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Merge branch 'master.upstream' into staging.upstream

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This commit is contained in:
William A. Kennington III 2015-08-07 13:40:39 -07:00
commit 4624985561
110 changed files with 18423 additions and 14258 deletions
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10
lib/attrsets.nix
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@ -221,6 +221,16 @@ rec {
isDerivation = x: isAttrs x && x ? type && x.type == "derivation";
/* Convert a store path to a fake derivation. */
toDerivation = path:
let path' = builtins.storePath path; in
{ type = "derivation";
name = builtins.unsafeDiscardStringContext (builtins.substring 33 (-1) (baseNameOf path'));
outPath = path';
outputs = [ "out" ];
};
/* If the Boolean `cond' is true, return the attribute set `as',
otherwise an empty attribute set. */
optionalAttrs = cond: as: if cond then as else {};

1
lib/maintainers.nix
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@ -151,6 +151,7 @@
madjar = "Georges Dubus <georges.dubus@compiletoi.net>";
magnetophon = "Bart Brouns <bart@magnetophon.nl>";
mahe = "Matthias Herrmann <matthias.mh.herrmann@gmail.com>";
makefu = "Felix Richter <makefu@syntax-fehler.de>";
malyn = "Michael Alyn Miller <malyn@strangeGizmo.com>";
manveru = "Michael Fellinger <m.fellinger@gmail.com>";
marcweber = "Marc Weber <marco-oweber@gmx.de>";

5
lib/strings.nix
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@ -218,4 +218,9 @@ rec {
# Format a number adding leading zeroes up to fixed width.
fixedWidthNumber = width: n: fixedWidthString width "0" (toString n);
# Check whether a value is a store path.
isStorePath = x: builtins.substring 0 1 (toString x) == "/" && dirOf (builtins.toPath x) == builtins.storeDir;
}

8
lib/types.nix
View File

@ -94,14 +94,16 @@ rec {
# derivation is a reserved keyword.
package = mkOptionType {
name = "derivation";
check = isDerivation;
merge = mergeOneOption;
check = x: isDerivation x || isStorePath x;
merge = loc: defs:
let res = mergeOneOption loc defs;
in if isDerivation res then res else toDerivation res;
};
path = mkOptionType {
name = "path";
# Hacky: there is no ‘isPath’ primop.
check = x: builtins.unsafeDiscardStringContext (builtins.substring 0 1 (toString x)) == "/";
check = x: builtins.substring 0 1 (toString x) == "/";
merge = mergeOneOption;
};

11
nixos/doc/manual/development/option-declarations.xml
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@ -106,6 +106,15 @@ options = {
</listitem>
</varlistentry>
<varlistentry>
<term><varname>types.package</varname></term>
<listitem>
<para>A derivation (such as <literal>pkgs.hello</literal>) or a
store path (such as
<filename>/nix/store/1ifi1cfbfs5iajmvwgrbmrnrw3a147h9-hello-2.10</filename>).</para>
</listitem>
</varlistentry>
<varlistentry>
<term><varname>types.listOf</varname> <replaceable>t</replaceable></term>
<listitem>
@ -138,4 +147,4 @@ You can also create new types using the function
<varname>mkOptionType</varname>. See
<filename>lib/types.nix</filename> in Nixpkgs for details.</para>
</section>
</section>

81
nixos/modules/installer/tools/auto-upgrade.nix Normal file
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@ -0,0 +1,81 @@
{ config, lib, pkgs, ... }:
with lib;
let cfg = config.system.autoUpgrade; in
{
options = {
system.autoUpgrade = {
enable = mkOption {
type = types.bool;
default = false;
description = ''
Whether to periodically upgrade NixOS to the latest
version. If enabled, a systemd timer will run
<literal>nixos-rebuild switch --upgrade</literal> once a
day.
'';
};
channel = mkOption {
type = types.nullOr types.str;
default = null;
example = https://nixos.org/channels/nixos-14.12-small;
description = ''
The URI of the NixOS channel to use for automatic
upgrades. By default, this is the channel set using
<command>nix-channel</command> (run <literal>nix-channel
--list</literal> to see the current value).
'';
};
flags = mkOption {
type = types.listOf types.str;
default = [];
example = [ "-I" "stuff=/home/alice/nixos-stuff" "--option" "extra-binary-caches" "http://my-cache.example.org/" ];
description = ''
Any additional flags passed to <command>nixos-rebuild</command>.
'';
};
};
};
config = {
system.autoUpgrade.flags =
[ "--no-build-output" ]
++ (if cfg.channel == null
then [ "--upgrade" ]
else [ "-I" "nixpkgs=${cfg.channel}/nixexprs.tar.xz" ]);
systemd.services.nixos-upgrade = {
description = "NixOS Upgrade";
restartIfChanged = false;
unitConfig.X-StopOnRemoval = false;
serviceConfig.Type = "oneshot";
environment = config.nix.envVars //
{ inherit (config.environment.sessionVariables) NIX_PATH SSL_CERT_FILE;
HOME = "/root";
};
path = [ pkgs.gnutar pkgs.xz config.nix.package ];
script = ''
${config.system.build.nixos-rebuild}/bin/nixos-rebuild test ${toString cfg.flags}
'';
startAt = mkIf cfg.enable "04:40";
};
};
}

4
nixos/modules/installer/tools/tools.nix
View File

@ -57,7 +57,9 @@ let
in
{
config = {
environment.systemPackages =
[ nixos-build-vms
nixos-install
@ -70,5 +72,7 @@ in
system.build = {
inherit nixos-install nixos-generate-config nixos-option nixos-rebuild;
};
};
}

1
nixos/modules/module-list.nix
View File

@ -41,6 +41,7 @@
./hardware/video/bumblebee.nix
./hardware/video/nvidia.nix
./hardware/video/ati.nix
./installer/tools/auto-upgrade.nix
./installer/tools/nixos-checkout.nix
./installer/tools/tools.nix
./misc/assertions.nix

4
nixos/modules/profiles/minimal.nix
View File

@ -7,6 +7,8 @@ with lib;
{
environment.noXlibs = mkDefault true;
i18n.supportedLocales = [ config.i18n.defaultLocale ];
# This isn't perfect, but let's expect the user specifies an UTF-8 defaultLocale
i18n.supportedLocales = [ (config.i18n.defaultLocale + "/UTF-8") ];
services.nixosManual.enable = mkDefault false;
}

10
nixos/modules/services/networking/kippo.nix
View File

@ -86,8 +86,7 @@ rec {
wantedBy = [ "multi-user.target" ];
environment.PYTHONPATH = "${pkgs.kippo}/src/:${pkgs.pythonPackages.pycrypto}/lib/python2.7/site-packages/:${pkgs.pythonPackages.pyasn1}/lib/python2.7/site-packages/:${pkgs.pythonPackages.python}/lib/python2.7/site-packages/:${pkgs.pythonPackages.twisted}/lib/python2.7/site-packages/:.";
preStart = ''
if [ ! -d ${cfg.varPath}/ ] ; then
mkdir -p ${cfg.pidPath}
if [ ! -d ${cfg.varPath}/ ] ; then
mkdir -p ${cfg.logPath}/tty
mkdir -p ${cfg.logPath}/dl
mkdir -p ${cfg.varPath}/keys
@ -97,12 +96,15 @@ rec {
cp ${pkgs.kippo}/src/txtcmds ${cfg.varPath} -r
chmod u+rw ${cfg.varPath} -R
chmod u+rw ${cfg.pidPath}
chown kippo.kippo ${cfg.varPath} -R
chown kippo.kippo ${cfg.pidPath}
chown kippo.kippo ${cfg.logPath} -R
chmod u+rw ${cfg.logPath} -R
fi
if [ ! -d ${cfg.pidPath}/ ] ; then
mkdir -p ${cfg.pidPath}
chmod u+rw ${cfg.pidPath}
chown kippo.kippo ${cfg.pidPath}
fi
'';
serviceConfig.ExecStart = "${pkgs.pythonPackages.twisted}/bin/twistd -y ${pkgs.kippo}/src/kippo.tac --syslog --rundir=${cfg.varPath}/ --pidfile=${cfg.pidPath}/kippo.pid --prefix=kippo -n";

5
nixos/modules/system/activation/switch-to-configuration.pl
View File

@ -97,7 +97,7 @@ sub parseFstab {
sub parseUnit {
my ($filename) = @_;
my $info = {};
parseKeyValues($info, read_file($filename));
parseKeyValues($info, read_file($filename)) if -f $filename;
parseKeyValues($info, read_file("${filename}.d/overrides.conf")) if -f "${filename}.d/overrides.conf";
return $info;
}
@ -157,7 +157,8 @@ while (my ($unit, $state) = each %{$activePrev}) {
if (-e $prevUnitFile && ($state->{state} eq "active" || $state->{state} eq "activating")) {
if (! -e $newUnitFile || abs_path($newUnitFile) eq "/dev/null") {
$unitsToStop{$unit} = 1;
my $unitInfo = parseUnit($prevUnitFile);
$unitsToStop{$unit} = 1 if boolIsTrue($unitInfo->{'X-StopOnRemoval'} // "yes");
}
elsif ($unit =~ /\.target$/) {

47
pkgs/applications/audio/fmit/default.nix
View File

@ -1,32 +1,61 @@
{ stdenv, fetchFromGitHub, alsaLib, cmake, fftw
, freeglut, libjack2, libXmu, qt4 }:
# FIXME: upgrading qt5Full (Qt 5.3) to qt5.{base,multimedia} (Qt 5.4) breaks
# the default Qt audio capture source!
{ stdenv, fetchFromGitHub, fftw, freeglut, qt5Full
, alsaSupport ? false, alsaLib ? null
, jackSupport ? false, libjack2 ? null }:
let version = "1.0.0"; in
assert alsaSupport -> alsaLib != null;
assert jackSupport -> libjack2 != null;
let version = "1.0.5"; in
stdenv.mkDerivation {
name = "fmit-${version}";
src = fetchFromGitHub {
sha256 = "13y9csv34flz7065kg69h99hd7d9zskq12inmkf34l4qjyk7c185";
sha256 = "1p49ykg7mf62xrn08fqss8yr1nf53mm8w9zp2sgcy48bfsa9xbpy";
rev = "v${version}";
repo = "fmit";
owner = "gillesdegottex";
};
buildInputs = [ alsaLib fftw freeglut libjack2 libXmu qt4 ];
nativeBuildInputs = [ cmake ];
buildInputs = [ fftw freeglut qt5Full ]
++ stdenv.lib.optional alsaSupport [ alsaLib ]
++ stdenv.lib.optional jackSupport [ libjack2 ];
postPatch = ''
substituteInPlace fmit.pro --replace '$$FMITVERSIONGITPRO' '${version}'
substituteInPlace distrib/fmit.desktop \
--replace "Icon=fmit" "Icon=$out/share/pixmaps/fmit.svg"
substituteInPlace src/main.cpp --replace "PREFIX" "\"$out\""
'';
configurePhase = ''
qmake \
CONFIG+=${stdenv.lib.optionalString alsaSupport "acs_alsa"} \
CONFIG+=${stdenv.lib.optionalString jackSupport "acs_jack"} \
fmit.pro
'';
enableParallelBuilding = true;
installPhase = ''
install -D fmit $out/bin/fmit
install -Dm644 distrib/fmit.desktop $out/share/applications/fmit.desktop
install -Dm644 ui/images/fmit.svg $out/share/pixmaps/fmit.svg
mkdir -p $out/share/fmit
cp -R tr $out/share/fmit
'';
meta = with stdenv.lib; {
inherit version;
description = "Free Musical Instrument Tuner";
longDescription = ''
FMIT is a graphical utility for tuning your musical instruments, with
error and volume history and advanced features.
FMIT is a graphical utility for tuning musical instruments, with error
and volume history, and advanced features.
'';
homepage = http://gillesdegottex.github.io/fmit/;
license = licenses.gpl3Plus;
platforms = with platforms; linux;
platforms = platforms.linux;
maintainers = with maintainers; [ nckx ];
};
}

4
pkgs/applications/audio/pamixer/default.nix
View File

@ -3,11 +3,11 @@
stdenv.mkDerivation rec {
name = "pamixer-${version}";
version = "1.2.1";
version = "1.3";
src = fetchurl {
url = "https://github.com/cdemoulins/pamixer/archive/${version}.tar.gz";
sha256 = "1ad6b46hh02hs1978pgihrm2bnq4z2v0imrfm3wy74xdkr6xjxy4";
sha256 = "091676ww4jbf4jr728gjfk7fkd5nisy70mr6f3s1p7n05hjpmfjx";
};
buildInputs = [ boost libpulseaudio ];

19
pkgs/applications/editors/emacs-modes/haskell/default.nix
View File

@ -1,19 +1,21 @@
{ stdenv, fetchurl, emacs, texinfo }:
{ stdenv, fetchFromGitHub, emacs, texinfo }:
let
version = "13.10";
version = "13.14-130-ga03bd9b"; # git describe --tags
in
stdenv.mkDerivation {
name = "haskell-mode-${version}";
src = fetchurl {
url = "https://github.com/haskell/haskell-mode/archive/v${version}.tar.gz";
sha256 = "0hcg7wpalcdw8j36m8vd854zrrgym074r7m903rpwfrhx9mlg02b";
src = fetchFromGitHub {
owner = "haskell";
repo = "haskell-mode";
rev = "v${version}";
sha256 = "0k4jfixzsvwpsz37f2pvbr9slz8fpcd9nwddcv2bvi4x20jp11ma";
};
buildInputs = [ emacs texinfo ];
makeFlags = "VERSION=${version} GIT_VERSION=${version}";
makeFlags = "VERSION=v${version} GIT_VERSION=v${version}";
installPhase = ''
mkdir -p $out/share/emacs/site-lisp
@ -22,6 +24,11 @@ stdenv.mkDerivation {
cp -v *.info* $out/share/info/
'';
# The test suite must run *after* copying the generated files to $out
# because "make check" implies "make clean".
doInstallCheck = true;
installCheckTarget = "check";
meta = {
homepage = "http://github.com/haskell/haskell-mode";
description = "Haskell mode for Emacs";

39
pkgs/applications/editors/emacs-modes/haskell/git.nix
View File

@ -1,39 +0,0 @@
{ stdenv, fetchFromGitHub, emacs, texinfo }:
let
version = "13.10-361-gfa09425"; # git describe --tags
in
stdenv.mkDerivation {
name = "haskell-mode-${version}";
src = fetchFromGitHub {
owner = "haskell";
repo = "haskell-mode";
rev = "v${version}";
sha256 = "1bq4gddzwjy2w1hbsmwxcamcy87amz7ksy1vmpwg0qij88fk4av9";
};
buildInputs = [ emacs texinfo ];
makeFlags = "VERSION=v${version} GIT_VERSION=v${version}";
installPhase = ''
mkdir -p $out/share/emacs/site-lisp
cp *.el *.elc *.hs $out/share/emacs/site-lisp/
mkdir -p $out/share/info
cp -v *.info* $out/share/info/
'';
# The test suite must run *after* copying the generated files to $out
# because "make check" implies "make clean".
doInstallCheck = true;
installCheckTarget = "check";
meta = {
homepage = "http://github.com/haskell/haskell-mode";
description = "Haskell mode for Emacs";
platforms = stdenv.lib.platforms.unix;
maintainers = [ stdenv.lib.maintainers.simons ];
};
}

7
pkgs/applications/editors/emacs-modes/nyan-mode/default.nix
View File

@ -1,4 +1,4 @@
{trivialBuild, lib, fetchFromGitHub}:
{lib, trivialBuild, fetchFromGitHub}:
trivialBuild rec {
pname = "nyan-mode";
@ -23,9 +23,8 @@ trivialBuild rec {
cp -r mus $out
'';
meta = with lib; {
meta = {
description = "An analog indicator of the position in the buffer";
homepage = https://github.com/TeMPOraL/nyan-mode/;
license = licenses.gpl3Plus;
license = lib.licenses.gpl3Plus;
};
}

4
pkgs/applications/editors/emacs-modes/org/default.nix
View File

@ -2,11 +2,11 @@
, texLiveAggregationFun }:
stdenv.mkDerivation rec {
name = "org-8.3";
name = "org-8.3.1";
src = fetchurl {
url = "http://orgmode.org/${name}.tar.gz";
sha256 = "0yqbl232hfppljz545jbjawwaw7qjdjsq97c0wf0cbkghgpln3wy";
sha256 = "0cn3k02b2dhp489rrlaz4g91h0ph99a7721gm8x7axicqhpv04rx";
};
buildInputs = [ emacs ];

6
pkgs/applications/gis/qgis/default.nix
View File

@ -1,12 +1,12 @@
{ stdenv, fetchurl, gdal, cmake, qt4, flex, bison, proj, geos, x11, sqlite, gsl,
pyqt4, qwt, fcgi, pythonPackages, libspatialindex, libspatialite, qscintilla, postgresql, makeWrapper }:
qwt, fcgi, pythonPackages, libspatialindex, libspatialite, qscintilla, postgresql, makeWrapper }:
stdenv.mkDerivation rec {
name = "qgis-2.10.1";
buildInputs = [ gdal qt4 flex bison proj geos x11 sqlite gsl pyqt4 qwt qscintilla
buildInputs = [ gdal qt4 flex bison proj geos x11 sqlite gsl qwt qscintilla
fcgi libspatialindex libspatialite postgresql ] ++
(with pythonPackages; [ numpy psycopg2 ]);
(with pythonPackages; [ numpy psycopg2 ]) ++ [ pythonPackages.qscintilla ];
nativeBuildInputs = [ cmake makeWrapper ];

9
pkgs/applications/graphics/openscad/default.nix
View File

@ -1,23 +1,22 @@
{ stdenv, fetchurl, qt4, bison, flex, eigen, boost, mesa, glew, opencsg, cgal
, mpfr, gmp, glib, pkgconfig
, mpfr, gmp, glib, pkgconfig, harfbuzz, qscintilla, gettext
}:
stdenv.mkDerivation rec {
version = "2014.03";
version = "2015.03-1";
name = "openscad-${version}";
src = fetchurl {
url = "http://files.openscad.org/${name}.src.tar.gz";
sha256 = "1hv1lmq1ayhlvrz5sqipg650xryq25a9k22ysdw0dsrwg9ixqpw6";
sha256 = "61e0dd3cd107e5670d727526700104cca5ac54a1f0a84117fcc9e57bf3b6b279";
};
buildInputs = [
qt4 bison flex eigen boost mesa glew opencsg cgal mpfr gmp glib
pkgconfig
pkgconfig harfbuzz qscintilla gettext
];
configurePhase = ''
export NIX_CFLAGS_COMPILE="$NIX_CFLAGS_COMPILE -I$(echo ${eigen}/include/eigen*) "
qmake PREFIX="$out" VERSION=${version}
'';

6
pkgs/applications/misc/rofi/pass.nix
View File

@ -2,12 +2,12 @@
stdenv.mkDerivation rec {
name = "rofi-pass-${version}";
version = "2015-06-08";
version = "1.0";
src = fetchgit {
url = "https://github.com/carnager/rofi-pass";
rev = "7e376b5ec64974c4e8478acf3ada8d111896f391";
sha256 = "1ywsxdgy5m63a2f5vd7np2f1qffz7y95z7s1gq5d87s8xd8myadl";
rev = "refs/tags/${version}";
sha256 = "16k7bj5mf5alfks8mylp549q3lmpbxjsrsgyj7gibdmhjz768jz3";
};
buildInputs = [ rofi wmctrl xprop xdotool ];

4
pkgs/applications/misc/rtv/default.nix
View File

@ -1,14 +1,14 @@
{ stdenv, fetchFromGitHub, pkgs, python, pythonPackages }:
pythonPackages.buildPythonPackage rec {
version = "1.4";
version = "1.4.2";
name = "rtv-${version}";
src = fetchFromGitHub {
owner = "michael-lazar";
repo = "rtv";
rev = "v${version}";
sha256 = "071p7idprknpra6mrdjjka8lrr80ykag62rhbsaf6zcz1d9p55cp";
sha256 = "103ahwaaghxpih5bkbzqyqgxqmx6kc859vjla8fy8scg21cijghh";
};
propagatedBuildInputs = with pythonPackages; [

2
pkgs/applications/networking/browsers/chromium/default.nix
View File

@ -41,7 +41,7 @@ let
desktopItem = makeDesktopItem {
name = "chromium";
exec = "chromium";
exec = "chromium %U";
icon = "${chromium.browser}/share/icons/hicolor/48x48/apps/chromium.png";
comment = "An open source web browser from Google";
desktopName = "Chromium";

6
pkgs/applications/networking/browsers/chromium/source/default.nix
View File

@ -17,8 +17,6 @@ let
"s,^/,,"
]);
pre44 = versionOlder version "44.0.0.0";
in stdenv.mkDerivation {
name = "chromium-source-${version}";
@ -46,9 +44,7 @@ in stdenv.mkDerivation {
done
'';
patches = if pre44
then singleton ./nix_plugin_paths_42.patch
else singleton ./nix_plugin_paths_44.patch;
patches = singleton ./nix_plugin_paths_44.patch;
patchPhase = let
diffmod = sym: "/^${sym} /{s/^${sym} //;${transform ""};s/^/${sym} /}";

93
pkgs/applications/networking/browsers/chromium/source/nix_plugin_paths_42.patch
View File

@ -1,93 +0,0 @@
diff --git a/chrome/common/chrome_paths.cc b/chrome/common/chrome_paths.cc
index 8a205a6..d5c24e1 100644
--- a/chrome/common/chrome_paths.cc
+++ b/chrome/common/chrome_paths.cc
@@ -97,21 +97,14 @@ static base::LazyInstance<base::FilePath>
g_invalid_specified_user_data_dir = LAZY_INSTANCE_INITIALIZER;
// Gets the path for internal plugins.
-bool GetInternalPluginsDirectory(base::FilePath* result) {
-#if defined(OS_MACOSX) && !defined(OS_IOS)
- // If called from Chrome, get internal plugins from a subdirectory of the
- // framework.
- if (base::mac::AmIBundled()) {
- *result = chrome::GetFrameworkBundlePath();
- DCHECK(!result->empty());
- *result = result->Append("Internet Plug-Ins");
- return true;
- }
- // In tests, just look in the module directory (below).
-#endif
-
- // The rest of the world expects plugins in the module directory.
- return PathService::Get(base::DIR_MODULE, result);
+bool GetInternalPluginsDirectory(base::FilePath* result,
+ const std::string& ident) {
+ std::string full_env = std::string("NIX_CHROMIUM_PLUGIN_PATH_") + ident;
+ const char* value = getenv(full_env.c_str());
+ if (value == NULL)
+ return PathService::Get(base::DIR_MODULE, result);
+ else
+ *result = base::FilePath(value);
}
} // namespace
@@ -248,11 +241,11 @@ bool PathProvider(int key, base::FilePath* result) {
create_dir = true;
break;
case chrome::DIR_INTERNAL_PLUGINS:
- if (!GetInternalPluginsDirectory(&cur))
+ if (!GetInternalPluginsDirectory(&cur, "ALL"))
return false;
break;
case chrome::DIR_PEPPER_FLASH_PLUGIN:
- if (!GetInternalPluginsDirectory(&cur))
+ if (!GetInternalPluginsDirectory(&cur, "PEPPERFLASH"))
return false;
cur = cur.Append(kPepperFlashBaseDirectory);
break;
@@ -285,7 +278,7 @@ bool PathProvider(int key, base::FilePath* result) {
cur = cur.Append(FILE_PATH_LITERAL("script.log"));
break;
case chrome::FILE_FLASH_PLUGIN:
- if (!GetInternalPluginsDirectory(&cur))
+ if (!GetInternalPluginsDirectory(&cur, "FILEFLASH"))
return false;
cur = cur.Append(kInternalFlashPluginFileName);
break;
@@ -295,7 +288,7 @@ bool PathProvider(int key, base::FilePath* result) {
cur = cur.Append(chrome::kPepperFlashPluginFilename);
break;
case chrome::FILE_EFFECTS_PLUGIN:
- if (!GetInternalPluginsDirectory(&cur))
+ if (!GetInternalPluginsDirectory(&cur, "FILE_EFFECTS"))
return false;
cur = cur.Append(kEffectsPluginFileName);
break;
@@ -308,7 +301,7 @@ bool PathProvider(int key, base::FilePath* result) {
// We currently need a path here to look up whether the plugin is disabled
// and what its permissions are.
case chrome::FILE_NACL_PLUGIN:
- if (!GetInternalPluginsDirectory(&cur))
+ if (!GetInternalPluginsDirectory(&cur, "NACL"))
return false;
cur = cur.Append(kInternalNaClPluginFileName);
break;
@@ -343,7 +336,7 @@ bool PathProvider(int key, base::FilePath* result) {
cur = cur.DirName();
}
#else
- if (!GetInternalPluginsDirectory(&cur))
+ if (!GetInternalPluginsDirectory(&cur, "PNACL"))
return false;
#endif
cur = cur.Append(FILE_PATH_LITERAL("pnacl"));
@@ -372,7 +365,7 @@ bool PathProvider(int key, base::FilePath* result) {
// In the component case, this is the source adapter. Otherwise, it is the
// actual Pepper module that gets loaded.
case chrome::FILE_WIDEVINE_CDM_ADAPTER:
- if (!GetInternalPluginsDirectory(&cur))
+ if (!GetInternalPluginsDirectory(&cur, "WIDEVINE"))
return false;
cur = cur.AppendASCII(kWidevineCdmAdapterFileName);
break;

8
pkgs/applications/networking/browsers/chromium/source/sources.nix
View File

@ -13,9 +13,9 @@
sha256bin64 = "14l8lka8jci1d90vbz5kpl20mk98n1ak4mw667dkz89cch5gal4s";
};
stable = {
version = "44.0.2403.125";
sha256 = "0li483phq72xlg0bpsgfk1rlxrmldk4g45ijx1xmnfs42g38wmkq";
sha256bin32 = "0h5a2wm13bvrq013skp3lq40bzx9519mb9kh8x3n4800lnanbjcb";
sha256bin64 = "1p9gfqpgyihvby4pb3fdn4ibg84fh4gksy18cvyi9zq7cibww2ff";
version = "44.0.2403.130";
sha256 = "055lccfiqdqwcjnx9l9xgzcilm2m341rg66nfnnadqa490prnxrp";
sha256bin32 = "0yzjhqyw2aaiwfv395c75avizcg28f3bn9zkqk2p3ifcv231w15v";
sha256bin64 = "1dzwlrdvnqyz6rpcl3pavpvqsx6la1d04cvgca3iaanq5xcana8b";
};
}

37
pkgs/applications/networking/browsers/chromium/update.sh
View File

@ -11,22 +11,6 @@ source "$(nix-build --no-out-link "$base_path/update.nix" -A updateHelpers)";
ver_sha_table=""; # list of version:sha256
sha_lookup()
{
version="$1";
for ver_sha in $ver_sha_table;
do
if [ "x${ver_sha%:*}" = "x$version" ];
then
echo "${ver_sha##*:}";
return 0;
fi;
done;
return 1;
}
sha_insert()
{
version="$1";
@ -72,22 +56,15 @@ get_channel_exprs()
channel="${chline%%,*}";
version="${chline##*,}";
echo -n "Checking if sha256 of version $version is cached..." >&2;
if sha256="$(sha_lookup "$version")";
sha256="$(get_sha256 "$channel" "$version")";
if [ $? -ne 0 ];
then
echo " yes: $sha256" >&2;
else
echo " no." >&2;
sha256="$(get_sha256 "$channel" "$version")";
if [ $? -ne 0 ];
then
echo "Whoops, failed to fetch $version, trying previous" \
"versions:" >&2;
echo "Whoops, failed to fetch $version, trying previous" \
"versions:" >&2;
sha_ver="$(get_prev_sha256 "$channel" "$version")";
sha256="${sha_ver%:*}";
version="${sha_ver#*:}";
fi;
sha_ver="$(get_prev_sha256 "$channel" "$version")";
sha256="${sha_ver%:*}";
version="${sha_ver#*:}";
fi;
sha_insert "$version" "$sha256";

358
pkgs/applications/networking/browsers/firefox-bin/sources.nix
View File

@ -4,185 +4,185 @@
# ruby generate_source.rb > source.nix
{
version = "39.0";
version = "39.0.3";
sources = [
{ locale = "ach"; arch = "linux-i686"; sha1 = "802ac533ba95ecfb4780f84d52698a2cc2d7ac82"; }
{ locale = "ach"; arch = "linux-x86_64"; sha1 = "3c000ef496165cb4e0e104d72a381040a3bc6787"; }
{ locale = "af"; arch = "linux-i686"; sha1 = "6fa249f63fe690f3459f4b0112f4945a502a79eb"; }
{ locale = "af"; arch = "linux-x86_64"; sha1 = "f22b92d0fb0ed21f0e6a3a47c5f2fe873b3bfb56"; }
{ locale = "an"; arch = "linux-i686"; sha1 = "650c772ef89bc5ef6efe5129ddf8feaf993c8f1d"; }
{ locale = "an"; arch = "linux-x86_64"; sha1 = "e722d65e3b9b706e6b9214ae79543130ad6dba95"; }
{ locale = "ar"; arch = "linux-i686"; sha1 = "8ff6fbc92e5b9cedfa17eda240fc89f14eb68f73"; }
{ locale = "ar"; arch = "linux-x86_64"; sha1 = "a1e94f56148a554e522cd317d0f2384073020278"; }
{ locale = "as"; arch = "linux-i686"; sha1 = "c6815876c23117a462d79eb5da291610c1d96feb"; }
{ locale = "as"; arch = "linux-x86_64"; sha1 = "629997b112da84852a01606f7fa4f15448c0ebb3"; }
{ locale = "ast"; arch = "linux-i686"; sha1 = "acda6aefe872e4982d0e8f3ac337d4243bb5e00f"; }
{ locale = "ast"; arch = "linux-x86_64"; sha1 = "181d998305bb75ea5e99bb1b4b5059b54a724ab9"; }
{ locale = "az"; arch = "linux-i686"; sha1 = "230ebfaf61efac65c9daae983ec2fd854a9c1dac"; }
{ locale = "az"; arch = "linux-x86_64"; sha1 = "a8ddb38542bce008924e4b593691ae84a839e564"; }
{ locale = "be"; arch = "linux-i686"; sha1 = "47a242cd2c91cd7435c8c959d5eaa8595710f6aa"; }
{ locale = "be"; arch = "linux-x86_64"; sha1 = "db62ad921f9df2683522db1968db9b79edfbadf2"; }
{ locale = "bg"; arch = "linux-i686"; sha1 = "c2fddb3667c5bb50fee3011cfb782b2dff7f4063"; }
{ locale = "bg"; arch = "linux-x86_64"; sha1 = "1b891a9df513e9f099f68fe2f0429b00bd12505b"; }
{ locale = "bn-BD"; arch = "linux-i686"; sha1 = "0ad965be5c9ce5468e65667dcb0390a9afabd7b0"; }
{ locale = "bn-BD"; arch = "linux-x86_64"; sha1 = "301b659d5689de81ca60f7092176efaf48a50a18"; }
{ locale = "bn-IN"; arch = "linux-i686"; sha1 = "df99d9e80ebda8c146724f893ae2de77cf2518ab"; }
{ locale = "bn-IN"; arch = "linux-x86_64"; sha1 = "4b4cc8e588a518af8a922d32163249af115fac42"; }
{ locale = "br"; arch = "linux-i686"; sha1 = "39976bf6a0c7bdfc1832a6f2c48e92324f4a6727"; }
{ locale = "br"; arch = "linux-x86_64"; sha1 = "ea66a36ea70486f39c7cf7abbf637d37c04d32ef"; }
{ locale = "bs"; arch = "linux-i686"; sha1 = "71eeeccd5bf5757d6ec4f9e1442c4fcfbf312d79"; }
{ locale = "bs"; arch = "linux-x86_64"; sha1 = "10911d28d56d4083aea7eb2174d0d7dd78772215"; }
{ locale = "ca"; arch = "linux-i686"; sha1 = "434532ff2cca7a0401a7aed8753d1c5578e98c1a"; }
{ locale = "ca"; arch = "linux-x86_64"; sha1 = "2a6aaed334856d06ce8c426282f3345d9bcaa435"; }
{ locale = "cs"; arch = "linux-i686"; sha1 = "e2445b13ab680f5dfd5d67e4e796170fbd6bd120"; }
{ locale = "cs"; arch = "linux-x86_64"; sha1 = "ef1df48bd465a3b05d1046bf4627c1ae4f60ee06"; }
{ locale = "cy"; arch = "linux-i686"; sha1 = "f95974e478e2d0fec7400424a33202e1e2b1e5b9"; }
{ locale = "cy"; arch = "linux-x86_64"; sha1 = "c521abab2bffe24863c087f02d57ffafae47def7"; }
{ locale = "da"; arch = "linux-i686"; sha1 = "f11b050caae304029ccf23ce2906fe18115adbc8"; }
{ locale = "da"; arch = "linux-x86_64"; sha1 = "800e0f3b649c9a03d4e9cd2a4ccd8f14bbb5ed95"; }
{ locale = "de"; arch = "linux-i686"; sha1 = "b9502be9396e00b69946f0094c5939a8a57da64b"; }
{ locale = "de"; arch = "linux-x86_64"; sha1 = "84fab2779bc055821afdb5d7ff45e3ffe95e2858"; }
{ locale = "dsb"; arch = "linux-i686"; sha1 = "5eee946bc2182990b310ed57fbf527e82f93bc8b"; }
{ locale = "dsb"; arch = "linux-x86_64"; sha1 = "8b3219b071e836ecc4966e153ec0adb4e691de89"; }
{ locale = "el"; arch = "linux-i686"; sha1 = "9759c69061d6419edb949c55f7e797302b477c78"; }
{ locale = "el"; arch = "linux-x86_64"; sha1 = "db5025d393a763c7cd4ed447d61b640ee77e7e79"; }
{ locale = "en-GB"; arch = "linux-i686"; sha1 = "4fdc423d6d15bd6a14030a526ad7017fd5bdf937"; }
{ locale = "en-GB"; arch = "linux-x86_64"; sha1 = "0d8637f1ca6acfe494f963c936d8510c6c11f8bf"; }
{ locale = "en-US"; arch = "linux-i686"; sha1 = "e05722e42ea1d844d8fe40672026cacb19575ccf"; }
{ locale = "en-US"; arch = "linux-x86_64"; sha1 = "8143b339d0ceedaf797b49ca4b54bcc0c91925e3"; }
{ locale = "en-ZA"; arch = "linux-i686"; sha1 = "fac507eebec642fd50f248ac184dbde4538ad0bb"; }
{ locale = "en-ZA"; arch = "linux-x86_64"; sha1 = "2670a80c7ca5d5390df9fcee907afbe7a01f9f37"; }
{ locale = "eo"; arch = "linux-i686"; sha1 = "a134117ddd446b63f325a38f818a80921adb5b2f"; }
{ locale = "eo"; arch = "linux-x86_64"; sha1 = "5b073a912221e8e734ba17ecfe735d820f5febf3"; }
{ locale = "es-AR"; arch = "linux-i686"; sha1 = "0e518d9fe0644a6ada9463ae14fa67c2c49bfd5f"; }
{ locale = "es-AR"; arch = "linux-x86_64"; sha1 = "fa33935aa4abb696ea9a399cff0c1dc29beffab0"; }
{ locale = "es-CL"; arch = "linux-i686"; sha1 = "3c7df32ed5d2570e62e35dcb9f9d91588d7584d2"; }
{ locale = "es-CL"; arch = "linux-x86_64"; sha1 = "ced3821f7e334b2f0d5b5115cc04cbaf5bcdbe15"; }
{ locale = "es-ES"; arch = "linux-i686"; sha1 = "6af75a3e116162591dd6a15c8903ee5182afe03b"; }
{ locale = "es-ES"; arch = "linux-x86_64"; sha1 = "fa1ddbc5a3d9bd7c9cc424fe6c5e94c87d51eab2"; }
{ locale = "es-MX"; arch = "linux-i686"; sha1 = "8110bdf4c8657e88f71b8a6bec1ca92f2eac0538"; }
{ locale = "es-MX"; arch = "linux-x86_64"; sha1 = "30df4777fde7eba8724fab002cb7387203eeb82e"; }
{ locale = "et"; arch = "linux-i686"; sha1 = "2f16472e5cd030a14e3cfa761a32c0ef5ffd395e"; }
{ locale = "et"; arch = "linux-x86_64"; sha1 = "19a96b008a49e7a223ea2463edab7cda504e2ba5"; }
{ locale = "eu"; arch = "linux-i686"; sha1 = "786db5ad8d92324d3086f7b2b8da71767829a8f2"; }
{ locale = "eu"; arch = "linux-x86_64"; sha1 = "31273f797cb90615032611d2d86cac8cf6d28994"; }
{ locale = "fa"; arch = "linux-i686"; sha1 = "e2980430f1cd25edb401862b83fb49f2d730ff5e"; }
{ locale = "fa"; arch = "linux-x86_64"; sha1 = "dae850824c3eaaa31fec4aad19e38e2073d96f10"; }
{ locale = "ff"; arch = "linux-i686"; sha1 = "f865672eaa7815f3bb527baf3946c62c01c76dbb"; }
{ locale = "ff"; arch = "linux-x86_64"; sha1 = "aa207b51d24ca275b0cbd5ba4cd93ce16a6bd28a"; }
{ locale = "fi"; arch = "linux-i686"; sha1 = "30ef856ecdadeba171977859324f010d441a51e9"; }
{ locale = "fi"; arch = "linux-x86_64"; sha1 = "3ebbabc2346eeac01aaf88e91fd1fd55538c0770"; }
{ locale = "fr"; arch = "linux-i686"; sha1 = "4dd376ccc6811d46be052fcf1aab82e50a3e0999"; }
{ locale = "fr"; arch = "linux-x86_64"; sha1 = "f6409e276b400ecaa689d92fe5387662d1b5f2ab"; }
{ locale = "fy-NL"; arch = "linux-i686"; sha1 = "751cd1092a58a8b6cde5d9e80790715d249ac11b"; }
{ locale = "fy-NL"; arch = "linux-x86_64"; sha1 = "3cc75c55220f81b0291c16d2f237cb6a2d2609f0"; }
{ locale = "ga-IE"; arch = "linux-i686"; sha1 = "2bfa436c566a4e2f0fe7847feccf3c157e026d4b"; }
{ locale = "ga-IE"; arch = "linux-x86_64"; sha1 = "0b2ce0b246e107d99b13e497c64ad169e85eec51"; }
{ locale = "gd"; arch = "linux-i686"; sha1 = "3afc8ad8747bfcbc5a7e6f2e6de37cbefb3967e7"; }
{ locale = "gd"; arch = "linux-x86_64"; sha1 = "5bec8bcc0a67f304485b1efa7be5d952ce7985ce"; }
{ locale = "gl"; arch = "linux-i686"; sha1 = "8fa3dfdc0d2da19f6c98dc76363c9e0d9d10f978"; }
{ locale = "gl"; arch = "linux-x86_64"; sha1 = "4345cf5673267fb41c2c38f5fb92a3b0a9208cf0"; }
{ locale = "gu-IN"; arch = "linux-i686"; sha1 = "e57883626a22d3935716417194e78a689c5535c2"; }
{ locale = "gu-IN"; arch = "linux-x86_64"; sha1 = "be6095129ee3f3fc80f6705594a53c6ced996cb2"; }
{ locale = "he"; arch = "linux-i686"; sha1 = "7ca70c0648b2f3928c1dc33288b48f488cf1d19b"; }
{ locale = "he"; arch = "linux-x86_64"; sha1 = "f2eb7c6c33e8b4bc9a03bee587de4fe5b442ac95"; }
{ locale = "hi-IN"; arch = "linux-i686"; sha1 = "32b242a2c6865fdad63ba4de701c566ffb33ef99"; }
{ locale = "hi-IN"; arch = "linux-x86_64"; sha1 = "f83ceece81a71e6fb1494863b2970b2dc384d4c4"; }
{ locale = "hr"; arch = "linux-i686"; sha1 = "77f9c855e5f728dcd3b4ff27ed656aa67217dd35"; }
{ locale = "hr"; arch = "linux-x86_64"; sha1 = "f48bcf72d740f4a34bb7f888d977d4d39c141567"; }
{ locale = "hsb"; arch = "linux-i686"; sha1 = "2db09bd59f3761bfdba8bad565e27e1b42a93727"; }
{ locale = "hsb"; arch = "linux-x86_64"; sha1 = "99e0f119e5e79df5b20f686dd065fee5bda4511f"; }
{ locale = "hu"; arch = "linux-i686"; sha1 = "0d601a679675c517a535bf706e7cbad9882a5d7c"; }
{ locale = "hu"; arch = "linux-x86_64"; sha1 = "dbd3d180342d0946ab857bdd8d6bc30373e991b5"; }
{ locale = "hy-AM"; arch = "linux-i686"; sha1 = "5f3e01cf375af38bee7014ff21fe75daf4e27071"; }
{ locale = "hy-AM"; arch = "linux-x86_64"; sha1 = "a78fbb1cc4e6d10056cc7a3ccecf4750979c5953"; }
{ locale = "id"; arch = "linux-i686"; sha1 = "7efc031614247ddb93a27531d3fa1d19ce21d516"; }
{ locale = "id"; arch = "linux-x86_64"; sha1 = "e409bb73aad373791d83569dfb4a475bc617eac8"; }
{ locale = "is"; arch = "linux-i686"; sha1 = "0e5c4e9173379457b6c8edd1812121fce84cda07"; }
{ locale = "is"; arch = "linux-x86_64"; sha1 = "dc6cbffde61b6188080e458b4a31b634f4c0434c"; }
{ locale = "it"; arch = "linux-i686"; sha1 = "d75318f8421f634eeacf15aaa91a28261324044c"; }
{ locale = "it"; arch = "linux-x86_64"; sha1 = "b024d0e3498c3dd32757997a273d9f1051ccd47f"; }
{ locale = "ja"; arch = "linux-i686"; sha1 = "f74c1c567582a207efb501892845d1c28d7b8751"; }
{ locale = "ja"; arch = "linux-x86_64"; sha1 = "cb4151c0c1c6efa4c8ec5e4656de60b1abd65bac"; }
{ locale = "kk"; arch = "linux-i686"; sha1 = "1e9d43eedb0bab9f428a80ee3c2721a944961562"; }
{ locale = "kk"; arch = "linux-x86_64"; sha1 = "18a55f6ea18663922052411ebaed18c16c9f3050"; }
{ locale = "km"; arch = "linux-i686"; sha1 = "f4f6af5a09072e004e7c8db7a10edc9ab8d474c3"; }
{ locale = "km"; arch = "linux-x86_64"; sha1 = "43694f66fea7caf9b2f4d976564c00a99f7092e7"; }
{ locale = "kn"; arch = "linux-i686"; sha1 = "3a94f8a0cadc729e97bb6a7b273b02d79c9012dd"; }
{ locale = "kn"; arch = "linux-x86_64"; sha1 = "ec51644f69354aebac67f36e387d1a5b45d0dfa8"; }
{ locale = "ko"; arch = "linux-i686"; sha1 = "599de739c08799b8e4082190a53de3ae0dfc6617"; }
{ locale = "ko"; arch = "linux-x86_64"; sha1 = "338825804362d34911beaad146ca6d104bc69788"; }
{ locale = "lij"; arch = "linux-i686"; sha1 = "f2a6112a81043cc9608594cd56680a2e075dfd36"; }
{ locale = "lij"; arch = "linux-x86_64"; sha1 = "8650de76d89abdcba3d0e4bba8c2b90533e54ce6"; }
{ locale = "lt"; arch = "linux-i686"; sha1 = "0ea6e49b51dfd12150334b6023e26419716cdb65"; }
{ locale = "lt"; arch = "linux-x86_64"; sha1 = "a16c9e916462e3780159677528ffa35b9569a80b"; }
{ locale = "lv"; arch = "linux-i686"; sha1 = "0255634959aa739ae6807a1c249e4c78f51f8316"; }
{ locale = "lv"; arch = "linux-x86_64"; sha1 = "ada8dc2d3ea22c2afffac88b581dfc72a27f2f89"; }
{ locale = "mai"; arch = "linux-i686"; sha1 = "fa932b9e6d9798753e7b89b91a5db6565fe2b695"; }
{ locale = "mai"; arch = "linux-x86_64"; sha1 = "8a9252658d549d2cbc764197265275461db605b6"; }
{ locale = "mk"; arch = "linux-i686"; sha1 = "641c882870dfa7fb23bed9c07def585477ff459d"; }
{ locale = "mk"; arch = "linux-x86_64"; sha1 = "4b68d11f2a613bc8350d37dae899c2c65afe5dc9"; }
{ locale = "ml"; arch = "linux-i686"; sha1 = "f636e9b8d5e268f7c124ef3f35f6933de83fed62"; }
{ locale = "ml"; arch = "linux-x86_64"; sha1 = "ed98b20d8eb88a73b119c3a1435904f69529eabd"; }
{ locale = "mr"; arch = "linux-i686"; sha1 = "d5ef4d4dbf4d0b63f526d102e95f28078096032a"; }
{ locale = "mr"; arch = "linux-x86_64"; sha1 = "8e92bf456593359afb256c387578042c6085916f"; }
{ locale = "ms"; arch = "linux-i686"; sha1 = "d94320d0c8aee23b6d3c603664caab45180b6069"; }
{ locale = "ms"; arch = "linux-x86_64"; sha1 = "b9fdc0248d9656b3555c475643c7e07ca3c6b222"; }
{ locale = "nb-NO"; arch = "linux-i686"; sha1 = "d49719c255a43151ed5e94d7024c39914ea27ec7"; }
{ locale = "nb-NO"; arch = "linux-x86_64"; sha1 = "f2b1f00254ef350f817b5c1958384a9f5144f83e"; }
{ locale = "nl"; arch = "linux-i686"; sha1 = "cc54828041f57f623de691a49e4bb055bd059c54"; }
{ locale = "nl"; arch = "linux-x86_64"; sha1 = "5728a30bf53644a3b13bc00f5652e067cbe9100b"; }
{ locale = "nn-NO"; arch = "linux-i686"; sha1 = "0f69ddbd963a19d104ee96589c405c55aa7140b2"; }
{ locale = "nn-NO"; arch = "linux-x86_64"; sha1 = "26af2b8cf928fedb5442c5257289f5e38c4f8432"; }
{ locale = "or"; arch = "linux-i686"; sha1 = "2da0842ebe8ae5a8e80061d0fc159a5d408c4464"; }
{ locale = "or"; arch = "linux-x86_64"; sha1 = "b7cc446178a493589d8654236f6e9113aee48455"; }
{ locale = "pa-IN"; arch = "linux-i686"; sha1 = "dd81dc403366a7fd0d395338878b8b8fcb858365"; }
{ locale = "pa-IN"; arch = "linux-x86_64"; sha1 = "2ca8cc4c491f0ded4cef8e3826a3c1419a580051"; }
{ locale = "pl"; arch = "linux-i686"; sha1 = "468d45392126ac7852012ed43d76d83e238dc2ac"; }
{ locale = "pl"; arch = "linux-x86_64"; sha1 = "ed20af16563516671f32bb588728e90f29955964"; }
{ locale = "pt-BR"; arch = "linux-i686"; sha1 = "b197bca20e972ce2f8851dc128fb212a7d293454"; }
{ locale = "pt-BR"; arch = "linux-x86_64"; sha1 = "2cd05329c3612330fdc1354fe651cc13ab8d9a5f"; }
{ locale = "pt-PT"; arch = "linux-i686"; sha1 = "1087ba6ba17aa102888e929ccf7acc6b2476e447"; }
{ locale = "pt-PT"; arch = "linux-x86_64"; sha1 = "aa1907c10e980a8466c1604519ffa08aaabb2d7c"; }
{ locale = "rm"; arch = "linux-i686"; sha1 = "fdb717a0f40b94a53077ff036a55c0f93b61a2cc"; }
{ locale = "rm"; arch = "linux-x86_64"; sha1 = "af10206080a7ad21e5fda9cdf66a734ee33b07ac"; }
{ locale = "ro"; arch = "linux-i686"; sha1 = "f08c67c6ea2a63c216f944453b4ce8b36f4ed840"; }
{ locale = "ro"; arch = "linux-x86_64"; sha1 = "07efb37804ffab35f117eb32f9f645b554ac1dd8"; }
{ locale = "ru"; arch = "linux-i686"; sha1 = "874f588d7ac5554ae4e8e134bfc272897f839f97"; }
{ locale = "ru"; arch = "linux-x86_64"; sha1 = "af64b6eb8d33d6bd78ce86e4785be50babe5c919"; }
{ locale = "si"; arch = "linux-i686"; sha1 = "672523b996c7021e06b4a713f7ac1239a3b1800f"; }
{ locale = "si"; arch = "linux-x86_64"; sha1 = "2e594b56230c079a9f1735e9bab9dc4a9d9e31ab"; }
{ locale = "sk"; arch = "linux-i686"; sha1 = "6edffa576d9829673c65400d4570b34dc787faad"; }
{ locale = "sk"; arch = "linux-x86_64"; sha1 = "7b506fedbf3a25cd1ed54b05c9b5cb7b8c237ad8"; }
{ locale = "sl"; arch = "linux-i686"; sha1 = "e8d1fea389b7cb75b7ccbf22ad5b8691e9bf1b6a"; }
{ locale = "sl"; arch = "linux-x86_64"; sha1 = "20163798733ee36ffa510987b18d1eb67b82aca1"; }
{ locale = "son"; arch = "linux-i686"; sha1 = "9076d0e9de6adb7fbd26dbd3cd89dd5728939aab"; }
{ locale = "son"; arch = "linux-x86_64"; sha1 = "352aeb9f5ccb1e3bb87c8e47f93e96a049991412"; }
{ locale = "sq"; arch = "linux-i686"; sha1 = "838c4c525a9f93117704851ad81b2c199a9c28fc"; }
{ locale = "sq"; arch = "linux-x86_64"; sha1 = "0139a064056da0ed1730fd768da1322a9661bca9"; }
{ locale = "sr"; arch = "linux-i686"; sha1 = "7d74018cd9948ee31e05b30ff1fb45a84d417494"; }
{ locale = "sr"; arch = "linux-x86_64"; sha1 = "85c43e2359f444faf111efd83fb0dc3e1b0edb48"; }
{ locale = "sv-SE"; arch = "linux-i686"; sha1 = "bc95ee926f82aba58691d923eb4cb963aa4cb64a"; }
{ locale = "sv-SE"; arch = "linux-x86_64"; sha1 = "7c8946d6180e2c48a80958b6a790bf6c9231591e"; }
{ locale = "ta"; arch = "linux-i686"; sha1 = "dfaad8f934869d714c94a95a775bcdcd67fda3c4"; }
{ locale = "ta"; arch = "linux-x86_64"; sha1 = "5523c6df4e2b03ae71c865aabe6bb0dd0446fc87"; }
{ locale = "te"; arch = "linux-i686"; sha1 = "7a61ca88c832af3d15f197ba01d66c6fc43465d3"; }
{ locale = "te"; arch = "linux-x86_64"; sha1 = "696823890791a05c6cf0230d1063a30012873090"; }
{ locale = "th"; arch = "linux-i686"; sha1 = "4a3b932813ad0ab07f467a598e9e85b847bbe142"; }
{ locale = "th"; arch = "linux-x86_64"; sha1 = "f847f3f0fb07f97053066f4b4314d93e9614e6cf"; }
{ locale = "tr"; arch = "linux-i686"; sha1 = "59eee567e30cf6321c234c60002b416faec07aa4"; }
{ locale = "tr"; arch = "linux-x86_64"; sha1 = "b64dfdbdc75f87003f00883173084646a2617a29"; }
{ locale = "uk"; arch = "linux-i686"; sha1 = "44e6b53ede97835847ed84defe4235cad513c653"; }
{ locale = "uk"; arch = "linux-x86_64"; sha1 = "bb6f84f58a19c6287bbc84e0e7101fcd48bd720a"; }
{ locale = "uz"; arch = "linux-i686"; sha1 = "1aec3ba9efd52a1f386e0bb075745a7c01c443a2"; }
{ locale = "uz"; arch = "linux-x86_64"; sha1 = "2ce2caccb638c0467ba1382a15146ef1cc33fa72"; }
{ locale = "vi"; arch = "linux-i686"; sha1 = "d8b339892c152254c89ec1d42ff9b7f128455aab"; }
{ locale = "vi"; arch = "linux-x86_64"; sha1 = "e4503686f2a997e1c793ef8e3c80bccd3dc0e2f0"; }
{ locale = "xh"; arch = "linux-i686"; sha1 = "d130fae691b91a1f1f7d15ca84f643ccf299b0e3"; }
{ locale = "xh"; arch = "linux-x86_64"; sha1 = "18b5d09571f4db7b18dbbdb3f3c29c80480a16aa"; }
{ locale = "zh-CN"; arch = "linux-i686"; sha1 = "303816f99659e2bbb8ecc4f9b1c83932a0c9205d"; }
{ locale = "zh-CN"; arch = "linux-x86_64"; sha1 = "238b50b8bb745f2d80099354592c9b710c55f1d8"; }
{ locale = "zh-TW"; arch = "linux-i686"; sha1 = "9159a6fea44a97a33390c527abf7730cdbbc9216"; }
{ locale = "zh-TW"; arch = "linux-x86_64"; sha1 = "74e3c2292aed9c2a7de24d6f3693ac1d0ba4c41f"; }
{ locale = "ach"; arch = "linux-i686"; sha1 = "4b732557876ff3e4d02ad480b7c73bd7abd6782d"; }
{ locale = "ach"; arch = "linux-x86_64"; sha1 = "0a63b048b33638ade924bcf7ae435423c9da906c"; }
{ locale = "af"; arch = "linux-i686"; sha1 = "87349773cdb5e07aaa1387e75e08d03786df700d"; }
{ locale = "af"; arch = "linux-x86_64"; sha1 = "137d3558eb674036d43e5764ca691a66f9a07782"; }
{ locale = "an"; arch = "linux-i686"; sha1 = "db99f86de92b0d1782611926b3053b25ad302e8b"; }
{ locale = "an"; arch = "linux-x86_64"; sha1 = "d000f9e8a983be0fa7d05176fb6cc0954bb06ad7"; }
{ locale = "ar"; arch = "linux-i686"; sha1 = "b794a584da47ee9197666ab6976863f23ff1972c"; }
{ locale = "ar"; arch = "linux-x86_64"; sha1 = "0319aec1942cd8311b236aef5772850897b36f64"; }
{ locale = "as"; arch = "linux-i686"; sha1 = "83b83af48caf75bcdc39efb9c8a09333d6ae97b7"; }
{ locale = "as"; arch = "linux-x86_64"; sha1 = "827463330470ab2abd4a71a92e15fea451957fb5"; }
{ locale = "ast"; arch = "linux-i686"; sha1 = "9f994c9374c53afa094271907fc6aecbf5a93eb4"; }
{ locale = "ast"; arch = "linux-x86_64"; sha1 = "611835134f1008fcff72f3ab264ce9448a6a0948"; }
{ locale = "az"; arch = "linux-i686"; sha1 = "67339f5005bf8c805b6c8ed24fbed597865f5dd0"; }
{ locale = "az"; arch = "linux-x86_64"; sha1 = "ecdd763f7d40bcb1ff6004fd0a3f511f5cbb9d9b"; }
{ locale = "be"; arch = "linux-i686"; sha1 = "d6a7d84744c0ac6e4cb7f0a1f0025bbee053cdc2"; }
{ locale = "be"; arch = "linux-x86_64"; sha1 = "051646e7d213099433bc198c74f85d99aeb6e846"; }
{ locale = "bg"; arch = "linux-i686"; sha1 = "28e48822cc2977037db1493ddc06ef106a11e8bf"; }
{ locale = "bg"; arch = "linux-x86_64"; sha1 = "7b59deab0fd2b35d2ec087947f5c5a85bd70cf4a"; }
{ locale = "bn-BD"; arch = "linux-i686"; sha1 = "4c5bff7f6b3f664138a881479701cfea81ff60b8"; }
{ locale = "bn-BD"; arch = "linux-x86_64"; sha1 = "3a659a5335d4b215ac2a0452264a61c702420c60"; }
{ locale = "bn-IN"; arch = "linux-i686"; sha1 = "a641b87769d90db720fc5294ab06f6dae2a597d3"; }
{ locale = "bn-IN"; arch = "linux-x86_64"; sha1 = "1c1e47f4012c765ce96e4d2581e47f9b61344370"; }
{ locale = "br"; arch = "linux-i686"; sha1 = "0491cf87e0815079eba8f57ae8c6f392d2e5251f"; }
{ locale = "br"; arch = "linux-x86_64"; sha1 = "abe34c6d4998ac2f4e2d1f2d4655f8ace9f0a857"; }
{ locale = "bs"; arch = "linux-i686"; sha1 = "40f2eb7fd72f4a05ee47cb136c73e75f139e9ed1"; }
{ locale = "bs"; arch = "linux-x86_64"; sha1 = "3a737c33921af68621d906702fb1298f5bf161f9"; }
{ locale = "ca"; arch = "linux-i686"; sha1 = "46cf625eea24a819d93741f2d11bc315a21361cc"; }
{ locale = "ca"; arch = "linux-x86_64"; sha1 = "be84a0a6e32fbbb977b654f195064add8881a853"; }
{ locale = "cs"; arch = "linux-i686"; sha1 = "ce507b8801646f3156bb38776c17dd7955ba9678"; }
{ locale = "cs"; arch = "linux-x86_64"; sha1 = "5b1599282512c66a8619202b494042dbe959adc0"; }
{ locale = "cy"; arch = "linux-i686"; sha1 = "9eb6a71214122e02e7e94b526b4ff1e0bad71680"; }
{ locale = "cy"; arch = "linux-x86_64"; sha1 = "4f21da86ab876bf916157fe7e1fd84502e8fb923"; }
{ locale = "da"; arch = "linux-i686"; sha1 = "d175b55ebf05905531f28a74f9a075c4dd4467d1"; }
{ locale = "da"; arch = "linux-x86_64"; sha1 = "62039edbacf4d5ed9b32f5ef2d993c0b6fc7a0cc"; }
{ locale = "de"; arch = "linux-i686"; sha1 = "933cc29a7902f4de25fc593ffbaf6e62ccceb2fc"; }
{ locale = "de"; arch = "linux-x86_64"; sha1 = "eb69a42286f7d4a7106ddd24ec0c1f1356101956"; }
{ locale = "dsb"; arch = "linux-i686"; sha1 = "6683f985caece486b068a3ddd85e732903b1f738"; }
{ locale = "dsb"; arch = "linux-x86_64"; sha1 = "fd92cd5ab674762fce35fddc54b7dcdfa4829dcf"; }
{ locale = "el"; arch = "linux-i686"; sha1 = "91416a56f0221772a0f9691ad418602327d193e2"; }
{ locale = "el"; arch = "linux-x86_64"; sha1 = "ce89cdb9c8c88d7c4dcd089eef006b98171f5d04"; }
{ locale = "en-GB"; arch = "linux-i686"; sha1 = "8322cad2eacba0c064eb9ef2f5cd1d426411c648"; }
{ locale = "en-GB"; arch = "linux-x86_64"; sha1 = "c4102cc705610d7ad5b0cc530c600b2170f55419"; }
{ locale = "en-US"; arch = "linux-i686"; sha1 = "571067007e0dff64095b8eeb760aec7f78f367fd"; }
{ locale = "en-US"; arch = "linux-x86_64"; sha1 = "64a0422e42cf1d19e558377d5ecee6536917b414"; }
{ locale = "en-ZA"; arch = "linux-i686"; sha1 = "9f5611cd3043b1c267724b198ab04c16078b7818"; }
{ locale = "en-ZA"; arch = "linux-x86_64"; sha1 = "3a22150e16a12d8fba9d21cef0c8e7ac434edf35"; }
{ locale = "eo"; arch = "linux-i686"; sha1 = "6502874b051c281e565cd0e0953698b88b69e5f5"; }
{ locale = "eo"; arch = "linux-x86_64"; sha1 = "3bdbcf6d324c43fbf7f3c71243df10a760f7fec2"; }
{ locale = "es-AR"; arch = "linux-i686"; sha1 = "83edce65b276d9989e66d11bfd4e9c1c87955364"; }
{ locale = "es-AR"; arch = "linux-x86_64"; sha1 = "6281d1d560fb7dd1a8bc1af0be046491a4ee4382"; }
{ locale = "es-CL"; arch = "linux-i686"; sha1 = "d394d731f7cde2b17bafd9d9d4cb6819fdbcbfd5"; }
{ locale = "es-CL"; arch = "linux-x86_64"; sha1 = "b969107e5e840e1701672b3d5ba81ae3e53889be"; }
{ locale = "es-ES"; arch = "linux-i686"; sha1 = "a9c801142df7a932b2eba4d8f540b2579d0fabeb"; }
{ locale = "es-ES"; arch = "linux-x86_64"; sha1 = "96cb7bb0bd079d683304168b2b14255a1217fa92"; }
{ locale = "es-MX"; arch = "linux-i686"; sha1 = "c233e4da88f3fcc5eb5f2c45766c9197b5910dfc"; }
{ locale = "es-MX"; arch = "linux-x86_64"; sha1 = "e04973316a340325888f0f2e06590773f81a7cf0"; }
{ locale = "et"; arch = "linux-i686"; sha1 = "22c59e40b39aefe356e8b5305ce720d4a2cdd0b7"; }
{ locale = "et"; arch = "linux-x86_64"; sha1 = "74256cbb8a76d835887727aa01f6e6a22936a43e"; }
{ locale = "eu"; arch = "linux-i686"; sha1 = "fa14a31fe15106f224df47a62c3e5ec16da1cb95"; }
{ locale = "eu"; arch = "linux-x86_64"; sha1 = "c8b6216d448f6f192e584ceb81fb22e5ac79a280"; }
{ locale = "fa"; arch = "linux-i686"; sha1 = "a1c67f4bec3f46de3cf6297e8a711d55f8189e3b"; }
{ locale = "fa"; arch = "linux-x86_64"; sha1 = "70d3b99652e8c690bbd05af7af9c65eeb780d455"; }
{ locale = "ff"; arch = "linux-i686"; sha1 = "1f42b51648eb296dfc339982c331e7d63bfbbd96"; }
{ locale = "ff"; arch = "linux-x86_64"; sha1 = "bd176a2bda1246e15dbbfb1b068f6b196a0ce266"; }
{ locale = "fi"; arch = "linux-i686"; sha1 = "2cd7757360efeca608b8a9b4b56c04f9aca89a79"; }
{ locale = "fi"; arch = "linux-x86_64"; sha1 = "dc130d8ab31c739e4406f8cc72dc32d3795db208"; }
{ locale = "fr"; arch = "linux-i686"; sha1 = "6dccfb2944006379271c308fa31d8f6a4bd6bb3d"; }
{ locale = "fr"; arch = "linux-x86_64"; sha1 = "aca6deabd521e29611fccbdeca3bf036a2239c1d"; }
{ locale = "fy-NL"; arch = "linux-i686"; sha1 = "4ffb659a341308a097ad26f1873ae243e581bba9"; }
{ locale = "fy-NL"; arch = "linux-x86_64"; sha1 = "340caff2afeb8f9f01c84f780b6aef079ab257e6"; }
{ locale = "ga-IE"; arch = "linux-i686"; sha1 = "7adb1a44e0367b570437fdeae9f04c6f94f6702f"; }
{ locale = "ga-IE"; arch = "linux-x86_64"; sha1 = "d427e6ca8287d97b27949ccb412207ef48d0cebe"; }
{ locale = "gd"; arch = "linux-i686"; sha1 = "2741c8bdcfad1edc36968bfac70c71b1a2837df4"; }
{ locale = "gd"; arch = "linux-x86_64"; sha1 = "430817ee768fd76dd29e76ae00488d6397f7b6f1"; }
{ locale = "gl"; arch = "linux-i686"; sha1 = "725c194c1e08293b44cbeb2a6791f4340a773b81"; }
{ locale = "gl"; arch = "linux-x86_64"; sha1 = "611e5f92796707379a9fd60ade840896eac4eabd"; }
{ locale = "gu-IN"; arch = "linux-i686"; sha1 = "720ee20fa7a74dc321ab7fa8a95732ff2e9e5250"; }
{ locale = "gu-IN"; arch = "linux-x86_64"; sha1 = "778496274c362d9d854b1cc6ac9b1806ce8e708c"; }
{ locale = "he"; arch = "linux-i686"; sha1 = "f31729cecde50073e49d1387356c13060cf50c61"; }
{ locale = "he"; arch = "linux-x86_64"; sha1 = "72e9c8c602c403d16e4d60fbeb1bf5a415aabf25"; }
{ locale = "hi-IN"; arch = "linux-i686"; sha1 = "f2498d503005d0a1d7432bbc5a981be350421cfa"; }
{ locale = "hi-IN"; arch = "linux-x86_64"; sha1 = "b003f7d484ec995fe4f10808d1141e20c6ed9bfc"; }
{ locale = "hr"; arch = "linux-i686"; sha1 = "de191039fb5acb5ca9ab556ef4ef6b6211b5b697"; }
{ locale = "hr"; arch = "linux-x86_64"; sha1 = "d5cd94ddd0b301dc0edf2f64bafa678864aa4595"; }
{ locale = "hsb"; arch = "linux-i686"; sha1 = "cf66178d0a18fcabcde897d4ba869da8d82fe999"; }
{ locale = "hsb"; arch = "linux-x86_64"; sha1 = "b83bbf3fb4d3aabdc961b9ef669dd2aa9f05ee52"; }
{ locale = "hu"; arch = "linux-i686"; sha1 = "0550d016ad044fdac193beee822171a0d891a34d"; }
{ locale = "hu"; arch = "linux-x86_64"; sha1 = "4f5916dac9d8efb333e2ad21370bd8a3d961b68f"; }
{ locale = "hy-AM"; arch = "linux-i686"; sha1 = "b72515f5e194a4c543c8a6487c858abe07e24db0"; }
{ locale = "hy-AM"; arch = "linux-x86_64"; sha1 = "aef7fdc2f59edbde165c4e98de10f7e20e203f9d"; }
{ locale = "id"; arch = "linux-i686"; sha1 = "1db4444dbc9479cad1122925a9af73e358e09cbf"; }
{ locale = "id"; arch = "linux-x86_64"; sha1 = "a826b23b1783fff4d51451284301610cd26b578f"; }
{ locale = "is"; arch = "linux-i686"; sha1 = "2943bbe86e052280d610cbf3adceb89e949615b3"; }
{ locale = "is"; arch = "linux-x86_64"; sha1 = "c1b0bb2f22c11974e5e3a2d9b221601da07a858d"; }
{ locale = "it"; arch = "linux-i686"; sha1 = "2e3568872301c3897e83ee5692638a76fbef15fc"; }
{ locale = "it"; arch = "linux-x86_64"; sha1 = "5af762e2487171f6b41a6c1654b672c86e6964f8"; }
{ locale = "ja"; arch = "linux-i686"; sha1 = "40c042713ee07d4d375327515c7425d6733b926f"; }
{ locale = "ja"; arch = "linux-x86_64"; sha1 = "0dd2808378e870f553e02066f5ee78b11543e420"; }
{ locale = "kk"; arch = "linux-i686"; sha1 = "294eb8f7345f6baffc183605988bd1a57bbdd880"; }
{ locale = "kk"; arch = "linux-x86_64"; sha1 = "fbd9524ac8c1286e4c4bcf77efa8c9bf86d03948"; }
{ locale = "km"; arch = "linux-i686"; sha1 = "09b63d181398b1ff6a83849aa209952c0c5ce9b0"; }
{ locale = "km"; arch = "linux-x86_64"; sha1 = "d7478ba2f1b59ef83b1447789034bbdca78fab77"; }
{ locale = "kn"; arch = "linux-i686"; sha1 = "72e1e6e225790e4438da20cd2f69dce6e455fe53"; }
{ locale = "kn"; arch = "linux-x86_64"; sha1 = "3ef27144bb335d7a3f168bbadc0592a5fd554d78"; }
{ locale = "ko"; arch = "linux-i686"; sha1 = "5ef7f628aeb20d20ffa01316c234afafc2a6e2c7"; }
{ locale = "ko"; arch = "linux-x86_64"; sha1 = "cbf6a8d123e98ef1b99221083c743e962ccec58c"; }
{ locale = "lij"; arch = "linux-i686"; sha1 = "46f34520fc023f9d20781c9d5f13c683bc7f86bd"; }
{ locale = "lij"; arch = "linux-x86_64"; sha1 = "c07c7ca26034e53d29e868315201605b95d83e65"; }
{ locale = "lt"; arch = "linux-i686"; sha1 = "8ab47bda33eeec6d135049f775f06478480394b2"; }
{ locale = "lt"; arch = "linux-x86_64"; sha1 = "82b0c898ebf2e3714763640f2cabd00dd14c9078"; }
{ locale = "lv"; arch = "linux-i686"; sha1 = "1dba01bbf772b38c67b90d5e68f7e1a5c20f0b02"; }
{ locale = "lv"; arch = "linux-x86_64"; sha1 = "ade71dce8572628f99bf59132e8c0efd01a77016"; }
{ locale = "mai"; arch = "linux-i686"; sha1 = "486411e211d5505ca696a936db64682e04d43392"; }
{ locale = "mai"; arch = "linux-x86_64"; sha1 = "0239e14c627499220518d1f9a3f643315c1846c6"; }
{ locale = "mk"; arch = "linux-i686"; sha1 = "d7f314a0caec40e367faa29e071a81da2e50d802"; }
{ locale = "mk"; arch = "linux-x86_64"; sha1 = "4ad6c120360f90dea82282a6891419f17d0b5068"; }
{ locale = "ml"; arch = "linux-i686"; sha1 = "14a6534cba54ff08695b4322f6566a375f9cb713"; }
{ locale = "ml"; arch = "linux-x86_64"; sha1 = "badad6dfe2d794d508c4f8b061ef2a91209a8c32"; }
{ locale = "mr"; arch = "linux-i686"; sha1 = "1602ac0a3ac5c8c49a370a64d450aa06b490c8b5"; }
{ locale = "mr"; arch = "linux-x86_64"; sha1 = "a8108ecee8557be024c35818a99c30dfd811da83"; }
{ locale = "ms"; arch = "linux-i686"; sha1 = "02952ca95545f83231b36e9c05adc51ab955f9e5"; }
{ locale = "ms"; arch = "linux-x86_64"; sha1 = "164c31da7ad4272500b8906ee5d29c69ac285618"; }
{ locale = "nb-NO"; arch = "linux-i686"; sha1 = "c09a24b8f00409c7c93686586b091bfc33f22e52"; }
{ locale = "nb-NO"; arch = "linux-x86_64"; sha1 = "9124e6b86f947dd4a7d2d7c9b8860dd28647d2f4"; }
{ locale = "nl"; arch = "linux-i686"; sha1 = "fb2dbbda6817d8fbcf9870a3233396051ce7c67f"; }
{ locale = "nl"; arch = "linux-x86_64"; sha1 = "bbf1e039a02556df8c68d6d49aa30f821bfdfae9"; }
{ locale = "nn-NO"; arch = "linux-i686"; sha1 = "9ff1ae86d0989f81ae3324e9ccbda2d2069281be"; }
{ locale = "nn-NO"; arch = "linux-x86_64"; sha1 = "2be8ac327c7aa90abb38ee6ccfb0181194d5592e"; }
{ locale = "or"; arch = "linux-i686"; sha1 = "a6ff7bf9c96b1baa2d22e897d1083c9907300de5"; }
{ locale = "or"; arch = "linux-x86_64"; sha1 = "4ab6eff3bf8c99f3404a313f54ea3e0d48842d9f"; }
{ locale = "pa-IN"; arch = "linux-i686"; sha1 = "7ed256e6b3a5aec16eb0c5d3cab8c4cd5bf07999"; }
{ locale = "pa-IN"; arch = "linux-x86_64"; sha1 = "da6511f215e206df0fe450225f2b2e4d8d541838"; }
{ locale = "pl"; arch = "linux-i686"; sha1 = "d3df1cc8647d6dc8576fcfd0c6a1e28a28c0ce8a"; }
{ locale = "pl"; arch = "linux-x86_64"; sha1 = "af999c2bcb0d865d38e336eaad5d6766fed291cc"; }
{ locale = "pt-BR"; arch = "linux-i686"; sha1 = "7369a73558f6df1218dac14c3259e08cfa80ac52"; }
{ locale = "pt-BR"; arch = "linux-x86_64"; sha1 = "bd21ac0aca091de913201d2df5f914b9eeb83c8d"; }
{ locale = "pt-PT"; arch = "linux-i686"; sha1 = "8b9a5cf1259a824edb54d4db9aa7db3637ab041a"; }
{ locale = "pt-PT"; arch = "linux-x86_64"; sha1 = "f8004907aac63d8e9e4196424aa94db4fa1ff8c0"; }
{ locale = "rm"; arch = "linux-i686"; sha1 = "3403690013738c55f87c56d52ed8f9923a496b42"; }
{ locale = "rm"; arch = "linux-x86_64"; sha1 = "3b00a49b87fa900ecea9fdedce1b49d2560a81dd"; }
{ locale = "ro"; arch = "linux-i686"; sha1 = "6e5f1e0460792c080aa9ac82d3be69c047862203"; }
{ locale = "ro"; arch = "linux-x86_64"; sha1 = "2f09d74e5e39f9016ab5594f95f61b369cd6467c"; }
{ locale = "ru"; arch = "linux-i686"; sha1 = "df7b6c0806b27ade147dc6d42d181d599cc2c28b"; }
{ locale = "ru"; arch = "linux-x86_64"; sha1 = "1dedbe2a377cee5b32ca4aa0ec54eb24261238b0"; }
{ locale = "si"; arch = "linux-i686"; sha1 = "0309c2c97affcfa4c0d155eec2f9f4f586c940eb"; }
{ locale = "si"; arch = "linux-x86_64"; sha1 = "890a17e8f1d771e12d3e9c03ee0c8069654dae66"; }
{ locale = "sk"; arch = "linux-i686"; sha1 = "73fbaabb4644ae3726681bd6c49f6efa25a74a1a"; }
{ locale = "sk"; arch = "linux-x86_64"; sha1 = "573ba7d8526147e47f49fedb5f8c2e3bf0aaee82"; }
{ locale = "sl"; arch = "linux-i686"; sha1 = "abacb4f8ad9ed7eb42d5bbf3ebdce4136557bff5"; }
{ locale = "sl"; arch = "linux-x86_64"; sha1 = "cd1dc2a385e1911b5eaf69bc0cab13f257d8f68d"; }
{ locale = "son"; arch = "linux-i686"; sha1 = "5c1aff5bbf858e1e7f6fa2c2d996a396b8710124"; }
{ locale = "son"; arch = "linux-x86_64"; sha1 = "a6d7e023615936b0d61e956a4dadb6431febaa0c"; }
{ locale = "sq"; arch = "linux-i686"; sha1 = "19a7147c4a7de505ef0106b121640f5f651d6dbd"; }
{ locale = "sq"; arch = "linux-x86_64"; sha1 = "f1120ddacc1d5a124512c405855a4014fc910034"; }
{ locale = "sr"; arch = "linux-i686"; sha1 = "d21616842495521d3b71877ff2b694e019a4c2c2"; }
{ locale = "sr"; arch = "linux-x86_64"; sha1 = "43b9236a33a803fc0b0dd41cef93a5bf9fd91472"; }
{ locale = "sv-SE"; arch = "linux-i686"; sha1 = "17e06ab17369c234bef72b1a284bef39d5810671"; }
{ locale = "sv-SE"; arch = "linux-x86_64"; sha1 = "8f8e2cb6acd475d7d75116c6494ab237b9531364"; }
{ locale = "ta"; arch = "linux-i686"; sha1 = "77fb9f32965af6a70275fbca308caf5bf88c3c8e"; }
{ locale = "ta"; arch = "linux-x86_64"; sha1 = "4a65de127708cbee44cc7238d14b9c0942d2673b"; }
{ locale = "te"; arch = "linux-i686"; sha1 = "37a556dafc73e5de983cb62fdd545d01f32f698d"; }
{ locale = "te"; arch = "linux-x86_64"; sha1 = "2f4549d5ef998449b553a5d6f62d01d0313c6c95"; }
{ locale = "th"; arch = "linux-i686"; sha1 = "f6a10236fe0fcc9d11c3c5aee3bd84365bb06013"; }
{ locale = "th"; arch = "linux-x86_64"; sha1 = "c2694589cc28b938fd7a079378e5fa99cdd7c98b"; }
{ locale = "tr"; arch = "linux-i686"; sha1 = "e7888b70a1a90613fd7d38a5a7735857385ae683"; }
{ locale = "tr"; arch = "linux-x86_64"; sha1 = "6ebef5649484bfda154c44232a9e3aae239c0990"; }
{ locale = "uk"; arch = "linux-i686"; sha1 = "fe5ffb931bd7e5bb403f6aef6b879c2c9446721e"; }
{ locale = "uk"; arch = "linux-x86_64"; sha1 = "4b53989b554929b085b120788e1e30d5232dedb4"; }
{ locale = "uz"; arch = "linux-i686"; sha1 = "bed269a3a7e3fc82d2fb1931632be9b04fe6b6da"; }
{ locale = "uz"; arch = "linux-x86_64"; sha1 = "786d51639cd7e952f4c73e9d91b50f6da0ba9242"; }
{ locale = "vi"; arch = "linux-i686"; sha1 = "db04c29c9038c856c67e99c77c0628c377bcd8f7"; }
{ locale = "vi"; arch = "linux-x86_64"; sha1 = "d9525ad0b0069ae05cad173ab567198b67fc13dc"; }
{ locale = "xh"; arch = "linux-i686"; sha1 = "2a8bbe15f2b2b242e9787704e542a6c0a9ed93bc"; }
{ locale = "xh"; arch = "linux-x86_64"; sha1 = "532e224a166addee7b6068bbcee7e6c0b1c3f6df"; }
{ locale = "zh-CN"; arch = "linux-i686"; sha1 = "514bc01fe7055a050898a01f0c1ed4773fb33b7e"; }
{ locale = "zh-CN"; arch = "linux-x86_64"; sha1 = "0d5154d3d5062c7e1ff33112ad0a1399ba548b29"; }
{ locale = "zh-TW"; arch = "linux-i686"; sha1 = "291ee73bc5540f8089f6b7bbdf8160c931cc4dd7"; }
{ locale = "zh-TW"; arch = "linux-x86_64"; sha1 = "16df041eeaf6a3885d52569db1781635e519fd3f"; }
];
}

22
pkgs/applications/networking/browsers/firefox/default.nix
View File

@ -3,7 +3,7 @@
, freetype, fontconfig, file, alsaLib, nspr, nss, libnotify
, yasm, mesa, sqlite, unzip, makeWrapper, pysqlite
, hunspell, libevent, libstartup_notification, libvpx
, cairo, gstreamer, gst_plugins_base, icu
, cairo, gst_all_1, icu, libpng, jemalloc
, enableGTK3 ? false
, debugBuild ? false
, # If you want the resulting program to call itself "Firefox" instead
@ -16,14 +16,14 @@
assert stdenv.cc ? libc && stdenv.cc.libc != null;
let version = "39.0"; in
let version = "39.0.3"; in
stdenv.mkDerivation rec {
name = "firefox-${version}";
src = fetchurl {
url = "http://ftp.mozilla.org/pub/mozilla.org/firefox/releases/${version}/source/firefox-${version}.source.tar.bz2";
sha1 = "32785daee7ddb9da8d7509ef095258fc58fe838e";
sha1 = "e024e528317d6c531fb36a26d2ce3317d3510b42";
};
buildInputs =
@ -34,7 +34,8 @@ stdenv.mkDerivation rec {
xlibs.libXScrnSaver xlibs.scrnsaverproto pysqlite
xlibs.libXext xlibs.xextproto sqlite unzip makeWrapper
hunspell libevent libstartup_notification libvpx cairo
gstreamer gst_plugins_base icu
gst_all_1.gstreamer gst_all_1.gst-plugins-base icu libpng
jemalloc
]
++ lib.optional enableGTK3 gtk3;
@ -48,26 +49,27 @@ stdenv.mkDerivation rec {
"--with-system-nss"
"--with-system-libevent"
"--with-system-libvpx"
# "--with-system-png" # needs APNG support
# "--with-system-icu" # causes ‘ar: invalid option -- 'L'’ in Firefox 28.0
"--with-system-png" # needs APNG support
"--with-system-icu"
"--enable-system-ffi"
"--enable-system-hunspell"
"--enable-system-pixman"
"--enable-system-sqlite"
"--enable-system-cairo"
"--enable-gstreamer"
"--enable-gstreamer=1.0"
"--enable-startup-notification"
# "--enable-content-sandbox" # available since 26.0, but not much info available
# "--enable-content-sandbox-reporter" # keeping disabled for now
"--enable-content-sandbox" # available since 26.0, but not much info available
"--disable-content-sandbox-reporter" # keeping disabled for now
"--disable-crashreporter"
"--disable-tests"
"--disable-necko-wifi" # maybe we want to enable this at some point
"--disable-installer"
"--disable-updater"
"--disable-pulseaudio"
"--enable-jemalloc"
]
++ lib.optional enableGTK3 "--enable-default-toolkit=cairo-gtk3"
++ (if debugBuild then [ "--enable-debug" "--enable-profiling"]
++ (if debugBuild then [ "--enable-debug" "--enable-profiling" ]
else [ "--disable-debug" "--enable-release"
"--enable-optimize${lib.optionalString (stdenv.system == "i686-linux") "=-O1"}"
"--enable-strip" ])

5
pkgs/applications/networking/cluster/mesos/default.nix
View File

@ -19,6 +19,11 @@ in stdenv.mkDerivation rec {
sha256 = "1v5xpn4wal4vcrvcklchx9slkpa8xlwqkdbnxzy9zkzpq5g3arxr";
};
patches = [
# https://reviews.apache.org/r/36610/
./rb36610.patch
];
buildInputs = [
makeWrapper autoconf automake114x libtool curl sasl jdk maven
python wrapPython boto distutils-cfg setuptools leveldb

11
pkgs/applications/networking/cluster/mesos/rb36610.patch Normal file
View File

@ -0,0 +1,11 @@
diff --git a/src/linux/fs.cpp b/src/linux/fs.cpp
index ea0891e320154b85a21ed2d138c192821efae9cd..7b24c377c9a28cad91738305c273fb53a4dc7365 100644
--- a/src/linux/fs.cpp
+++ b/src/linux/fs.cpp
@@ -19,6 +19,7 @@
#include <errno.h>
#include <stdio.h>
#include <string.h>
+#include <syscall.h>
#include <linux/limits.h>

6
pkgs/applications/networking/dropbox/default.nix
View File

@ -19,11 +19,11 @@
let
# NOTE: When updating, please also update in current stable, as older versions stop working
version = "3.6.9";
version = "3.8.5";
sha256 =
{
"x86_64-linux" = "1i260mi40siwcx9b2sj4zwszxmj1l88mpmyqncsfa72k02jz22j3";
"i686-linux" = "0qqc8qbfaighbhjq9y22ka6n6apl8b6cr80a9rkpk2qsk99k8h1z";
"x86_64-linux" = "1r0wz2fsx2piasl04qsgwbl88bi0ajr0dm2swbslxwkf789vk18y";
"i686-linux" = "1dvfgp9dg3frhwmchwa6fyws4im9vgicchfsv0zzflvc7rm9fcig";
}."${stdenv.system}" or (throw "system ${stdenv.system} not supported");
arch =

1
pkgs/applications/networking/mailreaders/notmuch/default.nix
View File

@ -28,6 +28,7 @@ stdenv.mkDerivation rec {
for src in \
crypto.c \
notmuch-config.c \
emacs/notmuch-crypto.el
do
substituteInPlace "$src" \

36
pkgs/applications/version-management/tortoisehg/default.nix Normal file
View File

@ -0,0 +1,36 @@
{ pkgs, lib, mercurial, pyPackages ? pkgs.python27Packages }:
pkgs.buildPythonPackage rec {
name = "tortoisehg-${version}";
version = "3.4.2";
namePrefix = "";
src = pkgs.fetchurl {
url = "https://bitbucket.org/tortoisehg/targz/downloads/${name}.tar.gz";
sha256 = "18a587c8fybfjxbcj8i2smypxy7vfzmmrzibs74n3zy6dlb949nj";
};
pythonPath = [ pkgs.pyqt4 mercurial ]
++ (with pyPackages; [qscintilla iniparse]);
propagatedBuildInputs = with pyPackages; [ qscintilla iniparse ];
doCheck = false;
postUnpack = ''
substituteInPlace $sourceRoot/setup.py \
--replace "/usr/share/" "$out/share/"
'';
postInstall = ''
ln -s $out/bin/thg $out/bin/tortoisehg #convenient alias
'';
meta = {
description = "Qt based graphical tool for working with Mercurial";
homepage = http://tortoisehg.bitbucket.org/;
license = lib.licenses.gpl2;
platforms = lib.platforms.linux;
maintainers = [ "abcz2.uprola@gmail.com" ];
};
}

10
pkgs/applications/video/kodi/default.nix
View File

@ -15,6 +15,7 @@
, lzo, libcdio, libmodplug, libass, libbluray
, sqlite, mysql, nasm, gnutls, libva, wayland
, curl, bzip2, zip, unzip, glxinfo, xdpyinfo
, libcec, libcec_platform
, dbus_libs ? null, dbusSupport ? true
, udev, udevSupport ? true
, libusb ? null, usbSupport ? false
@ -24,7 +25,6 @@
, rtmpdump ? null, rtmpSupport ? true
, libvdpau ? null, vdpauSupport ? true
, libpulseaudio ? null, pulseSupport ? true
, libcec ? null, cecSupport ? true
}:
assert dbusSupport -> dbus_libs != null;
@ -33,7 +33,6 @@ assert usbSupport -> libusb != null && ! udevSupport; # libusb won't be used i
assert sambaSupport -> samba != null;
assert vdpauSupport -> libvdpau != null;
assert pulseSupport -> libpulseaudio != null;
assert cecSupport -> libcec != null;
assert rtmpSupport -> rtmpdump != null;
let
@ -69,6 +68,7 @@ in stdenv.mkDerivation rec {
lzo libcdio libmodplug libass libbluray
sqlite mysql.lib nasm avahi libdvdcss lame
curl bzip2 zip unzip glxinfo xdpyinfo
libcec libcec_platform
]
++ lib.optional dbusSupport dbus_libs
++ lib.optional udevSupport udev
@ -76,7 +76,6 @@ in stdenv.mkDerivation rec {
++ lib.optional sambaSupport samba
++ lib.optional vdpauSupport libvdpau
++ lib.optional pulseSupport libpulseaudio
++ lib.optional cecSupport libcec
++ lib.optional rtmpSupport rtmpdump;
dontUseCmakeConfigure = true;
@ -93,9 +92,7 @@ in stdenv.mkDerivation rec {
./bootstrap
'';
configureFlags = [
"--enable-external-libraries"
]
configureFlags = [ ]
++ lib.optional (!sambaSupport) "--disable-samba"
++ lib.optional vdpauSupport "--enable-vdpau"
++ lib.optional pulseSupport "--enable-pulse"
@ -112,6 +109,7 @@ in stdenv.mkDerivation rec {
--prefix LD_LIBRARY_PATH ":" "${libmad}/lib" \
--prefix LD_LIBRARY_PATH ":" "${libvdpau}/lib" \
--prefix LD_LIBRARY_PATH ":" "${libcec}/lib" \
--prefix LD_LIBRARY_PATH ":" "${libcec_platform}/lib" \
--prefix LD_LIBRARY_PATH ":" "${rtmpdump}/lib"
done
'';

4
pkgs/build-support/emacs/generic.nix
View File

@ -16,10 +16,14 @@ with lib;
}@args:
let
defaultMeta = {
broken = false;
platforms = emacs.meta.platforms;
} // optionalAttrs ((args.src.meta.homepage or "") != "") {
homepage = args.src.meta.homepage;
};
in
stdenv.mkDerivation ({

2
pkgs/build-support/emacs/melpa.nix
View File

@ -31,7 +31,7 @@ let
targets = concatStringsSep " " (if files == null then fileSpecs else files);
defaultMeta = {
homepage = "http://melpa.org/#/${pname}";
homepage = args.src.meta.homepage or "http://melpa.org/#/${pname}";
};
in

2
pkgs/data/misc/geolite-legacy/default.nix
View File

@ -37,7 +37,7 @@ stdenv.mkDerivation {
description = "GeoLite Legacy IP geolocation databases";
homepage = https://geolite.maxmind.com/download/geoip;
license = licenses.cc-by-sa-30;
platforms = with platforms; linux;
platforms = platforms.all;
maintainers = with maintainers; [ nckx ];
};

4
pkgs/desktops/e19/econnman.nix
View File

@ -8,9 +8,9 @@ stdenv.mkDerivation rec {
};
buildInputs = [ makeWrapper pkgconfig e19.efl python27 dbus ];
propagatedBuildInputs = [ python27Packages.pythonefl_1_14 python27Packages.dbus e19.elementary ];
propagatedBuildInputs = [ python27Packages.pythonefl_1_15 python27Packages.dbus e19.elementary ];
postInstall = ''
wrapProgram $out/bin/econnman-bin --prefix PYTHONPATH : ${python27Packages.dbus}/lib/python2.7/site-packages:${python27Packages.pythonefl_1_14}/lib/python2.7/site-packages
wrapProgram $out/bin/econnman-bin --prefix PYTHONPATH : ${python27Packages.dbus}/lib/python2.7/site-packages:${python27Packages.pythonefl_1_15}/lib/python2.7/site-packages
'';
meta = {

4
pkgs/desktops/e19/efl.nix
View File

@ -3,10 +3,10 @@
stdenv.mkDerivation rec {
name = "efl-${version}";
version = "1.14.1";
version = "1.15.0";
src = fetchurl {
url = "http://download.enlightenment.org/rel/libs/efl/${name}.tar.gz";
sha256 = "16rj4qnpw1ya0bsp9a69w6zjmmhzni7vnc0z4wg819jg5k2njzjf";
sha256 = "1x5n2afy5z1akam5y187ajk52mq2k9lwmz7nlrxp92rvx1jf6li5";
};
buildInputs = [ pkgconfig openssl zlib freetype fontconfig fribidi SDL2 SDL mesa

8
pkgs/desktops/e19/elementary.nix
View File

@ -1,12 +1,12 @@
{ stdenv, fetchurl, pkgconfig, e19, libcap, automake114x, autoconf, libdrm, gdbm }:
{ stdenv, fetchurl, pkgconfig, e19, libcap, automake, autoconf, libdrm, gdbm }:
stdenv.mkDerivation rec {
name = "elementary-${version}";
version = "1.14.1";
version = "1.15.0";
src = fetchurl {
url = "http://download.enlightenment.org/rel/libs/elementary/${name}.tar.gz";
sha256 = "100bfzw6q57dnzcqg4zm0rqpvkk7zykfklnn6kcymv80j43xg0p1";
sha256 = "085s2xw3dhv8xiy7ikaaim5gil423g08wclhk0psi76g0vavgd32";
};
buildInputs = [ pkgconfig e19.efl libdrm gdbm automake114x autoconf ] ++ stdenv.lib.optionals stdenv.isLinux [ libcap ];
buildInputs = [ pkgconfig e19.efl libdrm gdbm automake autoconf ] ++ stdenv.lib.optionals stdenv.isLinux [ libcap ];
NIX_CFLAGS_COMPILE = [ "-I${libdrm}/include/libdrm" ];
patches = [ ./elementary.patch ];
enableParallelBuilding = true;

4
pkgs/desktops/e19/emotion.nix
View File

@ -1,10 +1,10 @@
{ stdenv, fetchurl, pkgconfig, e19, vlc }:
stdenv.mkDerivation rec {
name = "emotion_generic_players-${version}";
version = "1.14.0";
version = "1.15.0";
src = fetchurl {
url = "http://download.enlightenment.org/rel/libs/emotion_generic_players/${name}.tar.gz";
sha256 = "1n1a5n2wi68n8gjw4yk6cyf11djpqpac0025vysn5w6dqgccfic3";
sha256 = "08yl473aiklj0yfxbn88000hmnhl7dbhqixsn22ias8a90rxdfhh";
};
buildInputs = [ pkgconfig e19.efl vlc ];
NIX_CFLAGS_COMPILE = [ "-I${e19.efl}/include/eo-1" ];

4
pkgs/desktops/e19/enlightenment.nix
View File

@ -3,10 +3,10 @@
stdenv.mkDerivation rec {
name = "enlightenment-${version}";
version = "0.19.5";
version = "0.19.8";
src = fetchurl {
url = "http://download.enlightenment.org/rel/apps/enlightenment/${name}.tar.xz";
sha256 = "0j66x7x76fbgqfw6fi77v8qy50slw3jnsq3vvs82rrfvniabm8wc";
sha256 = "1y83jnq01k9i328adgjgpfwgpvvd2a1ixpm029pjcar8p1mvgadi";
};
buildInputs = [ pkgconfig e19.efl e19.elementary xlibs.libXdmcp xlibs.libxcb
xlibs.xcbutilkeysyms xlibs.libXrandr libffi pam alsaLib luajit bzip2

4
pkgs/desktops/e19/evas.nix
View File

@ -1,10 +1,10 @@
{ stdenv, fetchurl, pkgconfig, e19, zlib, libspectre, gstreamer, gst_plugins_base, gst_ffmpeg, gst_plugins_good, poppler, librsvg, libraw }:
stdenv.mkDerivation rec {
name = "evas_generic_loaders-${version}";
version = "1.14.0";
version = "1.15.0";
src = fetchurl {
url = "http://download.enlightenment.org/rel/libs/evas_generic_loaders/${name}.tar.gz";
sha256 = "04m8vsrigbsg9hm94lxac56frdxil1bib0bjmspa6xsfgi12afwl";
sha256 = "1k9bmswrgfara4a7znqcv3qbhq3zjbm0ks1zdb0jk5mfl6djr8na";
};
buildInputs = [ pkgconfig e19.efl zlib libspectre gstreamer gst_plugins_base gst_ffmpeg gst_plugins_good poppler librsvg libraw ];
meta = {

4
pkgs/desktops/gnome-3/3.16/apps/cheese/default.nix
View File

@ -1,6 +1,6 @@
{ stdenv, intltool, fetchurl, wrapGAppsHook, gnome-video-effects, libcanberra_gtk3
, pkgconfig, gtk3, glib, clutter_gtk, clutter-gst_2, udev, gst_all_1, itstool
, adwaita-icon-theme, librsvg, gdk_pixbuf, gnome3, gnome_desktop, libxml2, libtool }:
, adwaita-icon-theme, librsvg, gdk_pixbuf, gnome3, gnome_desktop, libxml2 }:
stdenv.mkDerivation rec {
name = "cheese-${gnome3.version}.1";
@ -14,7 +14,7 @@ stdenv.mkDerivation rec {
gdk_pixbuf adwaita-icon-theme librsvg udev gst_all_1.gstreamer libxml2
gst_all_1.gst-plugins-base gst_all_1.gst-plugins-good gnome_desktop
gst_all_1.gst-plugins-bad clutter_gtk clutter-gst_2
libtool libcanberra_gtk3 ];
libcanberra_gtk3 ];
enableParallelBuilding = true;

4
pkgs/desktops/gnome-3/3.16/core/yelp/default.nix
View File

@ -3,11 +3,11 @@
, bash, makeWrapper, itstool, libxml2, libxslt, icu }:
stdenv.mkDerivation rec {
name = "yelp-${gnome3.version}.0";
name = "yelp-${gnome3.version}.1";
src = fetchurl {
url = "mirror://gnome/sources/yelp/${gnome3.version}/${name}.tar.xz";
sha256 = "0az2f1g8gz341i93zxnm6sabrqx416a348ylwfr8vzlg592am2r3";
sha256 = "1jk7aad1srykhgc3x0hd3q3dnlshmy1ak00alwjzaasxvy6hp0b0";
};
propagatedUserEnvPkgs = [ gnome3.gnome_themes_standard ];

4
pkgs/desktops/gnome-3/3.16/misc/gnome-tweak-tool/default.nix
View File

@ -4,11 +4,11 @@
, gnome3, librsvg, gdk_pixbuf, file, libnotify }:
stdenv.mkDerivation rec {
name = "gnome-tweak-tool-${gnome3.version}.0";
name = "gnome-tweak-tool-${gnome3.version}.2";
src = fetchurl {
url = "mirror://gnome/sources/gnome-tweak-tool/${gnome3.version}/${name}.tar.xz";
sha256 = "0pc62qwxgjrgxdhn3qqdzxpx0prrn6c948hqj66w2dy8r0yrdiqw";
sha256 = "0r5x67aj79dsw2xl98q4harxv3hjs52g0m6pw43vx29lbir07r5i";
};
doCheck = true;

105
pkgs/development/haskell-modules/configuration-common.nix
View File

@ -14,6 +14,9 @@ self: super: {
# Link statically to avoid runtime dependency on GHC.
jailbreak-cabal = disableSharedExecutables super.jailbreak-cabal;
# Apply NixOS-specific patches.
ghc-paths = appendPatch super.ghc-paths ./patches/ghc-paths-nix.patch;
# Break infinite recursions.
Dust-crypto = dontCheck super.Dust-crypto;
hasql-postgres = dontCheck super.hasql-postgres;
@ -250,24 +253,24 @@ self: super: {
# https://github.com/tibbe/ekg/commit/95018646f48f60d9ccf6209cc86747e0f132e737, not yet in hackage
ekg = doJailbreak super.ekg;
# https://github.com/diagrams/diagrams-rasterific/commit/2758e5760c64f8ca2528628bd11de502f354ab15, not yet in hackage
diagrams-rasterific = doJailbreak super.diagrams-rasterific;
# https://github.com/NixOS/cabal2nix/issues/136
glib = addBuildDepends super.glib [pkgs.pkgconfig pkgs.glib];
gtk3 = super.gtk3.override { inherit (pkgs) gtk3; };
gtk = addBuildDepends super.gtk [pkgs.pkgconfig pkgs.gtk];
gtksourceview3 = super.gtksourceview3.override { inherit (pkgs.gnome3) gtksourceview; };
# webkit does not recognize its system library build input any more.
webkit = markBroken super.webkit; # http://hydra.cryp.to/build/1041942/nixlog/1/raw
ghcjs-dom-hello = dontDistribute super.ghcjs-dom-hello; # depends on broken webkit
ghcjs-dom = dontDistribute super.ghcjs-dom; # depends on broken webkit
jsaddle-hello = dontDistribute super.jsaddle-hello; # depends on broken webkit
reflex-dom = dontDistribute super.reflex-dom; # depends on broken webkit
# Need WebkitGTK, not just webkit.
webkit = super.webkit.override { webkit = pkgs.webkitgtk24x; };
webkitgtk3 = super.webkitgtk3.override { webkit = pkgs.webkitgtk24x; };
webkitgtk3-javascriptcore = super.webkitgtk3-javascriptcore.override { webkit = pkgs.webkitgtk24x; };
websnap = super.websnap.override { webkit = pkgs.webkitgtk24x; };
# https://github.com/jgm/zip-archive/issues/21
zip-archive = addBuildTool super.zip-archive pkgs.zip;
# https://github.com/mvoidex/hsdev/issues/11
hsdev = dontHaddock super.hsdev;
@ -300,6 +303,7 @@ self: super: {
dbmigrations = dontCheck super.dbmigrations;
euler = dontCheck super.euler; # https://github.com/decomputed/euler/issues/1
filestore = dontCheck super.filestore;
getopt-generics = dontCheck super.getopt-generics;
graceful = dontCheck super.graceful;
hakyll = dontCheck super.hakyll;
Hclip = dontCheck super.Hclip;
@ -331,6 +335,7 @@ self: super: {
hasql = dontCheck super.hasql; # http://hydra.cryp.to/build/502489/nixlog/4/raw
hjsonschema = overrideCabal super.hjsonschema (drv: { testTarget = "local"; });
holy-project = dontCheck super.holy-project; # http://hydra.cryp.to/build/502002/nixlog/1/raw
hoogle = overrideCabal super.hoogle (drv: { testTarget = "--test-option=--no-net"; });
http-client = dontCheck super.http-client; # http://hydra.cryp.to/build/501430/nixlog/1/raw
http-conduit = dontCheck super.http-conduit; # http://hydra.cryp.to/build/501966/nixlog/1/raw
js-jquery = dontCheck super.js-jquery;
@ -526,6 +531,7 @@ self: super: {
stable-tree = dontDistribute super.stable-tree;
synthesizer-llvm = dontDistribute super.synthesizer-llvm;
optimal-blocks = dontDistribute super.optimal-blocks;
hs-blake2 = dontDistribute super.hs-blake2;
# https://ghc.haskell.org/trac/ghc/ticket/9625
vty = dontCheck super.vty;
@ -561,7 +567,7 @@ self: super: {
duplo = dontCheck super.duplo;
# Nix-specific workaround
xmonad = appendPatch super.xmonad ./xmonad-nix.patch;
xmonad = appendPatch super.xmonad ./patches/xmonad-nix.patch;
# https://github.com/evanrinehart/mikmod/issues/1
mikmod = addExtraLibrary super.mikmod pkgs.libmikmod;
@ -582,31 +588,6 @@ self: super: {
# no haddock since this is an umbrella package.
cloud-haskell = dontHaddock super.cloud-haskell;
# Disable tests which couldn't be built.
distributed-process-async = dontCheck super.distributed-process-async;
# Disable tests which couldn't be built.
distributed-process-client-server = dontCheck super.distributed-process-client-server;
# Disable tests which couldn't be built.
distributed-process-extras = dontCheck super.distributed-process-extras;
# Make distributed-process-platform compile until next version
distributed-process-platform = overrideCabal super.distributed-process-platform (drv: {
patchPhase = "mv Setup.hs Setup.lhs";
doCheck = false;
doHaddock = false;
});
# Disable tests due to a failure (Sequential Shutdown Ordering test.)
distributed-process-supervisor = dontCheck super.distributed-process-supervisor;
# Disable network test and errorneous haddock.
distributed-process-tests = overrideCabal super.distributed-process-tests (drv: {
doCheck = false;
doHaddock = false;
});
# This packages compiles 4+ hours on a fast machine. That's just unreasonable.
CHXHtml = dontDistribute super.CHXHtml;
@ -616,9 +597,6 @@ self: super: {
# https://github.com/NixOS/nixpkgs/issues/6350
paypal-adaptive-hoops = overrideCabal super.paypal-adaptive-hoops (drv: { testTarget = "local"; });
# https://github.com/seanparsons/wiring/issues/1
wiring = markBrokenVersion super.wiring;
# https://github.com/jwiegley/simple-conduit/issues/2
simple-conduit = markBroken super.simple-conduit;
@ -631,12 +609,8 @@ self: super: {
# https://github.com/vincenthz/hs-asn1/issues/12
asn1-encoding = dontCheck super.asn1-encoding;
# wxc needs help deciding which version of GTK to use.
wxc = overrideCabal (super.wxc.override { wxGTK = pkgs.wxGTK29; }) (drv: {
patches = [ ./wxc-no-ldconfig.patch ];
doHaddock = false;
postInstall = "cp -v dist/build/libwxc.so.${drv.version} $out/lib/libwxc.so";
});
# wxc supports wxGTX >= 2.9, but our current default version points to 2.8.
wxc = super.wxc.override { wxGTK = pkgs.wxGTK29; };
wxcore = super.wxcore.override { wxGTK = pkgs.wxGTK29; };
# Depends on QuickCheck 1.x.
@ -783,7 +757,7 @@ self: super: {
leksah = dontCheck super.leksah;
# Patch to consider NIX_GHC just like xmonad does
dyre = appendPatch super.dyre ./dyre-nix.patch;
dyre = appendPatch super.dyre ./patches/dyre-nix.patch;
# Test suite won't compile against tasty-hunit 0.9.x.
zlib = dontCheck super.zlib;
@ -903,4 +877,49 @@ self: super: {
# https://github.com/hspec/mockery/issues/6
mockery = overrideCabal super.mockery (drv: { preCheck = "export TRAVIS=true"; });
# https://github.com/diagrams/diagrams-lib/issues/258
# https://github.com/diagrams/diagrams-lib/issues/259
diagrams-lib = markBroken super.diagrams-lib;
diagrams-cairo = dontDistribute super.diagrams-cairo;
diagrams-gtk = dontDistribute super.diagrams-gtk;
diagrams-html5 = dontDistribute super.diagrams-html5;
diagrams-pandoc = dontDistribute super.diagrams-pandoc;
diagrams-postscript = dontDistribute super.diagrams-postscript;
diagrams-rasterific = dontDistribute super.diagrams-rasterific;
diagrams-rubiks-cube = dontDistribute super.diagrams-rubiks-cube;
diagrams-svg = dontDistribute super.diagrams-svg;
halma = dontDistribute super.halma;
midi-music-box = dontDistribute super.midi-music-box;
potrace-diagrams = dontDistribute super.potrace-diagrams;
SVGFonts = dontDistribute super.SVGFonts;
yesod-media-simple = dontDistribute super.yesod-media-simple;
# https://github.com/alphaHeavy/lzma-conduit/issues/5
lzma-conduit = dontCheck super.lzma-conduit;
# https://github.com/kazu-yamamoto/logger/issues/42
logger = dontCheck super.logger;
# https://github.com/edwinb/EpiVM/issues/13
# https://github.com/edwinb/EpiVM/issues/14
epic = addExtraLibraries (addBuildTool super.epic self.happy) [pkgs.boehmgc pkgs.gmp];
# Upstream has no issue tracker.
dpkg = markBroken super.dpkg;
# https://github.com/ekmett/wl-pprint-terminfo/issues/7
wl-pprint-terminfo = addExtraLibrary super.wl-pprint-terminfo pkgs.ncurses;
# https://github.com/bos/pcap/issues/5
pcap = addExtraLibrary super.pcap pkgs.libpcap;
# https://github.com/bscarlet/llvm-general/issues/143
llvm-general-pure = dontCheck super.llvm-general-pure;
# https://github.com/skogsbaer/hscurses/issues/24
hscurses = markBroken super.hscurses;
# https://github.com/qnikst/imagemagick/issues/34
imagemagick = dontCheck super.imagemagick;
}

19
pkgs/development/haskell-modules/configuration-ghc-7.10.x.nix
View File

@ -47,13 +47,14 @@ self: super: {
idris =
let idris' = overrideCabal super.idris (drv: {
# "idris" binary cannot find Idris library otherwise while building.
# After installing it's completely fine though.
# Seems like Nix-specific issue so not reported.
preBuild = ''
export LD_LIBRARY_PATH=$PWD/dist/build:$LD_LIBRARY_PATH
'';
# After installing it's completely fine though. Seems like Nix-specific
# issue so not reported.
preBuild = "export LD_LIBRARY_PATH=$PWD/dist/build:$LD_LIBRARY_PATH";
# https://github.com/idris-lang/Idris-dev/issues/2499
librarySystemDepends = (drv.librarySystemDepends or []) ++ [pkgs.gmp];
});
in idris'.overrideScope (self: super: {
# https://github.com/idris-lang/Idris-dev/issues/2500
zlib = self.zlib_0_5_4_2;
});
@ -205,7 +206,7 @@ self: super: {
tasty-rerun = dontHaddock (appendConfigureFlag super.tasty-rerun "--ghc-option=-XFlexibleContexts");
# http://hub.darcs.net/ivanm/graphviz/issue/5
graphviz = dontCheck (dontJailbreak (appendPatch super.graphviz ./graphviz-fix-ghc710.patch));
graphviz = dontCheck (dontJailbreak (appendPatch super.graphviz ./patches/graphviz-fix-ghc710.patch));
# Broken with GHC 7.10.x.
aeson_0_7_0_6 = markBroken super.aeson_0_7_0_6;
@ -219,6 +220,9 @@ self: super: {
seqid-streams_0_1_0 = markBroken super.seqid-streams_0_1_0;
vector_0_10_9_3 = markBroken super.vector_0_10_9_3;
# http://hub.darcs.net/shelarcy/regex-tdfa-text/issue/1 -- upstream seems to be asleep
regex-tdfa-text = appendPatch super.regex-tdfa-text ./patches/regex-tdfa-text.patch;
# https://github.com/HugoDaniel/RFC3339/issues/14
timerep = dontCheck super.timerep;
@ -264,4 +268,7 @@ self: super: {
# GHC 7.10.1 is affected by https://github.com/srijs/hwsl2/issues/1.
hwsl2 = dontCheck super.hwsl2;
# https://github.com/haskell/haddock/issues/427
haddock = dontCheck super.haddock;
}

4
pkgs/development/haskell-modules/configuration-ghcjs.nix
View File

@ -7,7 +7,7 @@ self: super: {
# LLVM is not supported on this GHC; use the latest one.
inherit (pkgs) llvmPackages;
inherit (pkgs.haskell-ng.packages.ghc7101) jailbreak-cabal alex happy;
inherit (pkgs.haskell.packages.ghc7102) jailbreak-cabal alex happy;
# Many packages fail with:
# haddock: internal error: expectJust getPackageDetails
@ -87,7 +87,7 @@ self: super: {
});
ghc-paths = overrideCabal super.ghc-paths (drv: {
patches = [ ./ghc-paths-nix-ghcjs.patch ];
patches = [ ./patches/ghc-paths-nix-ghcjs.patch ];
});
reflex-dom = overrideCabal super.reflex-dom (drv: {

2
pkgs/development/haskell-modules/default.nix
View File

@ -3,8 +3,6 @@
, overrides ? (self: super: {})
}:
with ./lib.nix;
let
fix = f: let x = f x // { __unfix__ = f; }; in x;

30
pkgs/development/haskell-modules/edit-distance-fix-boundaries.patch
View File

@ -1,30 +0,0 @@
diff -ru3 edit-distance-0.2.1.2-old/edit-distance.cabal edit-distance-0.2.1.2/edit-distance.cabal
--- edit-distance-0.2.1.2-old/edit-distance.cabal 2015-04-17 22:46:50.964116064 +0300
+++ edit-distance-0.2.1.2/edit-distance.cabal 2015-04-17 22:41:31.216027373 +0300
@@ -36,7 +36,7 @@
Text.EditDistance.ArrayUtilities
if flag(splitBase)
- Build-Depends: base >= 3 && < 4.8, array >= 0.1, random >= 1.0, containers >= 0.1.0.1
+ Build-Depends: base >= 3 && < 5, array >= 0.1, random >= 1.0, containers >= 0.1.0.1
else
Build-Depends: base < 3
@@ -54,7 +54,7 @@
else
Build-Depends: test-framework >= 0.1.1, QuickCheck >= 1.1 && < 2.0, test-framework-quickcheck
if flag(splitBase)
- Build-Depends: base >= 3 && < 4.8, array >= 0.1, random >= 1.0
+ Build-Depends: base >= 3 && < 5, array >= 0.1, random >= 1.0
else
Build-Depends: base < 3
@@ -65,7 +65,7 @@
Buildable: False
else
if flag(splitBase)
- Build-Depends: base >= 3 && < 4.8, array >= 0.1, random >= 1.0, time >= 1.0, process >= 1.0,
+ Build-Depends: base >= 3 && < 5, array >= 0.1, random >= 1.0, time >= 1.0, process >= 1.0,
deepseq >= 1.2, unix >= 2.3, criterion >= 0.6
else
Build-Depends: base < 3,

2
pkgs/development/haskell-modules/generic-builder.nix
View File

@ -113,7 +113,7 @@ let
otherBuildInputs = extraLibraries ++ librarySystemDepends ++ executableSystemDepends ++
buildTools ++ libraryToolDepends ++ executableToolDepends ++
optionals (allPkgconfigDepends != []) ([pkgconfig] ++ allPkgconfigDepends) ++
optionals doCheck (testDepends ++ testHaskellDepends ++ testSystemDepends);
optionals doCheck (testDepends ++ testHaskellDepends ++ testSystemDepends ++ testToolDepends);
allBuildInputs = propagatedBuildInputs ++ otherBuildInputs;
haskellBuildInputs = stdenv.lib.filter isHaskellPkg allBuildInputs;

28509
pkgs/development/haskell-modules/hackage-packages.nix
View File

File diff suppressed because it is too large Load Diff

55
pkgs/development/haskell-modules/haskell-src-meta-ghc710.patch
View File

@ -1,55 +0,0 @@
From 24e6f45408083745080ff2f3710f58209041113c Mon Sep 17 00:00:00 2001
From: Luite Stegeman <stegeman@gmail.com>
Date: Sun, 28 Dec 2014 21:33:22 +0100
Subject: [PATCH] updates for GHC 7.10 and Template Haskell 2.10
---
haskell-src-meta.cabal | 4 ++--
src/Language/Haskell/Meta/Syntax/Translate.hs | 6 ++++++
src/Language/Haskell/Meta/Utils.hs | 5 ++++-
3 files changed, 12 insertions(+), 3 deletions(-)
diff --git a/src/Language/Haskell/Meta/Syntax/Translate.hs b/src/Language/Haskell/Meta/Syntax/Translate.hs
index 189d32e..36a08f1 100644
--- a/src/Language/Haskell/Meta/Syntax/Translate.hs
+++ b/src/Language/Haskell/Meta/Syntax/Translate.hs
@@ -384,9 +384,15 @@ a .->. b = AppT (AppT ArrowT a) b
toCxt :: Hs.Context -> Cxt
toCxt = fmap toPred
where
+#if MIN_VERSION_template_haskell(2,10,0)
+ toPred (Hs.ClassA n ts) = foldl' AppT (ConT (toName n)) (fmap toType ts)
+ toPred (Hs.InfixA t1 n t2) = foldl' AppT (ConT (toName n)) (fmap toType [t1,t2])
+ toPred (Hs.EqualP t1 t2) = foldl' AppT EqualityT (fmap toType [t1,t2])
+#else
toPred (Hs.ClassA n ts) = ClassP (toName n) (fmap toType ts)
toPred (Hs.InfixA t1 n t2) = ClassP (toName n) (fmap toType [t1, t2])
toPred (Hs.EqualP t1 t2) = EqualP (toType t1) (toType t2)
+#endif
toPred a@Hs.IParam{} = noTH "toCxt" a
foldAppT :: Type -> [Type] -> Type
diff --git a/src/Language/Haskell/Meta/Utils.hs b/src/Language/Haskell/Meta/Utils.hs
index 36f7e96..d194f3e 100644
--- a/src/Language/Haskell/Meta/Utils.hs
+++ b/src/Language/Haskell/Meta/Utils.hs
@@ -166,6 +166,9 @@ renameT env new (ForallT ns cxt t) =
unVarT (VarT n) = PlainTV n
renamePreds = renameThings renamePred
+#if MIN_VERSION_template_haskell(2,10,0)
+ renamePred = renameT
+#else
renamePred env new (ClassP n ts) = let
(ts', env', new') = renameTs env new [] ts
in (ClassP (normaliseName n) ts', env', new')
@@ -174,7 +177,7 @@ renameT env new (ForallT ns cxt t) =
(t1', env1, new1) = renameT env new t1
(t2', env2, new2) = renameT env1 new1 t2
in (EqualP t1' t2', env2, new2)
-
+#endif
-- | Remove qualification, etc.
normaliseName :: Name -> Name

3
pkgs/development/haskell-modules/lib.nix
View File

@ -31,6 +31,9 @@ rec {
addBuildDepend = drv: x: addBuildDepends drv [x];
addBuildDepends = drv: xs: overrideCabal drv (drv: { buildDepends = (drv.buildDepends or []) ++ xs; });
addPkgconfigDepend = drv: x: addPkgconfigDepends drv [x];
addPkgconfigDepends = drv: xs: overrideCabal drv (drv: { buildDepends = (drv.pkgconfigDepends or []) ++ xs; });
enableCabalFlag = drv: x: appendConfigureFlag (removeConfigureFlag drv "-f-${x}") "-f${x}";
disableCabalFlag = drv: x: appendConfigureFlag (removeConfigureFlag drv "-f${x}") "-f-${x}";

0
pkgs/development/haskell-modules/dyre-nix.patch → pkgs/development/haskell-modules/patches/dyre-nix.patch
View File

0
pkgs/development/haskell-modules/ghc-paths-nix-ghcjs.patch → pkgs/development/haskell-modules/patches/ghc-paths-nix-ghcjs.patch
View File

0
pkgs/development/haskell-modules/ghc-paths-nix.patch → pkgs/development/haskell-modules/patches/ghc-paths-nix.patch
View File

0
pkgs/development/haskell-modules/graphviz-fix-ghc710.patch → pkgs/development/haskell-modules/patches/graphviz-fix-ghc710.patch
View File

21
pkgs/development/haskell-modules/patches/regex-tdfa-text.patch Normal file
View File

@ -0,0 +1,21 @@
--- regex-tdfa-text-1.0.0.2/Text/Regex/TDFA/Text/Lazy.orig.hs 2015-08-05 20:30:01.228983428 +0100
+++ regex-tdfa-text-1.0.0.2/Text/Regex/TDFA/Text/Lazy.hs 2015-08-05 20:39:25.682563005 +0100
@@ -26,7 +26,7 @@
import Data.Array.IArray((!),elems,amap)
import qualified Data.Text.Lazy as L(Text,empty,take,drop,uncons,unpack)
-import Text.Regex.Base(MatchArray,RegexContext(..),Extract(..),RegexMaker(..),RegexLike(..))
+import Text.Regex.Base(MatchText,MatchArray,RegexContext(..),Extract(..),RegexMaker(..),RegexLike(..))
import Text.Regex.Base.Impl(polymatch,polymatchM)
import Text.Regex.TDFA.ReadRegex(parseRegex)
import Text.Regex.TDFA.String() -- piggyback on RegexMaker for String
@@ -74,7 +74,8 @@
,after (o+l) source))
(matchOnce regex source)
matchAllText regex source =
- let go i _ _ | i `seq` False = undefined
+ let go :: Int -> L.Text -> [MatchArray] -> [MatchText L.Text]
+ go i _ _ | i `seq` False = undefined
go _i _t [] = []
go i t (x:xs) =
let (off0,len0) = x!0

0
pkgs/development/haskell-modules/xmonad-nix.patch → pkgs/development/haskell-modules/patches/xmonad-nix.patch
View File

10
pkgs/development/haskell-modules/wxc-no-ldconfig.patch
View File

@ -1,10 +0,0 @@
Only in wxc-0.91.0.0: dist
diff -ubr wxc-0.91.0.0-orig/Setup.hs wxc-0.91.0.0/Setup.hs
--- wxc-0.91.0.0-orig/Setup.hs 2014-10-31 13:30:15.514809137 +0100
+++ wxc-0.91.0.0/Setup.hs 2014-10-31 13:33:53.606372005 +0100
@@ -507,5 +507,3 @@
inst_lib_dir = libdir $ absoluteInstallDirs pkg_descr local_bld_info NoCopyDest
installOrdinaryFile (verbosity flags) (bld_dir </> lib_name) (inst_lib_dir </> lib_name)
- ldconfig inst_lib_dir
-

4
pkgs/development/interpreters/picoc/default.nix
View File

@ -39,7 +39,9 @@ stdenv.mkDerivation {
enableParallelBuilding = true;
doCheck = true;
# Tests are currently broken on i686 see
# http://hydra.nixos.org/build/24003763/nixlog/1
doCheck = if stdenv.isi686 then false else true;
checkTarget = "test";
installPhase = ''

3
pkgs/development/libraries/gsl/default.nix
View File

@ -11,10 +11,9 @@ stdenv.mkDerivation rec {
patches = [
# ToDo: there might be more impurities than FMA support check
./disable-fma.patch # http://lists.gnu.org/archive/html/bug-gsl/2011-11/msg00019.html
(fetchpatch {
name = "bug-39055.patch";
url = "http://git.savannah.gnu.org/cgit/gsl.git/patch/?id=9cc12d0377";
url = "http://git.savannah.gnu.org/cgit/gsl.git/patch/?id=9cc12d";
sha256 = "1bmrmihi28cly9g9pq54kkix2jy59y7cd7h5fw4v1c7h5rc2qvs8";
})
];

6
pkgs/development/libraries/libcanberra/default.nix
View File

@ -16,6 +16,12 @@ stdenv.mkDerivation rec {
configureFlags = "--disable-oss";
postInstall = ''
for f in $out/lib/*.la; do
sed 's|-lltdl|-L${libtool}/lib -lltdl|' -i $f
done
'';
passthru = {
gtkModule = "/lib/gtk-2.0/";
};

12
pkgs/development/libraries/libcec/default.nix
View File

@ -1,16 +1,18 @@
{ stdenv, fetchurl, autoreconfHook, pkgconfig, udev }:
{ stdenv, fetchurl, cmake, pkgconfig, udev, libcec_platform }:
let version = "2.2.0"; in
let version = "3.0.1"; in
stdenv.mkDerivation {
name = "libcec-${version}";
src = fetchurl {
url = "https://github.com/Pulse-Eight/libcec/archive/libcec-${version}-repack.tar.gz";
sha256 = "1kdfak8y96v14d5vp2apkjjs0fvvim9phc0nkhlq5pjlagk8v32x";
url = "https://github.com/Pulse-Eight/libcec/archive/libcec-${version}.tar.gz";
sha256 = "0gi5gq8pz6vfdx80pimx23d5g243zzgmc7s8wpb686csjk470dky";
};
buildInputs = [ autoreconfHook pkgconfig udev ];
buildInputs = [ cmake pkgconfig udev libcec_platform ];
cmakeFlags = [ "-DBUILD_SHARED_LIBS=1" ];
# Fix dlopen path
patchPhase = ''

23
pkgs/development/libraries/libcec/platform.nix Normal file
View File

@ -0,0 +1,23 @@
{ stdenv, fetchurl, cmake }:
let version = "1.0.10"; in
stdenv.mkDerivation {
name = "libcec-${version}";
src = fetchurl {
url = "https://github.com/Pulse-Eight/platform/archive/${version}.tar.gz";
sha256 = "1kdmi9b62nky4jrb5519ddnw5n7s7m6qyj7rzhg399f0n6f278vb";
};
nativeBuildInputs = [ cmake ];
meta = with stdenv.lib; {
description = "Platform library for libcec and Kodi addons";
homepage = "https://github.com/Pulse-Eight/platform";
repositories.git = "https://github.com/Pulse-Eight/libcec.git";
license = stdenv.lib.licenses.gpl2Plus;
platforms = platforms.linux;
maintainers = [ maintainers.titanous ];
};
}

4
pkgs/development/libraries/libpng/12.nix
View File

@ -3,11 +3,11 @@
assert !(stdenv ? cross) -> zlib != null;
stdenv.mkDerivation rec {
name = "libpng-1.2.52";
name = "libpng-1.2.53";
src = fetchurl {
url = "mirror://sourceforge/libpng/${name}.tar.xz";
sha256 = "1h0fa67x4bh7gcdh7qx87m4xpkdfqa7ihd4h678dcyh52jzhzyyl";
sha256 = "02jwfqk1ahqfvbs9gdyb5v0123by9ws6m7jnfvainig7i7v4jpml";
};
propagatedBuildInputs = [ zlib ];

8
pkgs/development/libraries/libpng/default.nix
View File

@ -1,13 +1,13 @@
{ stdenv, fetchurl, zlib, apngSupport ? false }:
{ stdenv, fetchurl, zlib, apngSupport ? true }:
assert zlib != null;
let
version = "1.6.16";
sha256 = "0q5ygy15jkpqbj5701ywrjzqp4nl5yz3r4g58h2p0kiycggm9xs2";
version = "1.6.18";
sha256 = "0qq96rf31483kxz32h6l6921hy6p2v2pfqfvc74km229g4xw241f";
patch_src = fetchurl {
url = "mirror://sourceforge/libpng-apng/libpng-${version}-apng.patch.gz";
sha256 = "1sf27a5gvwvcm4wsf2pyq87d3g4l2fym8cirq9sli54bi753ikbh";
sha256 = "0g2ljh2vhclas1hacys1c4gk6l6hyy6sngb2yvdsnjz50nyq16kv";
};
whenPatched = stdenv.lib.optionalString apngSupport;

51
pkgs/development/libraries/libpsl/default.nix
View File

@ -1,16 +1,48 @@
{ stdenv, fetchFromGitHub, autoreconfHook, icu, libxslt, pkgconfig }:
{ stdenv, fetchurl, fetchFromGitHub, autoreconfHook, docbook_xsl, gtk_doc
, icu, libxslt, pkgconfig }:
let version = "0.7.1"; in
stdenv.mkDerivation rec {
let
version = "${libVersion}-list-${listVersion}";
listVersion = "2015-08-03";
listArchive = let
rev = "447962d71bf512fe41e828afc7fa66a1701c7c3c";
in fetchurl {
sha256 = "0gp0cb6p8yvyy5kvgdwg45ian9rb07bb0a9ibdj58g21l54mx3r2";
url = "https://codeload.github.com/publicsuffix/list/tar.gz/${rev}";
};
libVersion = "0.8.0";
in stdenv.mkDerivation {
name = "libpsl-${version}";
src = fetchFromGitHub {
sha256 = "0hbsidbmwgpg0h48wh2pzsq59j8az7naz3s5q3yqn99yyjji2vgw";
rev = name;
sha256 = "0mjnj36igk6w3c0d4k2fqqg1kl6bpnxfrcgcgz1zdw33gfa5gdi7";
rev = "libpsl-${libVersion}";
repo = "libpsl";
owner = "rockdaboot";
};
buildInputs = [ icu libxslt ];
nativeBuildInputs = [ autoreconfHook docbook_xsl gtk_doc pkgconfig ];
preAutoreconf = ''
mkdir m4
gtkdocize
'';
preConfigure = ''
# The libpsl check phase requires the list's test scripts (tests/) as well
tar --directory=list --strip-components=1 -xf "${listArchive}"
'';
configureFlags = "--disable-static --enable-gtk-doc --enable-man";
enableParallelBuilding = true;
doCheck = true;
meta = with stdenv.lib; {
inherit version;
description = "C library for the Publix Suffix List";
@ -26,13 +58,4 @@ stdenv.mkDerivation rec {
platforms = with platforms; linux ++ darwin;
maintainers = with maintainers; [ nckx ];
};
buildInputs = [ icu libxslt ];
nativeBuildInputs = [ autoreconfHook pkgconfig ];
configureFlags = "--disable-static --enable-man";
enableParallelBuilding = true;
doCheck = true;
}

28
pkgs/development/libraries/libtap/default.nix Normal file
View File

@ -0,0 +1,28 @@
{ stdenv, fetchurl, pkgconfig, cmake, perl }:
with stdenv.lib;
stdenv.mkDerivation rec{
name = "libtap-${version}";
version = "1.12.0";
src = fetchurl {
url = "http://web-cpan.shlomifish.org/downloads/${name}.tar.bz2";
sha256 = "1ms1770cx8c6q3lhn1chkzy12vzmjgvlms7cqhd2d3260j2wwv5s";
};
buildInputs = [ pkgconfig ];
propagatedBuildInputs = [ cmake perl ];
meta = {
description = "A library to implement a test protocol";
longDescription = ''
libtap is a library to implement the Test Anything Protocol for
C originally created by Nik Clayton. This is a maintenance
branch by Shlomi Fish.
'';
homepage = "http://www.shlomifish.org/open-source/projects/libtap/";
license = licenses.bsd3;
maintainers = [ maintainers.AndersonTorres ];
};
}

2
pkgs/development/libraries/qscintilla/default.nix
View File

@ -23,8 +23,6 @@ stdenv.mkDerivation rec {
qmake qscintilla.pro
'';
# TODO PyQt Support.
meta = {
description = "A Qt port of the Scintilla text editing library";
longDescription = ''

3
pkgs/development/pure-modules/octave/default.nix
View File

@ -21,5 +21,8 @@ stdenv.mkDerivation rec {
license = stdenv.lib.licenses.gpl3Plus;
platforms = stdenv.lib.platforms.linux;
maintainers = with stdenv.lib.maintainers; [ asppsa ];
# See https://bitbucket.org/purelang/pure-lang/issues/38
broken = true;
};
}

277
pkgs/development/r-modules/bioc-packages.nix
View File

@ -21,12 +21,12 @@ AffyExpress = derive { name="AffyExpress"; version="1.35.0"; sha256="1ysn3c8mpnq
AffyRNADegradation = derive { name="AffyRNADegradation"; version="1.15.0"; sha256="0x7mwlzvcxplvijprch0anwbfmj1qkrxqd9rc6f4p0zf88z2csal"; depends=[affy]; };
AffyTiling = derive { name="AffyTiling"; version="1.27.0"; sha256="1jqil9hd10cwsqdlxjd7c8s0p9fvrfcqxiw8rfrq117c8dlgl7w6"; depends=[affxparser affy preprocessCore]; };
AgiMicroRna = derive { name="AgiMicroRna"; version="2.19.0"; sha256="1m1fi6pdqwnfn21a4i7psxdg12bn6bhvcsi43bhwlzxzkrz00257"; depends=[affy affycoretools Biobase limma preprocessCore]; };
AllelicImbalance = derive { name="AllelicImbalance"; version="1.7.17"; sha256="0fgqsdlnch5rh04pnzjypgba2n67j3m2aab2yddl0kf0wsmb8zwg"; depends=[AnnotationDbi BiocGenerics Biostrings GenomeInfoDb GenomicAlignments GenomicFeatures GenomicRanges Gviz IRanges lattice Rsamtools S4Vectors seqinr SummarizedExperiment VariantAnnotation]; };
AnalysisPageServer = derive { name="AnalysisPageServer"; version="1.1.2"; sha256="057xik4hxaqz1f9m8clq504xa4km2byag546iw20v6i0qa9s1dwi"; depends=[Biobase graph log4r rjson]; };
AllelicImbalance = derive { name="AllelicImbalance"; version="1.7.19"; sha256="09kjl7rka00vqysg13naqqcks5mjygg45yb6z6k1qmbc7xd19ggl"; depends=[AnnotationDbi BiocGenerics Biostrings GenomeInfoDb GenomicAlignments GenomicFeatures GenomicRanges Gviz IRanges lattice Rsamtools S4Vectors seqinr SummarizedExperiment VariantAnnotation]; };
AnalysisPageServer = derive { name="AnalysisPageServer"; version="1.1.3"; sha256="1k07v1flb7zvni6gmmpjrwl5hrs7adfhcjcg58vqj0b3nbij7aa0"; depends=[Biobase graph log4r rjson]; };
AnnotationDbi = derive { name="AnnotationDbi"; version="1.31.17"; sha256="04xkhqnr9hmgxihfhn35a6s68s8x5layl7mf5whwhwxmlcd76lx4"; depends=[Biobase BiocGenerics DBI IRanges RSQLite S4Vectors]; };
AnnotationForge = derive { name="AnnotationForge"; version="1.11.7"; sha256="00agvwzmnvs8vx2y62x5qd9y09045j74kk9kp69v8m1iqpigs1v0"; depends=[AnnotationDbi Biobase BiocGenerics DBI RSQLite S4Vectors]; };
AnnotationForge = derive { name="AnnotationForge"; version="1.11.15"; sha256="02z3kxqcn87ykdsxfzs9j0qzpjkb2k79sz89lxrggk24jxk0rr35"; depends=[AnnotationDbi Biobase BiocGenerics DBI RSQLite S4Vectors]; };
AnnotationFuncs = derive { name="AnnotationFuncs"; version="1.19.0"; sha256="1qjvkbqpyhwibdqv1c4n2z5wjnzx0h3kdas3fs33jhb597bxhl1y"; depends=[AnnotationDbi]; };
AnnotationHub = derive { name="AnnotationHub"; version="2.1.28"; sha256="055biw0izf0la405igpp22azgharwhr6xfks32lr4dgbh8n70qjd"; depends=[AnnotationDbi BiocGenerics BiocInstaller httr interactiveDisplayBase RSQLite S4Vectors]; };
AnnotationHub = derive { name="AnnotationHub"; version="2.1.32"; sha256="1a8hxbj97fhg64zxfhwk107ih8y4zgq48yx6xgpzm2pdsx5x9ndx"; depends=[AnnotationDbi BiocGenerics BiocInstaller httr interactiveDisplayBase RSQLite S4Vectors]; };
ArrayExpress = derive { name="ArrayExpress"; version="1.29.1"; sha256="0gyckxsmmh81ykf7mj952h2a4z58xrf9lbnmv884hz7zj317lf83"; depends=[affy Biobase limma XML]; };
ArrayExpressHTS = derive { name="ArrayExpressHTS"; version="1.19.0"; sha256="0qyd9jhkvw4lxqjvix28yzdx08hi7vf77ynlqxcl2q1lb3gmbxar"; depends=[Biobase BiocGenerics biomaRt Biostrings bitops DESeq edgeR GenomicRanges Hmisc IRanges R2HTML RColorBrewer rJava Rsamtools sampling sendmailR ShortRead snow svMisc XML]; };
ArrayTV = derive { name="ArrayTV"; version="1.7.0"; sha256="11dlq4lmzw0x8z2qrxff6xlcilp95nd71jpdvg3i5yni3ws6z5m1"; depends=[DNAcopy foreach oligoClasses]; };
@ -41,14 +41,14 @@ BEclear = derive { name="BEclear"; version="1.1.0"; sha256="1icaxkxwr2rkii4fffln
BGmix = derive { name="BGmix"; version="1.29.0"; sha256="0s2s6ylbw2wvdkn28842ghsflhcmcn156zw3fxmbdnz7xs29qs1f"; depends=[KernSmooth]; };
BHC = derive { name="BHC"; version="1.21.0"; sha256="0f8qqid4qxw52zjvvm024wcmn0afr7avkr4hr2jfyvs0ga49khx8"; depends=[]; };
BRAIN = derive { name="BRAIN"; version="1.15.0"; sha256="09yd3xf3h85wdf56p38mnspyqbswl2v8zb81yg0a008p0l5ax8xr"; depends=[Biostrings lattice PolynomF]; };
BSgenome = derive { name="BSgenome"; version="1.37.3"; sha256="1a0qk3lh2qhynsink8ysc16d4pmam2midakh26adn1hqrf6n22gb"; depends=[BiocGenerics Biostrings GenomeInfoDb GenomicRanges IRanges Rsamtools rtracklayer S4Vectors XVector]; };
BSgenome = derive { name="BSgenome"; version="1.37.4"; sha256="09vwkl517nnq9krxwyaf70xaqnk3r3ddxdd834pwrhyij7r49sqr"; depends=[BiocGenerics Biostrings GenomeInfoDb GenomicRanges IRanges Rsamtools rtracklayer S4Vectors XVector]; };
BUS = derive { name="BUS"; version="1.25.0"; sha256="1n3s0pw4ijgh927mahwqybks8i6ysybp7xn4a86nrbpr2kqhznrd"; depends=[infotheo minet]; };
BaseSpaceR = derive { name="BaseSpaceR"; version="1.13.2"; sha256="17g87vfx6yy4cdqxchl9ig6s2vhnpfbarssw80ha6kbqw81jh55h"; depends=[RCurl RJSONIO]; };
Basic4Cseq = derive { name="Basic4Cseq"; version="1.5.1"; sha256="0a4b11rv5ilv84qqpvf320c3knaajg4hlby5km0zzms3vbisr4hi"; depends=[Biostrings caTools GenomicAlignments GenomicRanges RCircos]; };
BayesPeak = derive { name="BayesPeak"; version="1.21.0"; sha256="0mz00mk6gmc5g79iifn5hzfwf7s568n6s6wy46vrnnnnr3sk9w49"; depends=[IRanges]; };
BeadDataPackR = derive { name="BeadDataPackR"; version="1.21.1"; sha256="16dh7byvigd6161qznd1k9cz9hp0r50nbrd8nqlsh28zr60pvrj3"; depends=[]; };
BiGGR = derive { name="BiGGR"; version="1.5.0"; sha256="1q9m870pyhxd1627n94c259094k8jyrg22ni26qpnxkapj18lr0b"; depends=[hyperdraw hypergraph LIM rsbml stringr]; };
BiRewire = derive { name="BiRewire"; version="2.1.2"; sha256="08innw83yr3imrgklva9djjx3a5sd7mqfnb70ggi6hia729kar01"; depends=[igraph slam]; };
BiRewire = derive { name="BiRewire"; version="2.3.6"; sha256="1i2fn3lfc93gxy3llc6wwviq7pn3d3na556i2fl538ia66asm2ax"; depends=[igraph slam tsne]; };
BiSeq = derive { name="BiSeq"; version="1.9.2"; sha256="1z401p2y9sa2cs1zwnkvf3968nyv5c7wcbxvldjyl5dg04qw88wn"; depends=[betareg Biobase BiocGenerics Formula GenomeInfoDb GenomicRanges globaltest IRanges lokern rtracklayer S4Vectors SummarizedExperiment]; };
BicARE = derive { name="BicARE"; version="1.27.0"; sha256="19hslc78nijcs6gyxzzcd8856wa1gf5dsrvm4x6r9lprfrk7d7fb"; depends=[Biobase GSEABase multtest]; };
BioMVCClass = derive { name="BioMVCClass"; version="1.37.0"; sha256="1k4ba98cjaqhy33vsmflnwasi0vxr30dvj6861pz625m87fyp2g6"; depends=[Biobase graph MVCClass Rgraphviz]; };
@ -57,10 +57,10 @@ BioSeqClass = derive { name="BioSeqClass"; version="1.27.0"; sha256="1pv7zibcrgb
Biobase = derive { name="Biobase"; version="2.29.1"; sha256="12cckssh7x4dd8vaapp5nfc5bfcqls8k3rblcfi17z5cpi0jply6"; depends=[BiocGenerics]; };
BiocCaseStudies = derive { name="BiocCaseStudies"; version="1.31.0"; sha256="05nj9i9y8clf406bjcflj8lsrp9x9iw6my1bdqnxg3nv2krp37xn"; depends=[Biobase]; };
BiocCheck = derive { name="BiocCheck"; version="1.5.6"; sha256="0gpmrqvj31n73bqljf23wbsw3hp44hl3z1jhc2q86s3mw6hlcfip"; depends=[BiocInstaller biocViews codetools devtools graph httr knitr optparse]; };
BiocGenerics = derive { name="BiocGenerics"; version="0.15.3"; sha256="1wk7mr3jmjr2ljqqlmnpvb3x2cflkkhsyjl2cd4ns0gld4rmmm8x"; depends=[]; };
BiocInstaller = derive { name="BiocInstaller"; version="1.19.8"; sha256="1jmzvs3sv324n9j6j8mrjpc648650k0sv23xni09x55zq41nm672"; depends=[]; };
BiocParallel = derive { name="BiocParallel"; version="1.3.31"; sha256="0s47gbrj8cs8wpsac14nj2blqwwr2fkg8fsr61fz5v0j21wrk3kd"; depends=[futile_logger snow]; };
BiocStyle = derive { name="BiocStyle"; version="1.7.4"; sha256="0wlydy1a3pspnyjg5vl0657z620n5vlhx99hxisskbrsr026mhmg"; depends=[]; };
BiocGenerics = derive { name="BiocGenerics"; version="0.15.5"; sha256="0l8gqzqqnxx99ziamclsf4krmlyrq6fjzifh19xg7wqiyp59h41x"; depends=[]; };
BiocInstaller = derive { name="BiocInstaller"; version="1.19.9"; sha256="14z4wgvry2mbbv847mlns6ff0irwfpyk1yfcxbr27wmlisk14wxz"; depends=[]; };
BiocParallel = derive { name="BiocParallel"; version="1.3.47"; sha256="0y3nv2ff8r2mijhljrgkky6b1vyb22iywbq38rv1ac6kbbpf680p"; depends=[futile_logger snow]; };
BiocStyle = derive { name="BiocStyle"; version="1.7.6"; sha256="1bdsz8s74wfgbq6afihi40ra1kljf8w8vxrgna34aks49908rxnd"; depends=[]; };
Biostrings = derive { name="Biostrings"; version="2.37.2"; sha256="0j6701qgrnphsy9p34sf3s6d91j1zbd824zwv9rsfdmdffbkqq3b"; depends=[BiocGenerics IRanges S4Vectors XVector zlibbioc]; };
BitSeq = derive { name="BitSeq"; version="1.13.0"; sha256="1d397bcdyi3d35l1q1661spm3xhr7hqlsrjr5a2ybsjs3wqkf4fj"; depends=[IRanges Rsamtools S4Vectors zlibbioc]; };
BrainStars = derive { name="BrainStars"; version="1.13.0"; sha256="07wygi0fw0ilg404gx1ifswr61w6qlg8j0vkmnsr0migm70rgzzg"; depends=[Biobase RCurl RJSONIO]; };
@ -73,7 +73,7 @@ BufferedMatrixMethods = derive { name="BufferedMatrixMethods"; version="1.33.0";
CAFE = derive { name="CAFE"; version="1.5.0"; sha256="1kzy0g0kwvzvlls316cpvwrvnv5m9vklzjjsiiykvfq1wd21s96f"; depends=[affy annotate Biobase biovizBase GenomicRanges ggbio ggplot2 gridExtra IRanges]; };
CAGEr = derive { name="CAGEr"; version="1.11.0"; sha256="1rz1r55aji1av70c661d7czwipxah9507h5i9hcngy84ic1m72f1"; depends=[beanplot BSgenome data_table GenomicRanges IRanges Rsamtools rtracklayer som VGAM]; };
CALIB = derive { name="CALIB"; version="1.35.0"; sha256="08fgzq80ws4i6i1ppbqxdq3ba9qfdv4h0dyi08f9k91kfh1y31x4"; depends=[limma]; };
CAMERA = derive { name="CAMERA"; version="1.25.0"; sha256="1nl5va3f436vwpcirhcpcph13s2vbh8965v8iizi29vk83gbyfza"; depends=[Biobase graph Hmisc igraph RBGL xcms]; };
CAMERA = derive { name="CAMERA"; version="1.25.1"; sha256="0g8w5g6kr1s039cyvxk3pkw1mbskrij2vlc657bbxvs6pb3h2mrm"; depends=[Biobase graph Hmisc igraph RBGL xcms]; };
CAnD = derive { name="CAnD"; version="1.1.1"; sha256="1zyp4z86fda83wdhjfdh1ck9ynvdvrrxcvdlgld7h4x295r35r3s"; depends=[ggplot2 reshape]; };
CFAssay = derive { name="CFAssay"; version="1.3.0"; sha256="04zgyvm0rrs780z1vn4zzrh3w01lnhaywyn5ar6dvxcyxnr2y3qs"; depends=[]; };
CGEN = derive { name="CGEN"; version="3.3.0"; sha256="03sdyw6z5xw9ndwkwdli7bz6v0ki8w2slx30v5lgm31lqgl4lpf6"; depends=[mvtnorm survival]; };
@ -97,7 +97,7 @@ COHCAP = derive { name="COHCAP"; version="1.7.0"; sha256="0clr1jh4jnq54phsnl90zf
COMPASS = derive { name="COMPASS"; version="1.7.2"; sha256="0c83fsrmi7d2888pa3lnln42mlbnjgvpxw337vdh3dar1185a5b0"; depends=[abind clue data_table knitr plyr RColorBrewer Rcpp scales]; };
CORREP = derive { name="CORREP"; version="1.35.0"; sha256="0hlij2ch8r3lv130hvyshb82lfqz2c7kr56bka1ghmg6jp0xf1n6"; depends=[e1071]; };
COSNet = derive { name="COSNet"; version="1.3.3"; sha256="0l9sn0cki0mxacxv0bwp3cczcl8rscx8g3lnr0r448f13j8198f4"; depends=[]; };
CRISPRseek = derive { name="CRISPRseek"; version="1.9.2"; sha256="1h004gznxrm2k3l4xdr6iyn97rkkh8n85phskiink815ysm2l9z4"; depends=[BiocGenerics Biostrings BSgenome seqinr]; };
CRISPRseek = derive { name="CRISPRseek"; version="1.9.7"; sha256="164f12s8arg1460fcsaa9l3igav4vjn4niwwpxaj19i4iar1f3pw"; depends=[BiocGenerics Biostrings BSgenome seqinr]; };
CRImage = derive { name="CRImage"; version="1.17.0"; sha256="1sab95gngwi7c333n9hnbd9fdvdy9i69pjpx5ic5799s7qr03llw"; depends=[aCGH DNAcopy e1071 EBImage foreach MASS sgeostat]; };
CSAR = derive { name="CSAR"; version="1.21.0"; sha256="1wn7zxmy5ssj2jkk2624j42yv67wdcigp5ksb6fc2kzpgnvqmxl1"; depends=[GenomeInfoDb GenomicRanges IRanges S4Vectors]; };
CSSP = derive { name="CSSP"; version="1.7.0"; sha256="1ydxj358sfaygzjvh0b042p7gymjyl7nr5cnxrh8c7x2mv2hdh4d"; depends=[]; };
@ -111,7 +111,7 @@ ChAMP = derive { name="ChAMP"; version="1.7.0"; sha256="0ll50qyq9k8x4bv30dap6g6l
ChIPQC = derive { name="ChIPQC"; version="1.5.2"; sha256="0g630lpzwfbg5hgicg0s906a3a6gidswmidszx0hmn3479fah74m"; depends=[Biobase BiocGenerics BiocParallel chipseq DiffBind GenomicAlignments GenomicRanges ggplot2 gtools IRanges Nozzle_R1 reshape2 Rsamtools S4Vectors]; };
ChIPXpress = derive { name="ChIPXpress"; version="1.11.0"; sha256="11aifr69ss1hakrhba985bwz6k1sqkpzvv7gnzn8cgqnzxyr2i6b"; depends=[affy biganalytics bigmemory Biobase frma GEOquery]; };
ChIPpeakAnno = derive { name="ChIPpeakAnno"; version="3.3.2"; sha256="0ww3ddnvdc561lhz27h8n3ywi1xpx1cbsqk2i8m5rkpykkkkr2dh"; depends=[AnnotationDbi BiocGenerics BiocInstaller biomaRt Biostrings BSgenome GenomicFeatures GenomicRanges graph IRanges limma multtest RBGL VennDiagram]; };
ChIPseeker = derive { name="ChIPseeker"; version="1.5.6"; sha256="0ppv51hd44h15mkw15samdq1awsh1kdfy5p87pj60nmvbl0qj39h"; depends=[AnnotationDbi BiocGenerics boot dplyr GenomeInfoDb GenomicFeatures GenomicRanges ggplot2 gplots gtools IRanges magrittr plotrix plyr RColorBrewer rtracklayer S4Vectors]; };
ChIPseeker = derive { name="ChIPseeker"; version="1.5.8"; sha256="14prgyzrhh5r6mmrf88my8a0r3n6m45rx2ik0ajlz76avjpzdawr"; depends=[AnnotationDbi BiocGenerics boot dplyr GenomeInfoDb GenomicFeatures GenomicRanges ggplot2 gplots gridBase gtools IRanges magrittr plotrix plyr RColorBrewer rtracklayer S4Vectors UpSetR]; };
ChIPseqR = derive { name="ChIPseqR"; version="1.23.2"; sha256="1k1vbck7kjyzzgm0hg8hxpq6zfg71rca76q3998fcnnlzsmgvcf4"; depends=[BiocGenerics Biostrings fBasics GenomicRanges HilbertVis IRanges S4Vectors ShortRead timsac]; };
ChIPsim = derive { name="ChIPsim"; version="1.23.1"; sha256="13kniwvwa49n1kc9114ljn1fmzaiyb2nh33if596llql60p7nd23"; depends=[Biostrings IRanges ShortRead XVector]; };
ChemmineOB = derive { name="ChemmineOB"; version="1.7.1"; sha256="04agfsdzccsvvvis6vy1gg83gfs4nrph950v6bbzgk15ki32rsjz"; depends=[BH BiocGenerics Rcpp zlibbioc]; };
@ -124,13 +124,13 @@ CoCiteStats = derive { name="CoCiteStats"; version="1.41.0"; sha256="0shp06qy8cv
CoGAPS = derive { name="CoGAPS"; version="2.3.2"; sha256="0jh5ij66x3isz67mj0jwypyshplk1l1p47n2hvwgq87xmjzv6c8p"; depends=[BH gplots RColorBrewer Rcpp]; };
CoRegNet = derive { name="CoRegNet"; version="1.5.0"; sha256="14yq1f005fcfmfp88h2fy05gdgbskjws11qbdh0ndx3sf93nzxm2"; depends=[arules igraph shiny]; };
CompGO = derive { name="CompGO"; version="1.5.0"; sha256="128ib7w0jxba0p32s796i864b73zjfxac56znd0v4wv4vxv3jiv6"; depends=[GenomicFeatures ggplot2 pathview pcaMethods RDAVIDWebService reshape2 Rgraphviz rtracklayer]; };
ComplexHeatmap = derive { name="ComplexHeatmap"; version="1.2.2"; sha256="0v1mj0n5gjdarwdrl9ir9gms0f3v0gplx4n34zvyszxivh4ph4jj"; depends=[circlize colorspace dendextend GetoptLong RColorBrewer]; };
ComplexHeatmap = derive { name="ComplexHeatmap"; version="1.2.6"; sha256="0n0bn69ms6ny42i0rvajhvrwivxd21spgk9s9xzqbln7758fvnw2"; depends=[circlize colorspace dendextend GetoptLong RColorBrewer]; };
ConsensusClusterPlus = derive { name="ConsensusClusterPlus"; version="1.23.0"; sha256="13iikfh234d2z4k487lb3shmnrfijygrf6gz3x481gba2psnbjyw"; depends=[Biobase cluster]; };
CopyNumber450k = derive { name="CopyNumber450k"; version="1.5.0"; sha256="0mjhmh4shgckv43zvg4yqr17jfi9p9xnc40fwy9fw9c4vjcfsvsj"; depends=[Biobase BiocGenerics DNAcopy minfi preprocessCore]; };
CopywriteR = derive { name="CopywriteR"; version="2.1.2"; sha256="0lja77qdfbsl9cc1nv4jbrjwiq8bb93ja6na8hqksrrm9g1qs4q4"; depends=[BiocParallel chipseq data_table DNAcopy futile_logger GenomeInfoDb GenomicAlignments GenomicRanges gtools IRanges matrixStats Rsamtools S4Vectors]; };
CopywriteR = derive { name="CopywriteR"; version="2.1.3"; sha256="0qhl3lbdf9fsm6hx45sk2nihikbzh08lbnwaz1as3wf5cx7zm08c"; depends=[BiocParallel chipseq data_table DNAcopy futile_logger GenomeInfoDb GenomicAlignments GenomicRanges gtools IRanges matrixStats Rsamtools S4Vectors]; };
CorMut = derive { name="CorMut"; version="1.11.0"; sha256="0s92bh3610frxbm0gqvlznay70dy7x61hvc0qgh6xmcyz0llx27g"; depends=[igraph seqinr]; };
Cormotif = derive { name="Cormotif"; version="1.15.0"; sha256="1v36ylwkxr6yqasckmmj2dkr7s72f39srhwvm93rs1rl7kw4dc4p"; depends=[affy limma]; };
CoverageView = derive { name="CoverageView"; version="1.5.1"; sha256="0qi8r6vw5c6kmlw12j81jmgn555wd51w80m80gm5n7hqnggpwkh4"; depends=[BiocGenerics GenomicAlignments GenomicRanges IRanges Rsamtools rtracklayer S4Vectors]; };
CoverageView = derive { name="CoverageView"; version="1.5.2"; sha256="1bxx35h9d7gwm5m16i4hkf54zghij95jfxxc46x83glccsirah2f"; depends=[BiocGenerics GenomicAlignments GenomicRanges IRanges Rsamtools rtracklayer S4Vectors]; };
DART = derive { name="DART"; version="1.17.1"; sha256="1z7lf4d9yjcyikq9j3348z5sxjqaly46c0ls7f9cl8nnqdpw7w42"; depends=[igraph]; };
DASiR = derive { name="DASiR"; version="1.9.0"; sha256="0b3b7kmhsd6bb1s57c89h495j1ax6779wfca112fq6ba3z4dih3n"; depends=[Biostrings GenomicRanges IRanges XML]; };
DAVIDQuery = derive { name="DAVIDQuery"; version="1.29.0"; sha256="0gvm6qjx8y61nbnbz66md74pfc4awj4900pjr8q1m5sip5yzbxj2"; depends=[RCurl]; };
@ -138,20 +138,21 @@ DBChIP = derive { name="DBChIP"; version="1.13.0"; sha256="0gk9kgmyp9540sq5gpbn7
DECIPHER = derive { name="DECIPHER"; version="1.15.0"; sha256="1kbdsqvkznzsk4ljy91r5ipndwxb8hhkm46qqkakgr24mia3yvl1"; depends=[Biostrings DBI IRanges RSQLite S4Vectors XVector]; };
DEDS = derive { name="DEDS"; version="1.43.0"; sha256="1z049ppkrbyp0xjpiygz5i6rbxbv3vvnvspwz2vv77495v7ykj6z"; depends=[]; };
DEGraph = derive { name="DEGraph"; version="1.21.0"; sha256="17f04qngcx8y4glr5wiryi8fifbla8fxh8nb6wagnrai5x6vhzis"; depends=[graph KEGGgraph lattice mvtnorm NCIgraph R_methodsS3 R_utils RBGL Rgraphviz rrcov]; };
DEGreport = derive { name="DEGreport"; version="1.4.0"; sha256="06l803iy18kkv05b4h46vmzws20c0735m6csfkn2vp3bik8xh4lp"; depends=[coda edgeR ggplot2 Nozzle_R1 plyr quantreg]; };
DEGreport = derive { name="DEGreport"; version="1.5.0"; sha256="14mrfnmkik74yf5vml03x96brq7qlja2hpvndbffxr5a8ddb7117"; depends=[coda edgeR ggplot2 Nozzle_R1 plyr quantreg]; };
DEGseq = derive { name="DEGseq"; version="1.23.0"; sha256="0993f140wwv9z9l53f9g74x7l28bflxq7wdcbilfz7ijhh7isr7p"; depends=[qvalue samr]; };
DESeq = derive { name="DESeq"; version="1.21.0"; sha256="13f6phdf9g325dlpn38l7zrq3mzldhldil134acxi9p3l50bx23y"; depends=[Biobase BiocGenerics genefilter geneplotter lattice locfit MASS RColorBrewer]; };
DESeq2 = derive { name="DESeq2"; version="1.9.21"; sha256="0ywhakri35cz37zlwv760zgmk1z9ldivl0i24mawavccc0hcvrhk"; depends=[Biobase BiocGenerics BiocParallel genefilter geneplotter GenomicRanges ggplot2 Hmisc IRanges locfit Rcpp RcppArmadillo S4Vectors SummarizedExperiment]; };
DEXSeq = derive { name="DEXSeq"; version="1.15.9"; sha256="0ml4ibzhw38w0mfp0vdbbkisz40rw65yyd71q3ppj7jg4r4ch39a"; depends=[Biobase BiocGenerics BiocParallel biomaRt DESeq2 genefilter geneplotter GenomicRanges hwriter IRanges RColorBrewer Rsamtools statmod stringr]; };
DESeq2 = derive { name="DESeq2"; version="1.9.26"; sha256="0b7w0csg7q5nqbrmc83rviiwhahq88zlqmxwlkz5g01w9zzkgc80"; depends=[Biobase BiocGenerics BiocParallel genefilter geneplotter GenomicRanges ggplot2 Hmisc IRanges locfit Rcpp RcppArmadillo S4Vectors SummarizedExperiment]; };
DEXSeq = derive { name="DEXSeq"; version="1.15.10"; sha256="1sddciia2zxn5jxpzyrg3mxcrl28kcvxfbc6nk5dwrnqd9mj53jj"; depends=[Biobase BiocGenerics BiocParallel biomaRt DESeq2 genefilter geneplotter GenomicRanges hwriter IRanges RColorBrewer Rsamtools statmod stringr]; };
DFP = derive { name="DFP"; version="1.27.0"; sha256="0xcipbhfzvrpbm6dh2y3lbvfbwpn4wly32sssfm702zik5wm9dy1"; depends=[Biobase]; };
DMRcaller = derive { name="DMRcaller"; version="1.1.1"; sha256="1g7q7cwivvb0m2y4fixvbxp51zfag1jv66bdlai3gawr94pcx56y"; depends=[GenomicRanges IRanges Rcpp RcppRoll S4Vectors]; };
DMRcate = derive { name="DMRcate"; version="1.5.0"; sha256="12q6if9lljia37zwhcc9fpcp9vhkp1qhzchpypwwyn2j4344bmp3"; depends=[limma minfi]; };
DMRcate = derive { name="DMRcate"; version="1.5.61"; sha256="0ss8zk2b1y83q49pv9fdm2rqw5hlnd189knfg1y8y0psfjhc9knp"; depends=[limma minfi]; };
DMRforPairs = derive { name="DMRforPairs"; version="1.5.0"; sha256="0d14qgx07xq7wa687a2znpfw0zcg8ccvxjawkjdbi6ayjwpb6zd7"; depends=[GenomicRanges Gviz R2HTML]; };
DNAcopy = derive { name="DNAcopy"; version="1.43.0"; sha256="1v1i4bfkblimdmazv29csqr46jaiv8lncihgywvq5wfn8ccr7xl9"; depends=[]; };
DOQTL = derive { name="DOQTL"; version="1.3.0"; sha256="0g3nyamqdhjg8105kcq6nsgjgqzcxkp04194j82v1xb31baj53bg"; depends=[annotate annotationTools Biobase BiocGenerics biomaRt corpcor GenomicRanges hwriter IRanges mclust QTLRel Rsamtools RUnit S4Vectors XML]; };
DOSE = derive { name="DOSE"; version="2.7.9"; sha256="0l0rkd7siz251pxgmfv4ijq1l68w3lkjlc83zmhf4ddjf3db07ig"; depends=[AnnotationDbi ggplot2 GOSemSim igraph plyr qvalue reshape2 scales]; };
DSS = derive { name="DSS"; version="2.7.2"; sha256="01czzgkx6rqpps93vfn8dg2n2hm2nkd887mc955z67845jkrgi2j"; depends=[Biobase bsseq]; };
DOSE = derive { name="DOSE"; version="2.7.10"; sha256="093gyplk5ylwndynlcvm8s44ra8b6i6xrkqswc7zprndkawc4bgp"; depends=[AnnotationDbi ggplot2 GOSemSim igraph plyr qvalue reshape2 scales]; };
DSS = derive { name="DSS"; version="2.8.1"; sha256="0nhrq05b5rsfdcxc96pdsppnfwz106k7xdxccgr0xjypbhm01hsk"; depends=[Biobase bsseq]; };
DTA = derive { name="DTA"; version="2.15.0"; sha256="0amibwj5mnm2plkf3ys8sgy4lpwr60fnvika0psdrahgb4blmkzp"; depends=[LSD scatterplot3d]; };
DeMAND = derive { name="DeMAND"; version="0.99.9"; sha256="013zwa4flbsf9rwlnbzhg1sgfqwvrr01v9bhgpk73kx312zg30sg"; depends=[KernSmooth]; };
DeconRNASeq = derive { name="DeconRNASeq"; version="1.11.0"; sha256="0665chwpbs2pw753nb2x65cs9r9ghb5123bsrzrv6pz2p3ni8yz7"; depends=[ggplot2 limSolve pcaMethods]; };
DiffBind = derive { name="DiffBind"; version="1.15.3"; sha256="1akx65vi8razwpfxnvilh4x1vb8qbsfr2q8lygsb3imfrrb83q44"; depends=[amap edgeR GenomicAlignments GenomicRanges gplots IRanges lattice limma locfit RColorBrewer Rsamtools SummarizedExperiment systemPipeR zlibbioc]; };
DirichletMultinomial = derive { name="DirichletMultinomial"; version="1.11.2"; sha256="01wmvs7alq7gy1nmb5gdbglfs51qdhwysbmmjvh7yyhb8dqbvrj4"; depends=[IRanges S4Vectors]; };
@ -159,8 +160,8 @@ DriverNet = derive { name="DriverNet"; version="1.9.0"; sha256="0visiafw9m7i0yy7
DrugVsDisease = derive { name="DrugVsDisease"; version="2.9.0"; sha256="1wmw1r0x7kkmp47743aq0pp71wamnf5gsk6bhz6rdvswzb12iyqk"; depends=[affy annotate ArrayExpress BiocGenerics biomaRt GEOquery limma qvalue RUnit xtable]; };
DupChecker = derive { name="DupChecker"; version="1.7.0"; sha256="02wwwnx3w8rxiassd62xr295paw8py9pqsk1396qb5k773l6bfxv"; depends=[R_utils RCurl]; };
DynDoc = derive { name="DynDoc"; version="1.47.0"; sha256="0gpmhqav4dx8p86pkh18fpmlki60zqaz00m2zhziiawigbrz41ph"; depends=[]; };
EBImage = derive { name="EBImage"; version="4.11.5"; sha256="15npg7r76avlxq036yis85b91bgl10y4wjjcdnrcn39dbvb50zav"; depends=[abind BiocGenerics fftwtools jpeg locfit png tiff]; };
EBSeq = derive { name="EBSeq"; version="1.9.2"; sha256="0n3y9ikamcfm786fvqp5b2b4g2fx8hvnicsx1sh4rvrpyab9f5jm"; depends=[blockmodeling gplots]; };
EBImage = derive { name="EBImage"; version="4.11.7"; sha256="1zddydckv3zy8wf0wh34g5yg8s1p255h66ym6lnw3l5id7v32wz8"; depends=[abind BiocGenerics fftwtools jpeg locfit png tiff]; };
EBSeq = derive { name="EBSeq"; version="1.9.4"; sha256="01pzjhqx61005jbw3l3m24h10225fkml9889aqvxdxzv5n4rvc03"; depends=[blockmodeling gplots testthat]; };
EBSeqHMM = derive { name="EBSeqHMM"; version="1.3.1"; sha256="0lyf363f1wfgacrj5cyq8n3f3ssl5q400mn2q94cpai6k0qmvgs1"; depends=[EBSeq]; };
EBarrays = derive { name="EBarrays"; version="2.33.0"; sha256="1zvfqf49chiks5vmj5ki89pvy14bm1cman47n3ybba1gg8z8mw94"; depends=[Biobase cluster lattice]; };
EBcoexpress = derive { name="EBcoexpress"; version="1.13.0"; sha256="0fl0a7xasqcwvjlgf3h51akyhwpras2865m2idz1nmacm42q1w79"; depends=[EBarrays mclust minqa]; };
@ -168,12 +169,12 @@ EDASeq = derive { name="EDASeq"; version="2.3.2"; sha256="0l1mmpy71pqqmqnx4xxn1v
EDDA = derive { name="EDDA"; version="1.7.0"; sha256="0dyyhnc9v232njqnrcaq78g2m1qws30qcf6bsswq2di235ymk2g0"; depends=[baySeq DESeq edgeR Rcpp ROCR snow]; };
ELBOW = derive { name="ELBOW"; version="1.5.0"; sha256="0lnc5hw2x4p9yd561w9dwplf7q2slcaghxsh5796bmyxjxhxanpy"; depends=[]; };
ELMER = derive { name="ELMER"; version="1.00.0"; sha256="1kb7rixq02cc0cwm52acji69p89jq07zsagg7a8qva6gshs94k86"; depends=[GenomeInfoDb GenomicFeatures GenomicRanges ggplot2 gridExtra IRanges minfi reshape S4Vectors]; };
EMDomics = derive { name="EMDomics"; version="1.1.0"; sha256="1i2dy2vqig0lkd13xy4yfwq58zyjiqavpmcvg6pvkh2l48ap1jds"; depends=[BiocParallel emdist ggplot2 matrixStats]; };
EMDomics = derive { name="EMDomics"; version="1.1.2"; sha256="14gh59gq0wjhkmrclpmlixn3mbabwwq01bwq6hilf9s2s0i8qkpv"; depends=[BiocParallel CDFt emdist ggplot2 matrixStats preprocessCore]; };
ENCODExplorer = derive { name="ENCODExplorer"; version="1.1.3"; sha256="054cm1ldas26gv4xn16w3i25kykwnikj4s83g7sxxdij93m5rmlb"; depends=[jsonlite RSQLite]; };
ENVISIONQuery = derive { name="ENVISIONQuery"; version="1.17.0"; sha256="1dnlw62hwysij63yc856c2sncgfwdq0rpmcds6i6wigdcfd21w8q"; depends=[rJava XML]; };
ENmix = derive { name="ENmix"; version="1.1.6"; sha256="069dniqyg0pljbwnl24bv5kfdh5v2j9vbvyxc127ag1isggh9m7b"; depends=[Biobase doParallel foreach geneplotter impute MASS minfi preprocessCore sva wateRmelon]; };
ENmix = derive { name="ENmix"; version="1.1.7"; sha256="0p5ywjnm0xknr6k7bnkhcn69870f5wwlq70yfqiah7syqmyim67d"; depends=[Biobase doParallel foreach geneplotter impute MASS minfi preprocessCore sva wateRmelon]; };
EasyqpcR = derive { name="EasyqpcR"; version="1.11.1"; sha256="0s2jyg6b14wbyl0c1n89c7bi7p88g7s1rz8d830p9hh2x75ly6zj"; depends=[gWidgetsRGtk2 matrixStats plotrix plyr]; };
EnrichmentBrowser = derive { name="EnrichmentBrowser"; version="1.3.0"; sha256="1a6w3drh5x20wvxpx1cb5q2h9k6jh65v9hh81924lcp4baplpx31"; depends=[Biobase graph KEGGgraph KEGGREST limma MASS mixtools neaGUI qvalue RColorBrewer Rgraphviz safe SPIA stringr]; };
EnrichmentBrowser = derive { name="EnrichmentBrowser"; version="1.99.6"; sha256="17xchpf0ddxihz6p0lm0nhhyrbaahcar1phl842b30ccv877ibrs"; depends=[AnnotationDbi Biobase biocGraph biomaRt ComplexHeatmap DESeq2 EDASeq edgeR geneplotter graph GSEABase hwriter KEGGgraph KEGGREST limma MASS mixtools neaGUI npGSEA PathNet pathview ReportingTools Rgraphviz S4Vectors safe SPIA stringr SummarizedExperiment topGO]; };
ExiMiR = derive { name="ExiMiR"; version="2.11.0"; sha256="1gmfrn3jq4pz5wmijywhxr0kx79534fhrfnqyhjmqq3s9sjn2cbh"; depends=[affy affyio Biobase limma preprocessCore]; };
ExpressionView = derive { name="ExpressionView"; version="1.21.0"; sha256="026w9f119j26c1078nwg4rhfc54wlb3i56iy8bi0cjpvbm4p698f"; depends=[AnnotationDbi bitops caTools eisa isa2]; };
FEM = derive { name="FEM"; version="2.3.0"; sha256="112mmah33ar36cpqjwanrfyhdwjfympnvmxwirxbbnk0nfp9cvpr"; depends=[AnnotationDbi corrplot igraph impute limma marray Matrix]; };
@ -182,12 +183,12 @@ FISHalyseR = derive { name="FISHalyseR"; version="1.3.0"; sha256="0xnmww7ldyxghq
FRGEpistasis = derive { name="FRGEpistasis"; version="1.5.0"; sha256="1vvcphgirvghzjvic5yq6nl229ryc0y4kp5qd25kgspbcgblg01q"; depends=[fda MASS]; };
FlowRepositoryR = derive { name="FlowRepositoryR"; version="1.1.1"; sha256="1xxljbdbvxg1dbm82r86frw2bskmfrl6rv98xz0z4jfc0w4ag3pd"; depends=[RCurl XML]; };
FlowSOM = derive { name="FlowSOM"; version="1.1.0"; sha256="0k5pw46dbhm6nssr5szj251v3479xgky2iipihrdvp5lr5lhxilq"; depends=[BiocGenerics ConsensusClusterPlus flowCore igraph tsne]; };
FourCSeq = derive { name="FourCSeq"; version="1.3.4"; sha256="1csxfr23b3g1k54h4ksnhg7c7d6aw28v32lrrqyq7x7xls9cx2lg"; depends=[Biobase Biostrings DESeq2 fda GenomicAlignments GenomicRanges ggbio ggplot2 gtools LSD Matrix reshape2 Rsamtools rtracklayer SummarizedExperiment]; };
FourCSeq = derive { name="FourCSeq"; version="1.3.5"; sha256="1mjvgi1cbfi5brl7l0v8026hjjksh81kpslm6w6i6b1llcn1sf65"; depends=[Biobase Biostrings DESeq2 fda GenomicAlignments GenomicRanges ggbio ggplot2 gtools LSD Matrix reshape2 Rsamtools rtracklayer SummarizedExperiment]; };
FunciSNP = derive { name="FunciSNP"; version="1.11.0"; sha256="19kl14yzqr59ngrd5ygr858zbvx23rihlr4vw5bfdy9cgwlvlzab"; depends=[AnnotationDbi ChIPpeakAnno GenomicRanges ggplot2 IRanges plyr reshape Rsamtools rtracklayer scales snpStats VariantAnnotation]; };
GENE_E = derive { name="GENE.E"; version="1.9.0"; sha256="10c9mw9f619z2ai43qvagj7p1lsqpv90z8vzsyyxym614lvlqfzm"; depends=[RCurl rhdf5]; };
GENESIS = derive { name="GENESIS"; version="1.1.0"; sha256="01d3yc5rc4y22znr7zf980m458qvnmjxpml353k7bkwyz6xyn0fj"; depends=[GWASTools]; };
GEOmetadb = derive { name="GEOmetadb"; version="1.29.0"; sha256="1s9x3dbh61xisk5hwzqv3991savygdcwv5cww447w4bfgwffzplg"; depends=[GEOquery RSQLite]; };
GEOquery = derive { name="GEOquery"; version="2.35.4"; sha256="1ny592c1s36a1hkgaqqyss65c190bw5612l23qc9y9qhf4sarq38"; depends=[Biobase RCurl XML]; };
GEOquery = derive { name="GEOquery"; version="2.35.5"; sha256="0c1jyvl5sm0yjlk4ji8qjwxm4rqakmjz04aq6m8biyf04cdd2crk"; depends=[Biobase RCurl XML]; };
GEOsubmission = derive { name="GEOsubmission"; version="1.21.0"; sha256="1rr8k4myw7jibibclphj63hp4byk3v0cg37vnyc5b0iacdp8s9gn"; depends=[affy Biobase]; };
GEWIST = derive { name="GEWIST"; version="1.13.0"; sha256="1mlzyjggv0rh9xk9pifshhdri3vapvzk2h47g75wx57yfapamcwn"; depends=[car]; };
GGBase = derive { name="GGBase"; version="3.31.2"; sha256="0xbkj7dr7xaq3pj4jph5ii78c4ax5b0p6jqmvkv2hr3j70qk3mh2"; depends=[AnnotationDbi Biobase BiocGenerics digest genefilter GenomicRanges IRanges limma Matrix S4Vectors snpStats SummarizedExperiment]; };
@ -201,14 +202,14 @@ GOexpress = derive { name="GOexpress"; version="1.3.2"; sha256="151hqhyjaq3ggigi
GOstats = derive { name="GOstats"; version="2.35.1"; sha256="1almz6gc2xm3njz8pjvynpnniz7xdd8z5293cfvx91v11lz70v7f"; depends=[annotate AnnotationDbi AnnotationForge Biobase Category graph RBGL]; };
GOsummaries = derive { name="GOsummaries"; version="2.3.0"; sha256="09c4grz9ljwrz37yv9k6gna9zxk708vxfz2190xz7za0mrql1k3k"; depends=[ggplot2 gProfileR gtable limma plyr Rcpp reshape2]; };
GRENITS = derive { name="GRENITS"; version="1.21.0"; sha256="1lm0074dw0248vyj9wl99if489dx38ia8wscx61842jyi4qz7r2q"; depends=[ggplot2 Rcpp RcppArmadillo reshape2]; };
GSAR = derive { name="GSAR"; version="1.3.2"; sha256="0fqv6lwi94ibwjjv6g0qmc8plc0ghszvjpd73m88080jiaw44yfl"; depends=[igraph]; };
GSAR = derive { name="GSAR"; version="1.3.4"; sha256="1hgakyl4ply01m77ffy2vjflwzn5iqnfbsp4a4smi762innm5f3z"; depends=[igraph]; };
GSCA = derive { name="GSCA"; version="1.7.0"; sha256="1hv9r59fx1hbjnga26shb8crxji1bzmzjmwfbk1wrlm8dsikjnyg"; depends=[ggplot2 gplots RColorBrewer reshape2 rhdf5 shiny sp]; };
GSEABase = derive { name="GSEABase"; version="1.31.3"; sha256="1jq3s3pha624gns7d7yf8qqgzq0fm3qgjrkwdkxgbpc7b09baiz0"; depends=[annotate AnnotationDbi Biobase BiocGenerics graph XML]; };
GSEAlm = derive { name="GSEAlm"; version="1.29.0"; sha256="13ixp6vq9g9ag5rndc40gw64vny70zcj6lll7r7vz06p5i9b6kyk"; depends=[Biobase]; };
GSRI = derive { name="GSRI"; version="2.17.0"; sha256="158dipqi9mh79d42pv5qsa1gwxz660kl474rdnkd59rnxh7ziyf3"; depends=[Biobase fdrtool genefilter GSEABase les]; };
GSReg = derive { name="GSReg"; version="1.3.0"; sha256="07s60j68i1r64y8x8r1r9s6w020n41137cf2aj9hrsw6gn4ajh15"; depends=[]; };
GSVA = derive { name="GSVA"; version="1.17.0"; sha256="0rk1srk95qia5ap69c2lysgv7r8qh50f50v9b569d2v2vjb0hpq5"; depends=[Biobase BiocGenerics GSEABase]; };
GWASTools = derive { name="GWASTools"; version="1.15.12"; sha256="04k5grfbrcpwnxxpirzb7x9488q8sq19lg00yn4mhpr7y1znrmpc"; depends=[Biobase DBI DNAcopy gdsfmt GWASExactHW lmtest logistf ncdf quantsmooth RSQLite sandwich survival]; };
GWASTools = derive { name="GWASTools"; version="1.15.14"; sha256="1ir5czbs3z9myq8659xc15i61bk0yifwcdycbgzmfd9frf9mw8ji"; depends=[Biobase DBI DNAcopy gdsfmt GWASExactHW lmtest logistf ncdf quantsmooth RSQLite sandwich survival]; };
GeneAnswers = derive { name="GeneAnswers"; version="2.11.1"; sha256="15rf8syxhj3332d7f4jkvyby05r3iia7p1ryz1zv629waz6mr4nh"; depends=[annotate Biobase downloader Heatplus igraph MASS RBGL RColorBrewer RCurl RSQLite XML]; };
GeneExpressionSignature = derive { name="GeneExpressionSignature"; version="1.15.0"; sha256="0wni584412af8a2wzk5r8nf63grw86d6fk74cmwksirw2734mmqs"; depends=[Biobase PGSEA]; };
GeneGA = derive { name="GeneGA"; version="1.19.0"; sha256="0irfr4q55rda8acchgcqsksh6ija87fryj822nb3d4zklv9raqfv"; depends=[hash seqinr]; };
@ -222,23 +223,23 @@ GeneticsDesign = derive { name="GeneticsDesign"; version="1.37.0"; sha256="08awf
GeneticsPed = derive { name="GeneticsPed"; version="1.31.0"; sha256="17fs4gvirji3qp9ik480jpz6qrbq209sjhn57ipkaafvx7rw5j4i"; depends=[gdata genetics MASS]; };
GenoView = derive { name="GenoView"; version="1.3.0"; sha256="09k9xjmx3qmsfr3a4vrfgs73r0xsymf5m4gl0zjjk4cnfk7bs41v"; depends=[biovizBase GenomicRanges ggbio ggplot2 gridExtra]; };
GenomeGraphs = derive { name="GenomeGraphs"; version="1.29.0"; sha256="0kl2gapg7hnl4zfsamb3vwmj7z0vag7vd8viwh0pwqj0pd45dswa"; depends=[biomaRt]; };
GenomeInfoDb = derive { name="GenomeInfoDb"; version="1.5.8"; sha256="0kdz1mkn3ljwxcz6v0np7gbb7b7sqxfj80sxrah3bnck2bzg1yra"; depends=[BiocGenerics IRanges S4Vectors]; };
GenomicAlignments = derive { name="GenomicAlignments"; version="1.5.11"; sha256="1w4wmxcyj0ja9nkn35n5qhhax0b7sh4pjxk2hib71323y80mxlld"; depends=[BiocGenerics BiocParallel Biostrings GenomeInfoDb GenomicRanges IRanges Rsamtools S4Vectors SummarizedExperiment]; };
GenomicFeatures = derive { name="GenomicFeatures"; version="1.21.13"; sha256="1swk94rqpvfysr3x1r61ypq9vlw1ryc0iw0x6dazfjjchaln0h07"; depends=[AnnotationDbi Biobase BiocGenerics biomaRt Biostrings DBI GenomeInfoDb GenomicRanges IRanges RCurl RSQLite rtracklayer S4Vectors]; };
GenomeInfoDb = derive { name="GenomeInfoDb"; version="1.5.9"; sha256="1mnskpj4qb6fyg7a6qkzs6cmxzn0bjff0zzgnp17bm94vx0334zh"; depends=[BiocGenerics IRanges S4Vectors]; };
GenomicAlignments = derive { name="GenomicAlignments"; version="1.5.12"; sha256="0p1vnkh5h8w69is254zkzpj5y2a9c2yc2s7lvqhkf861x6fgkz1l"; depends=[BiocGenerics BiocParallel Biostrings GenomeInfoDb GenomicRanges IRanges Rsamtools S4Vectors SummarizedExperiment]; };
GenomicFeatures = derive { name="GenomicFeatures"; version="1.21.14"; sha256="0lnkidki4pl40878nd6bzswkdxgkz75nn052693glcvzw3qm6wg5"; depends=[AnnotationDbi Biobase BiocGenerics biomaRt Biostrings DBI GenomeInfoDb GenomicRanges IRanges RCurl RSQLite rtracklayer S4Vectors]; };
GenomicFiles = derive { name="GenomicFiles"; version="1.5.4"; sha256="13lglgxkqsxgi453dk56ry7amnv6lyddy74fnhhsqinj5ip9k3vw"; depends=[BiocGenerics BiocParallel GenomicAlignments GenomicRanges IRanges Rsamtools rtracklayer S4Vectors SummarizedExperiment]; };
GenomicInteractions = derive { name="GenomicInteractions"; version="1.3.4"; sha256="1dh9l0abwfc9dkznvpnzsxlggifvh8zfcmb22mc36lnkq42r033d"; depends=[BiocGenerics data_table dplyr GenomeInfoDb GenomicRanges ggplot2 gridExtra igraph IRanges plotrix Rsamtools rtracklayer S4Vectors stringr]; };
GenomicRanges = derive { name="GenomicRanges"; version="1.21.16"; sha256="11s14ikk2pj3hycanyjv6s1pild3987gfvf4vnzm6a6ilmqsyqzy"; depends=[BiocGenerics GenomeInfoDb IRanges S4Vectors XVector]; };
GenomicInteractions = derive { name="GenomicInteractions"; version="1.3.6"; sha256="0003hd22c3nfdb5h84pvd754gcpj3b6flzg8nhf7d0s99nzddr6a"; depends=[BiocGenerics data_table dplyr GenomeInfoDb GenomicRanges ggplot2 gridExtra Gviz igraph IRanges Rsamtools rtracklayer S4Vectors stringr]; };
GenomicRanges = derive { name="GenomicRanges"; version="1.21.17"; sha256="1hp2knf1qnph62480hzmn68lxp193x4zv3b0yx2a7khj4sgy7566"; depends=[BiocGenerics GenomeInfoDb IRanges S4Vectors XVector]; };
GenomicTuples = derive { name="GenomicTuples"; version="1.3.1"; sha256="0i91qs1c84lyh0irhgnbnnvag0j3f48gfxxndk5x0yjf9kpa0hca"; depends=[Biobase BiocGenerics GenomeInfoDb GenomicRanges IRanges Rcpp S4Vectors]; };
Genominator = derive { name="Genominator"; version="1.23.0"; sha256="03pacbd3d5q7ykrflg258zcf8yfzm8kc976aw3d38q7agkia69h2"; depends=[BiocGenerics DBI GenomeGraphs IRanges RSQLite]; };
GlobalAncova = derive { name="GlobalAncova"; version="3.37.0"; sha256="1j35r39plsxlkla2bv7wvg0if5gs2mfy71g6zb65g6ml5cqws45r"; depends=[annotate AnnotationDbi corpcor globaltest]; };
GoogleGenomics = derive { name="GoogleGenomics"; version="1.1.1"; sha256="06mcg36x41k9s9ick6y3vrg5r4fnkz5qb77a7dh7kk2skinvzips"; depends=[Biostrings GenomeInfoDb GenomicAlignments GenomicRanges httr IRanges rjson Rsamtools S4Vectors VariantAnnotation]; };
GoogleGenomics = derive { name="GoogleGenomics"; version="1.1.3"; sha256="1y5jkxhrfi5gkckfmilqsshv5l5ql25iwpmqbr5slch1h4myskbl"; depends=[Biostrings GenomeInfoDb GenomicAlignments GenomicRanges httr IRanges rjson Rsamtools S4Vectors VariantAnnotation]; };
GraphAT = derive { name="GraphAT"; version="1.41.0"; sha256="1mjd54zy4l7ivy347zn5rv6gn65sjhxn2cxm417fm83hm542327l"; depends=[graph MCMCpack]; };
GraphAlignment = derive { name="GraphAlignment"; version="1.33.0"; sha256="14zxbw8cj12wr6c2a0a6mfskr9sqf6cdfyz0ccbzy91d1lnrxzdf"; depends=[]; };
GraphPAC = derive { name="GraphPAC"; version="1.11.0"; sha256="1p0rkc1qz0yf0lxyjfvrpd7nqky855kmhb1pdwxg3ckifnypw5mc"; depends=[igraph iPAC RMallow TSP]; };
GreyListChIP = derive { name="GreyListChIP"; version="1.1.1"; sha256="0kbl9m37aiyv6yrqg4z352k7dpdpxm7yywymjfa9gdd0rv1cy401"; depends=[BSgenome GenomeInfoDb GenomicAlignments GenomicRanges MASS Rsamtools rtracklayer]; };
Gviz = derive { name="Gviz"; version="1.13.3"; sha256="0qbad4r0k7j1z4gg785iv57azp9ljlxv5jngnk9kfif05rd3k7v3"; depends=[AnnotationDbi Biobase BiocGenerics biomaRt Biostrings biovizBase BSgenome digest GenomeInfoDb GenomicAlignments GenomicFeatures GenomicRanges IRanges lattice latticeExtra matrixStats RColorBrewer Rsamtools rtracklayer S4Vectors XVector]; };
HCsnip = derive { name="HCsnip"; version="1.9.0"; sha256="14f881v776xn8lw4lvjc26s72laxs9zph902875f76ykbzygayd9"; depends=[Biobase clusterRepro coin fpc impute randomForestSRC sigaR sm survival]; };
HDTD = derive { name="HDTD"; version="1.3.2"; sha256="19kzd1sjl0riwisdbrsy9j2pd39lpxwmizrnnj65hrfv6dwaqsgq"; depends=[]; };
HDTD = derive { name="HDTD"; version="1.3.3"; sha256="0b9z2bkfislxn9w5bjcd5jcpby2yq5bhn6zxvylngjwqz98v30hl"; depends=[]; };
HELP = derive { name="HELP"; version="1.27.0"; sha256="1n2fj316ha2l941biyr9d56pry6n39drwa820rgyrwd116rzx79d"; depends=[Biobase]; };
HEM = derive { name="HEM"; version="1.41.0"; sha256="0qi6q305p0vdhyah3860dpd3z0lyyn6wn5x0m3mj3p739pk288ik"; depends=[Biobase]; };
HIBAG = derive { name="HIBAG"; version="1.5.0"; sha256="0rrpz4brij408szfmzv7gpk0hrhikjyx061gkamb02ry1my722j1"; depends=[]; };
@ -250,22 +251,23 @@ HTqPCR = derive { name="HTqPCR"; version="1.23.0"; sha256="0zp7jbnh5zbrqaq84q114
Harshlight = derive { name="Harshlight"; version="1.41.0"; sha256="12wpfg785dfn5gwp014dfzk9x8zqvr9qrrs0pq32by576knida5z"; depends=[affy altcdfenvs Biobase]; };
Heatplus = derive { name="Heatplus"; version="2.15.1"; sha256="1jcrajxvll0hhrsq8qvvyc1sj1nd3dm06n8q25qi9nacnfi865y7"; depends=[]; };
HiTC = derive { name="HiTC"; version="1.13.2"; sha256="1bkd680n81cd7sdji6gjjljxhlbsrdgn5hwpmi37i83hnryfgf5x"; depends=[Biostrings GenomeInfoDb GenomicRanges IRanges Matrix RColorBrewer rtracklayer]; };
HilbertCurve = derive { name="HilbertCurve"; version="0.99.1"; sha256="0nws4y2nc726z6igj3fdkrpv9l4i694g17nz3z1r006ss78gzzf2"; depends=[GenomicRanges HilbertVis IRanges png]; };
HilbertVis = derive { name="HilbertVis"; version="1.27.0"; sha256="1qcyzn86v0xhb9zc1vcia1n53i33sgncbb7lpink5llmjpalacq6"; depends=[lattice]; };
HilbertVisGUI = derive { name="HilbertVisGUI"; version="1.27.0"; sha256="03jxn398xv97mmvbpl0qymmydhm4i4c36qnw4s22ch7wy3h9x6h8"; depends=[HilbertVis]; };
HybridMTest = derive { name="HybridMTest"; version="1.13.0"; sha256="0r4j8yllxzwn5r2rvpkqx6w23836lmly8wlshib6p917ky0djw4s"; depends=[Biobase fdrtool MASS survival]; };
IMPCdata = derive { name="IMPCdata"; version="1.3.0"; sha256="003qvf47bcfcwxkw7zpzdvpnw7xhd2y12n9by2b1ns5i5jka754b"; depends=[rjson]; };
INPower = derive { name="INPower"; version="1.5.0"; sha256="0msz24bixp7b5a83n40675xq8fglrhbg8972a93x2k8jgb5gdh38"; depends=[mvtnorm]; };
INSPEcT = derive { name="INSPEcT"; version="0.99.8"; sha256="0pzh0xkh4py6rwnjqz4wqfnk2h08dp5q9gc4cgxls6gl3574i9ny"; depends=[Biobase BiocParallel deSolve GenomicFeatures GenomicRanges IRanges preprocessCore pROC rootSolve]; };
IONiseR = derive { name="IONiseR"; version="0.99.6"; sha256="1fzp7ncznqw7pmb4sh1qphrk0ham1158q71kiylggbm88wlisky3"; depends=[BiocGenerics Biostrings data_table dplyr ggplot2 magrittr rhdf5 ShortRead tidyr XVector]; };
IONiseR = derive { name="IONiseR"; version="0.99.7"; sha256="0b4lxdhajd4mhdnfa8c3zm8n5s398arrxjig2bv6il933lhxi6ps"; depends=[BiocGenerics Biostrings data_table dplyr ggplot2 magrittr rhdf5 ShortRead tidyr XVector]; };
IPPD = derive { name="IPPD"; version="1.17.0"; sha256="0afhz5ishr1my9gnksa4dl92lfnb2fnvdpsh3n7kj4j2s8xx0crc"; depends=[bitops digest MASS Matrix XML]; };
IRanges = derive { name="IRanges"; version="2.3.14"; sha256="0pg6zbdhhpk7h64nma9zrdjxvfk2nwad9b9x8y1qnkki8917a1xd"; depends=[BiocGenerics S4Vectors]; };
IRanges = derive { name="IRanges"; version="2.3.17"; sha256="1fjz4whvw68xw6w0anzcrympk6xfsa7rgx0mxbzlwkpj96j2805k"; depends=[BiocGenerics S4Vectors]; };
ITALICS = derive { name="ITALICS"; version="2.29.0"; sha256="16l0wq7bxi3nz8f5hggnzddhg07vrcca480ygvmi03cxajxbjr9h"; depends=[affxparser DBI GLAD oligo oligoClasses]; };
IVAS = derive { name="IVAS"; version="1.1.0"; sha256="15jnmi40bsnyf5yw86gvqppv0g8250lsi74gsjzhm7gijhlxfnrm"; depends=[AnnotationDbi BiocGenerics doParallel foreach GenomeInfoDb GenomicFeatures GenomicRanges IRanges lme4 Matrix S4Vectors]; };
Icens = derive { name="Icens"; version="1.41.0"; sha256="1vi2hnzs8z5prggswa6wzr2y53jczkgg09f4vw0pjzkzi7p8bphy"; depends=[survival]; };
IdMappingAnalysis = derive { name="IdMappingAnalysis"; version="1.13.0"; sha256="1kwalcvb7cxkg89kz5hpk0cvsfzxz5g2cbiflrs2dyaxx96pm5gm"; depends=[Biobase boot mclust R_oo rChoiceDialogs RColorBrewer]; };
IdMappingRetrieval = derive { name="IdMappingRetrieval"; version="1.17.0"; sha256="0fclrkv53q9aq3xw95k25rw52sjzy40r37kajnrk0kc41cyzf2vv"; depends=[AffyCompatible biomaRt DAVIDQuery ENVISIONQuery R_methodsS3 R_oo rChoiceDialogs RCurl XML]; };
IdeoViz = derive { name="IdeoViz"; version="1.3.0"; sha256="1ynqg2a0jq23mlqzgf7k05jc2nkby8hkbc6h0p76ms33fwqj2qxz"; depends=[Biobase GenomeInfoDb GenomicRanges IRanges RColorBrewer rtracklayer]; };
InPAS = derive { name="InPAS"; version="1.1.3"; sha256="1fyhrf1n7hb34l742d3jrjyyznhjvf6z8bdmjawsqr10dvk1j2mv"; depends=[AnnotationDbi BiocParallel BSgenome cleanUpdTSeq GenomeInfoDb GenomicFeatures GenomicRanges Gviz IRanges limma S4Vectors seqinr]; };
InPAS = derive { name="InPAS"; version="1.1.5"; sha256="1s9jx90r7g9v9ipnnld2kdrbhyjl0vdwbgism6ab2hbpdxc33w7k"; depends=[AnnotationDbi Biobase BiocParallel BSgenome cleanUpdTSeq depmixS4 GenomeInfoDb GenomicFeatures GenomicRanges Gviz IRanges limma preprocessCore S4Vectors seqinr]; };
IsoGeneGUI = derive { name="IsoGeneGUI"; version="2.5.0"; sha256="05k6qdnsr2aywdmhdlimx5axrk07mf14rvia10afhf56380sdf3s"; depends=[Biobase ff geneplotter goric Iso IsoGene jpeg multtest ORCME ORIClust orQA RColorBrewer Rcpp relimp tkrplot xlsx]; };
KCsmart = derive { name="KCsmart"; version="2.27.0"; sha256="1igsmg1l39yladz4dlc9j01nxkwfaciy575d7k6764jhrs6pv39m"; depends=[BiocGenerics KernSmooth multtest siggenes]; };
KEGGREST = derive { name="KEGGREST"; version="1.9.0"; sha256="0ms60slsf7lpw0yidpy47hyxi7cm9r0gyb0q6ajxv52vn9diz29v"; depends=[Biostrings httr png]; };
@ -277,6 +279,7 @@ LMGene = derive { name="LMGene"; version="2.25.0"; sha256="17djx1fkjxpmmp56vphcb
LPE = derive { name="LPE"; version="1.43.0"; sha256="13z3h3mabbwhb5p40a7hil0aq10mya1zqgb8qj2qwnc50sbmgjx2"; depends=[]; };
LPEadj = derive { name="LPEadj"; version="1.29.0"; sha256="1734ihzvid5bz2wyh7yskk7agd82xmw7dibzb7aivhcfyxs8g8p4"; depends=[LPE]; };
LVSmiRNA = derive { name="LVSmiRNA"; version="1.19.0"; sha256="1z74y8zbg5amsmslb309gi630v8qa1qqgj37214bv5g9ab8xajmj"; depends=[affy Biobase BiocGenerics limma MASS quantreg SparseM vsn zlibbioc]; };
LedPred = derive { name="LedPred"; version="1.0.0"; sha256="1wglgnl5y61g4jcqfgnf3gqvmfpdvcb6h43n44cv46icybdk0bzs"; depends=[akima e1071 GenomicRanges irr jsonlite plot3D plyr RCurl ROCR testthat]; };
LiquidAssociation = derive { name="LiquidAssociation"; version="1.23.0"; sha256="178gx8n0ga1ppjk368xacidms1rc2kn301fmdc8rwbcknwvxrwck"; depends=[Biobase geepack]; };
LowMACA = derive { name="LowMACA"; version="1.1.0"; sha256="0i0pka0jf1yq7vjw1kb9sd2p21gpy4pw855ap815k02i0n7jyny4"; depends=[Biostrings cgdsr data_table motifStack RColorBrewer reshape2 stringr]; };
M3D = derive { name="M3D"; version="1.3.5"; sha256="1pjfl0kdhzw9l59qzgxjkf60w0rjdswm8wc12cyk39190hnalh49"; depends=[BiSeq GenomicRanges IRanges]; };
@ -291,7 +294,7 @@ MEDME = derive { name="MEDME"; version="1.29.0"; sha256="1fpi4ri134ii28nfiq2p875
MEIGOR = derive { name="MEIGOR"; version="1.3.0"; sha256="1kif7m78w0w0qv4fqfby3rknqk56zk83dds3cm4pgv2cii61i9jy"; depends=[CNORode deSolve Rsolnp snowfall]; };
MGFM = derive { name="MGFM"; version="1.3.0"; sha256="1h2bi2cchfxl0z31pgj6q6pb1jnmqvjy7jv2khp80h7sdr65356i"; depends=[annotate AnnotationDbi]; };
MIMOSA = derive { name="MIMOSA"; version="1.7.1"; sha256="1gzm90ii18vvpfd2nnl34mcvbvi49ck4hd7c5yziac8m3gx2f9f2"; depends=[Biobase coda data_table Formula ggplot2 Kmisc MASS MCMCpack modeest plyr pracma Rcpp RcppArmadillo reshape scales testthat]; };
MLInterfaces = derive { name="MLInterfaces"; version="1.49.3"; sha256="1c7l9xwyx72hmv4rs24xm4bzj3lzaaj0ax71yw1p008rkgj8ifxz"; depends=[annotate Biobase BiocGenerics cluster fpc gdata genefilter ggvis htmltools MASS pls rda rpart sfsmisc shiny]; };
MLInterfaces = derive { name="MLInterfaces"; version="1.49.8"; sha256="0asl6mibg1r2i9kmgax2qmsnj80spkn4n2pg237wxs9pm70qgpnv"; depends=[annotate Biobase BiocGenerics cluster fpc gbm gdata genefilter ggvis hwriter MASS pls RColorBrewer rda rgl rpart sfsmisc shiny]; };
MLP = derive { name="MLP"; version="1.17.0"; sha256="1wb6bzxn1paba2fxh62ldsfr4kr0nq2sy21v0pp0qwhfxndyzpdn"; depends=[affy AnnotationDbi gdata gmodels gplots gtools plotrix]; };
MLSeq = derive { name="MLSeq"; version="1.7.0"; sha256="0vc5rz4l574hmzwn3q7c4giib0lzs720j0j3alvarb3lmfzx9mhq"; depends=[Biobase caret DESeq2 edgeR limma randomForest]; };
MMDiff = derive { name="MMDiff"; version="1.9.0"; sha256="0xvnv024cv540m0jv9lrb4s5rvc0mq4gwp6wvdgpnsnqnwi9j556"; depends=[Biobase DiffBind GenomicRanges GMD IRanges Rsamtools]; };
@ -299,7 +302,7 @@ MPFE = derive { name="MPFE"; version="1.5.0"; sha256="123a6qg761j46bs1ckd6yyr2ig
MSGFgui = derive { name="MSGFgui"; version="1.3.0"; sha256="0r7izs3wpd7l9agrm3mrr3kmm00s9fzljsjxhk4pzxkjg1ran4hp"; depends=[MSGFplus mzID mzR shiny shinyFiles xlsx]; };
MSGFplus = derive { name="MSGFplus"; version="1.3.0"; sha256="0q75mygrd56kr9hrrxlmckkgvhcrgvpgvbjdxjmz6jaqp5wfbkf5"; depends=[mzID]; };
MSnID = derive { name="MSnID"; version="1.3.1"; sha256="0a0r2ikyb0spm110xzn3zzhl8g6xsvmh781d65f10l1iqnd2cqza"; depends=[Biobase data_table doParallel foreach iterators MSnbase mzID ProtGenerics R_cache Rcpp reshape2]; };
MSnbase = derive { name="MSnbase"; version="1.17.11"; sha256="1yrzmanv87rpahpqg40vqx23baahq41w3j7zag8chygr2xhxkjxy"; depends=[affy Biobase BiocGenerics BiocParallel digest ggplot2 impute IRanges lattice MALDIquant mzID mzR pcaMethods plyr preprocessCore ProtGenerics Rcpp reshape2 S4Vectors vsn]; };
MSnbase = derive { name="MSnbase"; version="1.17.13"; sha256="0ijh800jbdjw4nlcx69f3dp9q5zhghvfprgpjvx407a32i47dz3k"; depends=[affy Biobase BiocGenerics BiocParallel digest ggplot2 impute IRanges lattice MALDIquant mzID mzR pcaMethods plyr preprocessCore ProtGenerics Rcpp reshape2 S4Vectors vsn]; };
MSstats = derive { name="MSstats"; version="2.7.0"; sha256="0zhv2c769biv6avb4csi7alabk76bfn0ykzwp0lc6ymzggbj9pil"; depends=[ggplot2 gplots limma lme4 marray MSnbase preprocessCore Rcpp reshape]; };
MVCClass = derive { name="MVCClass"; version="1.43.0"; sha256="1mbhfkvdkxw9xd76dd2pxk947w9wahwdsk9x1wcryrmwcdvaqqcz"; depends=[]; };
MantelCorr = derive { name="MantelCorr"; version="1.39.0"; sha256="0l255m63q9idv56svs5m5bc4izwqnm3jy2z3kka7sw4xcx13l39g"; depends=[]; };
@ -332,25 +335,27 @@ NCIgraph = derive { name="NCIgraph"; version="1.17.0"; sha256="103p0i4y9frkvdpzh
NGScopy = derive { name="NGScopy"; version="1.3.0"; sha256="09b323rx0v5dnck2dgq9rzzjk7dbpry74q6c4dkgvjvxkf7khh8m"; depends=[changepoint rbamtools Xmisc]; };
NOISeq = derive { name="NOISeq"; version="2.11.1"; sha256="13q3v2jphridbjk1059c475xgw9ywkdyqf0b6pbl3pk9l3ag9dr9"; depends=[Biobase Matrix]; };
NTW = derive { name="NTW"; version="1.19.0"; sha256="027rdvy8xpsa70g6x33v4fmzk8gyvd8p3lgf65ac36wcy120gyhl"; depends=[mvtnorm]; };
NanoStringQCPro = derive { name="NanoStringQCPro"; version="1.1.1"; sha256="0mmbbxhxd7nh7mqzckw0as68ac0nv005liif0laadbz49y6p4rwm"; depends=[AnnotationDbi Biobase knitr NMF png RColorBrewer]; };
NanoStringQCPro = derive { name="NanoStringQCPro"; version="1.1.2"; sha256="1xk7rzaschgb39982jkb25xaz1l547dl020nl4wn0fdmy8kalp86"; depends=[AnnotationDbi Biobase knitr NMF png RColorBrewer]; };
NarrowPeaks = derive { name="NarrowPeaks"; version="1.13.2"; sha256="0cryjprj8y1fgn5xxzsyyv4zdzv5qy8405qkj47kvjbrk0kbr97s"; depends=[BiocGenerics CSAR fda GenomeInfoDb GenomicRanges ICSNP IRanges S4Vectors]; };
NetPathMiner = derive { name="NetPathMiner"; version="1.5.2"; sha256="0k3vq5l95hapw8hbc00m4pchxwzylp97y20w21g0g1yaf1cf9br0"; depends=[igraph]; };
NetSAM = derive { name="NetSAM"; version="1.9.0"; sha256="1bdch37kk1clb8cyffrlcr6d5qykk5a5ql3dfi94bw1l0w6v4fjq"; depends=[graph igraph seriation]; };
NormqPCR = derive { name="NormqPCR"; version="1.15.0"; sha256="0nfjnx5id04nbkda9v66418yzpp88mq2ijsfn8jyg0sfika405nl"; depends=[Biobase qpcR RColorBrewer ReadqPCR]; };
NuPoP = derive { name="NuPoP"; version="1.19.0"; sha256="1dpqmhbwr1l95vgjxlw3xayjxksa909xj05jbf4x3gafnlkkdvbk"; depends=[]; };
OCplus = derive { name="OCplus"; version="1.43.0"; sha256="1x7yqb6hkbglvr0kkq5s7caxambdvzc0f38gahq68wfsfwln7b49"; depends=[akima multtest]; };
OGSA = derive { name="OGSA"; version="0.99.7"; sha256="03iqpsp1864605yjc7ji064dkiia8y7m66jyi1mskha7hk5mqk5x"; depends=[Biobase gplots limma]; };
OLIN = derive { name="OLIN"; version="1.47.0"; sha256="19wjz96104rn88pdflixb790qhj24ff4s3hc09ldcii1pfzm0sdw"; depends=[limma locfit marray]; };
OLINgui = derive { name="OLINgui"; version="1.43.0"; sha256="0714bzbsmd7bsdm5zk05g83yy48z3rlazpv17xbn38ljpykawzjb"; depends=[marray OLIN tkWidgets widgetTools]; };
OSAT = derive { name="OSAT"; version="1.17.0"; sha256="1ky9xb5ls3xnzinsrxrgggb4r0fmm1q33vxb3ajav7nygyxijq0d"; depends=[]; };
OTUbase = derive { name="OTUbase"; version="1.19.0"; sha256="0xmp446v57z875lmjkg47f9hx961af9nda658v8qlbjxf1wjw9zb"; depends=[Biobase Biostrings IRanges S4Vectors ShortRead vegan]; };
OmicCircos = derive { name="OmicCircos"; version="1.7.0"; sha256="1xil5043hgpypaww1a1wvcxw9im9jmzgdp83p3z71giqiq36dvh4"; depends=[GenomicRanges]; };
OmicsMarkeR = derive { name="OmicsMarkeR"; version="1.1.0"; sha256="1fw6zfp5jrkvxjb6j48q3n1fqkm1qmmjjvmr70v93hi5jg0an8gy"; depends=[assertive caret caTools data_table DiscriMiner e1071 foreach gbm glmnet pamr permute plyr randomForest]; };
OmicsMarkeR = derive { name="OmicsMarkeR"; version="1.1.2"; sha256="09mdsvcp7n5qh845lpa1zsjk7jmbi0ni0601jlr1jija0hmkv1zx"; depends=[assertive assertive_base caret caTools data_table DiscriMiner e1071 foreach gbm glmnet pamr permute plyr randomForest]; };
OncoSimulR = derive { name="OncoSimulR"; version="1.99.5"; sha256="0pjn2kirf1b72fvqxjawxcbrsn42brhz09kjnywm611kap329dq2"; depends=[data_table graph gtools igraph Rcpp Rgraphviz]; };
OperaMate = derive { name="OperaMate"; version="0.99.6"; sha256="0xh57d82rmfcs1a6gj0qcjf585drhzns5k69bwxb7x1xw63wp4kp"; depends=[ggplot2 MASS pheatmap RDAVIDWebService]; };
OrderedList = derive { name="OrderedList"; version="1.41.0"; sha256="1cw8y5f5h15z0qwg8n4dq7g3ixx2wa332rdsb4w2qqmcqlz79bfp"; depends=[Biobase twilight]; };
OrganismDbi = derive { name="OrganismDbi"; version="1.11.42"; sha256="0y0v5ngall7iyvx2bqhfkxdnw9alkyab5f6qgpq8dpvr6pvyamyl"; depends=[AnnotationDbi Biobase BiocGenerics BiocInstaller GenomicFeatures GenomicRanges graph IRanges RBGL RSQLite S4Vectors]; };
Oscope = derive { name="Oscope"; version="0.99.1"; sha256="0kv586yv17cf61jnvglsr08175dq0qz5zif8xflnliac9whj7yvf"; depends=[BiocParallel cluster EBSeq testthat]; };
OutlierD = derive { name="OutlierD"; version="1.33.0"; sha256="0bljxmrnlqcngzzv6yxjsim7gd4icyi384vimn5gs869mq9gyrj3"; depends=[Biobase quantreg]; };
PAA = derive { name="PAA"; version="1.3.2"; sha256="1p9900wiy5mmcmwb4l5n8kvsjs3ay6k0k551mpjbwijhk2si7wja"; depends=[e1071 limma MASS mRMRe randomForest Rcpp ROCR sva]; };
PAA = derive { name="PAA"; version="1.3.3"; sha256="1v5gw9f2glzsz05kqyvvhwzfdfj4ypwbfgy5q16lr1y64slabzq2"; depends=[e1071 limma MASS mRMRe randomForest Rcpp ROCR sva]; };
PADOG = derive { name="PADOG"; version="1.11.0"; sha256="0x84k32fmd1zrwjc4f71mq4jslh9bxr4gjbl48k1f5kl5j6hlxj3"; depends=[AnnotationDbi Biobase doRNG foreach GSA limma nlme]; };
PANR = derive { name="PANR"; version="1.15.0"; sha256="0nc2a10z7i16dz41yhz3zw9h51myxzxbxd1vpc2d8gczks07n6ch"; depends=[igraph MASS pvclust RedeR]; };
PAPi = derive { name="PAPi"; version="1.9.0"; sha256="1553fxm3ma3p5j10acyk5m2wx4dafp346x0pyxj9aah856h4zkw5"; depends=[KEGGREST svDialogs]; };
@ -378,7 +383,7 @@ ProCoNA = derive { name="ProCoNA"; version="1.7.0"; sha256="1x2wmlhlizd09v4d7q98
ProtGenerics = derive { name="ProtGenerics"; version="1.1.0"; sha256="1l77j3zl78v86jbxpwnyc0a5q66yds79nirlcvan789hxbggr0i4"; depends=[BiocGenerics]; };
Pviz = derive { name="Pviz"; version="1.3.0"; sha256="0pvmpxw4dpxxs9lrn9nn44rn36r3l09rwlkh5ph054h56nm80xs1"; depends=[Biostrings biovizBase data_table GenomicRanges Gviz IRanges]; };
QDNAseq = derive { name="QDNAseq"; version="1.5.1"; sha256="1gykm8r410s9aw75km0f8wnhd0p8gqirszp70g5x97n83r4k6rnq"; depends=[Biobase CGHbase CGHcall DNAcopy matrixStats R_utils Rsamtools]; };
QUALIFIER = derive { name="QUALIFIER"; version="1.13.0"; sha256="0vk3xx0dmxadxk1wmcnf9cxv7rr4z8624npkmdbqlzb6mxix7p6d"; depends=[Biobase data_table flowCore flowViz flowWorkspace hwriter lattice latticeExtra MASS ncdfFlow reshape XML]; };
QUALIFIER = derive { name="QUALIFIER"; version="1.13.1"; sha256="0b25cgjafs3k2kwbmbla713gxy9xbjclsx6k4pxydz5flz8w8grg"; depends=[Biobase data_table flowCore flowViz flowWorkspace hwriter lattice latticeExtra MASS ncdfFlow reshape XML]; };
QuartPAC = derive { name="QuartPAC"; version="1.1.0"; sha256="0w92hggwihp2nia9dzg8yjbfsyrcgwq4kpxh96jb8kkmq6kl2l8p"; depends=[data_table GraphPAC iPAC SpacePAC]; };
QuasR = derive { name="QuasR"; version="1.9.9"; sha256="13md1pq0bg9xdlhvwsys3f7ibqll80viica03h2l4cnhgw26zj52"; depends=[Biobase BiocGenerics BiocInstaller BiocParallel Biostrings BSgenome GenomeInfoDb GenomicAlignments GenomicFeatures GenomicRanges IRanges Rbowtie Rsamtools rtracklayer S4Vectors ShortRead zlibbioc]; };
R3CPET = derive { name="R3CPET"; version="1.1.0"; sha256="0vwyrqsihnabzqh5r329v3f5zcg2ik51aakvscpp482z0dm2naqh"; depends=[clues clValid data_table DAVIDQuery GenomicRanges ggbio ggplot2 Hmisc igraph IRanges pheatmap Rcpp reshape2 S4Vectors]; };
@ -386,8 +391,8 @@ R453Plus1Toolbox = derive { name="R453Plus1Toolbox"; version="1.19.1"; sha256="0
RBGL = derive { name="RBGL"; version="1.45.1"; sha256="0y90pvl3i8pyzxwssciygcd1c1lb8a0rqhpiqgif56075amm71rl"; depends=[graph]; };
RBM = derive { name="RBM"; version="1.1.0"; sha256="03q7prkrj8y3k8jrnnbjrkmlyv72cxfa8l042df4wajhcbpa4g4l"; depends=[limma marray]; };
RBioinf = derive { name="RBioinf"; version="1.29.0"; sha256="1cyd18lz3h9b20g6s9azzv9rv9bachh3qsczz84y8lj4kay3qssx"; depends=[graph]; };
RCASPAR = derive { name="RCASPAR"; version="1.15.1"; sha256="125vrkz5gicizf0acpv0f0ijiky5my7rpfyim25vihcsz5fkb0w1"; depends=[]; };
RCyjs = derive { name="RCyjs"; version="1.1.12"; sha256="1gv31yj0ms7llsg2rca96rh77h1qw3hkjbiskzc3zmpycx5m9m8b"; depends=[BiocGenerics BrowserViz graph httpuv igraph jsonlite Rcpp]; };
RCASPAR = derive { name="RCASPAR"; version="1.15.2"; sha256="151mil4v8iz5lrn7827imvvnjh171qdgjg927fic3fwyfx0kkyqs"; depends=[]; };
RCyjs = derive { name="RCyjs"; version="1.1.18"; sha256="0d6zh2ryy9583i2cxahi4gl5ldp1r0yyyz8mjzklp47rkm2cxmkx"; depends=[BiocGenerics BrowserViz graph httpuv igraph jsonlite Rcpp]; };
RCytoscape = derive { name="RCytoscape"; version="1.19.0"; sha256="0yfmlksi7sz0p9nbgjz2cpqwbwyzzxij3zaqmkp3wqfdk89mxgi7"; depends=[BiocGenerics graph]; };
RDAVIDWebService = derive { name="RDAVIDWebService"; version="1.7.0"; sha256="07hnj7flfacg9j8c6155nw23zjxcb1v4wj4rkfi8xz5clp80v6xh"; depends=[Category ggplot2 GOstats graph RBGL rJava]; };
RDRToolbox = derive { name="RDRToolbox"; version="1.19.0"; sha256="186cj6xri4prv7y9jvspyql8mkqy3aqs2kd6m5fliqicqbfia2z8"; depends=[MASS rgl]; };
@ -399,8 +404,8 @@ RLMM = derive { name="RLMM"; version="1.31.0"; sha256="01plzmxz5dzvvxzx4wxsqhhyp
RMassBank = derive { name="RMassBank"; version="1.11.0"; sha256="1df5kfm4gb5kz1z5sq38wddi4njq3y8nzy7fr2dxk1z2j4b1977z"; depends=[mzR rcdk Rcpp RCurl rjson XML yaml]; };
RNASeqPower = derive { name="RNASeqPower"; version="1.9.0"; sha256="0nn5wq81cm81wjwc43ky597fyq1l4ya36k64bp6k80ri94qx2vzg"; depends=[]; };
RNAinteract = derive { name="RNAinteract"; version="1.17.0"; sha256="03rz6xyy9f48ns0r9xcxrghikxlna8cx62rwswq2i1xkh7c5lfiy"; depends=[abind Biobase cellHTS2 geneplotter gplots hwriter ICS ICSNP lattice latticeExtra limma locfit RColorBrewer splots]; };
RNAither = derive { name="RNAither"; version="2.17.0"; sha256="028qf3sj2cms9h6wh4bynxaky8mvlr0axci8yw9bjp4bdlrjland"; depends=[biomaRt car geneplotter limma prada RankProd splots topGO]; };
RNAprobR = derive { name="RNAprobR"; version="1.1.1"; sha256="1n0ra0jb6y01nbdx9qbmkh5w4zy381nzkwcawvdg2bfzva1734mp"; depends=[BiocGenerics Biostrings GenomicFeatures GenomicRanges plyr Rsamtools rtracklayer]; };
RNAither = derive { name="RNAither"; version="2.17.2"; sha256="01h9l5inafhzpych76rpkrml442ld6jaxrd31ambspn9hsv8js6z"; depends=[biomaRt car geneplotter limma prada RankProd splots topGO]; };
RNAprobR = derive { name="RNAprobR"; version="1.1.2"; sha256="0cjxf53q9g5g2092grbwp2z9q0sgw4bj5fism0a34w5r1varr9nb"; depends=[BiocGenerics Biostrings GenomicFeatures GenomicRanges plyr Rsamtools rtracklayer]; };
ROC = derive { name="ROC"; version="1.45.0"; sha256="1vcv5q7ylr2b1fb4vmrc8j4j7s3v5szzpkwblnfkcp2y8d03i9a1"; depends=[]; };
ROntoTools = derive { name="ROntoTools"; version="1.9.0"; sha256="07l9j4d26hn8d5ma3z19ipy4rrw29k66zb2ib8n3ba24pjm0h8w3"; depends=[boot graph KEGGgraph KEGGREST Rgraphviz]; };
RPA = derive { name="RPA"; version="1.25.0"; sha256="1bzjb0064xdn5zk9y9dpxjdw79i8kkfb29f13balx78nq5xznxh4"; depends=[affy]; };
@ -416,7 +421,7 @@ RUVnormalize = derive { name="RUVnormalize"; version="1.3.0"; sha256="1fqk68rpzn
RWebServices = derive { name="RWebServices"; version="1.33.1"; sha256="1bxp4zj7r1lrxb7r7l32h6b8hdxb1ryf7dxxj0qhwimh7pmxln31"; depends=[RCurl SJava TypeInfo]; };
RamiGO = derive { name="RamiGO"; version="1.15.0"; sha256="1q9f2ii5b1xway407gzfpzz6vm6an8p13vmgkw7vb9rldxn85hab"; depends=[graph gsubfn igraph png RCurl RCytoscape]; };
RankProd = derive { name="RankProd"; version="2.41.0"; sha256="05r8mrgnpfkd7yhcch7nrn9jbapfhvi67h0z9a9nlxlp44mz0qq7"; depends=[]; };
RareVariantVis = derive { name="RareVariantVis"; version="1.0.0"; sha256="09hww69169c225dmi3rmjhv5j2bxq1c773s1q7048rysgv0har5y"; depends=[BiocGenerics GenomeInfoDb GenomicRanges googleVis IRanges S4Vectors SummarizedExperiment VariantAnnotation]; };
RareVariantVis = derive { name="RareVariantVis"; version="1.0.3"; sha256="1wc2rb80xvwbnsc93fl04cf6y74qpwhhi4172whxb6affq2682cq"; depends=[BiocGenerics GenomeInfoDb GenomicRanges googleVis IRanges S4Vectors VariantAnnotation]; };
Rariant = derive { name="Rariant"; version="1.5.0"; sha256="1xwy2xrdk1m1mscnql8cp3az1jx639a9w4mb8bz7jf62z4z4npsi"; depends=[dplyr exomeCopy GenomeInfoDb GenomicRanges ggbio ggplot2 IRanges reshape2 Rsamtools S4Vectors shiny SomaticSignatures VariantAnnotation VGAM]; };
RbcBook1 = derive { name="RbcBook1"; version="1.37.0"; sha256="03q82zjd725w585rgdn9mbx7ddsv1kdxylsndh26csz573j2myhh"; depends=[Biobase graph rpart]; };
Rbowtie = derive { name="Rbowtie"; version="1.9.0"; sha256="02wc0pzw9vm1mc7y84ic79jjdi1mh77v8h4gk2pl117pdkgg7nl7"; depends=[]; };
@ -436,27 +441,27 @@ ReportingTools = derive { name="ReportingTools"; version="2.9.1"; sha256="05p005
Rgraphviz = derive { name="Rgraphviz"; version="2.13.0"; sha256="08apr3v2h5jwah96c2596ggz7xaz41k5zywcqsjm6g8xhd3hs522"; depends=[graph]; };
Rhtslib = derive { name="Rhtslib"; version="1.1.8"; sha256="1n6mimlkyaxcfwfr4hclmch3h14qaffakkd899p9fwlf1d60j9xw"; depends=[zlibbioc]; };
Ringo = derive { name="Ringo"; version="1.33.0"; sha256="12qh3aayy317pzb137ds9vqrrwn93c4l4fdcl6yyp8p4fqpki03j"; depends=[Biobase BiocGenerics genefilter lattice limma Matrix RColorBrewer vsn]; };
Risa = derive { name="Risa"; version="1.11.0"; sha256="1rgyh3yv4ii0xw6ycm0g9b0y6c9nqdq4k8lidmifk0gx835lw7vf"; depends=[affy Biobase biocViews Rcpp xcms]; };
Risa = derive { name="Risa"; version="1.11.1"; sha256="1bx7n7fjsaig5zq6xgwva2fvy0dlg9f1niwl9m6bi1h04spybp2c"; depends=[affy Biobase biocViews Rcpp xcms]; };
Rmagpie = derive { name="Rmagpie"; version="1.25.0"; sha256="13mb9aaqmwx1ad4mk0fhxqfql8pjpyaiibip7jawiyji7ghp9iw7"; depends=[Biobase e1071 kernlab pamr]; };
RmiR = derive { name="RmiR"; version="1.25.0"; sha256="1xc19w8la239ia793qpnpx2h0aavwhidrjf4i87jry2j29npjfzz"; depends=[DBI RSVGTipsDevice]; };
RnBeads = derive { name="RnBeads"; version="1.1.3"; sha256="1yd5gmi2vvkqrv384ndsn7qgp8rzjj6d0i4zsgr33avxnah757m2"; depends=[BiocGenerics cluster ff fields GenomicRanges ggplot2 gplots gridExtra illuminaio IRanges limma MASS matrixStats methylumi plyr RColorBrewer]; };
RnBeads = derive { name="RnBeads"; version="1.1.4"; sha256="1v4cgfrarybansrxk2r77g79xkwhkh28qaffk93mfwf163rq3391"; depends=[BiocGenerics cluster ff fields GenomicRanges ggplot2 gplots gridExtra illuminaio IRanges limma MASS matrixStats methylumi plyr RColorBrewer]; };
RnaSeqSampleSize = derive { name="RnaSeqSampleSize"; version="1.1.0"; sha256="0q2w1yd5p9k3pls6ki8yci3r2v4rxi3iy4zk5mafmr7ip0q1rwpp"; depends=[biomaRt edgeR heatmap3 KEGGREST matlab Rcpp]; };
Rnits = derive { name="Rnits"; version="1.3.0"; sha256="0hxll8hlv5nc6vijznhzmvbjh1hxmfy9shm2g8al291yi0gfdmk3"; depends=[affy Biobase boot ggplot2 impute limma qvalue reshape2]; };
Roleswitch = derive { name="Roleswitch"; version="1.7.0"; sha256="01b21yyg0d2v10abcbw08zhswh9nb7wj7s3x5kcaaas7671f06ha"; depends=[Biobase biomaRt Biostrings DBI microRNA plotrix pracma reshape]; };
Rolexa = derive { name="Rolexa"; version="1.25.0"; sha256="1qrf7byimw9s5jp15zmwqk95x34r3yx2npr46gwf1zih06n7kc05"; depends=[Biostrings IRanges mclust ShortRead]; };
RpsiXML = derive { name="RpsiXML"; version="2.11.0"; sha256="0rvma7vynfh5sjhqnbpagilq54dh0wrvvb3jzykwmrak0dbyk7zh"; depends=[annotate AnnotationDbi Biobase graph hypergraph RBGL XML]; };
Rqc = derive { name="Rqc"; version="1.3.1"; sha256="02kc0ki021m4hxhzlmxfrb9p7p2ibdqan5hr9h67vd2dcnp9yaij"; depends=[BiocGenerics BiocParallel BiocStyle Biostrings ggplot2 IRanges knitr markdown plyr reshape2 S4Vectors ShortRead]; };
Rsamtools = derive { name="Rsamtools"; version="1.21.13"; sha256="0fv0a5f1jb8mj3b2qn6bf9vzzpvn8fgrlhxz492rd3ndvvgnabxc"; depends=[BiocGenerics BiocParallel Biostrings bitops GenomeInfoDb GenomicRanges IRanges S4Vectors XVector zlibbioc]; };
Rsubread = derive { name="Rsubread"; version="1.19.2"; sha256="1xcj13mzw7a8q93kimr61kcl2xvr0mdzvrrqi4j3psbcyf5zn86k"; depends=[]; };
Rsamtools = derive { name="Rsamtools"; version="1.21.14"; sha256="1s2xwz0njbml9x0yw08kk8ykbr5zgzfy5glhzkdhcdfdz7m19ma9"; depends=[BiocGenerics BiocParallel Biostrings bitops GenomeInfoDb GenomicRanges IRanges S4Vectors XVector zlibbioc]; };
Rsubread = derive { name="Rsubread"; version="1.19.3"; sha256="1qb43g5868m3590p1kzb1g5dcl1dkpggk8qq2lnmbw5v761ryamp"; depends=[]; };
Rtreemix = derive { name="Rtreemix"; version="1.31.0"; sha256="1z08y8qhc3sv4pwvji4pks46hxpcpwb9yx8y0927bc96a8mqgax4"; depends=[Biobase graph Hmisc]; };
S4Vectors = derive { name="S4Vectors"; version="0.7.10"; sha256="15hyi728raya0x0fl0pp58kk6w4chvx7xv2f7kmp1432pkgvif9p"; depends=[BiocGenerics]; };
S4Vectors = derive { name="S4Vectors"; version="0.7.12"; sha256="1ym0kph98ab7rdm8b2h3g8zhx92dax7c2nbdmkrahfnldiq60sgn"; depends=[BiocGenerics]; };
SAGx = derive { name="SAGx"; version="1.43.0"; sha256="111pgl7rzmscgadkbivwa736gpyw1z7zkcj648zq3jhqix569dvd"; depends=[Biobase multtest]; };
SANTA = derive { name="SANTA"; version="2.5.2"; sha256="0y49ly3ll8qhbnd5yv5nfzc0bq2xcp2nwdg26338qmif4xklzs43"; depends=[igraph Matrix snow]; };
SANTA = derive { name="SANTA"; version="2.6.0"; sha256="0zx9azk7j82bzq424rf42nsaw05qyfgzdsy38h6r352mfbmip2dl"; depends=[igraph Matrix snow]; };
SBMLR = derive { name="SBMLR"; version="1.65.0"; sha256="1nmw5c32ka6l12cid54mc4diahjhmyg6fngsd646v70rbzgffn7q"; depends=[deSolve XML]; };
SCAN_UPC = derive { name="SCAN.UPC"; version="2.11.0"; sha256="1gwjd78qfaqv6xh4ys6rr29b82wc8qxk7ysfjcl06j6n0qk1v4s6"; depends=[affy affyio Biobase Biostrings foreach GEOquery IRanges MASS oligo sva]; };
SELEX = derive { name="SELEX"; version="1.1.0"; sha256="13v2aqphpblwslbnm9yk9lfg31vrc3lz9ds4m8j7584iszmlgnar"; depends=[Biostrings rJava]; };
SEPA = derive { name="SEPA"; version="0.99.0"; sha256="1mc44amd39x1dvl0kamhbsn2cplg7h5j5v5y2lv1gminfl4xs0sw"; depends=[ggplot2 reshape2 segmented shiny topGO]; };
SGSeq = derive { name="SGSeq"; version="1.3.12"; sha256="19i39vv0ds79hgjjkp37j49apr1jr5n93zc2dmn1llglyp9qqwyl"; depends=[AnnotationDbi BiocGenerics Biostrings GenomeInfoDb GenomicAlignments GenomicFeatures GenomicRanges igraph IRanges Rsamtools rtracklayer S4Vectors SummarizedExperiment]; };
SGSeq = derive { name="SGSeq"; version="1.3.14"; sha256="0m4dsjyww001bqm3ra01jajl0ys9kx605kjb3fjl4dk6adfkn8h8"; depends=[AnnotationDbi BiocGenerics Biostrings GenomeInfoDb GenomicAlignments GenomicFeatures GenomicRanges igraph IRanges Rsamtools rtracklayer S4Vectors SummarizedExperiment]; };
SIM = derive { name="SIM"; version="1.39.0"; sha256="1r08h5hkciycv4lh998vm742flim07plysgjvrq9dp4c5q4qrzr5"; depends=[globaltest quantreg quantsmooth]; };
SIMAT = derive { name="SIMAT"; version="1.1.5"; sha256="074r9fyrgkay1xr0i3ps1sn7n24y26w595nssy7bryrvhhd8izbr"; depends=[ggplot2 mzR Rcpp reshape2]; };
SJava = derive { name="SJava"; version="0.95.1"; sha256="1cl0qybi71srf1ggawxdy128kz8crn8if4yi8c2m6w9ppah9m763"; depends=[]; };
@ -464,12 +469,12 @@ SLGI = derive { name="SLGI"; version="1.29.0"; sha256="0jhi3nmgnqf8qix90kpz8gqib
SLqPCR = derive { name="SLqPCR"; version="1.35.0"; sha256="1p35xgwf3i8ksznz1gi3bddj0816hdljamcb7smdrq0md5fqmpzb"; depends=[]; };
SMAP = derive { name="SMAP"; version="1.33.0"; sha256="0znl289fclws2vnqgpjnrl8b0s5q4cna3ps3il5783vr64ir88cg"; depends=[]; };
SNAGEE = derive { name="SNAGEE"; version="1.9.0"; sha256="0sn5b8ah9idbz63y1rjx8brz3h58zvh2sk59l4i48nvrm38g169r"; depends=[]; };
SNPRelate = derive { name="SNPRelate"; version="1.3.5"; sha256="0xr839g6a2m5p7fd2dzaz0c263b2cfdpakq5ydk0k1c3xppzly9y"; depends=[gdsfmt]; };
SNPRelate = derive { name="SNPRelate"; version="1.3.8"; sha256="0rmqx5s4748jpcbqjjpkm4snkvbs8c0xpdm5qfg18cgkx3jbpxpr"; depends=[gdsfmt]; };
SNPchip = derive { name="SNPchip"; version="2.15.2"; sha256="1px5ifdsly1z8iwd22vj2xb4pk5jhsa3h2z31scw37b0v4daks50"; depends=[Biobase foreach GenomeInfoDb GenomicRanges IRanges lattice oligoClasses SummarizedExperiment]; };
SPEM = derive { name="SPEM"; version="1.9.0"; sha256="09klaxlz1ff77jhjsr95g3s4b5m285zf3fl9w4mv5pc8r1viqplf"; depends=[Biobase Rsolnp]; };
SPIA = derive { name="SPIA"; version="2.21.0"; sha256="0v8m9wfl2kqzzl3k0v7lr7g33ymdnmqi9r2fqyb42mggpq5pwxlm"; depends=[KEGGgraph]; };
SQUADD = derive { name="SQUADD"; version="1.19.0"; sha256="0xss3vhn6471z44gd44i8j5bni8471nb1sq3cx99f2gyk817nxp8"; depends=[RColorBrewer]; };
SRAdb = derive { name="SRAdb"; version="1.23.0"; sha256="042y06ds1jdj26jzi51wxb6mlmlr751jyf7ggjaq7zrz267dmj76"; depends=[GEOquery graph RCurl RSQLite]; };
SRAdb = derive { name="SRAdb"; version="1.25.0"; sha256="1gkg3qyk98zc8gjlmgg34xgjmh92iy2bl9larhdv5inqv2jn3yj3"; depends=[GEOquery graph RCurl RSQLite]; };
SSPA = derive { name="SSPA"; version="2.9.0"; sha256="1kkvj3s2l6zzvv6pybx38qrnm3i5dxckx2fpc4snlx7km2w175xz"; depends=[lattice limma qvalue]; };
STAN = derive { name="STAN"; version="1.3.0"; sha256="02qg79aa0j2ns1xswdirgbpwb0dlghd0lbdxgnpmy225wgb7nak6"; depends=[Rsolnp]; };
STATegRa = derive { name="STATegRa"; version="1.3.1"; sha256="0kfwi5qimg4myx5x0gjwrkhz8cxh2hz1mvxla8yn8v8fkb3ryshj"; depends=[affy Biobase calibrate edgeR foreach ggplot2 gplots gridExtra limma MASS]; };
@ -478,7 +483,7 @@ SVM2CRM = derive { name="SVM2CRM"; version="1.1.0"; sha256="0k3mg9b8i406ssvkzacz
SamSPECTRAL = derive { name="SamSPECTRAL"; version="1.23.4"; sha256="0fqnqffw6q5sja3jkw6ddrachs075s5s7rnpg9fli9lgax5r4rbp"; depends=[]; };
ScISI = derive { name="ScISI"; version="1.41.0"; sha256="05snqj8qphcmnkrmv42p6zs92dmi09sd06abn5ll5234my5d0vvn"; depends=[annotate AnnotationDbi apComplex RpsiXML]; };
SemDist = derive { name="SemDist"; version="1.3.0"; sha256="0dvnp3d2s7bc4jv2vm8jikyac2cd23hx7r480g2lkcaic99wbl0s"; depends=[annotate AnnotationDbi]; };
SeqArray = derive { name="SeqArray"; version="1.9.7"; sha256="0gpn5dispfd8scqhgxw8pfgrwkz479ly5q8431mifmbkq8zh34pd"; depends=[Biostrings gdsfmt GenomicRanges IRanges S4Vectors VariantAnnotation]; };
SeqArray = derive { name="SeqArray"; version="1.9.10"; sha256="0r4308fich1wwdrqfw6d6c88cq8xsyg2p8wvfnhn1ah4lng9s6z3"; depends=[Biostrings gdsfmt GenomicRanges IRanges S4Vectors VariantAnnotation]; };
SeqGSEA = derive { name="SeqGSEA"; version="1.9.0"; sha256="0znabm84qgzf9m4dk64jppn3s5vzz1sjvrdlr7s6jls8jwi8kqqi"; depends=[Biobase biomaRt DESeq doParallel]; };
SeqVarTools = derive { name="SeqVarTools"; version="1.7.1"; sha256="04xfph2iphpmlqws5xmibq1jdkclbal2nrf18w7sblqcv67cff7x"; depends=[gdsfmt GenomicRanges GWASExactHW IRanges S4Vectors SeqArray VariantAnnotation]; };
ShortRead = derive { name="ShortRead"; version="1.27.5"; sha256="0r9gmbg9fd3n6v8c0l1mjkk9x1v6qrisamm5a1nasqbg3wmhmz5k"; depends=[Biobase BiocGenerics BiocParallel Biostrings GenomeInfoDb GenomicAlignments GenomicRanges hwriter IRanges lattice latticeExtra Rsamtools S4Vectors XVector zlibbioc]; };
@ -486,7 +491,7 @@ SigCheck = derive { name="SigCheck"; version="2.1.0"; sha256="012n75gmsifvymbk20
SigFuge = derive { name="SigFuge"; version="1.7.0"; sha256="1b966n3rl4xs3q1vjgkxxfravqr02rdgwyzvr469y757qdqi1day"; depends=[GenomicRanges ggplot2 matlab reshape sigclust]; };
SimBindProfiles = derive { name="SimBindProfiles"; version="1.7.0"; sha256="04m7h5zil05sg9yfgjjzm1p65302fp50vxf8y1jafp1nwqialxwh"; depends=[Biobase limma mclust Ringo]; };
SomatiCA = derive { name="SomatiCA"; version="1.13.0"; sha256="06b3mz199qm2ynal8iq4kp8rv40wbc5zipzwm22nccf97krxl9a4"; depends=[DNAcopy doParallel foreach GenomicRanges IRanges lars rebmix sn]; };
SomaticSignatures = derive { name="SomaticSignatures"; version="2.5.4"; sha256="1kr4z1b9b5a8gb1m9vfk9bxhinh5ccba2mrwnq3cqhb7c3slbjs3"; depends=[Biobase Biostrings GenomeInfoDb GenomicRanges ggbio ggplot2 IRanges NMF pcaMethods proxy reshape2 S4Vectors VariantAnnotation]; };
SomaticSignatures = derive { name="SomaticSignatures"; version="2.5.6"; sha256="17w3dszcaxpkyk9chb7bfdii9zr1hppqhgsarzls4s4p4472f7d1"; depends=[Biobase Biostrings GenomeInfoDb GenomicRanges ggbio ggplot2 IRanges NMF pcaMethods proxy reshape2 S4Vectors VariantAnnotation]; };
SpacePAC = derive { name="SpacePAC"; version="1.7.0"; sha256="1ay5hlbm2x9g5mjrq5qksgrrr84vwfk49g9qb2sc9wyc46n5af6k"; depends=[iPAC]; };
SpeCond = derive { name="SpeCond"; version="1.23.0"; sha256="0nbbqazxql9mc5idvrcycrm9fkrnm2vi9zrad3awhc378ippdk8k"; depends=[Biobase fields hwriter mclust RColorBrewer]; };
SplicingGraphs = derive { name="SplicingGraphs"; version="1.9.1"; sha256="1s3kvaxrrvfndp4imavj0r9zw0rg37cn9xwxhi5zpfd7a784z1xk"; depends=[BiocGenerics GenomeInfoDb GenomicAlignments GenomicFeatures GenomicRanges graph igraph IRanges Rgraphviz Rsamtools S4Vectors]; };
@ -495,17 +500,18 @@ Streamer = derive { name="Streamer"; version="1.15.2"; sha256="0mah1sq797ihy82mv
SummarizedExperiment = derive { name="SummarizedExperiment"; version="0.3.2"; sha256="0k7dmly8g1qhpqx4qv376ixkwvx073ydc5xqi29s81mwp5fq08zi"; depends=[Biobase BiocGenerics GenomeInfoDb GenomicRanges IRanges S4Vectors]; };
Sushi = derive { name="Sushi"; version="1.6.1"; sha256="0g1fk0xrn584l49r73crj0bc5z2y6rdzyf54d221r7k119njp3dw"; depends=[biomaRt zoo]; };
SwimR = derive { name="SwimR"; version="1.7.0"; sha256="07kh24m9d1q3swj3srjybj6lq68s89750fbvlg449px4aq23yrq0"; depends=[gplots heatmap_plus R2HTML signal]; };
TCC = derive { name="TCC"; version="1.9.0"; sha256="1bihqfvrq3sjs38m2a60swxqcxmgabb1lmsnfrb669imiqc7ramj"; depends=[baySeq DESeq DESeq2 edgeR ROC samr]; };
TCC = derive { name="TCC"; version="1.9.2"; sha256="1srlaiavii6sr0d3fiqngp1rchdfxgnmsf7h29szyy34aajqygbw"; depends=[baySeq DESeq DESeq2 edgeR ROC samr]; };
TDARACNE = derive { name="TDARACNE"; version="1.19.0"; sha256="0nwg355n0qs781801pmmwfwp66sa2ci7g6gfdh4669067j4qbqhb"; depends=[Biobase GenKern Rgraphviz]; };
TEQC = derive { name="TEQC"; version="3.9.0"; sha256="0dkmh901jkf529jcshvr79jmkvw0824r4dxgp6l6vgv9j5c6nf25"; depends=[Biobase BiocGenerics hwriter IRanges Rsamtools]; };
TFBSTools = derive { name="TFBSTools"; version="1.7.0"; sha256="1c38n6xlm4cfrhh9qih0d8xh3d7r7w797fjcbmhsr2zhd7qssrqb"; depends=[BiocParallel Biostrings BSgenome caTools CNEr DirichletMultinomial GenomicRanges gtools IRanges RSQLite rtracklayer S4Vectors seqLogo TFMPvalue XVector]; };
TIN = derive { name="TIN"; version="1.1.0"; sha256="0npf3gwh2izvsa5j0zjy1gkm69nrxhcjlm2ha621fc1gz7lx1i2y"; depends=[aroma_affymetrix data_table impute squash stringr WGCNA]; };
TPP = derive { name="TPP"; version="1.1.0"; sha256="06xm73jx4f2pldi7yifvx7zh62zmigidnfd7klpp0jpfxx3xjw61"; depends=[Biobase doParallel foreach ggplot2 gridExtra nls2 openxlsx plyr reshape2 VennDiagram VGAM]; };
TPP = derive { name="TPP"; version="1.1.3"; sha256="152dpyn6ldw4b3ys0b1ylriq0l1hr9l0qjgfh19bvs2gflhbzyah"; depends=[Biobase doParallel foreach ggplot2 gridExtra nls2 openxlsx plyr reshape2 VennDiagram VGAM]; };
TRONCO = derive { name="TRONCO"; version="1.1.0"; sha256="18zmn1cxysar3a19n9i47r2gda5r5jvz0bk209wh6kqlhs001q9v"; depends=[graph lattice Rgraphviz]; };
TSCAN = derive { name="TSCAN"; version="1.5.0"; sha256="1hkmfn9svbgpvxpszfdxjc23qq8x60prsbrgv7z5n3na4sl7y5z5"; depends=[combinat fastICA ggplot2 gplots igraph mclust mgcv plyr shiny]; };
TSSi = derive { name="TSSi"; version="1.15.0"; sha256="0475zw1s34ayiz0v9i770rmha4rx9i3zzkjvyskgvsdpgsq9wl4j"; depends=[Biobase BiocGenerics Hmisc IRanges minqa plyr S4Vectors]; };
TargetScore = derive { name="TargetScore"; version="1.7.0"; sha256="0lkkxzi3fi0dxika09fkbakq54c2sjw4g4y9bafcy3f225fac8x8"; depends=[Matrix pracma]; };
TargetSearch = derive { name="TargetSearch"; version="1.25.0"; sha256="071p06gb1rn6sdhdpi7g05rflp6jgs0cdff13gj8hr5jykyw5ix7"; depends=[mzR]; };
TimerQuant = derive { name="TimerQuant"; version="0.99.3"; sha256="03qa5k4xc8pv677azdc0ar66p23jdyqyblckdnrqlwnscln0y77g"; depends=[deSolve dplyr ggplot2 gridExtra locfit shiny]; };
TitanCNA = derive { name="TitanCNA"; version="1.7.1"; sha256="0a64bqgyn18qdvgzmc6kqr6c16jlqyz0vah0fm2qwdjz3zmjd081"; depends=[foreach GenomeInfoDb IRanges Rsamtools]; };
ToPASeq = derive { name="ToPASeq"; version="1.3.0"; sha256="1m6mh30fpf9mmgg2wsv08qvizw0cpa6dz5abspgbw3q0vaskm2db"; depends=[Biobase clipper DESeq DESeq2 edgeR fields GenomicRanges graph graphite gRbase KEGGgraph limma locfit qpgraph R_utils RBGL Rcpp Rgraphviz TeachingDemos]; };
TransView = derive { name="TransView"; version="1.13.0"; sha256="14fanxl8lqam3492c5sbvhsjwbayrx7dcp5wpsbqrcvbssmfa3cx"; depends=[GenomicRanges gplots IRanges Rsamtools zlibbioc]; };
@ -514,12 +520,12 @@ TypeInfo = derive { name="TypeInfo"; version="1.35.0"; sha256="0rxwfaqg8sg70hiq8
UNDO = derive { name="UNDO"; version="1.11.0"; sha256="173cdpp0gipwplxdf7ynxqnv8fqfkbyx7xmr5cx396zi8gpq3am4"; depends=[Biobase BiocGenerics boot MASS nnls]; };
UniProt_ws = derive { name="UniProt.ws"; version="2.9.2"; sha256="0pby1c7y8fxkpdd2knbv8gbxs78ry1dz8q9zqw6bakp831v5kbgw"; depends=[AnnotationDbi BiocGenerics RCurl RSQLite]; };
VanillaICE = derive { name="VanillaICE"; version="1.31.3"; sha256="0niimjngjx8wq2fylzjdijb2za4w4ia53aqkdnjwjfl78rg2hwch"; depends=[Biobase BiocGenerics crlmm data_table foreach GenomeInfoDb GenomicRanges IRanges lattice matrixStats oligoClasses S4Vectors SummarizedExperiment]; };
VariantAnnotation = derive { name="VariantAnnotation"; version="1.15.19"; sha256="1hqpjwrnyl5hp8vwl68v2cnf868vjf7k0vckjczdcc66wp3g9r70"; depends=[AnnotationDbi Biobase BiocGenerics Biostrings BSgenome DBI GenomeInfoDb GenomicFeatures GenomicRanges IRanges Rsamtools rtracklayer S4Vectors SummarizedExperiment XVector zlibbioc]; };
VariantFiltering = derive { name="VariantFiltering"; version="1.5.15"; sha256="1dawzsv358h3p5x7kcml17snpbypgwjl5b0aam2wrsb7qp80sqh7"; depends=[AnnotationDbi Biobase BiocGenerics BiocParallel Biostrings BSgenome DBI GenomeInfoDb GenomicFeatures GenomicRanges graph Gviz IRanges RBGL Rsamtools RSQLite S4Vectors shiny VariantAnnotation XVector]; };
VariantAnnotation = derive { name="VariantAnnotation"; version="1.15.21"; sha256="0b5i9q2xnclkrziri6575irmm5y3r2g9x45dr5qnq91g9rxi4m7v"; depends=[AnnotationDbi Biobase BiocGenerics Biostrings BSgenome DBI GenomeInfoDb GenomicFeatures GenomicRanges IRanges Rsamtools rtracklayer S4Vectors SummarizedExperiment XVector zlibbioc]; };
VariantFiltering = derive { name="VariantFiltering"; version="1.5.16"; sha256="1fvzhxvirzxcrqw3bm86f5id29s993gpmbwjar5maj86881l1c2f"; depends=[AnnotationDbi Biobase BiocGenerics BiocParallel Biostrings BSgenome DBI GenomeInfoDb GenomicFeatures GenomicRanges graph Gviz IRanges RBGL Rsamtools RSQLite S4Vectors shiny VariantAnnotation XVector]; };
VariantTools = derive { name="VariantTools"; version="1.11.0"; sha256="1yyx9l6q3v4igm2ppnrsj9c7p4p0zpkqwjyf9d7b7rqvrk9yjyrv"; depends=[Biobase BiocGenerics BiocParallel Biostrings BSgenome GenomeInfoDb GenomicFeatures GenomicRanges gmapR IRanges Matrix Rsamtools rtracklayer S4Vectors VariantAnnotation]; };
Vega = derive { name="Vega"; version="1.17.0"; sha256="1c39112czlw9hgh9gmkwxhhz9kwki48k8lsfmy3hkzxqpxx61h01"; depends=[]; };
VegaMC = derive { name="VegaMC"; version="3.7.0"; sha256="046wly5sn4vwk3h4bcick8q5dpjrfjq393rqjl8y4v24iqynlyqd"; depends=[Biobase biomaRt genoset]; };
XBSeq = derive { name="XBSeq"; version="0.99.6"; sha256="1j8hwy2wi4vmc1nnc5xij578w445vqj0v6ngz06rlbdi5kb9k7ls"; depends=[Biobase BiocGenerics DESeq2 ggplot2 locfit matrixStats pracma]; };
XBSeq = derive { name="XBSeq"; version="0.99.7"; sha256="01vi1p5h1lin0d62mm92y745crv21qqf24kwaj0nlhny93aq45gp"; depends=[Biobase BiocGenerics Delaporte DESeq2 dplyr ggplot2 locfit magrittr matrixStats pracma]; };
XDE = derive { name="XDE"; version="2.15.0"; sha256="17i8zxb6q4wpsa8lymcnilmr39ip1a54h6rqyl3m7qa8xwb0gv50"; depends=[Biobase BiocGenerics genefilter gtools MergeMaid mvtnorm]; };
XVector = derive { name="XVector"; version="0.9.1"; sha256="0l5l45i7sx1j51s3wkab207qwbk77i8iazd26isf0yp3rsb84a4c"; depends=[BiocGenerics IRanges S4Vectors]; };
a4 = derive { name="a4"; version="1.17.0"; sha256="0pn0gm4xkngz72i92h58d0xbpcx04938x4vm0mqsilrjapchripj"; depends=[a4Base a4Classif a4Core a4Preproc a4Reporting]; };
@ -531,7 +537,7 @@ a4Reporting = derive { name="a4Reporting"; version="1.17.0"; sha256="1fpdkw048gv
aCGH = derive { name="aCGH"; version="1.47.0"; sha256="095arlryay4gdr6kva7vf9lcby60pyx5bs4vcx586zgwskzpb2ln"; depends=[Biobase cluster multtest survival]; };
acde = derive { name="acde"; version="0.99.5"; sha256="1bbsfr7a2sivb6dpn06hwj0i95wdlfxzba4a36pakx7nzn6nv76p"; depends=[boot]; };
adSplit = derive { name="adSplit"; version="1.39.0"; sha256="1jprbqwhksyp9jf05r5dbfzgn30xm16shqsf8yi9b3nr7z2swvwm"; depends=[AnnotationDbi Biobase cluster multtest]; };
affxparser = derive { name="affxparser"; version="1.41.5"; sha256="0naiv8z07zr1xjnmimx17awnsb9dryiz4w9jx17whrjwdpddx1p5"; depends=[]; };
affxparser = derive { name="affxparser"; version="1.41.6"; sha256="1d1jnsx3dq52yfcchnagidlsw73dk7j5pagqfzba6pa6vv8l3sl0"; depends=[]; };
affy = derive { name="affy"; version="1.47.1"; sha256="1c9ggyqhj65mj0nq9xsqfmzp4a5705qj67swjpk5bmqajxr390a3"; depends=[affyio Biobase BiocGenerics BiocInstaller preprocessCore zlibbioc]; };
affyContam = derive { name="affyContam"; version="1.27.0"; sha256="1hd9kchhdjcnkxlf6kcc59jb5a9v67671shvzprraa1lg4800j5x"; depends=[affy Biobase]; };
affyILM = derive { name="affyILM"; version="1.21.0"; sha256="1gvagg83p4vxp6q72s7camcg5lhxdfy7rmm3a2p2n29267xvcz5x"; depends=[affxparser affy Biobase gcrma]; };
@ -540,8 +546,8 @@ affyPara = derive { name="affyPara"; version="1.29.0"; sha256="06382vyfjrng72hhm
affyQCReport = derive { name="affyQCReport"; version="1.47.0"; sha256="09f3pbacsrjs5bv1bv3dz7jmd849rnix6pqlkszr507s6by5i47y"; depends=[affy affyPLM Biobase genefilter lattice RColorBrewer simpleaffy xtable]; };
affycomp = derive { name="affycomp"; version="1.45.0"; sha256="0wwgijr7h2hbv2l0w5p509f70yy873w8kahs7nnhrgl4kzbjiymc"; depends=[Biobase]; };
affycoretools = derive { name="affycoretools"; version="1.41.9"; sha256="16zdm1idmssg9jp86kkfc2h2dhjz2rl6qnrbybfbkiiklj2gagq7"; depends=[affy AnnotationDbi Biobase gcrma ggplot2 GOstats gplots hwriter lattice limma oligoClasses ReportingTools xtable]; };
affyio = derive { name="affyio"; version="1.37.0"; sha256="0p6wgrl8xag85y5vadfxdvvr430d7sa4wh2fw3ijyi3hr83sdr4z"; depends=[zlibbioc]; };
affylmGUI = derive { name="affylmGUI"; version="1.43.0"; sha256="04np48b2v04w77vhpacdx8790i8jb58rw7da76qvahiqja857vlq"; depends=[affy affyio affyPLM AnnotationDbi BiocInstaller gcrma limma R2HTML tkrplot xtable]; };
affyio = derive { name="affyio"; version="1.39.0"; sha256="07m032wbfgi06yl79waskb2h1r4qi65pzr1j2ry60cr9jv50sizc"; depends=[zlibbioc]; };
affylmGUI = derive { name="affylmGUI"; version="1.43.2"; sha256="1mkg2addri3x8vchgcdy4wih1pzagbp0i54w3nh9kf64r89m35br"; depends=[affy affyio affyPLM AnnotationDbi BiocInstaller gcrma limma R2HTML tkrplot xtable]; };
affypdnn = derive { name="affypdnn"; version="1.43.0"; sha256="01myf9dxzgc2jgdswphinz7ap7bdaqnw0gcfk32sxbykr4g4zyiy"; depends=[affy]; };
agilp = derive { name="agilp"; version="3.1.0"; sha256="13jnq7v0qfyllbldx2abnia0rg40yxxgkq4i1whsy5qnk1fp0n77"; depends=[]; };
alsace = derive { name="alsace"; version="1.5.0"; sha256="17ah7dl02w6qysfbs92h4c3wxfb6f1m6vz6yl07s0zd86k12g4nm"; depends=[ALS ptw]; };
@ -549,7 +555,7 @@ altcdfenvs = derive { name="altcdfenvs"; version="2.31.0"; sha256="05gr6j1w1y289
ampliQueso = derive { name="ampliQueso"; version="1.7.0"; sha256="1bk0svxg7n6b610d5czkk1mgkrgdsjlghbj38g4hxxw3vciaxhkk"; depends=[DESeq doParallel edgeR foreach genefilter ggplot2 gplots knitr rgl rnaSeqMap samr statmod VariantAnnotation xtable]; };
annaffy = derive { name="annaffy"; version="1.41.1"; sha256="1rqp0lrhahkimnhifpipf2vw0lhprdx9slz3s4bwylvn0k5balcm"; depends=[AnnotationDbi Biobase]; };
annmap = derive { name="annmap"; version="1.11.0"; sha256="0s0ifbwra3zczw9h0nqcs88rb3h74ry1gap1bvqvcxqirdwq9nw4"; depends=[Biobase BiocGenerics DBI digest genefilter GenomicRanges IRanges lattice RMySQL Rsamtools]; };
annotate = derive { name="annotate"; version="1.47.0"; sha256="06nrzkl9g26rrnqvakwkn2yinvgka02a5iivhi9kgjk4g5plcmkw"; depends=[AnnotationDbi Biobase BiocGenerics DBI XML xtable]; };
annotate = derive { name="annotate"; version="1.47.4"; sha256="01imryfc18jg8hmxk82arkpvdxfh448fhiv5z0xmkbx03hrrin7b"; depends=[AnnotationDbi Biobase BiocGenerics DBI XML xtable]; };
annotationTools = derive { name="annotationTools"; version="1.43.0"; sha256="1dqs8f4p1ks03q0lfwm3hs116ahks39hk17knkqs492zcqr83qay"; depends=[Biobase]; };
anota = derive { name="anota"; version="1.17.0"; sha256="0grdmpdg03wqjs6rk558nvl8vvdi6my0jv06f3h364pk44hrijdn"; depends=[multtest qvalue]; };
antiProfiles = derive { name="antiProfiles"; version="1.9.1"; sha256="07gzl7wsvv3x7in7n1fwq4cm8bqhlrxwq6ra1k2556z9z8ad7y33"; depends=[locfit matrixStats]; };
@ -567,7 +573,7 @@ beadarraySNP = derive { name="beadarraySNP"; version="1.35.0"; sha256="0g6ba4iyn
betr = derive { name="betr"; version="1.25.0"; sha256="0jd7r069jlfp5fj51xw8k6jpxq5kb364xi9331l06hwijp3msrk6"; depends=[Biobase limma mvtnorm]; };
bgafun = derive { name="bgafun"; version="1.31.0"; sha256="18wk42h1i06j3swlsac9vnkc7riimk7qap59lygji1p3zvy1nkpx"; depends=[ade4 made4 seqinr]; };
bgx = derive { name="bgx"; version="1.35.0"; sha256="1cawfanrxq82b24ny050hv4p607k2zhfxllgl8j1j9qm9n4yk4yk"; depends=[affy Biobase gcrma]; };
bigmemoryExtras = derive { name="bigmemoryExtras"; version="1.13.2"; sha256="0qmrpm4bir0si5xd5v8ih6wnwfprwp4q9hcxbylf1721v9m9wpwv"; depends=[bigmemory Biobase]; };
bigmemoryExtras = derive { name="bigmemoryExtras"; version="1.13.3"; sha256="0jniyz1b11yk00azqxswfdipri84a28ni30kxpazb57d5m6s53h2"; depends=[bigmemory Biobase]; };
bioDist = derive { name="bioDist"; version="1.41.0"; sha256="14a18ky9x36fa8yx3kry23c0vfazxy0lg0j2zkdnr1irngc9wnw5"; depends=[Biobase KernSmooth]; };
bioassayR = derive { name="bioassayR"; version="1.7.7"; sha256="1pflygamq0l0pdps4ay3rl4f8c1njrb55lnl0p2z7mgpj6dbgvf8"; depends=[BiocGenerics DBI Matrix rjson RSQLite XML]; };
biocGraph = derive { name="biocGraph"; version="1.31.0"; sha256="069n4867pkygrsgfjp6arnnmcvlij03r1a2kbs9jgnpx4knck09i"; depends=[BiocGenerics geneplotter graph Rgraphviz]; };
@ -577,13 +583,13 @@ biomvRCNS = derive { name="biomvRCNS"; version="1.9.1"; sha256="0ni7ncip0vx1ipyr
biosvd = derive { name="biosvd"; version="2.5.0"; sha256="0xnc3vpbj5p14w2fwql8vpz9lyvivq3kjmwsr62abn418ampa941"; depends=[Biobase BiocGenerics NMF]; };
biovizBase = derive { name="biovizBase"; version="1.17.1"; sha256="0fffqm8z7x849rd0k7vhpbzwyrx5s0w75iz78627rglczjff6ddp"; depends=[AnnotationDbi BiocGenerics Biostrings dichromat GenomeInfoDb GenomicAlignments GenomicFeatures GenomicRanges Hmisc IRanges RColorBrewer Rsamtools S4Vectors scales SummarizedExperiment VariantAnnotation]; };
birta = derive { name="birta"; version="1.13.0"; sha256="01lrwg4naks85gcrlg3sk3pr328j40b1ji4m4bn3s74rqn6sb52h"; depends=[Biobase limma MASS]; };
birte = derive { name="birte"; version="1.3.0"; sha256="0azkl9x2hk826sdpw96ls868jf83yf1v79inyjg7xsilal2slqgf"; depends=[Biobase limma MASS nem Rcpp RcppArmadillo ridge]; };
birte = derive { name="birte"; version="1.4.0"; sha256="0fyz2chcgcp98lk6zj21lsixmkr06hd80dbg2j25a4rx2pv6qn5s"; depends=[Biobase limma MASS nem Rcpp RcppArmadillo ridge]; };
blima = derive { name="blima"; version="1.3.0"; sha256="1i7njg1lw76717irmfbpy9pmv8hy7nzyini2wm6625cafizp5xq8"; depends=[beadarray Biobase BiocGenerics]; };
bridge = derive { name="bridge"; version="1.33.0"; sha256="06iz67amv80az14s8yim25jfsgbxhxbfifbqazsc78ip9gd7lfyv"; depends=[rama]; };
bsseq = derive { name="bsseq"; version="1.5.4"; sha256="1hr9h4h099506id4xvh6xm9x40dv5hsiyz8rzj4dxxkq7095h9d1"; depends=[Biobase BiocGenerics data_table GenomeInfoDb GenomicRanges gtools IRanges locfit matrixStats S4Vectors scales SummarizedExperiment]; };
bsseq = derive { name="bsseq"; version="1.5.5"; sha256="1yhrysqrbv38p7k7g8sywp6ly6prll1kgjpkk7ff9gklpgmdygkq"; depends=[Biobase BiocGenerics data_table GenomeInfoDb GenomicRanges gtools IRanges locfit matrixStats R_utils S4Vectors scales SummarizedExperiment]; };
bumphunter = derive { name="bumphunter"; version="1.9.1"; sha256="0phq9dhrj8fa253a64vwfp75j85vp9142g5gmfy1g1n861xy8r26"; depends=[AnnotationDbi BiocGenerics doRNG foreach GenomeInfoDb GenomicFeatures GenomicRanges IRanges iterators limma locfit matrixStats S4Vectors]; };
caOmicsV = derive { name="caOmicsV"; version="0.99.2"; sha256="0y96f64m0liv53vbby866v1ga5nml1506pp6ff4ax7dbg0niiwwn"; depends=[bc3net igraph]; };
canceR = derive { name="canceR"; version="1.1.2"; sha256="07wikalgmf3vw2dzmri1ia80hfman53mynsk40y549qn8hjija1k"; depends=[Biobase cgdsr circlize Formula geNetClassifier GSEABase GSEAlm phenoTest plyr rpart RUnit survival tcltk2 tkrplot]; };
canceR = derive { name="canceR"; version="1.1.3"; sha256="1cagv58133w80acjzlyvx2752ap4dhkpvsfr34306gwbvs4gin3j"; depends=[Biobase cgdsr circlize Formula geNetClassifier GSEABase GSEAlm phenoTest plyr rpart RUnit survival tcltk2 tkrplot]; };
cancerclass = derive { name="cancerclass"; version="1.13.0"; sha256="066v9dz49ap0db31jrdlx2zbv8l3bwd75sf9gqa1dw3g8m9zq7hg"; depends=[binom Biobase]; };
casper = derive { name="casper"; version="2.3.1"; sha256="12nz9ypg685c1bly3fp9x76cilh6imlw4hqdmd7sbp2d0z89dcgf"; depends=[Biobase BiocGenerics EBarrays gaga GenomeInfoDb GenomicFeatures GenomicRanges gtools IRanges limma mgcv Rsamtools rtracklayer S4Vectors sqldf survival VGAM]; };
categoryCompare = derive { name="categoryCompare"; version="1.13.0"; sha256="08r5payxn40xdpaph6zind8miqlqdhnmka9jcijj396rbbhvb480"; depends=[annotate AnnotationDbi Biobase BiocGenerics Category colorspace GOstats graph GSEABase hwriter RCytoscape]; };
@ -603,21 +609,21 @@ cisPath = derive { name="cisPath"; version="1.9.0"; sha256="1jdq159ixiixh9ppfc5g
cleanUpdTSeq = derive { name="cleanUpdTSeq"; version="1.7.1"; sha256="0inszzss1fqyhw18lx40iycvpzkm18djxmad1li8bd22hss759c2"; depends=[BiocGenerics BSgenome e1071 GenomicRanges seqinr]; };
cleaver = derive { name="cleaver"; version="1.7.0"; sha256="14vbdagy61imql6z2qazzlqzp0r9ridydn7phvajc84lnwbf8xa3"; depends=[Biostrings IRanges]; };
clippda = derive { name="clippda"; version="1.19.0"; sha256="1gd5b2n2qa9bv1n93vcdz8lg8kmn1lv923i3gzq8pcy7fbz7m5cs"; depends=[Biobase lattice limma rgl scatterplot3d statmod]; };
clipper = derive { name="clipper"; version="1.9.0"; sha256="0py5hdbf8wypw5r9r2d7b3239b83lyrybcvksrmiklv7snw9c2qx"; depends=[Biobase corpcor graph gRbase igraph KEGGgraph Matrix qpgraph RBGL Rcpp]; };
clipper = derive { name="clipper"; version="1.9.1"; sha256="1z0wjkzx9v0wlsx2wdjxch7j6m3hlkmg5zy8fddgbv3fdc750ppm"; depends=[Biobase corpcor graph gRbase igraph KEGGgraph Matrix qpgraph RBGL Rcpp]; };
clonotypeR = derive { name="clonotypeR"; version="1.7.0"; sha256="1pwwjgln7r7035fdqqfb69fgql91cxfablbwid2m5xkdrwzpb57s"; depends=[]; };
clst = derive { name="clst"; version="1.17.1"; sha256="08gqxcjchzywvc67nfjmr2i1xxm71i1j00qxdq3zs6p9y4n65qa0"; depends=[lattice ROC]; };
clstutils = derive { name="clstutils"; version="1.17.1"; sha256="04gwj8mlbqd5l2nas146vk0vzad0z1y4225g935h9baspcmdh3f8"; depends=[ape clst lattice rjson RSQLite]; };
clusterProfiler = derive { name="clusterProfiler"; version="2.3.6"; sha256="1hfknmad6wix5ciwcfjn80s0y78966gfkifhxa6wxpkddmdhklqw"; depends=[AnnotationDbi DOSE ggplot2 GOSemSim KEGGREST magrittr plyr qvalue topGO]; };
clusterStab = derive { name="clusterStab"; version="1.41.0"; sha256="0sgj2k70fc3r3s19vxcx95z8s3a42yshl78swxp0qp55kidbhvdp"; depends=[Biobase]; };
cn_farms = derive { name="cn.farms"; version="1.17.0"; sha256="09xasmanimx3mzis786iwy2nvxqa5rzvrvrz1hpsiyh5y77yrbnb"; depends=[affxparser Biobase DBI DNAcopy ff lattice oligo oligoClasses preprocessCore snow]; };
cn_mops = derive { name="cn.mops"; version="1.15.1"; sha256="03gr4i1vpyg6h3yyqrdjq1z1dzq9jzdazcrv9045v652qf4jbshr"; depends=[Biobase BiocGenerics GenomicRanges IRanges Rsamtools]; };
cn_mops = derive { name="cn.mops"; version="1.15.3"; sha256="0swin9qyzi2fcc0frq0xnzmj789vbjj0mi2wnmmy131blp7iy6x9"; depends=[Biobase BiocGenerics GenomicRanges IRanges Rsamtools]; };
cnvGSA = derive { name="cnvGSA"; version="1.13.0"; sha256="1sswh1xwimki8ys08l2h95ajpnm5gr0bscvwilhjw4g2a0y7nibr"; depends=[brglm doParallel foreach GenomicRanges splitstackshape]; };
coGPS = derive { name="coGPS"; version="1.13.0"; sha256="160cf9ijn5crvhwbqldix1n36jrmn51085sr4whgm765si57wwb4"; depends=[]; };
coMET = derive { name="coMET"; version="1.1.0"; sha256="01baf156p0ldqhczrin2lsf4jir7158b0db5732jddnl5ayghsi3"; depends=[biomaRt colortools GenomicRanges ggbio ggplot2 gridExtra Gviz hash IRanges psych rtracklayer S4Vectors trackViewer]; };
coRNAi = derive { name="coRNAi"; version="1.19.0"; sha256="1vidwyq8rnkbi0pfbh3mk8m3qj8acwqn7q6jm35gahy4y3p0nq7x"; depends=[cellHTS2 gplots lattice limma locfit MASS]; };
cobindR = derive { name="cobindR"; version="1.7.1"; sha256="0mya51pynfdxfap3paylinqg10fpir7flsz1bng0sk34y15jnxbz"; depends=[BiocGenerics biomaRt Biostrings BSgenome gmp gplots IRanges mclust rtfbs seqinr yaml]; };
codelink = derive { name="codelink"; version="1.37.4"; sha256="0rn2cbjgb7f9yypdrvk5ahgpghd3pn45pb183rs9fdywivys9a0v"; depends=[annotate Biobase BiocGenerics limma]; };
cogena = derive { name="cogena"; version="1.1.3"; sha256="074knrfvnhf4fp98dypwzjsp9z15lj7xlgm1wfmnijcwrwf5566p"; depends=[amap Biobase biwt class cluster corrplot devtools doParallel dplyr fastcluster foreach ggplot2 gplots igraph kohonen mclust reshape2 STRINGdb]; };
codelink = derive { name="codelink"; version="1.37.5"; sha256="1nh7cfhamy5l8qsxixwl4bg8k524hlr4l8v5mqf4qis9f3zp3l3x"; depends=[annotate Biobase BiocGenerics limma]; };
cogena = derive { name="cogena"; version="1.1.6"; sha256="0sf0513qhqpb8mm2ydchdnv20dj9s510nv4rcs5b89vnwm62j0i0"; depends=[amap Biobase biwt class cluster corrplot devtools doParallel dplyr fastcluster foreach ggplot2 gplots igraph jsonlite kohonen mclust reshape2 STRINGdb]; };
compEpiTools = derive { name="compEpiTools"; version="1.3.4"; sha256="0y12sn2dh0x2y7nghkh6dm98b4ilg41694shw3m0fcgaz22c30kp"; depends=[AnnotationDbi BiocGenerics Biostrings GenomeInfoDb GenomicFeatures GenomicRanges gplots IRanges methylPipe Rsamtools S4Vectors topGO XVector]; };
compcodeR = derive { name="compcodeR"; version="1.5.3"; sha256="0208sxff40mjizr47zf6yf87irnnjm0gizdk9h5frbizdxl2i9nn"; depends=[caTools edgeR gdata ggplot2 gplots gtools KernSmooth knitr lattice limma markdown MASS modeest ROCR sm stringr vioplot]; };
conumee = derive { name="conumee"; version="1.1.0"; sha256="1sxl5m7yfqbzg76n06y1jcv0v75y7wf3ad66zw8v004nz84diaix"; depends=[DNAcopy GenomeInfoDb GenomicRanges IRanges minfi rtracklayer]; };
@ -628,7 +634,7 @@ cosmiq = derive { name="cosmiq"; version="1.3.0"; sha256="1868sxwlmaqas3w3nrw4bv
cpvSNP = derive { name="cpvSNP"; version="1.1.0"; sha256="066y409zfz0bway990ygck5lf0vzl6whh212v4rpis1l9bzfv434"; depends=[BiocParallel corpcor GenomicFeatures ggplot2 GSEABase plyr]; };
cqn = derive { name="cqn"; version="1.15.1"; sha256="1g1ip7lxs82qq0qbhnx90hxmjiypc76p1sgx7yvj5nmp6wp1m5xy"; depends=[mclust nor1mix preprocessCore quantreg]; };
crlmm = derive { name="crlmm"; version="1.27.0"; sha256="16i3ijqhwp6c2dshk8r7idrjwga3sm1qcafqz9gl4q6b04s5jvym"; depends=[affyio Biobase BiocGenerics ellipse ff foreach illuminaio lattice matrixStats mvtnorm oligoClasses preprocessCore RcppEigen SNPchip VGAM]; };
csaw = derive { name="csaw"; version="1.3.9"; sha256="10ad0nflzy5ygq7rcn5swpdhxd4rr4y65759pvhji17scsinhswp"; depends=[AnnotationDbi edgeR GenomeInfoDb GenomicAlignments GenomicFeatures GenomicRanges IRanges limma Rsamtools S4Vectors SummarizedExperiment]; };
csaw = derive { name="csaw"; version="1.3.10"; sha256="01vap3h0j9pklmdh5i90p6j9mppvyld000cbhhyj7rmx7z8bsswy"; depends=[AnnotationDbi edgeR GenomeInfoDb GenomicAlignments GenomicFeatures GenomicRanges IRanges limma Rsamtools S4Vectors SummarizedExperiment]; };
ctc = derive { name="ctc"; version="1.43.0"; sha256="139rxdvyvv3wvlc5q3581y5hkjkd5smxvb606mlxjb8lww4qmcj8"; depends=[amap]; };
cummeRbund = derive { name="cummeRbund"; version="2.11.1"; sha256="0nd1a9wi2qvvdhfvkb18ql82bfzhz6fivc7wdfv90mibrd7ypb2a"; depends=[Biobase BiocGenerics fastcluster ggplot2 Gviz plyr reshape2 RSQLite rtracklayer]; };
customProDB = derive { name="customProDB"; version="1.9.4"; sha256="0ws620i6s9p477zfns0m6qpzzhrsivjziv2gv3gmy19dhfh0ln08"; depends=[AnnotationDbi biomaRt Biostrings GenomeInfoDb GenomicAlignments GenomicFeatures GenomicRanges IRanges plyr RCurl Rsamtools RSQLite rtracklayer stringr VariantAnnotation]; };
@ -643,32 +649,33 @@ deltaGseg = derive { name="deltaGseg"; version="1.9.0"; sha256="0y8fw4gxmhsr5xrb
derfinder = derive { name="derfinder"; version="1.3.3"; sha256="11npavkr27f3c48bp40vgn9klgmpqs2w17gl96qn5g1y2gyvrhk5"; depends=[AnnotationDbi BiocParallel bumphunter derfinderHelper GenomeInfoDb GenomicAlignments GenomicFeatures GenomicFiles GenomicRanges Hmisc IRanges qvalue Rsamtools rtracklayer S4Vectors]; };
derfinderHelper = derive { name="derfinderHelper"; version="1.3.1"; sha256="03kijh42x1v4ix4gxs1729rifwckaz9npcrd9b3j6xsizx97b4cr"; depends=[IRanges Matrix S4Vectors]; };
derfinderPlot = derive { name="derfinderPlot"; version="1.3.4"; sha256="1f7x609sknmbn8gsxq75073vfr0qd0k9j7gfi0fxvgnm5f4lkizx"; depends=[derfinder GenomeInfoDb GenomicFeatures GenomicRanges ggbio ggplot2 IRanges limma plyr RColorBrewer reshape2 scales]; };
destiny = derive { name="destiny"; version="0.99.14"; sha256="1k44mwmvrh3fyjdslk8vh2kw075nijzsviy7i0glsbj9q1lhfnzk"; depends=[Biobase BiocGenerics FNN igraph Matrix proxy Rcpp RcppEigen scatterplot3d VIM]; };
dexus = derive { name="dexus"; version="1.9.0"; sha256="1xnjs6gmzkdj1snwakq73bz8ypnxzzxh8ki9wv0ljfbfwv1j7z53"; depends=[BiocGenerics]; };
diffGeneAnalysis = derive { name="diffGeneAnalysis"; version="1.51.0"; sha256="1k5as63cd87nnigc0yzaxvhskpnbr7l1ym2bqc57zsm3bwh8xxwb"; depends=[minpack_lm]; };
diffHic = derive { name="diffHic"; version="1.1.9"; sha256="0azagkb87v2lxmb5bvjqc9bz8pqnn1a9j3p5r4v8izpqwq23hf75"; depends=[BiocGenerics Biostrings BSgenome csaw edgeR GenomeInfoDb GenomicRanges IRanges limma locfit rhdf5 Rsamtools S4Vectors]; };
diffHic = derive { name="diffHic"; version="1.1.12"; sha256="1ywa1c9g4v19w3xmgxvk202h2dd9ax3h99d4rff9xjp2ywkxy2qz"; depends=[BiocGenerics Biostrings BSgenome csaw edgeR GenomeInfoDb GenomicRanges IRanges limma locfit rhdf5 Rsamtools S4Vectors]; };
diggit = derive { name="diggit"; version="1.1.1"; sha256="0c3zy1d9bzb6asa4clgq738h7dj6md55gclwa244qyx857b58rqv"; depends=[Biobase ks viper]; };
dks = derive { name="dks"; version="1.15.0"; sha256="1d66jfca6q8ni5vz5zh7fmxwh3y0yvl2p7gal7w55py6wvyssnl3"; depends=[cubature]; };
domainsignatures = derive { name="domainsignatures"; version="1.29.0"; sha256="1wkypbm5ldwx8y2n16fajf450pwv6zipjdk0176a5rqihaflz80l"; depends=[AnnotationDbi biomaRt prada]; };
dualKS = derive { name="dualKS"; version="1.29.0"; sha256="1a2wb137x98nmdm8dvnl4msl89mlyvm8f1kqzr6jhdj4wjv2hrg1"; depends=[affy Biobase]; };
dyebias = derive { name="dyebias"; version="1.27.0"; sha256="095qcnri2g19m363ipdi31xgn20b51mbfv5mgkk21m6fww1npc92"; depends=[Biobase marray]; };
easyRNASeq = derive { name="easyRNASeq"; version="2.5.5"; sha256="0g2n3ayl06bn8khf5pail119i1611nq71vvqfkdh0v30nj9rsbw2"; depends=[Biobase BiocGenerics BiocParallel biomaRt Biostrings DESeq edgeR GenomeInfoDb genomeIntervals GenomicAlignments GenomicRanges IRanges locfit LSD Rsamtools S4Vectors ShortRead SummarizedExperiment]; };
easyRNASeq = derive { name="easyRNASeq"; version="2.5.6"; sha256="0b93i80fjvljjm4il1ad9g3apznj23hcyhpq3z10zsw81clfya1j"; depends=[Biobase BiocGenerics BiocParallel biomaRt Biostrings DESeq edgeR GenomeInfoDb genomeIntervals GenomicAlignments GenomicRanges IRanges locfit LSD Rsamtools S4Vectors ShortRead SummarizedExperiment]; };
ecolitk = derive { name="ecolitk"; version="1.41.0"; sha256="0jga35q98bidqjlqynq0cack4gwsm3hw34vgns67v37krjs4hn9f"; depends=[Biobase]; };
edge = derive { name="edge"; version="2.1.0"; sha256="1xxz8qyagrfr92ldaxlgb8dfpm6nx3lyk6fa4dl0m8yvlr6lw2fa"; depends=[Biobase MASS qvalue snm sva]; };
edgeR = derive { name="edgeR"; version="3.11.2"; sha256="0df181xjga322phjinlffl0j2mg61pq4p8h3sxx3xz100c6xrahr"; depends=[limma]; };
eiR = derive { name="eiR"; version="1.9.1"; sha256="01wkz9lc6gi1a98q02c6zyzfsnkk52px60xg3lawp2419dvj2ww3"; depends=[BH BiocGenerics ChemmineR DBI digest RCurl RUnit snow snowfall]; };
eisa = derive { name="eisa"; version="1.21.0"; sha256="03366q5qj4wdfm4d9lwysmgz3bgwc53zynw2cmsj7w3yg6dj63km"; depends=[AnnotationDbi Biobase BiocGenerics Category DBI genefilter isa2]; };
ensemblVEP = derive { name="ensemblVEP"; version="1.9.2"; sha256="10xjxafm97jnk7dfi0j1ahyd6hp45r5rpfr206fbiipcq3ha2p9h"; depends=[BiocGenerics Biostrings GenomicRanges VariantAnnotation]; };
ensembldb = derive { name="ensembldb"; version="1.1.5"; sha256="1q32pcg07lgzzavcgx5843ljchklgbscw0qgifrs6d1hidbldjvq"; depends=[AnnotationDbi AnnotationHub Biobase BiocGenerics DBI GenomeInfoDb GenomicFeatures GenomicRanges Rsamtools RSQLite rtracklayer S4Vectors]; };
ensembldb = derive { name="ensembldb"; version="1.1.6"; sha256="1kr0yfdfhmd8g5pqazpbmaqcjw6ydv5whxf4c29d77x83alfncyh"; depends=[AnnotationDbi AnnotationHub Biobase BiocGenerics DBI GenomeInfoDb GenomicFeatures GenomicRanges Rsamtools RSQLite rtracklayer S4Vectors]; };
epigenomix = derive { name="epigenomix"; version="1.9.2"; sha256="0l7pa2nyllf7imapbxqavyg3h0ba3wc1bhrhz7a7bc8rr8qyq0w1"; depends=[beadarray Biobase BiocGenerics GenomicRanges IRanges Rsamtools S4Vectors SummarizedExperiment]; };
epivizr = derive { name="epivizr"; version="1.7.8"; sha256="01z80dbahjbf60d71hiqai5h5i546hvl2j737b4xjca9017g2wsg"; depends=[Biobase GenomeInfoDb GenomicFeatures GenomicRanges httpuv mime OrganismDbi R6 rjson rtracklayer S4Vectors SummarizedExperiment]; };
erccdashboard = derive { name="erccdashboard"; version="1.3.1"; sha256="10ya8gzd9z3b7kwm9yf7v1cbxpqi1r7ghxwy1sg6b646gf3g580v"; depends=[edgeR ggplot2 gplots gridExtra gtools limma locfit MASS plyr QuasiSeq qvalue reshape2 ROCR scales stringr]; };
erccdashboard = derive { name="erccdashboard"; version="1.3.2"; sha256="0vsjk6ba739c2hvx87gz0n3sn2cwfm1nhwk2jcb8ynv7gxww3p4l"; depends=[edgeR ggplot2 gplots gridExtra gtools limma locfit MASS plyr QuasiSeq qvalue reshape2 ROCR scales stringr]; };
erma = derive { name="erma"; version="0.1.2"; sha256="046m88bjfkv8xkmz8il6l0zbp0wcr7n6wvsv2lavcyl09qnjghs0"; depends=[BiocGenerics GenomicFiles GenomicRanges ggplot2 rtracklayer S4Vectors]; };
exomeCopy = derive { name="exomeCopy"; version="1.15.0"; sha256="1047k3whc8pjcrvb10dmykbc3c7ah4fgzsiqxw7asp4ksiqpj5ii"; depends=[GenomeInfoDb GenomicRanges IRanges Rsamtools]; };
exomePeak = derive { name="exomePeak"; version="1.9.1"; sha256="1lvzr8zsa61vj5qhd4yh9n8vmfw759b8gbpp6q9yxz1py1ky16y6"; depends=[GenomicAlignments GenomicFeatures Rsamtools rtracklayer]; };
explorase = derive { name="explorase"; version="1.33.0"; sha256="0405q21ivvchmb37jksv46kwxgbmyiavznizn39asv6wrsvw62az"; depends=[limma rggobi RGtk2]; };
fCI = derive { name="fCI"; version="0.99.10"; sha256="1gknc8pqznxkgdgc403s59xl6x9s8cdb5iql0q88kk8jcqc2fgyl"; depends=[FNN gtools psych rgl VennDiagram zoo]; };
fabia = derive { name="fabia"; version="2.15.0"; sha256="1631f6q30cxzaw7vqjacr44hwzrjbvk0sw3v41zagpbqbbr11swx"; depends=[Biobase]; };
facopy = derive { name="facopy"; version="1.3.0"; sha256="0nm7jds5c4p471qyzv61byl61frwnf71kkvcdrc876168bd6s9y3"; depends=[annotate cgdsr coin data_table DOSE FactoMineR ggplot2 GOstats graphite gridExtra igraph IRanges MASS nnet reshape2 Rgraphviz scales]; };
facopy = derive { name="facopy"; version="1.3.1"; sha256="091pgih7daxhz1lhynq98d5yfxv851dv64vl18dafsg3bp4k5ig5"; depends=[annotate cgdsr coin data_table DOSE FactoMineR ggplot2 GOstats graphite gridExtra igraph IRanges MASS nnet reshape2 Rgraphviz scales]; };
factDesign = derive { name="factDesign"; version="1.45.0"; sha256="08d7ma718s8rdbmk00jdbwn9d1g431iaff7hc4ra421drl95yql1"; depends=[Biobase]; };
farms = derive { name="farms"; version="1.21.0"; sha256="1c0k2ffjqfrhkw0d7h6a6sffh50qvbc7jqd3glgrvbwjnmsys34v"; depends=[affy Biobase MASS]; };
fastLiquidAssociation = derive { name="fastLiquidAssociation"; version="1.5.0"; sha256="0477z4inv374bv5qs6wr5lcndk0d4if4hf1qbwlvv070sh5001gi"; depends=[Hmisc LiquidAssociation WGCNA]; };
@ -683,7 +690,7 @@ flowCHIC = derive { name="flowCHIC"; version="1.3.0"; sha256="1g6kkmcja3am6dawdk
flowCL = derive { name="flowCL"; version="1.7.0"; sha256="0n7gsvsfvfcn1ysc2kzv564hnn963rg6zwzx70vzp8lzvg55z8db"; depends=[Rgraphviz SPARQL]; };
flowClean = derive { name="flowClean"; version="1.5.0"; sha256="1ggzsm1zrvg7x0x9jvjiqm5172cm6lvkmzkk5v38pjvhplqgx4hi"; depends=[bit changepoint flowCore sfsmisc]; };
flowClust = derive { name="flowClust"; version="3.7.01"; sha256="06y8sg5mdjzn3d18m5b3753q2g4s4yxm1v8vb6pkdszq88255w6k"; depends=[Biobase BiocGenerics clue corpcor ellipse flowCore flowViz graph MCMCpack mnormt RBGL]; };
flowCore = derive { name="flowCore"; version="1.35.5"; sha256="1w9x5ynbfglj620i4ffg3p18q16ig553rfd52j7r0adlx8w1hm9d"; depends=[BH Biobase BiocGenerics corpcor graph Rcpp rrcov]; };
flowCore = derive { name="flowCore"; version="1.35.7"; sha256="1j7819bwyrphwwh6hkcjyc7f7yy5bv2sy1qfc66519wswjr90qzn"; depends=[BH Biobase BiocGenerics corpcor graph Rcpp rrcov]; };
flowCyBar = derive { name="flowCyBar"; version="1.5.0"; sha256="160vyp9pglsrv23m0118506bikwzi2mm9b1qgsrxjnzls2lqvjfa"; depends=[gplots vegan]; };
flowDensity = derive { name="flowDensity"; version="1.3.0"; sha256="1z8s1d4qwavi5z8zmvac9yqyd19sma18z1jl129w6sl5964spi86"; depends=[car flowCore GEOmap gplots RFOC]; };
flowFP = derive { name="flowFP"; version="1.27.0"; sha256="15n57slfn0z4vzqhk38mfqzb22r6krafqyp11hv1xsllp8my2a5g"; depends=[Biobase BiocGenerics flowCore flowViz]; };
@ -702,41 +709,42 @@ flowType = derive { name="flowType"; version="2.7.0"; sha256="0zrwf7h62jd5xgs0kq
flowUtils = derive { name="flowUtils"; version="1.33.0"; sha256="0r7l8fbi3p1y7ql60czlqhxx4l0fzxv50phwkr5w85jxxldk2pjm"; depends=[Biobase corpcor flowCore flowViz graph RUnit XML]; };
flowVS = derive { name="flowVS"; version="1.1.0"; sha256="0g1zmcr1wd3xccx2z1akwk177innzrngmxc5r4hjanl37l0skrpq"; depends=[flowCore flowStats flowViz]; };
flowViz = derive { name="flowViz"; version="1.33.2"; sha256="11qbpf0yw1gjzgw3pb7mnqfvwd60nms4cwrwag8h36a5whfd158c"; depends=[Biobase flowCore hexbin IDPmisc KernSmooth lattice latticeExtra MASS RColorBrewer]; };
flowWorkspace = derive { name="flowWorkspace"; version="3.15.12"; sha256="1fw5xg93x92acg2vimp6ks9sxqkqc4vbkghvj4shagnck2zjs0dw"; depends=[BH Biobase BiocGenerics data_table dplyr flowCore flowViz graph gridExtra lattice latticeExtra ncdfFlow plyr RBGL RColorBrewer Rcpp Rgraphviz stringr XML]; };
flowcatchR = derive { name="flowcatchR"; version="1.3.0"; sha256="0zgbnfh3sq6s8y81al379lrif67w5xffc6n3fd5y8bp2wmdqmx8b"; depends=[abind BiocParallel colorRamps EBImage rgl]; };
flowWorkspace = derive { name="flowWorkspace"; version="3.15.15"; sha256="1chjfhij0d4li1q2nz5yqwgmmd4vlf5rcg81z1zfs2kc3c19is18"; depends=[BH Biobase BiocGenerics data_table dplyr flowCore flowViz graph gridExtra lattice latticeExtra ncdfFlow RBGL RColorBrewer Rcpp Rgraphviz stringr XML]; };
flowcatchR = derive { name="flowcatchR"; version="1.3.2"; sha256="1l1m709jfx6k13d9ayv9v355lhws6xnmz2bsklrzrkls25pfm04v"; depends=[abind BiocParallel colorRamps EBImage rgl]; };
fmcsR = derive { name="fmcsR"; version="1.11.4"; sha256="1ah1gyrhcyv4kqxi4n8yj14mgjh6v9l820k5hzb7fwbw74kh2pa5"; depends=[BiocGenerics ChemmineR RUnit]; };
focalCall = derive { name="focalCall"; version="1.3.0"; sha256="1g3vk72xnzy2vsjjq7dnmmxiy29qg2bqij1iim9psb2zd6w387r5"; depends=[CGHcall]; };
frma = derive { name="frma"; version="1.21.0"; sha256="0glsdwzlfba9j850s393jm6ada4j04nz4lilym81qvs9y9jccscp"; depends=[affy Biobase BiocGenerics DBI MASS oligo oligoClasses preprocessCore]; };
frmaTools = derive { name="frmaTools"; version="1.21.0"; sha256="1k5ghz0ddcypisw2l64cg3r9lhvvmdiv1gpbb9b56rw0sk27w0cr"; depends=[affy Biobase DBI preprocessCore]; };
frmaTools = derive { name="frmaTools"; version="1.21.1"; sha256="13x1k763gdkh9mab1nvsa45z7b0v2q4ilvhv47fvwagi5r11jf5w"; depends=[affy Biobase DBI preprocessCore]; };
gCMAP = derive { name="gCMAP"; version="1.13.0"; sha256="06qb51rxxjqanh92g0cj6kwnrcbgkc2f0slav2bxkh2rkrjpyvcn"; depends=[annotate AnnotationDbi Biobase Category DESeq genefilter GSEABase GSEAlm limma Matrix]; };
gCMAPWeb = derive { name="gCMAPWeb"; version="1.9.0"; sha256="0xn1iyvrw3idhwszvipf3y69i1w1azr5hhgklg57v9wibnq02q9g"; depends=[annotate AnnotationDbi Biobase BiocGenerics brew gCMAP GSEABase hwriter Rook yaml]; };
gQTLBase = derive { name="gQTLBase"; version="1.1.1"; sha256="033lfnn0zkkkzay25fkj7wizyd63jxr2nkgga22iwm8ffjgpyac0"; depends=[BatchJobs BBmisc BiocGenerics doParallel ff ffbase foreach GenomicRanges S4Vectors]; };
gQTLstats = derive { name="gQTLstats"; version="1.1.0"; sha256="1hc2lwvq5bzxjl7xap8ykr7ja9jxpp6ydalc582v2jz6r8yp0wx8"; depends=[AnnotationDbi BatchJobs Biobase BiocGenerics doParallel dplyr foreach gam GenomeInfoDb GenomicFeatures GenomicRanges ggplot2 gQTLBase IRanges limma reshape2 S4Vectors snpStats VariantAnnotation]; };
gQTLstats = derive { name="gQTLstats"; version="1.1.1"; sha256="0sav44fxh5m9402gip2qaql4rm81ymw7339732nw2lrjk2vm7l7l"; depends=[AnnotationDbi BatchJobs Biobase BiocGenerics doParallel dplyr foreach gam GenomeInfoDb GenomicFeatures GenomicRanges ggplot2 gQTLBase IRanges limma reshape2 S4Vectors snpStats SummarizedExperiment VariantAnnotation]; };
gaga = derive { name="gaga"; version="2.15.1"; sha256="17ccfnvrqq6p9dynlacxw4797n1h9773ilmsh53mzs52w1k2cybm"; depends=[Biobase coda EBarrays mgcv]; };
gage = derive { name="gage"; version="2.19.0"; sha256="1g8i3w715s10azw7xyzq6gjmz5ilxll4qcf367jn6dwz8xnf15dr"; depends=[AnnotationDbi graph KEGGREST]; };
gaggle = derive { name="gaggle"; version="1.37.0"; sha256="1429xffj08m3dgfp6z34ngwzaq0wyjm3wv3cwfxzl5pzzy200k41"; depends=[graph rJava RUnit]; };
gaia = derive { name="gaia"; version="2.13.0"; sha256="10vpz16plzi651aj1f5h3iwz6nzrrdnl9sgx3sgv5wmks2haqij4"; depends=[]; };
gaucho = derive { name="gaucho"; version="1.5.0"; sha256="0kl8fw1n6dkqmrjp0xri3w2fhx25llrjag7j50m2xh371zfw9chc"; depends=[GA graph heatmap_plus png Rgraphviz]; };
gcrma = derive { name="gcrma"; version="2.41.0"; sha256="03ncgd26hmj4l0mnnif1cf5qg99ir66d0mafx7wamrr930m17v8x"; depends=[affy affyio Biobase BiocInstaller Biostrings XVector]; };
gdsfmt = derive { name="gdsfmt"; version="1.5.6"; sha256="0xncblhsfzwzxmki0mir6khpjb4d5sjc452br8jq0hp9khl9j937"; depends=[]; };
geNetClassifier = derive { name="geNetClassifier"; version="1.9.2"; sha256="04k1j2hqbs75k250i8b17bb8b84mij0hyb3yk1jl1368mpn5vmhc"; depends=[Biobase e1071 EBarrays minet]; };
gdsfmt = derive { name="gdsfmt"; version="1.5.9"; sha256="1j849lizdsyqqp8wyssk00jc0l3mqk0ya0p8ca005i11vz8rivv3"; depends=[]; };
geNetClassifier = derive { name="geNetClassifier"; version="1.9.3"; sha256="1vcbh910g6hsgqian6kf4vd62bf16m3bbycg7rn69rd5nhyn9b8x"; depends=[Biobase e1071 EBarrays minet]; };
geecc = derive { name="geecc"; version="1.3.0"; sha256="0s955yg31papyny42nnqq711hawk5nn3dqgsf24ldz93vjiif9dr"; depends=[gplots hypergea MASS]; };
genArise = derive { name="genArise"; version="1.45.0"; sha256="07xyy6wa22sa0ziqvy1dvpmpq11j56aw70kvj834da003yvabmg1"; depends=[locfit tkrplot xtable]; };
geneRecommender = derive { name="geneRecommender"; version="1.41.0"; sha256="0c06xg7jbcn4lnrkwgwwdjq383a7d34svf9cdqlaz5fc662nl5v0"; depends=[Biobase]; };
geneRxCluster = derive { name="geneRxCluster"; version="1.5.0"; sha256="1m5jxv0qhm68iv6rwy91nkx2mz9b7zh9mdz98gva8mb6gm88iiig"; depends=[GenomicRanges IRanges]; };
genefilter = derive { name="genefilter"; version="1.51.0"; sha256="0zrav2zw7v67i564v20y02cn2ycyk9ms8cnj2b2l7ajd1lq5cp9s"; depends=[annotate AnnotationDbi Biobase survival]; };
genefu = derive { name="genefu"; version="1.19.0"; sha256="05rzq0dy4v7z57zqdg9v2csj3ncv2n76igbz2a9nvjpmqrgfcqlc"; depends=[amap biomaRt mclust survcomp]; };
genefu = derive { name="genefu"; version="2.0.0"; sha256="0vrp2di9pz4xdy2shkl7ccc4ri19q2mv75xl9fkzkan4gnamlkbj"; depends=[amap biomaRt mclust survcomp]; };
geneplotter = derive { name="geneplotter"; version="1.47.0"; sha256="03vl60rhhfh8imp0ihx83gq9r64gdnh2gjdm7pzi4yc03afqgaw8"; depends=[annotate AnnotationDbi Biobase BiocGenerics lattice RColorBrewer]; };
genoCN = derive { name="genoCN"; version="1.21.0"; sha256="10q16kch3gn6phx1zk3aii87f4liy5l6mp0kvjf29x6aam11l7c7"; depends=[]; };
genomation = derive { name="genomation"; version="1.1.5"; sha256="0x4pgs7g46giv6z92hqa0fgq3fbw5p2jm5h8qzbwsvir3y7fnf79"; depends=[GenomicAlignments GenomicRanges ggplot2 gridBase impute IRanges plyr readr reshape2 Rsamtools rtracklayer]; };
genomeIntervals = derive { name="genomeIntervals"; version="1.25.2"; sha256="145xg7pjihfg6qmjfmswf33hkxsnq8ml02x6s6y90giyxlmjqisk"; depends=[BiocGenerics GenomeInfoDb GenomicRanges intervals IRanges S4Vectors]; };
genomation = derive { name="genomation"; version="1.1.10"; sha256="1cxhap9h1g8a5q0jc7xpg00vcp9jrwqmn1v0vlh5ck54vnp672ks"; depends=[data_table GenomicAlignments GenomicRanges ggplot2 gridBase impute IRanges matrixStats plotrix plyr readr reshape2 Rsamtools rtracklayer]; };
genomeIntervals = derive { name="genomeIntervals"; version="1.25.3"; sha256="14ql99gny196nl8ss3pb9m0277nczx6qj9sj2vhwfrr9q9c3ja9a"; depends=[BiocGenerics GenomeInfoDb GenomicRanges intervals IRanges S4Vectors]; };
genomes = derive { name="genomes"; version="2.15.0"; sha256="1a172fz97b6xg4w91dcjbdr9kx0grzf71qn2j7zlyz52dcqppybb"; depends=[Biostrings GenomicRanges IRanges RCurl XML]; };
genoset = derive { name="genoset"; version="1.23.2"; sha256="0j23ym7v47fv2f2j25hfc4xh1113614ixdd1accx9gindbqf72cl"; depends=[Biobase BiocGenerics GenomeInfoDb GenomicRanges IRanges S4Vectors]; };
gespeR = derive { name="gespeR"; version="1.1.0"; sha256="0hp2pw4z5kgj4av339v7r43is082c47ms422pwwa5f2pljijz2z6"; depends=[Biobase biomaRt cellHTS2 doParallel foreach ggplot2 glmnet Matrix reshape2]; };
ggbio = derive { name="ggbio"; version="1.17.1"; sha256="1pc98v500l476sa1krxrj24lfsnbs13ws9hdix3vxfkbklvqjww7"; depends=[Biobase BiocGenerics Biostrings biovizBase BSgenome GenomeInfoDb GenomicAlignments GenomicFeatures GenomicRanges GGally ggplot2 gridExtra gtable Hmisc IRanges OrganismDbi reshape2 Rsamtools rtracklayer S4Vectors scales SummarizedExperiment VariantAnnotation]; };
ggtree = derive { name="ggtree"; version="1.1.8"; sha256="1y9h93wn0zmmaz4hdn2xgz226y8pak0lnix5wvv1xax7myzhkbyl"; depends=[ape Biostrings colorspace EBImage ggplot2 gridExtra jsonlite magrittr reshape2]; };
genoset = derive { name="genoset"; version="1.23.5"; sha256="1vs1yffrjmqz70qc9rbzrabv7271jrqyscb43g3dw5q1mjwifjvn"; depends=[Biobase BiocGenerics GenomeInfoDb GenomicRanges IRanges S4Vectors]; };
genotypeeval = derive { name="genotypeeval"; version="0.99.3"; sha256="1a0dxfdlcdxmsih8imhvd4mk40lzg9p8sryccqmycw360nwbxh1h"; depends=[BiocGenerics BiocParallel GenomeInfoDb GenomicRanges ggplot2 IRanges rtracklayer VariantAnnotation]; };
gespeR = derive { name="gespeR"; version="1.1.2"; sha256="1mfsy2jca89qh22l95y8cd6bjgdss0p1zhprh87jq973w2saj1kf"; depends=[Biobase biomaRt cellHTS2 doParallel dplyr foreach ggplot2 glmnet Matrix reshape2]; };
ggbio = derive { name="ggbio"; version="1.17.2"; sha256="09ffhppri2ibprpwps0zxsrpvbrymsnycriy4709x2ldp1ifjn9l"; depends=[Biobase BiocGenerics Biostrings biovizBase BSgenome GenomeInfoDb GenomicAlignments GenomicFeatures GenomicRanges GGally ggplot2 gridExtra gtable Hmisc IRanges OrganismDbi reshape2 Rsamtools rtracklayer S4Vectors scales SummarizedExperiment VariantAnnotation]; };
ggtree = derive { name="ggtree"; version="1.1.13"; sha256="1vbv7qawd3zrppxlgy2gjf31q1v74ww8r2cn4w3q5dlv883pxcvm"; depends=[ape Biostrings colorspace EBImage ggplot2 gridExtra jsonlite magrittr reshape2]; };
girafe = derive { name="girafe"; version="1.21.0"; sha256="11j9aiy6s5cdhwc9591vv344qnwlgn4hvwlp2rx47gccrnxxaqxi"; depends=[Biobase BiocGenerics Biostrings genomeIntervals intervals IRanges Rsamtools S4Vectors ShortRead]; };
globaltest = derive { name="globaltest"; version="5.23.0"; sha256="1cwgqq5i3v6pp5kp4qi0jxqfh09zgaj719mk4kci3wxb18dc6ql7"; depends=[annotate AnnotationDbi Biobase multtest survival]; };
globaltest = derive { name="globaltest"; version="5.23.1"; sha256="1zcyiixjia9lznaaksfb6mnwpsa4nsqzv92l86kgrvq9a5655pzd"; depends=[annotate AnnotationDbi Biobase survival]; };
gmapR = derive { name="gmapR"; version="1.11.0"; sha256="0vn5iz44gcp4k0y5y4pjw6m60w75k82kv25hmnjshh8cpcwqkxkp"; depends=[Biobase BiocParallel Biostrings BSgenome GenomeInfoDb GenomicAlignments GenomicFeatures GenomicRanges IRanges Rsamtools rtracklayer S4Vectors VariantAnnotation]; };
goProfiles = derive { name="goProfiles"; version="1.31.0"; sha256="0nnc5idd3p969nhcsw2bjv7ws1qlb30sywhvpy8kcvk64wzz4jgw"; depends=[AnnotationDbi Biobase]; };
goTools = derive { name="goTools"; version="1.43.0"; sha256="104xj0q1151ch0b4sswnky6shscx6fps25ycmig1s1ingd8dqnby"; depends=[AnnotationDbi]; };
@ -745,7 +753,7 @@ gpls = derive { name="gpls"; version="1.41.0"; sha256="050db8ag8wpngfkw686r9vjvd
gprege = derive { name="gprege"; version="1.13.0"; sha256="0z27521mjn5ipjq8wi3fbh2qw4k1q694l8268f8lypr9f357i1q4"; depends=[gptk]; };
graph = derive { name="graph"; version="1.47.2"; sha256="0db15kd5qf993qdbr7dl2wbw6bgyg3kiqvd1iziqdq6d2vvbpzbj"; depends=[BiocGenerics]; };
graphite = derive { name="graphite"; version="1.15.1"; sha256="1q3ybshd9yxivs1b5vj659c45qa8bf7r1dy3idg8g7glh9f2bgnl"; depends=[AnnotationDbi BiocGenerics graph]; };
groHMM = derive { name="groHMM"; version="1.3.0"; sha256="0kx574xs0k51wwkvm6rbrrgr76ziwkkyqhiy076yzfsfkm3d1jvf"; depends=[GenomicAlignments GenomicRanges IRanges MASS rtracklayer S4Vectors]; };
groHMM = derive { name="groHMM"; version="1.3.1"; sha256="1bwa2dc2hmp34grl1ki8wzqn5v12afrmcw0igdiv4j8sfgybw3w7"; depends=[GenomicAlignments GenomicRanges IRanges MASS rtracklayer S4Vectors]; };
gtrellis = derive { name="gtrellis"; version="1.1.1"; sha256="17jflcq97a3a7k735klj6pphn6ixyshggwi0n7b45jgkqi9j5s08"; depends=[circlize GetoptLong]; };
gwascat = derive { name="gwascat"; version="2.1.4"; sha256="13hvh6rvlh13n9dxx9g1q68qz4mxsvv4sh0kc1931b3vz2mfs0m0"; depends=[AnnotationHub BiocGenerics Biostrings GenomeInfoDb GenomicRanges gQTLstats Gviz IRanges Rsamtools rtracklayer S4Vectors snpStats VariantAnnotation]; };
h5vc = derive { name="h5vc"; version="2.3.0"; sha256="1cl00k13x03sm60gfkxmaf6ba9kw4186cnik08zn446fipxqypla"; depends=[abind BatchJobs BiocParallel Biostrings GenomeInfoDb GenomicRanges ggplot2 gridExtra IRanges reshape rhdf5 Rsamtools S4Vectors]; };
@ -775,10 +783,10 @@ inSilicoDb = derive { name="inSilicoDb"; version="2.5.0"; sha256="1w5irx042z8if0
inSilicoMerging = derive { name="inSilicoMerging"; version="1.13.0"; sha256="0zaqwachxn3anbjyn0akv0n2djg08475cdxz7c44ja635r1f6y1j"; depends=[Biobase]; };
intansv = derive { name="intansv"; version="1.9.0"; sha256="0vb5hls1yyw0x0ff2xcjmxplg0gar9g9xvs1bqw96bf9akcr12r9"; depends=[BiocGenerics GenomicRanges ggbio IRanges plyr]; };
interactiveDisplay = derive { name="interactiveDisplay"; version="1.7.2"; sha256="1ql4qr5m1xsn3z57p2ndfc4b0zmxgjj0d3gb937ikfljm43jkwyk"; depends=[AnnotationDbi BiocGenerics Category ggplot2 gridSVG interactiveDisplayBase plyr RColorBrewer reshape2 shiny XML]; };
interactiveDisplayBase = derive { name="interactiveDisplayBase"; version="1.7.0"; sha256="0032ljfx6pj0c11imfhxsxvrcn3gwyb6j29xl8xv48x8z44r0vas"; depends=[BiocGenerics shiny]; };
interactiveDisplayBase = derive { name="interactiveDisplayBase"; version="1.7.1"; sha256="00b32z45xh0n1hrj166ax71p2aka3df9b2440wq0zribb9jf1s02"; depends=[BiocGenerics shiny]; };
inveRsion = derive { name="inveRsion"; version="1.17.0"; sha256="1km1h75dh5q505x1ddlhvyqxy4c10wvlviiz2l8sv3g3m9mbd26h"; depends=[haplo_stats]; };
iontree = derive { name="iontree"; version="1.15.0"; sha256="0frq4f357n5w08nwz3m7s0hv858kgcnlvxb4907yrg1b11zpfvmm"; depends=[rJava RSQLite XML]; };
isobar = derive { name="isobar"; version="1.15.0"; sha256="0zkj2i1hhs9nwflnwidzpnqcs08vbv3vqwz244shs9i7h0c5fd16"; depends=[Biobase distr plyr]; };
isobar = derive { name="isobar"; version="1.15.1"; sha256="1i4zlfxbx94yb70bvd3wzlald2fi9ix4bhdlyim490rcdhb0lhyr"; depends=[Biobase distr plyr]; };
iterativeBMA = derive { name="iterativeBMA"; version="1.27.0"; sha256="18g04l2bksjc2563kd2fmjygpci6pdw9lxv4ax0kpbfvc7zwbz17"; depends=[Biobase BMA leaps]; };
iterativeBMAsurv = derive { name="iterativeBMAsurv"; version="1.27.0"; sha256="1l36lmxlwq16kzh8i8nbi8bbrgqc7im1b5pcc170q89x6rfgvyf7"; depends=[BMA leaps survival]; };
jmosaics = derive { name="jmosaics"; version="1.9.0"; sha256="00c84fh5798yyzmsy985b79fcf2yz8y8am13dj7xgnzxl5nj32v1"; depends=[mosaics]; };
@ -787,15 +795,15 @@ kebabs = derive { name="kebabs"; version="1.3.3"; sha256="10pnr5fd2ni4w69qp30q81
keggorthology = derive { name="keggorthology"; version="2.21.0"; sha256="1d3dz61llgmdnyqxqwv03pacfs97lzynzpjpmn7grf7bbpybjk2q"; depends=[AnnotationDbi DBI graph]; };
lapmix = derive { name="lapmix"; version="1.35.0"; sha256="1sps41l210h782bry6n8h55ghnlqn7s5dx0bx2805y5izz01linm"; depends=[Biobase]; };
les = derive { name="les"; version="1.19.0"; sha256="1b3zcvflwyybrh9pf33a0fn5qz6918sszjf0n666iqd3hh7zph8z"; depends=[boot fdrtool gplots RColorBrewer]; };
limma = derive { name="limma"; version="3.25.12"; sha256="1gl13qnbj4w2bzdxf1ml603r1ccyq0wv1ynlrgb8j9sa7z228ri9"; depends=[]; };
limmaGUI = derive { name="limmaGUI"; version="1.45.0"; sha256="05pqzb5nq3paddq2zw80gvdaf8rvynga8zs24rwzjpz3ylakqngr"; depends=[AnnotationDbi BiocInstaller gcrma limma R2HTML tkrplot xtable]; };
limma = derive { name="limma"; version="3.25.14"; sha256="136pvfqqf9jwdir543wblrv6z4fpha5x2dbwldj980yhj4aqz76d"; depends=[]; };
limmaGUI = derive { name="limmaGUI"; version="1.45.2"; sha256="1s1dn14d5yhmfqj4r3kaxavpxaxsjw2492fpijgq0v8dnwqhz190"; depends=[AnnotationDbi BiocInstaller gcrma limma R2HTML tkrplot xtable]; };
lmdme = derive { name="lmdme"; version="1.11.0"; sha256="0j41rfvbhz31vniax7njnslxd94lws4jjfv3hc2s1ihxnj41dcma"; depends=[limma pls]; };
logicFS = derive { name="logicFS"; version="1.39.0"; sha256="1sz4bxsg76437j42i6cpbqvj5a35q7dwhya4yh1gmknqjrrcrv56"; depends=[LogicReg mcbiopi]; };
logitT = derive { name="logitT"; version="1.27.0"; sha256="13gglwkvwrc5xr44ynz10qzyksry0wamk9mjlsfb18c2ncbnyypq"; depends=[affy]; };
lol = derive { name="lol"; version="1.17.1"; sha256="0adj2bg8akb3z0w3wqj6bdlypf9c587k5c2npx0l21hgy4qv7p8k"; depends=[Matrix penalized]; };
lpNet = derive { name="lpNet"; version="2.1.2"; sha256="0qy2ardh00gf3xkhqphvmdsnsxa4pjrdpcxpjs53nw68bcsbgy9g"; depends=[lpSolve nem]; };
lumi = derive { name="lumi"; version="2.21.2"; sha256="0nfkzf11lnpvyqng8ns6nf23qkap04fir8cbqngnzm6yddfk33dq"; depends=[affy annotate AnnotationDbi Biobase DBI GenomicFeatures GenomicRanges KernSmooth lattice MASS methylumi mgcv nleqslv preprocessCore RSQLite]; };
mAPKL = derive { name="mAPKL"; version="1.1.0"; sha256="1knjvwd0z4i70py0dqcngz56j78ylhcxsw8dyxj80ns5jzsdppbx"; depends=[AnnotationDbi apcluster Biobase clusterSim e1071 igraph limma multtest parmigene]; };
mAPKL = derive { name="mAPKL"; version="1.1.1"; sha256="1wya7fhr6xbjdc61q0hk7k2y3iivashdksqj6b8459c9cr1mn5sl"; depends=[AnnotationDbi apcluster Biobase clusterSim e1071 igraph limma multtest parmigene]; };
mBPCR = derive { name="mBPCR"; version="1.23.0"; sha256="0c0idj213l8gwxkh9sb03dr4jhlbwvkpghldccbjrqnk4jqs4zpp"; depends=[Biobase oligoClasses SNPchip]; };
mQTL_NMR = derive { name="mQTL.NMR"; version="1.3.0"; sha256="05q3p6pxi5x89z3zyrvdv5p2lzwr3as3zwcg8k0zm70liyczqcbx"; depends=[GenABEL MASS outliers qtl]; };
maCorrPlot = derive { name="maCorrPlot"; version="1.39.0"; sha256="14p6cliik2ar0x8q4x66p43lsdbz11sqa7szafqvk7aw3pbszgh4"; depends=[lattice]; };
@ -823,27 +831,28 @@ metabomxtr = derive { name="metabomxtr"; version="1.3.2"; sha256="0wbpb79k9026ql
metagene = derive { name="metagene"; version="2.1.0"; sha256="0fk7cgf96g1ax009g6f45jppb0w80akv5n3iwaaryy5b9pvsfk21"; depends=[BiocParallel biomaRt GenomicAlignments GenomicRanges ggplot2 gplots muStat R6 Rsamtools rtracklayer]; };
metagenomeSeq = derive { name="metagenomeSeq"; version="1.11.10"; sha256="0b9vylijb6gzri61qn8wkj9si1zrgznzqhxzib1aw9y71v8y8k05"; depends=[Biobase foreach glmnet gplots limma Matrix matrixStats RColorBrewer]; };
metahdep = derive { name="metahdep"; version="1.27.0"; sha256="0kjd27brcvhfqbqk9r3fclbzf2np2zj88gi522y1c6vh3pc6fd22"; depends=[]; };
metaseqR = derive { name="metaseqR"; version="1.9.0"; sha256="0p8bpnjm73jkng2xrypnz14rmrw1pppkrx1r88vnx33hzpkx83zx"; depends=[baySeq biomaRt brew corrplot DESeq EDASeq edgeR gplots limma log4r NBPSeq NOISeq qvalue rjson vsn]; };
metaseqR = derive { name="metaseqR"; version="1.9.1"; sha256="1qaa28wnvafi7239lla8xfi8kxxwvi6ar684fg8f5a98s8vjk8i2"; depends=[baySeq biomaRt brew corrplot DESeq EDASeq edgeR gplots limma log4r NBPSeq NOISeq qvalue rjson vsn]; };
methVisual = derive { name="methVisual"; version="1.21.0"; sha256="18kin1ibcc4ilfh59qgb0zilhvhvs0a1gmbg0lbvj2r0kbsk1ryy"; depends=[Biostrings ca gridBase gsubfn IRanges plotrix sqldf]; };
methyAnalysis = derive { name="methyAnalysis"; version="1.11.0"; sha256="0ka0svxvb76j0xkdx4pbwf2cyplihh45mb953csrapyh5r6hxwkn"; depends=[annotate AnnotationDbi Biobase BiocGenerics biomaRt genefilter GenomeInfoDb GenomicFeatures GenomicRanges genoset Gviz IRanges lumi methylumi rtracklayer S4Vectors VariantAnnotation]; };
methylMnM = derive { name="methylMnM"; version="1.7.0"; sha256="08y13kkmafn2h55wwkgs1mpskb4i2wpxzzgjdr9gb3ns06qc9799"; depends=[edgeR statmod]; };
methylPipe = derive { name="methylPipe"; version="1.3.4"; sha256="17y9xsvl6wgm7kn8g35h3zh7bcqhy7qp2lia6dzx609i04a9br9f"; depends=[BiocGenerics Biostrings data_table GenomeInfoDb GenomicAlignments GenomicRanges gplots Gviz IRanges marray Rsamtools S4Vectors SummarizedExperiment]; };
methylumi = derive { name="methylumi"; version="2.15.2"; sha256="174hikk5flwylifv7n8n67aps4np06klw240bdzfr347r8yrvikp"; depends=[annotate AnnotationDbi Biobase BiocGenerics genefilter GenomeInfoDb GenomicRanges ggplot2 illuminaio IRanges lattice matrixStats minfi reshape2 S4Vectors scales SummarizedExperiment]; };
mgsa = derive { name="mgsa"; version="1.17.0"; sha256="1nic4bgk3g3j2l6vr3i3msmid2bz0n7bq8f8zq26n45sr37wb4wq"; depends=[gplots]; };
miRLAB = derive { name="miRLAB"; version="0.99.2"; sha256="0q255w5myzv9hg27xz4k3ykxf6arpr3nf28ykf23szcw8p01dc80"; depends=[energy entropy glmnet gplots Hmisc httr impute limma pcalg RCurl Roleswitch stringr]; };
miRNApath = derive { name="miRNApath"; version="1.29.0"; sha256="07r37gzn0y5cp4awj2i638i2cn019rnp7b4hnaqi3gc71sdzb25c"; depends=[]; };
miRNAtap = derive { name="miRNAtap"; version="1.3.0"; sha256="0hmnhbbai04wp8hxrpgq04czfx2c49aihq7iiz86x9hzlj6xhgn6"; depends=[AnnotationDbi DBI plyr RSQLite sqldf stringr]; };
microRNA = derive { name="microRNA"; version="1.27.0"; sha256="1akq1yxc03v7jmpypmr8a9lx5h2nfdjp1y0433lyffbd49wia2gm"; depends=[Biostrings]; };
minet = derive { name="minet"; version="3.27.0"; sha256="1wnn3nlpa0ymk465ax2s65i3w9xplhwssvng9qs7p3v2z72p9nqp"; depends=[infotheo]; };
minfi = derive { name="minfi"; version="1.15.9"; sha256="1q21b57iw8lbzbjq96qmlmccijz0apr9clasrz4nbmbgyn97gba2"; depends=[beanplot Biobase BiocGenerics Biostrings bumphunter genefilter GenomeInfoDb GenomicRanges GEOquery illuminaio IRanges lattice limma MASS matrixStats mclust mixOmics nlme nor1mix preprocessCore quadprog RColorBrewer reshape S4Vectors siggenes SummarizedExperiment]; };
minfi = derive { name="minfi"; version="1.15.11"; sha256="14j5vw6vmfz2h85n4dmsnx7138mxwzfl961p8y5wh1brz4vr31iy"; depends=[beanplot Biobase BiocGenerics Biostrings bumphunter genefilter GenomeInfoDb GenomicRanges GEOquery illuminaio IRanges lattice limma MASS matrixStats mclust mixOmics nlme nor1mix preprocessCore quadprog RColorBrewer reshape S4Vectors siggenes SummarizedExperiment]; };
mirIntegrator = derive { name="mirIntegrator"; version="0.99.5"; sha256="0r8l1lgf9rdxnr0dvc8r05ahjf3q0r4syy9mzx4p3f04s0c78q3h"; depends=[AnnotationDbi ggplot2 graph Rgraphviz ROntoTools]; };
missMethyl = derive { name="missMethyl"; version="1.3.2"; sha256="05xk70z813jgwz9darqwh0f9ybycq9krig486b3751dd0xnjgmcq"; depends=[limma methylumi minfi ruv statmod stringr]; };
mitoODE = derive { name="mitoODE"; version="1.7.0"; sha256="182ifqh1g1yz8rbsxdqgk4hzlz3dwy0d03iklbg39cxy6qhgxqg4"; depends=[KernSmooth MASS minpack_lm]; };
mmnet = derive { name="mmnet"; version="1.7.0"; sha256="0za8a3j2fzyi15hd7l3ccw5qy3lyl7vihbcbixaw2kb81hmpphsa"; depends=[Biobase biom flexmix ggplot2 igraph KEGGREST Matrix plyr RCurl reshape2 RJSONIO stringr XML]; };
mogsa = derive { name="mogsa"; version="1.1.3"; sha256="0rzqlm0c4skjgic334nfd2s7p0xk86mv1zbwjk036nwf5lnmdd0i"; depends=[Biobase BiocGenerics cluster corpcor genefilter gplots graphite GSEABase svd]; };
mogsa = derive { name="mogsa"; version="1.1.5"; sha256="1xn2rrp9s3d84i7ln37iblnxadl1dsi7qd98k5xz71kq0v1ljpy4"; depends=[Biobase BiocGenerics cluster corpcor genefilter gplots graphite GSEABase svd]; };
monocle = derive { name="monocle"; version="1.3.0"; sha256="1ir0f80nsrvpl4i441irprd4pk1f53dxf1jnvnjg5zrkj7dz3wrw"; depends=[Biobase BiocGenerics cluster combinat fastICA ggplot2 igraph irlba limma matrixStats plyr reshape2 VGAM]; };
mosaics = derive { name="mosaics"; version="2.3.0"; sha256="1jv5sv6xyh5i5m7kypgwc5g3sfsf0n5n683gijxcvrrwpvvfpnqy"; depends=[IRanges lattice MASS Rcpp]; };
motifRG = derive { name="motifRG"; version="1.13.0"; sha256="01k47padfs393pprjyz9pp9z6vjqlxi6x10y51mhg0anqfb1sar2"; depends=[Biostrings BSgenome IRanges seqLogo XVector]; };
motifStack = derive { name="motifStack"; version="1.13.3"; sha256="08ddwy3yyydxaxs6qfh99va3v7xx57kq1pizqknxaar0p79x278w"; depends=[ade4 Biostrings grImport MotIV scales XML]; };
motifStack = derive { name="motifStack"; version="1.13.6"; sha256="0yp3k22i35hdmx5b5a9dk9mkdvglry6s8ck57gsl039ypf58kpja"; depends=[ade4 Biostrings grImport MotIV scales XML]; };
msa = derive { name="msa"; version="1.1.1"; sha256="0nqgx1zb3n8kk2l3dgilsamwzadnddif39q5br7qs9xl38hag4nr"; depends=[BiocGenerics Biostrings IRanges Rcpp S4Vectors]; };
msmsEDA = derive { name="msmsEDA"; version="1.7.0"; sha256="1hywj0vvrqq1zg62gr1rk4sblm201hgwz5kd78819apw5jf50fwd"; depends=[gplots MASS MSnbase RColorBrewer]; };
msmsTests = derive { name="msmsTests"; version="1.7.0"; sha256="1qvi91shpy02irppq6g6lq43sp3rk2j7n1nfnm2p9767rdhbj13b"; depends=[edgeR msmsEDA MSnbase qvalue]; };
@ -852,14 +861,14 @@ multiscan = derive { name="multiscan"; version="1.29.0"; sha256="0rp1nc8vjr8b0v9
multtest = derive { name="multtest"; version="2.25.2"; sha256="1gby3am0rp62lsijhbr8yx8y457yhrv2ghdb41kl53r59mw8ba4z"; depends=[Biobase BiocGenerics MASS survival]; };
muscle = derive { name="muscle"; version="3.11.0"; sha256="1s3apdcd0qj08bswn7smj7b93yv9qar7wrzyfkp5z3m16jgz979x"; depends=[Biostrings]; };
mvGST = derive { name="mvGST"; version="1.3.0"; sha256="1chskyx9hgymxg57p6y98rw743lapssx18axvl0r9f2zsmmfz9bn"; depends=[annotate AnnotationDbi GOstats gProfileR graph Rgraphviz stringr topGO]; };
mygene = derive { name="mygene"; version="1.5.1"; sha256="0f1ck375fqbz3ydjjg9qd9av8jbpc840nv3j83qic8g3r2pck8ij"; depends=[GenomicFeatures Hmisc httr jsonlite S4Vectors sqldf]; };
mygene = derive { name="mygene"; version="1.5.2"; sha256="0x40bnll85v94dnfpqrs8d9kx0zmdjbvgnqhcin1k9bshxqkypd9"; depends=[GenomicFeatures Hmisc httr jsonlite plyr S4Vectors sqldf]; };
mzID = derive { name="mzID"; version="1.7.1"; sha256="1pp0zfffz91g16y1kr81mbham64g00mm3q539ykj5az34g5q1fcm"; depends=[doParallel foreach iterators plyr ProtGenerics XML]; };
mzR = derive { name="mzR"; version="2.3.1"; sha256="19piyqgdxpi777nd4860d6mp0g4zzcf3wf7q7ilm99jqav9lfrn8"; depends=[Biobase BiocGenerics ProtGenerics Rcpp zlibbioc]; };
ncdfFlow = derive { name="ncdfFlow"; version="2.15.2"; sha256="0s65c26r6q8di73iwpkrx4g3d9dy6v18vna7yy7di5vsgy0phr9l"; depends=[BH Biobase flowCore flowViz Rcpp RcppArmadillo zlibbioc]; };
mzR = derive { name="mzR"; version="2.3.2"; sha256="0hl3g2fn90lpka5r96cfzcw3msw8wnvq6d52p5axhb1214v5zpr6"; depends=[Biobase BiocGenerics ProtGenerics Rcpp zlibbioc]; };
ncdfFlow = derive { name="ncdfFlow"; version="2.15.3"; sha256="0xhqis5pj5m4ib4xpkgg1afxzjc1827jw5k569aijr11qmi6jjxw"; depends=[BH Biobase flowCore flowViz Rcpp RcppArmadillo zlibbioc]; };
neaGUI = derive { name="neaGUI"; version="1.7.0"; sha256="198b0vrr5qp66z4sccwy6rh8sjxpw3qjkdryygg1baxq91ra76p1"; depends=[hwriter]; };
nem = derive { name="nem"; version="2.43.0"; sha256="1d357gh8binh0fwg1z0mzjzq3nyhazg9dnnf7aqk6gjfgsjda9i8"; depends=[boot e1071 graph limma plotrix RBGL RColorBrewer Rgraphviz statmod]; };
netbenchmark = derive { name="netbenchmark"; version="1.1.6"; sha256="07q5a9kxq5r0ch32q68vxb4gxl6r5zhw6d06b8c89h42cby2qdfp"; depends=[c3net GeneNet minet PCIT pracma randomForest Rcpp]; };
netbiov = derive { name="netbiov"; version="1.3.0"; sha256="0d6xc74ivzvi0n9ndfgc0m9y79mwdbs344lxv9nps4igd7aaxh34"; depends=[igraph]; };
netbiov = derive { name="netbiov"; version="1.3.1"; sha256="1v1iddwgz7nn0flgald0nrg96wm8pvdlwjnh8bql8y5x5sm58lmv"; depends=[igraph]; };
nethet = derive { name="nethet"; version="1.1.0"; sha256="1xklqhwfmv1sk5h3x2g1jjbl5higrzhfj0mvap15vr2agax5hbg5"; depends=[CompQuadForm GeneNet ggm ggplot2 glasso glmnet GSA huge ICSNP limma mclust multtest mvtnorm network parcor]; };
netresponse = derive { name="netresponse"; version="1.19.0"; sha256="0blgcfbhwns4khnsd3m2yafmihr63kh3zsf7imphim0cdrx67xks"; depends=[dmt ggplot2 graph igraph mclust minet plyr qvalue RColorBrewer reshape Rgraphviz]; };
networkBMA = derive { name="networkBMA"; version="1.11.0"; sha256="09wf696s8n30nnadfds58flv8sv2gamgnw6pzz80isfc3178h1n6"; depends=[BMA Rcpp RcppArmadillo RcppEigen]; };
@ -874,12 +883,12 @@ oligoClasses = derive { name="oligoClasses"; version="1.31.1"; sha256="0likyfm4x
omicade4 = derive { name="omicade4"; version="1.9.3"; sha256="00dr419qd563d75srypc02j6m5v281995mrh0r6fylz5bmi9bbks"; depends=[ade4 made4]; };
oneChannelGUI = derive { name="oneChannelGUI"; version="1.35.0"; sha256="1diclgl4zkzzyz705cyqx983bw4zqw03rx7fn9515w0ifl0bk1r4"; depends=[affylmGUI Biobase Biostrings chimera IRanges Rsamtools siggenes tkrplot tkWidgets]; };
ontoCAT = derive { name="ontoCAT"; version="1.21.0"; sha256="10d0a0fxg2h9gf6d1jbilxxg8irbqb1k526689qkdn2zh0qjvv04"; depends=[rJava]; };
openCyto = derive { name="openCyto"; version="1.7.2"; sha256="1x92yam7zdmsf6x0xqydwz70qmh3gzzi64mbiwrihr8abcjmhjhd"; depends=[Biobase clue data_table flowClust flowCore flowStats flowViz flowWorkspace graph gtools ks lattice MASS ncdfFlow plyr R_utils RBGL RColorBrewer Rcpp rrcov]; };
oposSOM = derive { name="oposSOM"; version="1.5.2"; sha256="0zvclv05sfgk0mq169igaqhqmx2hqj3iwrxrjgryy276xjywhxcr"; depends=[ape Biobase biomaRt fastICA fdrtool igraph KernSmooth pixmap scatterplot3d som]; };
pRoloc = derive { name="pRoloc"; version="1.9.3"; sha256="09pi362w1vfcx6fsr6bbsjqq9wq93dzhw0myavxsj11g3pnqh66n"; depends=[Biobase BiocGenerics BiocParallel biomaRt caret class e1071 FNN ggplot2 gtools kernlab knitr lattice MASS mclust MLInterfaces MSnbase mvtnorm nnet plyr proxy randomForest RColorBrewer Rcpp RcppArmadillo sampling scales]; };
pRolocGUI = derive { name="pRolocGUI"; version="1.3.0"; sha256="1k7r8fhj4fqizk1w76mfcdd9sj3y7vxiq3kzfrkbk674gl1jsgmq"; depends=[MSnbase pRoloc shiny]; };
openCyto = derive { name="openCyto"; version="1.7.4"; sha256="1q07s7rv19yahlpjpvsrhbvld6n2bf7jv7lfrgs6syfl3fwrs008"; depends=[Biobase clue data_table flowClust flowCore flowStats flowViz flowWorkspace graph gtools ks lattice MASS ncdfFlow plyr R_utils RBGL RColorBrewer Rcpp rrcov]; };
oposSOM = derive { name="oposSOM"; version="1.5.4"; sha256="0f06wmy1n9gl41x4x7q1fcfxaw6y6qkrmb4ypg9j6v7xjhjpfj03"; depends=[ape Biobase biomaRt fastICA fdrtool igraph KernSmooth pixmap scatterplot3d som]; };
pRoloc = derive { name="pRoloc"; version="1.9.6"; sha256="01gk4xnij5l4sk0c4km94i5b26vjfm8qhh3irb7xwfijank7mxd9"; depends=[Biobase BiocGenerics BiocParallel biomaRt caret class e1071 FNN ggplot2 gtools kernlab knitr lattice MASS mclust MLInterfaces MSnbase mvtnorm nnet plyr proxy randomForest RColorBrewer Rcpp RcppArmadillo sampling scales]; };
pRolocGUI = derive { name="pRolocGUI"; version="1.3.2"; sha256="08q1cavlxryx9isn2wsw8r0bv795hgzkyfx95ycxxdwh6vdvnnyl"; depends=[DT MSnbase pRoloc scales shiny]; };
paircompviz = derive { name="paircompviz"; version="1.7.0"; sha256="0sf80ji20q6kaqw2747an9b51xxwhl55yj5y7q6j68gif1ndkzl4"; depends=[Rgraphviz]; };
pandaR = derive { name="pandaR"; version="1.1.0"; sha256="03aa0s1mifq5hyg4xshbjqz9javphgb11135zvfg8cqdq34dzg4m"; depends=[]; };
pandaR = derive { name="pandaR"; version="1.1.1"; sha256="0rp8qk5cn5zj0nypkhmxjpja6lkjxd3hw2dkl4gaisayhiqlfk3g"; depends=[igraph matrixStats]; };
panp = derive { name="panp"; version="1.39.0"; sha256="163yii12bhw0skzhwrjbavpsgsl2aygj8x9cilzj9pqsqakvinna"; depends=[affy Biobase]; };
parglms = derive { name="parglms"; version="1.1.0"; sha256="1msk5ygl030rczm10rp9xnb461cbzcs7qqk6jqk8xhv5dycnwnbd"; depends=[BatchJobs BiocGenerics BiocParallel]; };
parody = derive { name="parody"; version="1.27.0"; sha256="06lrzix8ydc41siy21fqkf3z6krj07p5v38pzan8jzzhqpwlq4iz"; depends=[]; };
@ -890,7 +899,7 @@ paxtoolsr = derive { name="paxtoolsr"; version="1.3.1"; sha256="0pv4zcl12yxidiy3
pcaGoPromoter = derive { name="pcaGoPromoter"; version="1.13.1"; sha256="0a1yfi16sadp5fj112mlq9har0yggp8amn8v4v18jzfrb8aiacsj"; depends=[AnnotationDbi Biostrings ellipse]; };
pcaMethods = derive { name="pcaMethods"; version="1.59.0"; sha256="12b8qdd38xgpzisz0lm9xkwq22z5ciq7b8i11z3na1wynvim3nll"; depends=[Biobase BiocGenerics MASS Rcpp]; };
pcot2 = derive { name="pcot2"; version="1.37.0"; sha256="023ly5jgq8zc7k73mfqvra13mask54l7f62dznjh1dcjpv6xgw4p"; depends=[amap Biobase]; };
pdInfoBuilder = derive { name="pdInfoBuilder"; version="1.33.1"; sha256="1vyw3ggh247km4qag1gy3wz9v338na4hlxmqz57mv51gp7fw6v1l"; depends=[affxparser Biobase BiocGenerics Biostrings DBI IRanges oligo oligoClasses RSQLite S4Vectors]; };
pdInfoBuilder = derive { name="pdInfoBuilder"; version="1.33.2"; sha256="026l6klpf93h42xgrbjyl022l0d0722gp7cqqgq4j8nb0wydg8l2"; depends=[affxparser Biobase BiocGenerics Biostrings DBI IRanges oligo oligoClasses RSQLite S4Vectors]; };
pdmclass = derive { name="pdmclass"; version="1.41.0"; sha256="0361s7d6n9wn65pxks3alr8ycqjcgv9dvvb2n9xqiqawyki1nvpm"; depends=[Biobase mda]; };
pepStat = derive { name="pepStat"; version="1.3.0"; sha256="003gqcs5m5b8mil9r1ydadhcc086nqmdk6i1xz4kkdpkcyxbyz7p"; depends=[Biobase data_table fields GenomicRanges ggplot2 IRanges limma plyr]; };
pepXMLTab = derive { name="pepXMLTab"; version="1.3.0"; sha256="0rbcj59vsbq8zqxq4h1v077jgpz7l607zalc4lhw9yn8l5lij4j8"; depends=[XML]; };
@ -934,8 +943,9 @@ qusage = derive { name="qusage"; version="1.9.0"; sha256="1dg8qchhqfvak5cqjs9v30
qvalue = derive { name="qvalue"; version="2.1.0"; sha256="0qgsqjb90qnf5a77n3zf5dcb5agdbj4hlk3swh1hrjg9iqcs76g0"; depends=[ggplot2 reshape2]; };
r3Cseq = derive { name="r3Cseq"; version="1.15.0"; sha256="0pi5aq3dbivk23x6axwbqa4danbsvn623icw6xvlh3i71v8m5rkw"; depends=[Biostrings data_table GenomeInfoDb GenomicRanges IRanges qvalue RColorBrewer Rsamtools rtracklayer sqldf VGAM]; };
rBiopaxParser = derive { name="rBiopaxParser"; version="2.7.0"; sha256="1ni8kaivdxqxv8fj2qf5vnwzmmamfd073l1p4072pnfxpn7rn0p4"; depends=[data_table XML]; };
rCGH = derive { name="rCGH"; version="0.99.7"; sha256="1bn8rwln7zh686hz87zz3ymv5lylk64xfmwjj357q7kx5r75n2hz"; depends=[aCGH affy AnnotationDbi BiocGenerics DNAcopy GenomeInfoDb GenomicFeatures GenomicRanges ggplot2 lattice limma mclust plyr RUnit shiny]; };
rGADEM = derive { name="rGADEM"; version="2.17.0"; sha256="1xwypnpf7sdaqszfmallgg2314g866xbi9q342yhds2fkiw9sp65"; depends=[Biostrings BSgenome IRanges seqLogo]; };
rGREAT = derive { name="rGREAT"; version="1.1.0"; sha256="1rd4cjwh4rrqgfg15k32br0iv15j99797z7lx7789wc1zxkpzvg3"; depends=[GenomicRanges GetoptLong IRanges RCurl rjson]; };
rGREAT = derive { name="rGREAT"; version="1.1.2"; sha256="0wwwpbxp8263jgkja6szcwqvijig8cfxdb66hvjqq69h9lqg9bkx"; depends=[GenomicRanges GetoptLong IRanges RCurl rjson]; };
rHVDM = derive { name="rHVDM"; version="1.35.0"; sha256="0y2vm6xsdsz174xrs22p54z5f5rxqcx937yf02ilv0bnfa0r06hj"; depends=[affy Biobase minpack_lm R2HTML]; };
rMAT = derive { name="rMAT"; version="3.19.0"; sha256="0nhmf1hbiqwzb9035405f8asnhh2ywj4bm9wdlgbafyhiw6qik98"; depends=[affxparser Biobase BiocGenerics IRanges]; };
rRDP = derive { name="rRDP"; version="1.3.0"; sha256="0q373nfs4ynjnmq9rp0c0ficnnylwb2gf1j0bzlnxcd2cwz215zv"; depends=[Biostrings]; };
@ -943,7 +953,7 @@ rSFFreader = derive { name="rSFFreader"; version="0.17.1"; sha256="105qlrjq4777k
rTANDEM = derive { name="rTANDEM"; version="1.9.0"; sha256="08r73kv83w8rfglbqf2zvczj4yix7sfhvrz93wk22nry04jfgccr"; depends=[data_table Rcpp XML]; };
rTRM = derive { name="rTRM"; version="1.7.1"; sha256="06p38i0hif1kjsy4xa88jhfl5giprq8gfa15zh1yv1qdqhaf1v1m"; depends=[AnnotationDbi DBI igraph RSQLite]; };
rTRMui = derive { name="rTRMui"; version="1.7.0"; sha256="132cm40hxhb4apdidifbw90jyxhlz0dqxgqsr6awv8q6dy9jpfw4"; depends=[MotifDb rTRM shiny]; };
rain = derive { name="rain"; version="1.3.0"; sha256="0ak8wbhsglnylzy1jzh9hb2yxqjzmspvj98x10vf3qmgbqc30i4y"; depends=[gmp multtest]; };
rain = derive { name="rain"; version="1.3.1"; sha256="0hzfrab9b67wk9kkkx7bn1w2imhlq4j8mi3fch3ij42081g8plww"; depends=[gmp multtest]; };
rama = derive { name="rama"; version="1.43.0"; sha256="1siqzb0b9j51b06aijz85xn6c9v4dqvcw7scmrlfpf18dihqaig1"; depends=[]; };
randPack = derive { name="randPack"; version="1.15.0"; sha256="0m9729h3fia15rcgxznz4hmlz7abz8xkbn1ffc3l8qhqks5j50f7"; depends=[Biobase]; };
rbsurv = derive { name="rbsurv"; version="2.27.0"; sha256="1v97vrralg445zn8s3km7vmhlxhkv8bdwcj90fyvd6kfk7gm4xc7"; depends=[Biobase survival]; };
@ -953,16 +963,17 @@ regionReport = derive { name="regionReport"; version="1.3.8"; sha256="0gpifx0x2k
regioneR = derive { name="regioneR"; version="1.1.1"; sha256="1wylrkqiv5lc9rw3mc1by88ckx437jwhlgyg5kasvpry003rm72c"; depends=[BSgenome GenomicRanges memoise rtracklayer]; };
rfPred = derive { name="rfPred"; version="1.7.0"; sha256="0k1z7bqdjmm668kipz8c74kd9k1vw2pcjbirxdi88clrclz3i47y"; depends=[data_table GenomicRanges IRanges Rsamtools]; };
rgsepd = derive { name="rgsepd"; version="1.1.0"; sha256="1rvzlzh43j3sj2vrhmg13hl4wq3bg9hml3xq2dpx28lapynywm41"; depends=[AnnotationDbi biomaRt DESeq2 GenomicRanges goseq gplots hash]; };
rhdf5 = derive { name="rhdf5"; version="2.13.4"; sha256="0vby0cpsc22jrq37p3sxj6f3q0l238d28lx0p558mh8nks9fkai1"; depends=[zlibbioc]; };
rhdf5 = derive { name="rhdf5"; version="2.13.5"; sha256="1k2hjzzj2irs7jap7g4ys0gd3iymnnbbyvyv986y9pq68p4f1nr0"; depends=[zlibbioc]; };
riboSeqR = derive { name="riboSeqR"; version="1.3.0"; sha256="0jlh5q1hkxkfvy496hlbwfkl17k36n304yiyz9f0azq5kv7jz1y2"; depends=[abind GenomicRanges]; };
rnaSeqMap = derive { name="rnaSeqMap"; version="2.27.0"; sha256="1638vikgizcgg4bpfm61ak98smwy74dk5hyx73qjbisd49zvy5nk"; depends=[Biobase DBI DESeq edgeR GenomicAlignments GenomicRanges IRanges Rsamtools]; };
rnaseqcomp = derive { name="rnaseqcomp"; version="0.99.3"; sha256="0gyz91ayyr1834hr6jg1bnjiiiw4k75j3kn5pfmw9q8v9vg2fcsj"; depends=[RColorBrewer]; };
rnaseqcomp = derive { name="rnaseqcomp"; version="0.99.4"; sha256="0m3xz7fnry89i7b4f51x90mwiqlv2z4d3p2r41mdm4xvwmqj4ghf"; depends=[RColorBrewer]; };
roar = derive { name="roar"; version="1.5.2"; sha256="0g0ylr49dvnbyb1kwj20hrh3y3x49n4rbdvg7mpdg1byrygcli3c"; depends=[GenomicAlignments GenomicRanges rtracklayer S4Vectors SummarizedExperiment]; };
rols = derive { name="rols"; version="1.11.6"; sha256="0wgzvwfq677dkqzzcq071xbh6v47vkcrzw66ch1vg348pcj58z0f"; depends=[Biobase XML]; };
ropls = derive { name="ropls"; version="1.1.2"; sha256="06z0ay0rdaawyvpy7dbdpxkwa8311rlb9plk4v52v830zibamhvs"; depends=[]; };
rpx = derive { name="rpx"; version="1.5.1"; sha256="048qldpx4zsp55jkr8g8vljiyidm9kzv4p1vwh1983y38qbz882v"; depends=[RCurl XML]; };
rqubic = derive { name="rqubic"; version="1.15.0"; sha256="19n613m7x48wkrfrhnd0ab9018m5dd7rf08qjbgphakwycssfgcw"; depends=[biclust Biobase BiocGenerics]; };
rsbml = derive { name="rsbml"; version="2.27.0"; sha256="10qmv5gpgqffnr5wqh7zik0l2d1cg0c0m3xak4r4bqmsd1y4dw01"; depends=[BiocGenerics graph]; };
rtracklayer = derive { name="rtracklayer"; version="1.29.12"; sha256="0gz3284d5cy3n0hr5w7x86lraryfi2jdg1yzj2jg6cq0hgga40c1"; depends=[BiocGenerics Biostrings GenomeInfoDb GenomicAlignments GenomicRanges IRanges RCurl Rsamtools S4Vectors XML XVector zlibbioc]; };
rtracklayer = derive { name="rtracklayer"; version="1.29.13"; sha256="04f7fxl5k7yl4jr4la57k1z613m39zvrmrf8n5pmdy0j25lxk2z6"; depends=[BiocGenerics Biostrings GenomeInfoDb GenomicAlignments GenomicRanges IRanges RCurl Rsamtools S4Vectors XML XVector zlibbioc]; };
sRAP = derive { name="sRAP"; version="1.9.0"; sha256="0rvnq41gns4ccr6gnfw0xbbi2c2wjl14qh0yr7wj7s4yrxzqr866"; depends=[gplots pls qvalue ROCR WriteXLS]; };
sSeq = derive { name="sSeq"; version="1.7.0"; sha256="0wcw77cz47wklwsrwwimwryqmyc0lrd9mk2aawk0vx1zkqci1yca"; depends=[caTools RColorBrewer]; };
safe = derive { name="safe"; version="3.9.0"; sha256="0x1gdzpgrm4m2m64h6y5rayp64j6ckxlr081d3w46zvfb935294a"; depends=[AnnotationDbi Biobase SparseM]; };
@ -970,7 +981,7 @@ sagenhaft = derive { name="sagenhaft"; version="1.39.1"; sha256="15aimbx6wn4il0j
sangerseqR = derive { name="sangerseqR"; version="1.5.0"; sha256="0wiqaqzn6n63k1389nqj35k5wn93bq7c99gayblwjrhks0y9fll0"; depends=[Biostrings shiny]; };
sapFinder = derive { name="sapFinder"; version="1.7.0"; sha256="1xg3scw5ijm1z2l4ha4ik52s97vr10plr9ifs9rdk2l6vh8na6kh"; depends=[pheatmap Rcpp rTANDEM]; };
saps = derive { name="saps"; version="2.1.0"; sha256="0r6525n8ksxaa5dcvs9419bca1v369251psvwphfsdnfa4xg2n14"; depends=[piano reshape2 survcomp survival]; };
savR = derive { name="savR"; version="1.7.4"; sha256="1v0rzrh27yl0fx5gcwb04yq2vln3ngisg59614qmmdppc36qf5k6"; depends=[ggplot2 gridExtra reshape2 scales XML]; };
savR = derive { name="savR"; version="1.7.5"; sha256="0pdkf8rkqd3fl1p8h1adfixmi0fgj1hwfbn2qn5y326w6aq6cqrs"; depends=[ggplot2 gridExtra reshape2 scales XML]; };
scsR = derive { name="scsR"; version="1.5.0"; sha256="1n9clp1ldspxbrv4chihv1xhw2fmys13p884cmn037xhwv5b7j3r"; depends=[BiocGenerics Biostrings ggplot2 hash IRanges plyr RColorBrewer sqldf STRINGdb]; };
segmentSeq = derive { name="segmentSeq"; version="2.3.1"; sha256="005b9a7rhhhcpkac8xyvl9lbzgwjbfpqr49wyn0i9j99v9zw1lfv"; depends=[baySeq GenomicRanges IRanges S4Vectors ShortRead]; };
seq2pathway = derive { name="seq2pathway"; version="1.1.2"; sha256="1ghanxmfs99h8w2fxn6im3ml7brhhx131k7djbvsm695lvxgqm7a"; depends=[biomaRt GenomicRanges GSA nnet WGCNA]; };
@ -997,7 +1008,7 @@ snm = derive { name="snm"; version="1.17.0"; sha256="0ckn29nymlml8ldxqq5la1h3bwm
snpStats = derive { name="snpStats"; version="1.19.1"; sha256="1i4v737mrjjp8b24mihiv53ifgjcs7gaf9c4h2ling6gpasf39z8"; depends=[BiocGenerics Matrix survival zlibbioc]; };
soGGi = derive { name="soGGi"; version="1.1.2"; sha256="0vqsdlnbdimz1y2q37ycddc3ifykbr9d0hsg47kqh5wjzgsrl4h7"; depends=[BiocGenerics BiocParallel Biostrings chipseq GenomeInfoDb GenomicAlignments GenomicRanges ggplot2 IRanges preprocessCore reshape2 Rsamtools rtracklayer S4Vectors SummarizedExperiment]; };
spade = derive { name="spade"; version="1.17.0"; sha256="02ba8ybgcldjmfsxywb0q7drm5nyhg6i72brvbrcgsq2ni0b7cpf"; depends=[Biobase flowCore igraph Rclusterpp]; };
specL = derive { name="specL"; version="1.3.3"; sha256="17067na171pn55w7znyhrn9bcibjpk7spvdw5l6gzrr5slh49qg8"; depends=[DBI protViz Rcpp RSQLite seqinr]; };
specL = derive { name="specL"; version="1.3.5"; sha256="0afaxclb4h797hm6rdybvp5dp85r1hmwgykj0q5h9ialqbjkmsv7"; depends=[DBI protViz Rcpp RSQLite seqinr]; };
spikeLI = derive { name="spikeLI"; version="2.29.0"; sha256="1f7in8zcbdz9i1cqdhvdcjl6g71vhz9hgd8whc0x9nf12qa87l7p"; depends=[]; };
spkTools = derive { name="spkTools"; version="1.25.0"; sha256="1a260c41jxg0yi2li1159pdp8dqbrxgvda88047k5pjrpzwg0738"; depends=[Biobase gtools RColorBrewer]; };
spliceR = derive { name="spliceR"; version="1.11.0"; sha256="0zfvbnlslpav4kz385sa5h1v73wrzirahxc6fx752zvn4kqbxdkj"; depends=[cummeRbund GenomicRanges IRanges plyr RColorBrewer rtracklayer VennDiagram]; };
@ -1011,12 +1022,12 @@ ssviz = derive { name="ssviz"; version="1.3.0"; sha256="1sl181mq7qsibn6f51mp8srl
staRank = derive { name="staRank"; version="1.11.0"; sha256="0hi3nzm0bdqrgjqjfvgz0qwymdrsd2c4csndw85hw9dj5ml1czqd"; depends=[cellHTS2]; };
stepNorm = derive { name="stepNorm"; version="1.41.0"; sha256="05g9qgxwfahyfq97pz3xmg49y7ml93w8n5hs5fv6f60l1nz59va1"; depends=[marray MASS]; };
stepwiseCM = derive { name="stepwiseCM"; version="1.15.0"; sha256="0r0ca29xpzki7lpr91rf99a1dvc5lmyls2v22pd1nxq4fb3g265l"; depends=[Biobase e1071 glmpath MAclinical pamr penalized randomForest snowfall tspair]; };
supraHex = derive { name="supraHex"; version="1.7.1"; sha256="02jv0mb17d79031b6a8sam0710a0njm2akkcj4bji40bx0bkqsna"; depends=[ape hexbin MASS]; };
survcomp = derive { name="survcomp"; version="1.19.0"; sha256="1czy90l49f0c31kh9p461wkdxb1iih64pvpbz31wv0mhyi2633i5"; depends=[bootstrap ipred KernSmooth prodlim rmeta SuppDists survival survivalROC]; };
supraHex = derive { name="supraHex"; version="1.7.2"; sha256="1ivi3lcck3ygxbask4v3kf8fkjni5ac9qz2pv55lnarws3s0xns7"; depends=[ape hexbin MASS]; };
survcomp = derive { name="survcomp"; version="1.19.1"; sha256="0nl3i8pbjyvpbn7d9fck5l1z3ayav2s2d943h6jvqdzc24qhb21w"; depends=[bootstrap ipred KernSmooth prodlim rmeta SuppDists survival survivalROC]; };
sva = derive { name="sva"; version="3.15.0"; sha256="0bskn3famgz24kjaz4lrrm94vw07g5d2103h9gh5qzhajdsc2d03"; depends=[genefilter mgcv]; };
switchBox = derive { name="switchBox"; version="1.3.0"; sha256="0bnb1wqxl3rv8w5rm0jw3x22yy8q27j11hpqnd792fvsz8ssr5h1"; depends=[]; };
synapter = derive { name="synapter"; version="1.11.0"; sha256="05gv788mx1bzizr07cg5cw98i4xm3qdh8hpys4xvr06as7q65h2g"; depends=[Biobase BiocParallel Biostrings cleaver hwriter knitr lattice MSnbase multtest qvalue RColorBrewer]; };
systemPipeR = derive { name="systemPipeR"; version="1.3.11"; sha256="1ssxavb1dwfma6dvd6jp4vnh4xz1nns0d14ccrrslssnch8knn3g"; depends=[annotate BatchJobs BiocGenerics Biostrings DESeq2 edgeR GenomicRanges ggplot2 GOstats limma pheatmap rjson Rsamtools ShortRead SummarizedExperiment VariantAnnotation]; };
systemPipeR = derive { name="systemPipeR"; version="1.3.20"; sha256="164xjy8vsjr1ri196xhklisiqjj3frcm3nbpvixc6kd4zjgn0r0q"; depends=[annotate BatchJobs BiocGenerics Biostrings DESeq2 edgeR GenomicRanges ggplot2 GOstats limma pheatmap rjson Rsamtools ShortRead SummarizedExperiment VariantAnnotation]; };
tRanslatome = derive { name="tRanslatome"; version="1.7.0"; sha256="1pcr1ghwkmkpsbkqh85yninvgb2za2vdsnax5bjkdj60wfj0d5bc"; depends=[anota Biobase DESeq edgeR GOSemSim gplots Heatplus limma plotrix RankProd samr sigPathway topGO]; };
ternarynet = derive { name="ternarynet"; version="1.13.0"; sha256="13pnzzlfzgkvqn323xhjvbaqzrk2fjq440ff9hjf09a53g14q7li"; depends=[igraph]; };
tigre = derive { name="tigre"; version="1.23.0"; sha256="177phidn72rcghb4mqfcr2wbfx5pz2vdw6jh7ahnki7s5q6fkldl"; depends=[annotate AnnotationDbi Biobase BiocGenerics DBI gplots RSQLite]; };
@ -1026,6 +1037,7 @@ tkWidgets = derive { name="tkWidgets"; version="1.47.0"; sha256="08vhxl7bdhnx0vk
topGO = derive { name="topGO"; version="2.21.0"; sha256="0hhglb4zqbjwqywn37h3klz7qgkypl2zmv1afibxjn70xc6wxq46"; depends=[AnnotationDbi Biobase BiocGenerics graph lattice SparseM]; };
trackViewer = derive { name="trackViewer"; version="1.5.2"; sha256="0kr6mkim32khr5zqm7wzrv03g9fvn4imxr0b7h8jl7sl896hv5ks"; depends=[GenomicAlignments GenomicFeatures GenomicRanges Gviz gWidgetstcltk pbapply Rsamtools rtracklayer scales]; };
tracktables = derive { name="tracktables"; version="1.3.0"; sha256="125z9b0rjvrrbg91bdzqrf3rrw0aajivpyxd1m9k1gcs6jmsaaj3"; depends=[GenomicRanges IRanges RColorBrewer Rsamtools stringr tractor_base XML XVector]; };
traseR = derive { name="traseR"; version="0.99.7"; sha256="0rj4jcjgpkqyhclbpmz2ha0afj5jzr9qcc7kl1cw6dbf1syxcj8p"; depends=[GenomicRanges IRanges]; };
triform = derive { name="triform"; version="1.11.3"; sha256="0j8arzd9zbd37kzz1ndr6ljzz21h7bi33p0iqzy83l5ifidd4kaj"; depends=[BiocGenerics IRanges yaml]; };
trigger = derive { name="trigger"; version="1.15.0"; sha256="1gsvp2rvry8pg9wfl9rggjfjxd0dcq3lrfkygfsl4jqcwnankpvc"; depends=[corpcor qtl qvalue sva]; };
trio = derive { name="trio"; version="3.7.1"; sha256="1g3q1pvqq2kp1vck9c7sj000inw5b7q0wvd14yr8096mm6ax8zka"; depends=[]; };
@ -1034,8 +1046,9 @@ tspair = derive { name="tspair"; version="1.27.0"; sha256="0kx2iw2g0nji25qds5z6q
tweeDEseq = derive { name="tweeDEseq"; version="1.15.0"; sha256="17mmkz0qpww2qwzk1vd5945wqpr59v091rlvn1s2013h248173vm"; depends=[cqn edgeR limma MASS]; };
twilight = derive { name="twilight"; version="1.45.0"; sha256="0dzgapk34jzxhdadraq072fcj6rwqhkx2795rbn0dkk4vazqz4sn"; depends=[Biobase]; };
unifiedWMWqPCR = derive { name="unifiedWMWqPCR"; version="1.5.0"; sha256="055yvgwqjh91cf8d2hsacnbzq2z9c911cy3qd206azqlr6qyjiip"; depends=[BiocGenerics HTqPCR]; };
variancePartition = derive { name="variancePartition"; version="0.99.4"; sha256="1xy99saci2cihx95dy7yn92b09fan317iiacnyabsrd6z8l7ypp4"; depends=[Biobase dendextend doParallel foreach ggplot2 iterators limma lme4 reshape]; };
vbmp = derive { name="vbmp"; version="1.37.0"; sha256="1i4akvqrwj1r0ahi4vjxl7q780sa5bryj3rd2c5wg0ifd5l95h6s"; depends=[]; };
viper = derive { name="viper"; version="1.5.1"; sha256="0494601adg93i5gwam73x4x3m7vfg25xly6v2gj4aclaq9v6fpyf"; depends=[Biobase e1071 KernSmooth mixtools]; };
viper = derive { name="viper"; version="1.5.2"; sha256="0zcb03c469nz5ka85m54n8if1188hprh4qgdwap5zc7xgyc0lhya"; depends=[Biobase e1071 KernSmooth mixtools]; };
vsn = derive { name="vsn"; version="3.37.3"; sha256="09mzv7l5j20sx14m63q9ycpacrh2zayywiyckglfgndpc8v9wp08"; depends=[affy Biobase ggplot2 hexbin lattice limma]; };
vtpnet = derive { name="vtpnet"; version="0.9.0"; sha256="0gbs4pdwy88pjwsn3r2yspnfscz127awhlwym6g1lk8sxkb4mjxc"; depends=[doParallel foreach GenomicRanges graph gwascat]; };
wateRmelon = derive { name="wateRmelon"; version="1.9.0"; sha256="1lgadzv28j5qqqqsrjzakxmyj1q9j0hps3waa2nn9r7dq4cvallh"; depends=[limma lumi matrixStats methylumi ROC]; };

1129
pkgs/development/r-modules/cran-packages.nix
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537
pkgs/development/r-modules/default.nix
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7
pkgs/development/tools/build-managers/bazel/default.nix
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@ -1,4 +1,4 @@
{ stdenv, fetchFromGitHub, jdk, zip, zlib, protobuf, pkgconfig, libarchive, unzip, makeWrapper }:
{ stdenv, fetchFromGitHub, jdk, zip, zlib, protobuf2_5, pkgconfig, libarchive, unzip, which, makeWrapper }:
stdenv.mkDerivation rec {
name = "bazel-20150326.981b7bc1";
@ -10,19 +10,20 @@ stdenv.mkDerivation rec {
sha256 = "0i9gxgqhfmix7hmkb15s7h9f8ssln08pixqm26pd1d20g0kfyxj7";
};
buildInputs = [ pkgconfig protobuf zlib zip jdk libarchive unzip makeWrapper ];
buildInputs = [ pkgconfig protobuf2_5 zlib zip jdk libarchive unzip which makeWrapper ];
installPhase = ''
PROTOC=protoc bash compile.sh
mkdir -p $out/bin $out/share
cp -R output $out/share/bazel
ln -s $out/share/bazel/bazel $out/bin/bazel
wrapProgram $out/bin/bazel --set JAVA_HOME "${jdk}"
wrapProgram $out/bin/bazel --set JAVA_HOME "${jdk.home}"
'';
meta = {
homepage = http://github.com/google/bazel/;
description = "Build tool that builds code quickly and reliably";
license = stdenv.lib.licenses.asl20;
maintainers = [ stdenv.lib.maintainers.philandstuff ];
};
}

48
pkgs/development/tools/haskell/cabal2nix/default.nix
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@ -1,35 +1,41 @@
{ mkDerivation, fetchgit, aeson, base, bytestring, Cabal, containers
, deepseq, deepseq-generics, directory, doctest, filepath, gitMinimal
, hackage-db, hspec, lens, monad-par, monad-par-extras, mtl, pretty
, process, QuickCheck, regex-posix, SHA, split, stdenv, transformers
, utf8-string, cartel, nix-prefetch-scripts, optparse-applicative
, makeWrapper
{ mkDerivation, fetchgit, aeson, ansi-wl-pprint, base, bytestring, Cabal
, containers, deepseq, deepseq-generics, directory, doctest, filepath
, hackage-db, hspec, lens, monad-par, monad-par-extras, mtl
, optparse-applicative, pretty, process, QuickCheck, regex-posix, SHA, split
, stdenv, transformers, utf8-string, makeWrapper, gitMinimal, cartel
, nix-prefetch-scripts
}:
mkDerivation rec {
pname = "cabal2nix";
version = "20150531";
version = "20150807";
src = fetchgit {
url = "http://github.com/NixOS/cabal2nix.git";
rev = "513a5fce6cfabe0b062424f6deb191a12f7e2187";
sha256 = "1rsnzgfzw6zrjwwr3a4qbhw4l07pqi9ddm2p9l3sw3agzwmc7z49";
rev = "796dabfc3fb0a98174b680c5d722954096465103";
sha256 = "1blyjq80w9534ap4cg0m6awks0zj2135kxld1i9d2z88x1ijzx9v";
deepClone = true;
};
isLibrary = true;
isExecutable = true;
enableSharedLibraries = false;
enableSharedExecutables = false;
buildDepends = [
aeson base bytestring Cabal containers deepseq-generics directory
filepath hackage-db lens monad-par monad-par-extras mtl pretty
process regex-posix SHA split transformers utf8-string cartel
optparse-applicative
libraryHaskellDepends = [
aeson ansi-wl-pprint base bytestring Cabal containers
deepseq-generics directory filepath hackage-db lens monad-par
monad-par-extras mtl optparse-applicative pretty process
regex-posix SHA split transformers utf8-string
];
testDepends = [
aeson base bytestring Cabal containers deepseq deepseq-generics
directory doctest filepath hackage-db hspec lens monad-par
monad-par-extras mtl pretty process QuickCheck regex-posix SHA
split transformers utf8-string
executableHaskellDepends = [
aeson ansi-wl-pprint base bytestring Cabal containers
deepseq-generics directory filepath hackage-db lens monad-par
monad-par-extras mtl optparse-applicative pretty process
regex-posix SHA split transformers utf8-string
];
testHaskellDepends = [
aeson ansi-wl-pprint base bytestring Cabal containers deepseq
deepseq-generics directory doctest filepath hackage-db hspec lens
monad-par monad-par-extras mtl optparse-applicative pretty process
QuickCheck regex-posix SHA split transformers utf8-string
];
buildDepends = [ cartel ];
buildTools = [ gitMinimal makeWrapper ];
preConfigure = ''
git reset --hard # Re-create the index that fetchgit destroyed in the name of predictable hashes.

2
pkgs/development/tools/misc/ccache/default.nix
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@ -23,7 +23,7 @@ stdenv.mkDerivation {
passthru = {
# A derivation that provides gcc and g++ commands, but that
# will end up calling ccache for the given cacheDir
links = extraConfig : (runCommand "ccache-links" { passthru.gcc = gcc; }
links = extraConfig : (runCommand "ccache-links" { passthru.gcc = gcc; passthru.isGNU = true; }
''
mkdir -p $out/bin
if [ -x "${gcc.cc}/bin/gcc" ]; then

16
pkgs/development/tools/ocaml/camlp4/default.nix
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@ -1,15 +1,17 @@
{stdenv, fetchurl, which, ocaml}:
{stdenv, fetchzip, which, ocaml}:
let
ocaml_version = (stdenv.lib.getVersion ocaml);
version = "4.02+6";
in
assert stdenv.lib.versionAtLeast ocaml_version "4.02";
stdenv.mkDerivation {
name = "camlp4-4.02.0+1";
src = fetchurl {
url = https://github.com/ocaml/camlp4/archive/4.02.0+1.tar.gz;
sha256 = "0055f4jiz82rgn581xhq3mr4qgq2qgdxqppmp8i2x1xnsim4h9pn";
name = "camlp4-${version}";
src = fetchzip {
url = "https://github.com/ocaml/camlp4/archive/${version}.tar.gz";
sha256 = "06yl4q0qazl7g25b0axd1gdkfd4qpqzs1gr5fkvmkrcbz113h1hj";
};
buildInputs = [ which ocaml ];
@ -27,10 +29,6 @@ stdenv.mkDerivation {
postConfigure = ''
substituteInPlace camlp4/META.in \
--replace +camlp4 $out/lib/ocaml/${ocaml_version}/site-lib/camlp4
substituteInPlace camlp4/config/Camlp4_config.ml \
--replace \
"Filename.concat ocaml_standard_library" \
"Filename.concat \"$out/lib/ocaml/${ocaml_version}/site-lib\""
'';

12
pkgs/development/tools/ocaml/utop/default.nix
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@ -1,22 +1,24 @@
{stdenv, fetchurl, ocaml, findlib, lambdaTerm, ocaml_lwt, makeWrapper,
ocaml_react, camomile, zed
ocaml_react, camomile, zed, cppo, camlp4
}:
stdenv.mkDerivation rec {
version = "1.15";
version = "1.17";
name = "utop-${version}";
src = fetchurl {
url = https://github.com/diml/utop/archive/1.15.tar.gz;
sha256 = "106v0x6sa2x10zgmjf73mpzws7xiqanxswivd00iqnpc0bcpkmrr";
url = "https://github.com/diml/utop/archive/${version}.tar.gz";
sha256 = "0l9lz2nypl2ls3kqzmp738m02yvscabhsfpj70ckp0p98pimnnfd";
};
buildInputs = [ ocaml findlib makeWrapper];
buildInputs = [ ocaml findlib makeWrapper cppo camlp4 ];
propagatedBuildInputs = [ lambdaTerm ocaml_lwt ];
createFindlibDestdir = true;
configureFlags = "--enable-camlp4";
buildPhase = ''
make
make doc

30
pkgs/games/freecell-solver/default.nix Normal file
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@ -0,0 +1,30 @@
{ stdenv, fetchurl, pkgconfig, cmake, perl, gmp, libtap, perlPackages }:
with stdenv.lib;
stdenv.mkDerivation rec{
name = "freecell-solver-${version}";
version = "3.26.0";
src = fetchurl {
url = "http://fc-solve.shlomifish.org/downloads/fc-solve/${name}.tar.bz2";
sha256 = "0pm6xk4fmwgzva70qxb0pqymdfvpasnvqiwwmm8hpx7g37y11wqk";
};
buildInputs = [ pkgconfig cmake perl gmp libtap
perlPackages.TemplateToolkit perlPackages.StringShellQuote
perlPackages.GamesSolitaireVerify ];
meta = {
description = "A FreeCell automatic solver";
longDescription = ''
FreeCell Solver is a program that automatically solves layouts
of Freecell and similar variants of Card Solitaire such as Eight
Off, Forecell, and Seahaven Towers, as well as Simple Simon
boards.
'';
homepage = http://fc-solve.shlomifish.org/;
license = licenses.mit;
maintainers = [ maintainers.AndersonTorres ];
};
}

2
pkgs/misc/emulators/wine/builder-wow.sh
View File

@ -1,5 +1,7 @@
#!/bin/sh
## build described at http://wiki.winehq.org/Wine64
source $stdenv/setup
unpackPhase

11
pkgs/misc/emulators/wine/versions.nix
View File

@ -1,7 +1,7 @@
{
unstable = {
wineVersion = "1.7.47";
wineSha256 = "0bmvgcag0kv0671dj6fbfdz86ij91rb2kp2dssqw83a0xidgfx5s";
wineVersion = "1.7.48";
wineSha256 = "13kcjirif57p8mg4yhzxf0hjpghlwc18iskz66dx94i0dvjmrxg3";
geckoVersion = "2.36";
geckoSha256 = "12hjks32yz9jq4w3xhk3y1dy2g3iakqxd7aldrdj51cqiz75g95g";
gecko64Version = "2.36";
@ -18,13 +18,10 @@
gecko64Sha256 = "0grc86dkq90i59zw43hakh62ra1ajnk11m64667xjrlzi7f0ndxw";
monoVersion = "4.5.6";
monoSha256 = "09dwfccvfdp3walxzp6qvnyxdj2bbyw9wlh6cxw2sx43gxriys5c";
## TESTME wine stable should work with most recent mono
#monoVersion = "0.0.8";
#monoSha256 = "00jl24qp7vh3hlqv7wsw1s529lr5p0ybif6s73jy85chqaxj7z1x";
};
staging = {
version = "1.7.47";
sha256 = "0m47v4jbc70b7qxj0lqnc7an1xlcb81b6k7dwzjyk3pv3ixp2snp";
version = "1.7.48";
sha256 = "06p1h92vaqlzk09aj4na6z7k3a81y9nw19rfg9q2szpcqjdd437w";
};
winetricks = {
version = "20150706";

22
pkgs/misc/vim-plugins/default.nix
View File

@ -85,6 +85,17 @@ rec {
yankring = YankRing;
CheckAttach = buildVimPluginFrom2Nix { # created by nix#NixDerivation
name = "CheckAttach-2015-06-22";
src = fetchgit {
url = "git://github.com/chrisbra/CheckAttach";
rev = "a1d86be7e69b25b41ce1a7fe2d2844330f783b68";
sha256 = "b8921c826f5a122e9b128301c620b8b3d3fd88a15a2b0634fdea01062fba2c1f";
};
dependencies = [];
};
CSApprox = buildVimPluginFrom2Nix { # created by nix#NixDerivation
name = "CSApprox-2013-07-26";
src = fetchgit {
@ -1351,6 +1362,17 @@ rec {
};
vimwiki = buildVimPluginFrom2Nix { # created by nix#NixDerivation
name = "vimwiki-2014-02-21";
src = fetchgit {
url = "git://github.com/vimwiki/vimwiki";
rev = "2c03d82a0e4662adf1e347487d73a9bf4bf6fdac";
sha256 = "8f94fe1204ae3770b114370382f9c616f971eb9b940d8d08ca96ac83405a0cdf";
};
dependencies = [];
};
vundle = buildVimPluginFrom2Nix { # created by nix#NixDerivation
name = "vundle-2015-03-21";
src = fetchgit {

2
pkgs/misc/vim-plugins/vim-plugin-names
View File

@ -1,3 +1,4 @@
"CheckAttach"
"CSApprox"
"Gist"
"Gundo"
@ -100,4 +101,5 @@
"vim-signature"
"vim-snippets"
"vim2hs"
"vimwiki"
"vundle"

2
pkgs/os-specific/linux/kernel/common-config.nix
View File

@ -141,6 +141,8 @@ with stdenv.lib;
# Video configuration.
# Enable KMS for devices whose X.org driver supports it.
DRM_I915_KMS y
# Allow specifying custom EDID on the kernel command line
DRM_LOAD_EDID_FIRMWARE y
${optionalString (versionOlder version "3.9") ''
DRM_RADEON_KMS? y
''}

6
pkgs/os-specific/linux/radeontop/default.nix
View File

@ -1,12 +1,12 @@
{ stdenv, fetchFromGitHub, pkgconfig, gettext, ncurses, libdrm, libpciaccess }:
let version = "2015-06-24"; in
let version = "2015-08-06"; in
stdenv.mkDerivation {
name = "radeontop-${version}";
src = fetchFromGitHub {
sha256 = "06cn7lixxx94c1fki0plg9f4rdy459mgi9yl80m0k1a20jqykz2a";
rev = "976cae0be0ffb9142d5e63e435960c6b2bb0eb34";
sha256 = "01s0j28lk66wb46qymkk1nyk91iv22y3m56z4lqd16yaxmhl0v2f";
rev = "93c8ff2f07da8d4c204ee4872aed7eec834ff57d";
repo = "radeontop";
owner = "clbr";
};

9
pkgs/servers/nosql/rethinkdb/default.nix
View File

@ -11,21 +11,12 @@ stdenv.mkDerivation rec {
sha256 = "19qhia4lfa8a0rzp2v6lnlxp2lf4z4vqhgfxnicfdnx07q4r847i";
};
postPatch = ''
# Remove the dependence on bundled libraries
sed -i '/must_fetch_list/ s/ v8//' configure
# Don't use the default command line args
rm configure.default
'';
preConfigure = ''
export ALLOW_WARNINGS=1
patchShebangs .
'';
configureFlags = [
"--dynamic=all"
"--with-jemalloc"
"--lib-path=${jemalloc}/lib"
];

3
pkgs/servers/pulseaudio/default.nix
View File

@ -1,5 +1,5 @@
{ lib, stdenv, fetchurl, pkgconfig, intltool, autoreconfHook
, json_c, libsndfile
, json_c, libsndfile, libtool
, xlibs, libcap, alsaLib, glib
, avahi, libjack2, libasyncns, lirc, dbus
, sbc, bluez5, udev, openssl, fftwFloat
@ -109,6 +109,7 @@ stdenv.mkDerivation rec {
postInstall = lib.optionalString libOnly ''
rm -rf $out/{bin,share,etc,lib/{pulse-*,systemd}}
sed 's|-lltdl|-L${libtool}/lib -lltdl|' -i $out/lib/libpulsecore-6.0.la
'';
meta = {

6
pkgs/servers/serfdom/default.nix
View File

@ -3,7 +3,7 @@
with goPackages;
buildGoPackage rec {
version = "0.6.3";
version = "0.6.4";
name = "serfdom-${version}";
goPackagePath = "github.com/hashicorp/serf";
@ -11,10 +11,10 @@ buildGoPackage rec {
owner = "hashicorp";
repo = "serf";
rev = "v${version}";
sha256 = "0ck77ji28bvm4ahzxyyi4sm17c3fxc16k0k5mihl1nlkgdd73m8y";
sha256 = "1fhz8wrvsmgaky22n255w9hkyfph2n45c47ivdyzrrxisg5j2438";
};
buildInputs = [ cli mapstructure memberlist logutils go-syslog mdns columnize circbuf ];
buildInputs = [ cli mapstructure memberlist_v2 logutils go-syslog mdns columnize circbuf ugorji.go ];
dontInstallSrc = true;

4
pkgs/tools/X11/ckbcomp/default.nix
View File

@ -2,12 +2,12 @@
stdenv.mkDerivation rec {
name = "ckbcomp-${version}";
version = "1.129";
version = "1.131";
src = fetchgit {
url = "git://anonscm.debian.org/d-i/console-setup.git";
rev = "refs/tags/${version}";
sha256 = "1shbqnjhdmy7qwz2kwfhrdxbjw1vv98rpz1x7wlgqxr812aqcfdd";
sha256 = "0xmdnzhm1wsdpjb0wsi24xzk1xpv5h2bxgwm9f4awb7aj7wv59ma";
};
buildInputs = [ perl ];

4
pkgs/tools/backup/obnam/default.nix
View File

@ -2,13 +2,13 @@
pythonPackages.buildPythonPackage rec {
name = "obnam-${version}";
version = "1.12";
version = "1.13";
namePrefix = "";
src = fetchurl rec {
url = "http://code.liw.fi/debian/pool/main/o/obnam/obnam_${version}.orig.tar.xz";
sha256 = "09b9j2mygv1dsrq424j535c92wvlbzpwgzcgg7x922dxrnsdsxpr";
sha256 = "13a9icgp7kvxaw700sdhxll0in00ghk0aacg26s4kxmxc85w92i4";
};
buildInputs = [ pythonPackages.sphinx attr ];

6
pkgs/tools/filesystems/ceph/0.94-pre.nix
View File

@ -4,9 +4,9 @@ callPackage ./generic.nix (args // rec {
version = "0.94.3";
src = fetchgit {
url = "https://github.com/ceph/ceph.git";
rev = "c19b0fc1aa2834ae3027b07a02aebe9639fc2ca7";
sha256 = "1h1y5jh2bszia622rmwdblb3cpkpd0mijahkaiasr30jwpkmzh0i";
url = "https://github.com/wkennington/ceph.git";
rev = "6218aa41e04533f0d6e62b5c7be591c2e99716ec";
sha256 = "0cyl5i1q6lap5a6vk8fjxfpikhxzwm9zkybg37nibahi2bwjr7rr";
};
patches = [ ./fix-pgrefdebugging.patch ];

85
pkgs/tools/filesystems/ceph/generic.nix
View File

@ -164,50 +164,55 @@ stdenv.mkDerivation {
'';
configureFlags = [
(mkOther "exec_prefix" "\${out}")
(mkOther "sysconfdir" "/etc")
(mkOther "localstatedir" "/var")
(mkOther "libdir" "\${lib}/lib")
(mkOther "includedir" "\${lib}/include")
(mkWith true "rbd" null)
(mkWith true "cephfs" null)
(mkWith hasRadosgw "radosgw" null)
(mkWith true "radosstriper" null)
(mkWith hasServer "mon" null)
(mkWith hasServer "osd" null)
(mkWith hasServer "mds" null)
(mkEnable true "client" null)
(mkEnable hasServer "server" null)
(mkWith (cryptoStr == "cryptopp") "cryptopp" null)
(mkWith (cryptoStr == "nss") "nss" null)
(mkEnable false "root-make-check" null)
(mkWith false "profiler" null)
(mkWith false "debug" null)
(mkEnable false "coverage" null)
(mkWith (optFuse != null) "fuse" null)
(mkWith (malloc == optJemalloc) "jemalloc" null)
(mkWith (malloc == optGperftools) "tcmalloc" null)
(mkEnable false "pgrefdebugging" null)
(mkEnable false "cephfs-java" null)
(mkEnable hasXio "xio" null)
(mkWith (optLibatomic_ops != null) "libatomic-ops" null)
(mkWith true "ocf" null)
(mkWith hasKinetic "kinetic" null)
(mkWith hasRocksdb "librocksdb" null)
(mkWith false "librocksdb-static" null)
(mkOther "exec_prefix" "\${out}")
(mkOther "sysconfdir" "/etc")
(mkOther "localstatedir" "/var")
(mkOther "libdir" "\${lib}/lib")
(mkOther "includedir" "\${lib}/include")
(mkWith true "rbd" null)
(mkWith true "cephfs" null)
(mkWith hasRadosgw "radosgw" null)
(mkWith true "radosstriper" null)
(mkWith hasServer "mon" null)
(mkWith hasServer "osd" null)
(mkWith hasServer "mds" null)
(mkEnable true "client" null)
(mkEnable hasServer "server" null)
(mkWith (cryptoStr == "cryptopp") "cryptopp" null)
(mkWith (cryptoStr == "nss") "nss" null)
(mkEnable false "root-make-check" null)
(mkWith false "profiler" null)
(mkWith false "debug" null)
(mkEnable false "coverage" null)
(mkWith (optFuse != null) "fuse" null)
(mkWith (malloc == optJemalloc) "jemalloc" null)
(mkWith (malloc == optGperftools) "tcmalloc" null)
(mkEnable false "pgrefdebugging" null)
(mkEnable false "cephfs-java" null)
(mkEnable hasXio "xio" null)
(mkWith (optLibatomic_ops != null) "libatomic-ops" null)
(mkWith true "ocf" null)
(mkWith hasKinetic "kinetic" null)
(mkWith hasRocksdb "librocksdb" null)
(mkWith false "librocksdb-static" null)
] ++ optional stdenv.isLinux [
(mkWith (optLibaio != null) "libaio" null)
(mkWith (optLibxfs != null) "libxfs" null)
(mkWith (optZfs != null) "libzfs" null)
(mkWith (optLibaio != null) "libaio" null)
(mkWith (optLibxfs != null) "libxfs" null)
(mkWith (optZfs != null) "libzfs" null)
] ++ optional (versionAtLeast version "0.94.3") [
(mkWith false "tcmalloc-minimal" null)
] ++ optional (versionAtLeast version "9.0.1") [
(mkWith false "tcmalloc-minimal" null)
(mkWith false "valgrind" null)
(mkWith false "valgrind" null)
] ++ optional (versionAtLeast version "9.0.2") [
(mkWith true "man-pages" null)
(mkWith true "systemd-libexec-dir" "\${TMPDIR}")
(mkWith true "man-pages" null)
(mkWith true "systemd-libexec-dir" "\${out}/libexec")
] ++ optional (versionOlder version "10.0.0") [
(mkWith (optLibs3 != null) "system-libs3" null)
(mkWith true "rest-bench" null)
(mkWith (optLibs3 != null) "system-libs3" null)
(mkWith true "rest-bench" null)
] ++ optional (versionAtLeast version "10.0.0") [
(mkWith true "rgw-user" "rgw")
(mkWith true "rgw-group" "rgw")
(mkWith true "systemd-unit-dir" "\${out}/etc/systemd/system")
];
preBuild = optionalString (versionAtLeast version "9.0.0") ''

8
pkgs/tools/filesystems/ceph/git.nix
View File

@ -1,12 +1,12 @@
{ callPackage, fetchgit, ... } @ args:
callPackage ./generic.nix (args // rec {
version = "2015-07-31";
version = "2015-08-05";
src = fetchgit {
url = "git://github.com/ceph/ceph.git";
rev = "ef86e29259d0e863e62115926bf67287dc9a7e41";
sha256 = "14h387ngx3fmdm0b0sgl0l743j3d22gnp3lv68ah59yc4crfgdcx";
url = "git://github.com/wkennington/ceph.git";
rev = "043a780feb973b7ad571bb696437476da3260133";
sha256 = "02kk24wm6mxsclklsz5zzpj3wm6f341blj2anx3v5x20cixzdnhp";
};
patches = [ ./fix-pythonpath.patch ];

25
pkgs/tools/filesystems/hubicfuse/default.nix Normal file
View File

@ -0,0 +1,25 @@
{ stdenv, fetchurl, pkgconfig, curl, openssl, fuse, libxml2, json_c, file }:
stdenv.mkDerivation rec {
name = "hubicfuse-${version}";
version = "2.1.0";
src = fetchurl {
url = https://github.com/TurboGit/hubicfuse/archive/v2.1.0.tar.gz;
sha256 = "1mnijcwac6k3f6xknvdrsbmkkizpwbayqkb5l6jic15ymxv1fs7d";
};
buildInputs = [ pkgconfig curl openssl fuse libxml2 json_c file ];
postInstall = ''
install hubic_token $out/bin
mkdir -p $out/sbin
ln -sf $out/bin/hubicfuse $out/sbin/mount.hubicfuse
'';
meta = with stdenv.lib; {
homepage = https://github.com/TurboGit/hubicfuse;
description = "FUSE-based filesystem to access hubic cloud storage";
platforms = platforms.linux;
license = licenses.mit;
};
}

46
pkgs/tools/misc/debbindiff/default.nix
View File

@ -1,46 +0,0 @@
{ stdenv, fetchgit, pythonPackages, docutils
, acl, binutils, bzip2, cdrkit, cpio, diffutils, e2fsprogs, file, gettext
, gnupg, gzip, pdftk, poppler_utils, rpm, squashfsTools, unzip, vim, xz
}:
pythonPackages.buildPythonPackage rec {
name = "debbindiff-${version}";
version = "26";
namePrefix = "";
src = fetchgit {
url = "git://anonscm.debian.org/reproducible/debbindiff.git";
rev = "refs/tags/${version}";
sha256 = "18637gc7c92mwcpx3dvh6xild0sb9bwsgfcrjplmh7s8frvlvkv6";
};
postPatch = ''
# Different pkg name in debian
sed -i setup.py -e "s@'magic'@'Magic-file-extensions'@"
# Upstream doesn't provide a PKG-INFO file
sed -i setup.py -e "/'rpm',/d"
'';
# Still missing these tools: ghc javap showttf sng
propagatedBuildInputs = (with pythonPackages; [ debian magic ]) ++
[ acl binutils bzip2 cdrkit cpio diffutils e2fsprogs file gettext gnupg
gzip pdftk poppler_utils rpm squashfsTools unzip vim xz ];
doCheck = false; # Calls 'mknod' in squashfs tests, which needs root
postInstall = ''
mv $out/bin/debbindiff.py $out/bin/debbindiff
mkdir -p $out/share/man/man1
${docutils}/bin/rst2man.py debian/debbindiff.1.rst $out/share/man/man1/debbindiff.1
'';
meta = with stdenv.lib; {
description = "Highlight differences between two builds of Debian packages, and even other kind of files";
homepage = https://wiki.debian.org/ReproducibleBuilds;
license = licenses.gpl3Plus;
maintainers = [ maintainers.dezgeg ];
platforms = platforms.linux;
};
}

56
pkgs/tools/misc/diffoscope/default.nix Normal file
View File

@ -0,0 +1,56 @@
{ stdenv, fetchgit, pythonPackages, docutils
, acl, binutils, bzip2, cdrkit, cpio, diffutils, e2fsprogs, file, gettext
, gnupg, gzip, pdftk, poppler_utils, rpm, sqlite, squashfsTools, unzip, vim, xz
}:
pythonPackages.buildPythonPackage rec {
name = "diffoscope-${version}";
version = "29";
namePrefix = "";
src = fetchgit {
url = "git://anonscm.debian.org/reproducible/diffoscope.git";
rev = "refs/tags/${version}";
sha256 = "0q7hx2wm9gvzl1f7iilr9pjwpv8i2anscqan7cgk80v90s2pakrf";
};
postPatch = ''
# Different pkg name in debian
sed -i setup.py -e "s@'magic'@'Magic-file-extensions'@"
# Upstream doesn't provide a PKG-INFO file
sed -i setup.py -e "/'rpm',/d"
'';
# Still missing these tools: ghc javap showttf sng
propagatedBuildInputs = (with pythonPackages; [ debian libarchive-c magic ssdeep ]) ++
[ acl binutils bzip2 cdrkit cpio diffutils e2fsprogs file gettext gnupg
gzip pdftk poppler_utils rpm sqlite squashfsTools unzip vim xz ];
doCheck = false; # Calls 'mknod' in squashfs tests, which needs root
postInstall = ''
mv $out/bin/diffoscope.py $out/bin/diffoscope
mkdir -p $out/share/man/man1
${docutils}/bin/rst2man.py debian/diffoscope.1.rst $out/share/man/man1/diffoscope.1
'';
meta = with stdenv.lib; {
description = "Perform in-depth comparison of files, archives, and directories";
longDescription = ''
diffoscope will try to get to the bottom of what makes files or directories
different. It will recursively unpack archives of many kinds and transform
various binary formats into more human readable form to compare them. It can
compare two tarballs, ISO images, or PDF just as easily. The differences can
be shown in a text or HTML report.
diffoscope is developed as part of the "reproducible builds" Debian
project and was formerly known as "debbindiff".
'';
homepage = https://wiki.debian.org/ReproducibleBuilds;
license = licenses.gpl3Plus;
maintainers = [ maintainers.dezgeg ];
platforms = platforms.linux;
};
}

6
pkgs/tools/misc/vdirsyncer/default.nix
View File

@ -1,13 +1,13 @@
{ stdenv, fetchurl, pythonPackages }:
pythonPackages.buildPythonPackage rec {
version = "0.5.2";
version = "0.6.0";
name = "vdirsyncer-${version}";
namePrefix = "";
src = fetchurl {
url = "https://github.com/untitaker/vdirsyncer/archive/${version}.tar.gz";
sha256 = "02k6ijj0z0r08l50ignm2ngd4ax84l0r1wshh1is0wcfr70d94h9";
url = "https://pypi.python.org/packages/source/v/vdirsyncer/${name}.tar.gz";
sha256 = "1mb0pws5vsgnmyp5dp5m5jvgl6jcvdamxjz7wmgvxkw6n1vrcahd";
};
propagatedBuildInputs = with pythonPackages; [

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