with lib;
 
 let
   commonDeps = [
@@ -57,7 +58,7 @@ let
     qtx11extras
   ];
 
-in stdenv.mkDerivation rec {
+in mkDerivation rec {
   pname = "drawpile";
   version = "2.1.11";
 

pkgs/applications/misc/wtf/default.nix

@@ -1,12 +1,18 @@
 { buildGoModule
 , fetchFromGitHub
 , lib
+, makeWrapper
+, ncurses
 }:
 
 buildGoModule rec {
   pname = "wtf";
   version = "0.21.0";
 
+  overrideModAttrs = _oldAttrs : _oldAttrs // {
+    preBuild = ''export GOPROXY="https://gocenter.io"'';
+  };
+
   src = fetchFromGitHub {
     owner = "wtfutil";
     repo = pname;
@@ -14,17 +20,14 @@ buildGoModule rec {
     sha256 = "0sd8vrx7nak0by4whdmd9jzr66zm48knv1w1aqi90709fv98brm9";
   };
 
-  modSha256 = "1nqnjpkrjbb75yfbzh3v3vc4xy5a2aqm9jr40hwq589a4l9p5pw2";
+  modSha256 = "0jgq9ql27x0kdp59l5drisl5v7v7sx2wy3zqjbr3bqyh3vdx19ic";
 
   buildFlagsArray = [ "-ldflags=-s -w -X main.version=${version}" ];
 
-  # As per https://github.com/wtfutil/wtf/issues/501, one of the
+  nativeBuildInputs = [ makeWrapper ];
-  # dependencies can't be fetched, so vendored dependencies should
+
-  # be used instead
+  postInstall = ''
-  modBuildPhase = ''
+    wrapProgram "$out/bin/wtf" --prefix PATH : "${ncurses.dev}/bin"
-    runHook preBuild
-    make build -mod=vendor
-    runHook postBuild
   '';
 
   meta = with lib; {

pkgs/applications/networking/browsers/palemoon/default.nix

@@ -13,14 +13,13 @@ let
 
 in stdenv.mkDerivation rec {
   pname = "palemoon";
-  version = "28.6.0.1";
+  version = "28.7.0";
 
   src = fetchFromGitHub {
-    name   = "${pname}-${version}";
     owner  = "MoonchildProductions";
     repo   = "UXP";
     rev    = "PM${version}_Release";
-    sha256 = "1adgajy5vsghvjlv2nqyrbp6mnv3k6slqxxi8r949xlb5h6d210b";
+    sha256 = "0i6fy1mvjy6vpqnvhh516mxbv4d2z73yghk3frln4ql8zavba7qq";
   };
 
   desktopItem = makeDesktopItem {
@@ -91,8 +90,6 @@ in stdenv.mkDerivation rec {
     "
   '';
 
-  hardeningDisable = [ "format" ];
-
   buildPhase = ''
     $src/mach build
   '';
@@ -129,7 +126,7 @@ in stdenv.mkDerivation rec {
     '';
     homepage    = "https://www.palemoon.org/";
     license     = licenses.mpl20;
-    maintainers = with maintainers; [ rnhmjoj AndersonTorres OPNA2608 ];
+    maintainers = with maintainers; [ AndersonTorres OPNA2608 ];
     platforms   = [ "i686-linux" "x86_64-linux" ];
   };
 }

pkgs/applications/networking/instant-messengers/discord/default.nix

@@ -17,10 +17,10 @@ in {
     pname = "discord-ptb";
     binaryName = "DiscordPTB";
     desktopName = "Discord PTB";
-    version = "0.0.15";
+    version = "0.0.16";
     src = fetchurl {
-      url = "https://dl-ptb.discordapp.net/apps/linux/0.0.15/discord-ptb-0.0.15.tar.gz";
+      url = "https://dl-ptb.discordapp.net/apps/linux/0.0.16/discord-ptb-0.0.16.tar.gz";
-      sha256 = "0znqb0a3yglgx7a9ypkb81jcm8kqgc6559zi7vfqn02zh15gqv6a";
+      sha256 = "1ia94xvzygim9rx1sjnnss518ggw0i20mhp9pby33q70ha35n0aq";
     };
   };
   canary = callPackage ./base.nix {

pkgs/build-support/fetchgit/nix-prefetch-git

@@ -265,7 +265,9 @@ make_deterministic_repo(){
     rm -f .git/config
 
     # Garbage collect unreferenced objects.
-    git gc --prune=all
+    # Note: --keep-largest-pack prevents non-deterministic ordering of packs
+    #   listed in .git/objects/info/packs by only using a single pack
+    git gc --prune=all --keep-largest-pack
     )
 }
 

pkgs/desktops/gnome-3/misc/gitg/default.nix

@@ -30,21 +30,13 @@
 
 stdenv.mkDerivation rec {
   pname = "gitg";
-  version = "3.32.0";
+  version = "3.32.1";
 
   src = fetchurl {
     url = "mirror://gnome/sources/${pname}/${stdenv.lib.versions.majorMinor version}/${pname}-${version}.tar.xz";
-    sha256 = "1wzsv7bh0a2w70f938hkpzbb9xkyrp3bil65c0q3yf2v72nbbn81";
+    sha256 = "0npg4kqpwl992fgjd2cn3fh84aiwpdp9kd8z7rw2xaj2iazsm914";
   };
 
-  patches = [
-    # https://gitlab.gnome.org/GNOME/gitg/issues/213
-    (fetchpatch {
-      url = "https://gitlab.gnome.org/GNOME/gitg/merge_requests/83.patch";
-      sha256 = "1f7wx1d3k5pnp8zbrqssip57b9jxn3hc7a83psm7fny970qmd18z";
-    })
-  ];
-
   postPatch = ''
     chmod +x meson_post_install.py
     patchShebangs meson_post_install.py

pkgs/development/coq-modules/iris/default.nix

@@ -1,15 +1,18 @@
-{ stdenv, fetchzip, coq, ssreflect, stdpp }:
+{ stdenv, fetchFromGitLab, coq, stdpp }:
 
 stdenv.mkDerivation rec {
-  version = "3.1.0";
+  version = "3.2.0";
   name = "coq${coq.coq-version}-iris-${version}";
-  src = fetchzip {
+  src = fetchFromGitLab {
-    url = "https://gitlab.mpi-sws.org/FP/iris-coq/-/archive/iris-${version}/iris-coq-iris-${version}.tar.gz";
+    domain = "gitlab.mpi-sws.org";
-    sha256 = "0ipdb061jj205avxifshxkpyxxqykigmlxk2n5nvxj62gs3rl5j1";
+    owner = "iris";
+    repo = "iris";
+    rev = "iris-${version}";
+    sha256 = "10dfi7qx6j5w6kbmbrf05xh18jwxr9iz5g7y0f6157msgvl081xs";
   };
 
   buildInputs = [ coq ];
-  propagatedBuildInputs = [ ssreflect stdpp ];
+  propagatedBuildInputs = [ stdpp ];
 
   enableParallelBuilding = true;
 
@@ -24,7 +27,7 @@ stdenv.mkDerivation rec {
   };
 
   passthru = {
-    compatibleCoqVersions = v: builtins.elem v [ "8.6" "8.7" "8.8" ];
+    compatibleCoqVersions = v: builtins.elem v [ "8.7" "8.8" "8.9" "8.10" ];
   };
 
 }

pkgs/development/coq-modules/stdpp/default.nix

@@ -1,10 +1,14 @@
-{ stdenv, fetchzip, coq }:
+{ stdenv, fetchFromGitLab, coq }:
 
-stdenv.mkDerivation {
+stdenv.mkDerivation rec {
-  name = "coq${coq.coq-version}-stdpp-1.1";
+  name = "coq${coq.coq-version}-stdpp-${version}";
-  src = fetchzip {
+  version = "1.2.1";
-    url = "https://gitlab.mpi-sws.org/robbertkrebbers/coq-stdpp/-/archive/coq-stdpp-1.1.0/coq-stdpp-coq-stdpp-1.1.0.tar.gz";
+  src = fetchFromGitLab {
-    sha256 = "0z8zl288x9w32w06sjax01jcpy12wd5i3ygps58dl2hfy7r3lwg0";
+    domain = "gitlab.mpi-sws.org";
+    owner = "iris";
+    repo = "stdpp";
+    rev = "coq-stdpp-${version}";
+    sha256 = "1lczybg1jq9drbi8nzrlb0k199x4n07aawjwfzrl3qqc0w8kmvdz";
   };
 
   buildInputs = [ coq ];
@@ -14,7 +18,7 @@ stdenv.mkDerivation {
   installFlags = [ "COQLIB=$(out)/lib/coq/${coq.coq-version}/" ];
 
   meta = {
-    homepage = "https://gitlab.mpi-sws.org/robbertkrebbers/coq-stdpp";
+    inherit (src.meta) homepage;
     description = "An extended “Standard Library” for Coq";
     inherit (coq.meta) platforms;
     license = stdenv.lib.licenses.bsd3;
@@ -22,7 +26,7 @@ stdenv.mkDerivation {
   };
 
   passthru = {
-    compatibleCoqVersions = v: builtins.elem v [ "8.6" "8.7" "8.8" ];
+    compatibleCoqVersions = v: builtins.elem v [ "8.7" "8.8" "8.9" "8.10" ];
   };
 
 }

pkgs/development/libraries/clipp/clipp.pc

@@ -0,0 +1,9 @@
+prefix=@out@
+includedir=${prefix}/include
+
+Name: @pname@
+Description: Easy to use, powerful and expressive command line argument \
+handling for C++11/14/17
+URL: https://github.com/muellan/clipp
+Version: @version@
+Cflags: -I${includedir}

pkgs/development/libraries/clipp/default.nix

@@ -0,0 +1,30 @@
+{ stdenv, fetchFromGitHub }:
+
+stdenv.mkDerivation rec {
+  pname = "clipp";
+  version = "1.2.3";
+
+  src = fetchFromGitHub {
+    owner = "muellan";
+    repo = pname;
+    rev = "v${version}";
+    sha256 = "0rq80ba2krwzvcg4r2g1al88453c7lz6ziri2s1ygv8inp9r775s";
+  };
+
+  installPhase = ''
+    mkdir -p $out/share/pkgconfig
+    cp -r include $out/
+    substitute ${./clipp.pc} $out/share/pkgconfig/clipp.pc \
+      --subst-var out \
+      --subst-var pname \
+      --subst-var version
+  '';
+
+  meta = with stdenv.lib; {
+    description = "Easy to use, powerful and expressive command line argument handling for C++11/14/17";
+    homepage = "https://github.com/muellan/clipp";
+    license = licenses.mit;
+    maintainers = with maintainers; [ xbreak ];
+    platforms = with platforms; all;
+  };
+}

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

@@ -2,12 +2,12 @@
 
 buildPythonPackage rec {
   pname = "loguru";
-  version = "0.3.1";
+  version = "0.3.2";
   
   disabled = isPy27;
   src = fetchPypi {
     inherit pname version;
-    sha256 = "14pmxyx4kwyafdifqzal121mpdd89lxbjgn0zzi9z6fmzk6pr5h2";
+    sha256 = "0apd3wcjbyhwzgw0fgzzn4dcgy10pqa8f1vf58d4hmszxvyqn4z3";
   };
 
   checkInputs = [ pytest colorama ];

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

@@ -0,0 +1,27 @@
+{ lib, buildPythonPackage, fetchFromGitHub
+, nose
+, six
+}:
+
+buildPythonPackage rec {
+  pname = "purl";
+  version = "1.5";
+
+  src = fetchFromGitHub {
+    owner = "codeinthehole";
+    repo = "purl";
+    rev = version;
+    sha256 = "0vi7xdm2xc1rbqrz5jwpr7x7dnkcrbjf1mb4w1q2c2f8jca0kk0g";
+  };
+
+  propagatedBuildInputs = [ six ];
+
+  checkInputs = [ nose ];
+
+  meta = with lib; {
+    description = "Immutable URL class for easy URL-building and manipulation";
+    homepage = "https://github.com/codeinthehole/purl";
+    license = licenses.mit;
+    maintainers = with maintainers; [ jonringer ];
+  };
+}

pkgs/development/python-modules/requests-mock/default.nix

@@ -1,21 +1,33 @@
-{ buildPythonPackage, fetchPypi, python
+{ lib, buildPythonPackage, fetchPypi, python
-, mock, testrepository, testtools
+, mock
-, requests, six }:
+, purl
+, requests
+, six
+, testrepository
+, testtools
+}:
 
 buildPythonPackage rec {
   pname = "requests-mock";
-  version = "1.5.2";
+  version = "1.7.0";
 
   src = fetchPypi {
     inherit pname version;
-    sha256 = "7a5fa99db5e3a2a961b6f20ed40ee6baeff73503cf0a553cc4d679409e6170fb";
+    sha256 = "0ij6ir5cy0gpy5xw4sykxz320ndi26np6flx9yg9mimkv0nl1lw8";
   };
 
   patchPhase = ''
     sed -i 's@python@${python.interpreter}@' .testr.conf
   '';
 
-  checkInputs = [ mock testrepository testtools ];
-
   propagatedBuildInputs = [ requests six ];
+
+  checkInputs = [ mock purl testrepository testtools ];
+
+  meta = with lib; {
+    description = "Mock out responses from the requests package";
+    homepage = "https://requests-mock.readthedocs.io";
+    license = licenses.asl20;
+    maintainers = [ ];
+  };
 }

pkgs/development/tools/misc/kibana/5.x.nix

@@ -1,45 +0,0 @@
-{ stdenv, makeWrapper, fetchurl, elk5Version, nodejs, coreutils, which }:
-
-with stdenv.lib;
-let
-  inherit (builtins) elemAt;
-  archOverrides = {
-    i686 = "x86";
-  };
-  info = splitString "-" stdenv.hostPlatform.system;
-  arch = (elemAt info 0);
-  elasticArch = archOverrides.${arch} or arch;
-  plat = elemAt info 1;
-  shas = {
-    x86_64-linux  = "0hzr47hyw54b9j4c33n6f6n3pala6kjhyvinfszgikbghyhb7fsa";
-    i686-linux    = "0bka4h31cw10ii4pfygc81pwc3wr32pzw3v4k4bi8rnqbk280fmn";
-    x86_64-darwin = "0jqc2g89rqkla0alqxr14sh4pccfn514jrwr7mkjivxdapygh1ll";
-  };
-in stdenv.mkDerivation rec {
-  pname = "kibana";
-  version = elk5Version;
-
-  src = fetchurl {
-    url = "https://artifacts.elastic.co/downloads/kibana/${pname}-${version}-${plat}-${elasticArch}.tar.gz";
-    sha256 = shas.${stdenv.hostPlatform.system} or (throw "Unknown architecture");
-  };
-
-  buildInputs = [ makeWrapper ];
-
-  installPhase = ''
-    mkdir -p $out/libexec/kibana $out/bin
-    mv * $out/libexec/kibana/
-    rm -r $out/libexec/kibana/node
-    makeWrapper $out/libexec/kibana/bin/kibana $out/bin/kibana \
-      --prefix PATH : "${stdenv.lib.makeBinPath [ nodejs coreutils which ]}"
-    sed -i 's@NODE=.*@NODE=${nodejs}/bin/node@' $out/libexec/kibana/bin/kibana
-  '';
-
-  meta = {
-    description = "Visualize logs and time-stamped data";
-    homepage = http://www.elasticsearch.org/overview/kibana;
-    license = licenses.asl20;
-    maintainers = with maintainers; [ offline ];
-    platforms = with platforms; unix;
-  };
-}

pkgs/misc/logging/beats/5.x.nix

@@ -1,42 +0,0 @@
-{ stdenv, fetchFromGitHub, elk5Version, buildGoPackage, libpcap }:
-
-let beat = package : extraArgs : buildGoPackage (rec {
-      name = "${package}-${version}";
-      version = elk5Version;
-
-      src = fetchFromGitHub {
-        owner = "elastic";
-        repo = "beats";
-        rev = "v${version}";
-        sha256 = "0sslcwjdf7zb9xj2c98jid3rb09l96m22k3af48gppimxg1lkh9b";
-      };
-
-      goPackagePath = "github.com/elastic/beats";
-
-      subPackages = [ package ];
-
-      meta = with stdenv.lib; {
-        homepage = https://www.elastic.co/products/beats;
-        license = licenses.asl20;
-        maintainers = with maintainers; [ fadenb basvandijk ];
-        platforms = platforms.linux;
-      };
-    } // extraArgs);
-in {
-  filebeat5   = beat "filebeat"   {meta.description = "Lightweight shipper for logfiles";};
-  heartbeat5  = beat "heartbeat"  {meta.description = "Lightweight shipper for uptime monitoring";};
-  metricbeat5 = beat "metricbeat" {meta.description = "Lightweight shipper for metrics";};
-  packetbeat5 = beat "packetbeat" {
-    buildInputs = [ libpcap ];
-    meta.description = "Network packet analyzer that ships data to Elasticsearch";
-    meta.longDescription = ''
-      Packetbeat is an open source network packet analyzer that ships the
-      data to Elasticsearch.
-
-      Think of it like a distributed real-time Wireshark with a lot more
-      analytics features. The Packetbeat shippers sniff the traffic between
-      your application processes, parse on the fly protocols like HTTP, MySQL,
-      PostgreSQL, Redis or Thrift and correlate the messages into transactions.
-    '';
-  };
-}

pkgs/servers/search/elasticsearch/5.x.nix

@@ -1,44 +0,0 @@
-{ stdenv, fetchurl, elk5Version, makeWrapper, jre_headless
-, utillinux, gnugrep, coreutils }:
-
-with stdenv.lib;
-
-stdenv.mkDerivation rec {
-  version = elk5Version;
-  pname = "elasticsearch";
-
-  src = fetchurl {
-    url = "https://artifacts.elastic.co/downloads/elasticsearch/${pname}-${version}.tar.gz";
-    sha256 = "0zy7awb2cm2fk3c7zc7v8b8pl0jw49awqwpa1jvilmvx6dcml0vb";
-  };
-
-  patches = [ ./es-home-5.x.patch ./es-classpath-5.x.patch ];
-
-  buildInputs = [ makeWrapper jre_headless utillinux ];
-
-  installPhase = ''
-    mkdir -p $out
-    cp -R bin config lib modules plugins $out
-
-    chmod -x $out/bin/*.*
-
-    wrapProgram $out/bin/elasticsearch \
-      --prefix ES_CLASSPATH : "$out/lib/*" \
-      --prefix PATH : "${makeBinPath [ utillinux gnugrep coreutils ]}" \
-      --set JAVA_HOME "${jre_headless}" \
-      --set ES_JVM_OPTIONS "$out/config/jvm.options"
-
-    wrapProgram $out/bin/elasticsearch-plugin \
-      --prefix ES_CLASSPATH : "$out/lib/*" \
-      --set JAVA_HOME "${jre_headless}"
-  '';
-
-  meta = {
-    description = "Open Source, Distributed, RESTful Search Engine";
-    license = licenses.asl20;
-    platforms = platforms.unix;
-    maintainers = [
-      maintainers.apeschar
-    ];
-  };
-}

pkgs/servers/search/elasticsearch/es-classpath-5.x.patch

@@ -1,43 +0,0 @@
-diff -rupN a/bin/elasticsearch b/bin/elasticsearch
---- a/bin/elasticsearch	2017-05-17 10:53:49.444487071 +0200
-+++ b/bin/elasticsearch	2017-05-17 10:55:52.755081523 +0200
-@@ -129,12 +129,7 @@ ES_JAVA_OPTS="$(parse_jvm_options "$ES_J
- # If an include wasn't specified in the environment, then search for one...
- if [ "x$ES_INCLUDE" = "x" ]; then
-     # Locations (in order) to use when searching for an include file.
--    for include in /usr/share/elasticsearch/elasticsearch.in.sh \
--                   /usr/local/share/elasticsearch/elasticsearch.in.sh \
--                   /opt/elasticsearch/elasticsearch.in.sh \
--                   ~/.elasticsearch.in.sh \
--                   "$ES_HOME/bin/elasticsearch.in.sh" \
--                   "`dirname "$0"`"/elasticsearch.in.sh; do
-+    for include in "`dirname "$0"`"/elasticsearch.in.sh; do
-         if [ -r "$include" ]; then
-             . "$include"
-             break
-diff -rupN a/bin/elasticsearch.in.sh b/bin/elasticsearch.in.sh
---- a/bin/elasticsearch.in.sh	2017-04-28 19:41:47.000000000 +0200
-+++ b/bin/elasticsearch.in.sh	2017-05-17 10:56:49.303519788 +0200
-@@ -1,13 +1 @@
- #!/bin/bash
--
--# check in case a user was using this mechanism
--if [ "x$ES_CLASSPATH" != "x" ]; then
--    cat >&2 << EOF
--Error: Don't modify the classpath with ES_CLASSPATH. Best is to add
--additional elements via the plugin mechanism, or if code must really be
--added to the main classpath, add jars to lib/ (unsupported).
--EOF
--    exit 1
--fi
--
--ES_CLASSPATH="$ES_HOME/lib/*"
-diff -rupN a/bin/elasticsearch-plugin b/bin/elasticsearch-plugin
---- a/bin/elasticsearch-plugin	2018-04-13 01:21:55.000000000 +0900
-+++ b/bin/elasticsearch-plugin	2018-06-28 19:08:54.700969245 +0900
-@@ -88,4 +88,4 @@ if [ -e "$CONF_DIR" ]; then
-   path_props=("${path_props[@]}" -Des.path.conf="$CONF_DIR")
- fi
- 
--exec "$JAVA" $ES_JAVA_OPTS -Delasticsearch "${path_props[@]}" -cp "$ES_HOME/lib/*" org.elasticsearch.plugins.PluginCli "${args[@]}"
-+exec "$JAVA" $ES_JAVA_OPTS -Delasticsearch "${path_props[@]}" -cp "$ES_CLASSPATH" org.elasticsearch.plugins.PluginCli "${args[@]}"

pkgs/servers/search/elasticsearch/es-home-5.x.patch

@@ -1,31 +0,0 @@
-diff -rupN a/bin/elasticsearch b/bin/elasticsearch
---- a/bin/elasticsearch	2017-05-17 10:53:42.214686741 +0200
-+++ b/bin/elasticsearch	2017-05-17 10:53:49.444487071 +0200
-@@ -105,7 +105,11 @@ while [ -h "$SCRIPT" ] ; do
- done
- 
- # determine elasticsearch home
--ES_HOME=`dirname "$SCRIPT"`/..
-+
-+if [ -z "$ES_HOME" ]; then
-+    echo "You must set the ES_HOME var" >&2
-+    exit 1
-+fi
- 
- # make ELASTICSEARCH_HOME absolute
- ES_HOME=`cd "$ES_HOME"; pwd`
-diff -rupN a/bin/elasticsearch-plugin b/bin/elasticsearch-plugin
---- a/bin/elasticsearch-plugin	2017-05-17 10:53:42.214686741 +0200
-+++ b/bin/elasticsearch-plugin	2017-05-17 10:53:49.445487044 +0200
-@@ -16,7 +16,10 @@ while [ -h "$SCRIPT" ] ; do
- done
- 
- # determine elasticsearch home
--ES_HOME=`dirname "$SCRIPT"`/..
-+if [ -z "$ES_HOME" ]; then
-+    echo "You must set the ES_HOME var" >&2
-+    exit 1
-+fi
- 
- # make ELASTICSEARCH_HOME absolute
- ES_HOME=`cd "$ES_HOME"; pwd`

pkgs/tools/admin/eksctl/default.nix

@@ -2,16 +2,16 @@
 
 buildGoModule rec {
   pname = "eksctl";
-  version = "0.5.0";
+  version = "0.5.1";
 
   src = fetchFromGitHub {
     owner = "weaveworks";
     repo = pname;
     rev = version;
-    sha256 = "1aifdrxasg7d6gpy7s6kdjz9ky2kddpigh8z0f3zckw7hd68jk0g";
+    sha256 = "0lfg7im43bslbg23xajdh0nhy4lj3y70gncxgqzfklb1ax0953r2";
   };
 
-  modSha256 = "18vsi1hrv3z36w7vwl2bg8b2p5dwzw7dsw434adw9l1k7yv5x4vv";
+  modSha256 = "0c8hbb73w1922qh895lsk0m9i7lk9kzrvxjc4crwsfpn9pv0qgd3";
 
   subPackages = [ "cmd/eksctl" ];
 

pkgs/tools/admin/procs/default.nix

@@ -4,16 +4,16 @@
 
 rustPlatform.buildRustPackage rec {
   pname = "procs";
-  version = "0.8.5";
+  version = "0.8.9";
 
   src = fetchFromGitHub {
     owner = "dalance";
     repo = pname;
     rev = "v${version}";
-    sha256 = "0ihww2sm9hnh748723lr1cxw9zyi9nfxbbiij5a465mypa2p7w0v";
+    sha256 = "0gqbdk4gaxkpval52fsravjgvqz6c9zh1ahry57a2p6kszw96n13";
   };
 
-  cargoSha256 = "1aq2nhspb9kp9mzj5550xph09qvd0ahlw246hcx2mqkr4frh64x0";
+  cargoSha256 = "1k0yl03rxbv009gb2jkc0f7mjq3pzc9bf8hppk2w9xicxpq6l55c";
 
   buildInputs = stdenv.lib.optional stdenv.isDarwin Security;
 

pkgs/tools/filesystems/ceph/default.nix

@@ -89,14 +89,15 @@ let
     ps.six
   ]);
 
-  version = "14.2.1";
+  version = "14.2.3";
 in rec {
   ceph = stdenv.mkDerivation {
-    name="ceph-${version}";
+    pname = "ceph";
+    inherit version;
 
     src = fetchurl {
       url = "http://download.ceph.com/tarballs/ceph-${version}.tar.gz";
-      sha256 = "0qa9p8xp26d45h3jfj1rbwhmqv44f9n1mvccmpzaf2i05v42kmzb";
+      sha256 = "1pa8czb205pz4vjfh82gsgickj3cdjrx51mcx7acsyqgp3dfvl33";
     };
 
     patches = [
@@ -181,7 +182,7 @@ in rec {
         homepage = https://ceph.com/;
         description = "Tools needed to mount Ceph's RADOS Block Devices";
         license = with licenses; [ lgpl21 gpl2 bsd3 mit publicDomain ];
-        maintainers = with maintainers; [ adev ak krav ];
+        maintainers = with maintainers; [ adev ak johanot krav ];
         platforms = platforms.unix;
       };
     } ''

pkgs/tools/misc/fortune/default.nix

@@ -1,37 +1,38 @@
 { stdenv, fetchurl, cmake, recode, perl }:
 
-let srcs = {
+stdenv.mkDerivation rec {
-      fortune = fetchurl {
-        url = "https://github.com/shlomif/fortune-mod/archive/fortune-mod-${version}.tar.gz";
-        sha256 = "89223bb649ea62b030527f181539182d6a17a1a43b0cc499a52732b839f7b691";
-      };
-      shlomifCommon = fetchurl {
-        url = https://bitbucket.org/shlomif/shlomif-cmake-modules/raw/default/shlomif-cmake-modules/Shlomif_Common.cmake;
-        sha256 = "62f188a9f1b7ab0e757eb0bc6540d9c0026d75edc7acc1c3cdf7438871d0a94f";
-      };
-    };
-    version = "2.6.2";
-in
-stdenv.mkDerivation {
   pname = "fortune-mod";
-  inherit version;
+  version = "2.10.0";
 
-  src = srcs.fortune;
+  src = fetchurl {
-
+    url = "https://www.shlomifish.org/open-source/projects/fortune-mod/arcs/fortune-mod-${version}.tar.xz";
-  sourceRoot = "fortune-mod-fortune-mod-${version}/fortune-mod";
+    sha256 = "07g50hij87jb7m40pkvgd47qfvv4s805lwiz79jbqcxzd7zdyax7";
+  };
 
   nativeBuildInputs = [ cmake perl ];
 
   buildInputs = [ recode ];
 
-  preConfigure = ''
+  cmakeFlags = [
-    cp ${srcs.shlomifCommon} cmake/Shlomif_Common.cmake
+    "-DLOCALDIR=${placeholder "out"}/share/fortunes"
-  '';
+  ];
 
-  postInstall = ''
+  patches = [ (builtins.toFile "not-a-game.patch" ''
-    mv $out/games/fortune $out/bin/fortune
+    diff --git a/CMakeLists.txt b/CMakeLists.txt
-    rm -r $out/games
+    index 865e855..5a59370 100644
-  '';
+    --- a/CMakeLists.txt
+    +++ b/CMakeLists.txt
+    @@ -154,7 +154,7 @@ ENDMACRO()
+     my_exe(
+         "fortune"
+         "fortune/fortune.c"
+    -    "games"
+    +    "bin"
+     )
+
+     my_exe(
+    -- 
+  '') ];
 
   meta = with stdenv.lib; {
     description = "A program that displays a pseudorandom message from a database of quotations";

pkgs/tools/misc/logstash/5.x.nix

@@ -1,39 +0,0 @@
-{ stdenv, fetchurl, elk5Version, makeWrapper, jre  }:
-
-stdenv.mkDerivation rec {
-  version = elk5Version;
-  pname = "logstash";
-
-  src = fetchurl {
-    url = "https://artifacts.elastic.co/downloads/logstash/${pname}-${version}.tar.gz";
-    sha256 = "0sax9p2bwjdrcvkm1mgvljdjn2qkyjd5i8rzajdn3n98gqin1la0";
-  };
-
-  dontBuild         = true;
-  dontPatchELF      = true;
-  dontStrip         = true;
-  dontPatchShebangs = true;
-
-  buildInputs = [
-    makeWrapper jre
-  ];
-
-  installPhase = ''
-    mkdir -p $out
-    cp -r {Gemfile*,modules,vendor,lib,bin,config,data,logstash-core,logstash-core-plugin-api} $out
-
-    wrapProgram $out/bin/logstash \
-       --set JAVA_HOME "${jre}"
-
-    wrapProgram $out/bin/logstash-plugin \
-       --set JAVA_HOME "${jre}"
-  '';
-
-  meta = with stdenv.lib; {
-    description = "Logstash is a data pipeline that helps you process logs and other event data from a variety of systems";
-    homepage    = https://www.elastic.co/products/logstash;
-    license     = licenses.asl20;
-    platforms   = platforms.unix;
-    maintainers = [ maintainers.wjlroe maintainers.offline ];
-  };
-}

pkgs/tools/misc/megacli/default.nix

@@ -1,15 +1,13 @@
-{ stdenv, rpmextract, ncurses5, patchelf, requireFile, unzip }:
+{ stdenv, rpmextract, ncurses5, patchelf, fetchurl, unzip }:
 
 stdenv.mkDerivation rec {
   pname = "megacli";
   version = "8.07.14";
 
-  src =
+  src = fetchurl {
-    requireFile {
+    url = "https://docs.broadcom.com/docs-and-downloads/raid-controllers/raid-controllers-common-files/${builtins.replaceStrings ["."] ["-"] version}_MegaCLI.zip";
-      name = "${builtins.replaceStrings ["."] ["-"] version}_MegaCLI.zip";
+    sha256 = "1sdn58fbmd3fj4nzbajq3gcyw71ilgdh45r5p4sa6xmb7np55cfr";
-      url = https://docs.broadcom.com/docs/12351587;
+  };
-      sha256 = "1sdn58fbmd3fj4nzbajq3gcyw71ilgdh45r5p4sa6xmb7np55cfr";
-    };
 
   buildInputs = [rpmextract ncurses5 unzip];
   libPath =

pkgs/tools/system/journalbeat/default.nix

@@ -1,28 +0,0 @@
-{ lib, systemd, buildGoPackage, fetchFromGitHub }:
-
-buildGoPackage rec {
-  pname = "journalbeat";
-  version = "5.6.8";
-
-  src = fetchFromGitHub {
-    owner = "mheese";
-    repo = "journalbeat";
-    rev = "v${version}";
-    sha256 = "1vgpwnwqjc93nvdpcd52748bwl3r371jb55l17bsgdzrmlcyfm8a";
-  };
-
-  goPackagePath = "github.com/mheese/journalbeat";
-
-  buildInputs = [ systemd.dev ];
-
-  postFixup = let libPath = lib.makeLibraryPath [ systemd.lib ]; in ''
-    patchelf --set-rpath ${libPath} "$bin/bin/journalbeat"
-  '';
-
-  meta = with lib; {
-    homepage = https://github.com/mheese/journalbeat;
-    description = "Journalbeat is a log shipper from systemd/journald to Logstash/Elasticsearch";
-    license = licenses.asl20;
-    maintainers = with maintainers; [ mbrgm ];
-  };
-}

pkgs/tools/typesetting/xmlroff/default.nix

@@ -1,49 +1,55 @@
-{ stdenv, fetchurl, pkgconfig, libxml2, libxslt, popt, perl
+{ stdenv, fetchFromGitHub
-, glib, pango, pangoxsl, gtk2, libtool, autoconf, automake }:
+, autoreconfHook
+, gtk2
+, libxml2
+, libxslt
+, pango
+, pangoxsl
+, perl
+, pkgconfig
+, popt
+}:
 
 stdenv.mkDerivation rec {
   pname = "xmlroff";
-  version = "0.6.2";
+  version = "0.6.3";
 
-  src = fetchurl {
+  src = fetchFromGitHub {
-    url = "https://github.com/xmlroff/xmlroff/archive/v${version}.tar.gz";
+    owner = pname;
-    sha256 = "1sczn6xjczsfdxlbjqv4xqlki2a95y2s8ih2nl9v1vhqfk17fiww";
+    repo = pname;
+    rev = "v${version}";
+    sha256 = "0dgp72094lx9i9gvg21pp8ak7bg39707rdf6wz011p9s6n6lrq5g";
   };
 
-  nativeBuildInputs = [ pkgconfig ];
+  nativeBuildInputs = [ autoreconfHook pkgconfig ];
   buildInputs = [
-    autoconf
-    automake
     libxml2
     libxslt
-    libtool
-    glib
     pango
     pangoxsl
     gtk2
     popt
   ];
 
+  sourceRoot = "source/xmlroff/";
+
+  enableParallelBuilding = true;
+
   configureScript = "./autogen.sh";
 
   configureFlags = [
-    "--disable-pangoxsl"
     "--disable-gp"
   ];
 
-  hardeningDisable = [ "format" ];
-
   preBuild = ''
     substituteInPlace tools/insert-file-as-string.pl --replace "/usr/bin/perl" "${perl}/bin/perl"
-    substituteInPlace Makefile --replace "docs" ""
+    substituteInPlace Makefile --replace "docs" ""  # docs target wants to download from network
   '';
 
-  sourceRoot = "${pname}-${version}/xmlroff/";
+  meta = with stdenv.lib; {
-
+    description = "XSL Formatter";
-  patches = [./xmlroff.patch];
+    homepage = "http://xmlroff.org/";
-
+    platforms = platforms.unix;
-  meta = {
+    license = licenses.bsd3;
-    platforms = stdenv.lib.platforms.unix;
-    license = stdenv.lib.licenses.bsd3;
   };
 }

pkgs/tools/typesetting/xmlroff/xmlroff.patch

@@ -1,11 +0,0 @@
---- xmlroff-0.6.2.orig/libfo/fo-libfo-basic.h
-+++ xmlroff-0.6.2/libfo/fo-libfo-basic.h
-@@ -11,8 +11,7 @@
- #define __FO_LIBFO_BASIC_H__
- 
- #include <stdio.h>
--#include <glib/gtypes.h>
--#include <glib/gerror.h>
-+#include <glib.h>
- 
- G_BEGIN_DECLS

pkgs/top-level/all-packages.nix

@@ -1066,18 +1066,6 @@ in
 
   bchunk = callPackage ../tools/cd-dvd/bchunk { };
 
-  inherit (callPackages ../misc/logging/beats/5.x.nix {
-    # XXX: this is failing with Go 1.12. Error is related to cgo, an
-    # update to this package might fix it.
-    buildGoPackage = buildGo111Package;
-  })
-    filebeat5
-    heartbeat5
-    metricbeat5
-    packetbeat5;
-
-  journalbeat5 = callPackage ../tools/system/journalbeat { };
-
   inherit (callPackages ../misc/logging/beats/6.x.nix {
     # XXX: this is failing with Go 1.12. Error is related to cgo, an
     # update to this package might fix it.
@@ -2891,13 +2879,9 @@ in
   evemu = callPackage ../tools/system/evemu { };
 
   # The latest version used by elasticsearch, logstash, kibana and the the beats from elastic.
-  elk5Version = "5.6.16";
   elk6Version = "6.7.2";
   elk7Version = "7.0.1";
 
-  elasticsearch5 = callPackage ../servers/search/elasticsearch/5.x.nix {
-    utillinux = utillinuxMinimal;
-  };
   elasticsearch6 = callPackage ../servers/search/elasticsearch/6.x.nix {
     utillinux = utillinuxMinimal;
   };
@@ -2920,9 +2904,6 @@ in
       elasticsearch = elasticsearch-oss;
     }
   );
-  elasticsearch5Plugins = elasticsearchPlugins.override {
-    elasticsearch = elasticsearch5;
-  };
   elasticsearch6Plugins = elasticsearchPlugins.override {
     elasticsearch = elasticsearch6-oss;
   };
@@ -4215,7 +4196,6 @@ in
 
   keyfuzz = callPackage ../tools/inputmethods/keyfuzz { };
 
-  kibana5 = callPackage ../development/tools/misc/kibana/5.x.nix { };
   kibana6 = callPackage ../development/tools/misc/kibana/6.x.nix { };
   kibana6-oss = callPackage ../development/tools/misc/kibana/6.x.nix {
     enableUnfree = false;
@@ -4317,7 +4297,6 @@ in
 
   lockfileProgs = callPackage ../tools/misc/lockfile-progs { };
 
-  logstash5 = callPackage ../tools/misc/logstash/5.x.nix { };
   logstash6 = callPackage ../tools/misc/logstash/6.x.nix { };
   logstash6-oss = callPackage ../tools/misc/logstash/6.x.nix {
     enableUnfree = false;
@@ -10502,6 +10481,8 @@ in
 
   clearsilver = callPackage ../development/libraries/clearsilver { };
 
+  clipp  = callPackage ../development/libraries/clipp { };
+
   clipper = callPackage ../development/libraries/clipper { };
 
   cln = callPackage ../development/libraries/cln { };

pkgs/top-level/python-packages.nix

@@ -839,6 +839,8 @@ in {
 
   pure-python-adb-homeassistant = callPackage ../development/python-modules/pure-python-adb-homeassistant { };
 
+  purl = callPackage ../development/python-modules/purl { };
+
   pymystem3 = callPackage ../development/python-modules/pymystem3 { };
 
   pymysql = callPackage ../development/python-modules/pymysql { };