Merge branch 'master' into core-updates

author: Mark H Weaver <mhw@netris.org> 2017-08-09 17:25:31 -0400
committer: Mark H Weaver <mhw@netris.org> 2017-08-09 17:25:31 -0400
commit: cc294bcee6bfaa4524ac43450e41f083539f9cb1 (patch)
tree: 1248811a6fd39e9169fd4b3c58f456bd21d1c7d5 /gnu/packages
parent: 32b7506c987d8b7281382da4831958a64c048fc1 (diff)
parent: ae7f246cf1c7e20ebf4025024bb10361938abaa2 (diff)
download: patches-cc294bcee6bfaa4524ac43450e41f083539f9cb1.tar
patches-cc294bcee6bfaa4524ac43450e41f083539f9cb1.tar.gz
26 files changed, 629 insertions, 326 deletions
diff --git a/gnu/packages/admin.scm b/gnu/packages/admin.scm
index e8a1cb552c..a9cb2a52ac 100644
--- a/gnu/packages/admin.scm
+++ b/gnu/packages/admin.scm
@@ -13,7 +13,7 @@
 ;;; Copyright © 2016 Peter Feigl <peter.feigl@nexoid.at>
 ;;; Copyright © 2016 John J. Foerch <jjfoerch@earthlink.net>
 ;;; Copyright © 2016, 2017 ng0 <contact.ng0@cryptolab.net>
-;;; Copyright © 2016 Tobias Geerinckx-Rice <me@tobias.gr>
+;;; Copyright © 2016, 2017 Tobias Geerinckx-Rice <me@tobias.gr>
 ;;; Copyright © 2016 John Darrington <jmd@gnu.org>
 ;;; Copyright © 2017 Ben Sturmfels <ben@sturm.com.au>
 ;;; Copyright © 2017 Ethan R. Jones <doubleplusgood23@gmail.com>
@@ -849,29 +849,29 @@ system administrator.")
        ;; Avoid non-determinism; see <http://bugs.gnu.org/21918>.
        #:parallel-build? #f
 
-       #:phases (alist-cons-before
-                 'configure 'pre-configure
-                 (lambda _
-                   (substitute* "src/sudo_usage.h.in"
-                     ;; Do not capture 'configure' arguments since we would
-                     ;; unduly retain references, and also because the
-                     ;; CPPFLAGS above would close the string literal
-                     ;; prematurely.
-                     (("@CONFIGURE_ARGS@") "\"\""))
-                   (substitute* (find-files "." "Makefile\\.in")
-                     (("-o [[:graph:]]+ -g [[:graph:]]+")
-                      ;; Allow installation as non-root.
-                      "")
-                     (("^install: (.*)install-sudoers(.*)" _ before after)
-                      ;; Don't try to create /etc/sudoers.
-                      (string-append "install: " before after "\n"))
-                     (("\\$\\(DESTDIR\\)\\$\\(rundir\\)")
-                      ;; Don't try to create /run/sudo.
-                      "$(TMPDIR)/dummy")
-                     (("\\$\\(DESTDIR\\)\\$\\(vardir\\)")
-                      ;; Don't try to create /var/db/sudo.
-                      "$(TMPDIR)/dummy")))
-                 %standard-phases)
+       #:phases
+       (modify-phases %standard-phases
+         (add-before 'configure 'pre-configure
+           (lambda _
+             (substitute* "src/sudo_usage.h.in"
+               ;; Do not capture 'configure' arguments since we would
+               ;; unduly retain references, and also because the
+               ;; CPPFLAGS above would close the string literal
+               ;; prematurely.
+               (("@CONFIGURE_ARGS@") "\"\""))
+             (substitute* (find-files "." "Makefile\\.in")
+               (("-o [[:graph:]]+ -g [[:graph:]]+")
+                ;; Allow installation as non-root.
+                "")
+               (("^install: (.*)install-sudoers(.*)" _ before after)
+                ;; Don't try to create /etc/sudoers.
+                (string-append "install: " before after "\n"))
+               (("\\$\\(DESTDIR\\)\\$\\(rundir\\)")
+                ;; Don't try to create /run/sudo.
+                "$(TMPDIR)/dummy")
+               (("\\$\\(DESTDIR\\)\\$\\(vardir\\)")
+                ;; Don't try to create /var/db/sudo.
+                "$(TMPDIR)/dummy")))))
 
        ;; XXX: The 'testsudoers' test series expects user 'root' to exist, but
        ;; the chroot's /etc/passwd doesn't have it.  Turn off the tests.
diff --git a/gnu/packages/aspell.scm b/gnu/packages/aspell.scm
index 509d428f64..3469c7a3ec 100644
--- a/gnu/packages/aspell.scm
+++ b/gnu/packages/aspell.scm
@@ -5,6 +5,7 @@
 ;;; Copyright © 2016 Efraim Flashner <efraim@flashner.co.il>
 ;;; Copyright © 2016 Christopher Andersson <christopher@8bits.nu>
 ;;; Copyright © 2016 Theodoros Foradis <theodoros.for@openmailbox.org>
+;;; Copyright © 2016, 2017 Tobias Geerinckx-Rice <me@tobias.gr>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -123,10 +124,10 @@ dictionaries, including personal ones.")
 
 (define-public aspell-dict-en
   (aspell-dictionary "en" "English"
-                     #:version "2016.11.20-0"
+                     #:version "2017.01.22-0"
                      #:sha256
                      (base32
-                      "1496jnhh2jvhkzcj0p4vy89bcs4g5wz6a76m33vw4dhchn5xm9jw")))
+                      "1qamzpw1fsnn5n9jpsnnnzqj1a0m0xvsikmkdp5a6pmb7sp3ziwk")))
 
 (define-public aspell-dict-eo
   (aspell-dictionary "eo" "Esperanto"
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 8d508c6ce1..f0c4e7748a 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -60,6 +60,7 @@
   #:use-module (gnu packages gd)
   #:use-module (gnu packages gtk)
   #:use-module (gnu packages glib)
+  #:use-module (gnu packages graph)
   #:use-module (gnu packages groff)
   #:use-module (gnu packages guile)
   #:use-module (gnu packages haskell)
@@ -8071,14 +8072,14 @@ in SNV base substitution data.")
 (define-public r-wgcna
   (package
     (name "r-wgcna")
-    (version "1.60")
+    (version "1.61")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "WGCNA" version))
        (sha256
         (base32
-         "16mxhwzhh5q48wmz1iba2r21cp0n0v8g11am4pi52iv6g0663ixl"))))
+         "1vrc2k33a196hrrl7k0z534fp96vv0shmigcr65ny1q0v6lq0h6i"))))
     (properties `((upstream-name . "WGCNA")))
     (build-system r-build-system)
     (propagated-inputs
@@ -8090,6 +8091,9 @@ in SNV base substitution data.")
        ("r-go-db" ,r-go-db)
        ("r-hmisc" ,r-hmisc)
        ("r-impute" ,r-impute)
+       ("r-rcpp" ,r-rcpp)
+       ("r-robust" ,r-robust)
+       ("r-survival" ,r-survival)
        ("r-matrixstats" ,r-matrixstats)
        ("r-preprocesscore" ,r-preprocesscore)))
     (home-page
diff --git a/gnu/packages/check.scm b/gnu/packages/check.scm
index 2ab5c01359..ddfcf1750f 100644
--- a/gnu/packages/check.scm
+++ b/gnu/packages/check.scm
@@ -213,6 +213,8 @@ normally do not detect.  The goal is to detect only real errors in the code
         (base32
          "1n5p1m2m3fjrjdj752lf92f9wq3pl5cbsfrb49jqbg52ghkz99jq"))))
     (build-system cmake-build-system)
+    (arguments
+     `(#:configure-flags '("-DBUILD_SHARED_LIBS=ON")))
     (native-inputs
      `(("python-2" ,python-2)))
     (home-page "https://github.com/google/googletest/")
diff --git a/gnu/packages/debug.scm b/gnu/packages/debug.scm
index 34c1061418..bde06f35b9 100644
--- a/gnu/packages/debug.scm
+++ b/gnu/packages/debug.scm
@@ -1,5 +1,5 @@
 ;;; GNU Guix --- Functional package management for GNU
-;;; Copyright © 2014, 2015, 2016 Eric Bavier <bavier@member.fsf.org>
+;;; Copyright © 2014, 2015, 2016, 2017 Eric Bavier <bavier@member.fsf.org>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -287,20 +287,26 @@ down the road.")
        ;; not accept a directory name instead.  To let the gnu-build-system's
        ;; patch-* phases work properly, we unpack the source first, then
        ;; repack before the configure phase.
-       `(#:configure-flags '("--with-make-tar=./make.tar.xz")
-         #:phases
-         (modify-phases %standard-phases
-           (add-after 'unpack 'unpack-make
-             (lambda* (#:key inputs #:allow-other-keys)
-               (zero? (system* "tar" "xf" (assoc-ref inputs "make-source")))))
-           (add-before 'configure 'repack-make
-             (lambda _
-               (zero? (system* "tar" "cJf" "./make.tar.xz"
-                               (string-append "make-"
-                                              ,(package-version gnu-make))))))
-           (add-before 'configure 'bootstrap
-             (lambda _
-               (zero? (system* "autoreconf" "-vfi")))))))
+       (let ((make-dir (string-append "make-" (package-version gnu-make))))
+         `(#:configure-flags '("--with-make-tar=./make.tar.xz")
+           #:phases
+           (modify-phases %standard-phases
+             (add-after 'unpack 'unpack-make
+               (lambda* (#:key inputs #:allow-other-keys)
+                 (zero? (system* "tar" "xf" (assoc-ref inputs "make-source")))))
+             (add-after 'unpack-make 'set-default-shell
+               (lambda _
+                 ;; Taken mostly directly from (@ (gnu packages base) gnu-make)
+                 (substitute* (string-append ,make-dir "/job.c")
+                   (("default_shell = .*$")
+                    (format #f "default_shell = \"~a\";\n"
+                            (which "sh"))))))
+             (add-before 'configure 'repack-make
+               (lambda _
+                 (zero? (system* "tar" "cJf" "./make.tar.xz" ,make-dir))))
+             (add-before 'configure 'bootstrap
+               (lambda _
+                 (zero? (system* "autoreconf" "-vfi"))))))))
       (home-page "https://github.com/losalamos/stress-make")
       (synopsis "Expose race conditions in Makefiles")
       (description
diff --git a/gnu/packages/fonts.scm b/gnu/packages/fonts.scm
index e421b2c6ab..b01d39c7e2 100644
--- a/gnu/packages/fonts.scm
+++ b/gnu/packages/fonts.scm
@@ -140,7 +140,7 @@ provide serif, sans and monospaced variants.")
               (base32
                "1p3qs51x5327gnk71yq8cvmxc6wgx79sqxfvxcv80cdvgggjfnyv"))))
     (build-system font-build-system)
-    (home-page "http://www.gnome.org/fonts/")
+    (home-page "https://www.gnome.org/fonts/")
     (synopsis "Bitstream Vera sans-serif typeface")
     (description "Vera is a sans-serif typeface from Bitstream, Inc.  This
 package provides the TrueType (TTF) files.")
diff --git a/gnu/packages/game-development.scm b/gnu/packages/game-development.scm
index efd8f6d034..c98c15e462 100644
--- a/gnu/packages/game-development.scm
+++ b/gnu/packages/game-development.scm
@@ -35,6 +35,7 @@
   #:use-module (guix build-system gnu)
   #:use-module (guix build-system python)
   #:use-module (gnu packages)
+  #:use-module (gnu packages autotools)
   #:use-module (gnu packages boost)
   #:use-module (gnu packages curl)
   #:use-module (gnu packages databases)
@@ -45,6 +46,7 @@
   #:use-module (gnu packages glib)
   #:use-module (gnu packages gnunet)
   #:use-module (gnu packages guile)
+  #:use-module (gnu packages m4)
   #:use-module (gnu packages multiprecision)
   #:use-module (gnu packages music)
   #:use-module (gnu packages ncurses)
@@ -893,3 +895,42 @@ suitable for pixel art, game graphics, and generally any detailed graphics
 painted with a mouse.")
     (home-page "http://pulkomandy.tk/projects/GrafX2")
     (license license:gpl2))) ; GPLv2 only
+
+(define-public ois
+  (package
+    (name "ois")
+    (version "1.3")
+    (source
+     (origin
+       ;; Development has moved to github and there are no recent tarball
+       ;; releases.
+       (method git-fetch)
+       (uri (git-reference
+             (url "https://github.com/wgois/OIS.git")
+             (commit "bb75ccc1aabc1c547195579963601ff6080ca2f2")))
+       (file-name (string-append name "-" version))
+       (sha256
+        (base32
+         "0w0pamjc3vj0jr718hysrw8x076fq6n9rd6wcb36sn2jd0lqvi98"))))
+    (build-system gnu-build-system)
+    (arguments
+     `(#:phases
+       (modify-phases %standard-phases
+         (add-after 'unpack 'bootstrap
+           (lambda _ (zero? (system* "sh" "bootstrap")))))))
+    (native-inputs
+     `(("autoconf" ,autoconf)
+       ("automake" ,automake)
+       ("libtool" ,libtool)
+       ("m4" ,m4)
+       ("pkg-config" ,pkg-config)))
+    (inputs
+     `(("libxaw" ,libxaw)))
+    (synopsis "Object Oriented Input System")
+    (description
+     "Cross Platform Object Oriented Input Lib System is a cross platform,
+simple solution for using all kinds of Input Devices (Keyboards, Mice,
+Joysticks, etc) and feedback devices (e.g. force feedback).  Meant to be very
+robust and compatible with many systems and operating systems.")
+    (home-page "https://github.com/wgois/OIS")
+    (license license:zlib)))
diff --git a/gnu/packages/games.scm b/gnu/packages/games.scm
index 408b3b46d0..9f32e9f8e5 100644
--- a/gnu/packages/games.scm
+++ b/gnu/packages/games.scm
@@ -4384,7 +4384,7 @@ fight against their plot and save his fellow rabbits from slavery.")
 (define-public 0ad-data
   (package
     (name "0ad-data")
-    (version "0.0.21-alpha")
+    (version "0.0.22-alpha")
     (source
      (origin
        (method url-fetch)
@@ -4393,7 +4393,7 @@ fight against their plot and save his fellow rabbits from slavery.")
        (file-name (string-append name "-" version ".tar.xz"))
        (sha256
         (base32
-         "15xadyrpvq27lm9p1ny7bcmmv56m16h3xadbkdx69gfkzxc3razk"))
+         "0vknk9ay9h2p34r7mym2g066f3s3c5d5vmap0ckcs5b86h5cscjc"))
        (modules '((guix build utils)))
        (snippet
         #~(begin
@@ -4438,7 +4438,7 @@ fight against their plot and save his fellow rabbits from slavery.")
 (define-public 0ad
   (package
     (name "0ad")
-    (version "0.0.21-alpha")
+    (version "0.0.22-alpha")
     (source
      (origin
        (method url-fetch)
@@ -4447,7 +4447,7 @@ fight against their plot and save his fellow rabbits from slavery.")
        (file-name (string-append name "-" version ".tar.xz"))
        (sha256
         (base32
-         "1kw3hqnr737ipx4f03khz3hvsh3ha7r8iy9njppk2faa53j27gln"))
+         "1cgmr4g5g9wv36v7ylbrvqhsjwgcsdgbqwc8zlqmnayk9zgkdpgx"))
        ;; A snippet here would cause a build failure because of timestamps
        ;; reset.  See https://bugs.gnu.org/26734.
        ))
diff --git a/gnu/packages/gimp.scm b/gnu/packages/gimp.scm
index 362e2047fa..13d2a68dba 100644
--- a/gnu/packages/gimp.scm
+++ b/gnu/packages/gimp.scm
@@ -1,7 +1,7 @@
 ;;; GNU Guix --- Functional package management for GNU
 ;;; Copyright © 2014, 2015 Ludovic Courtès <ludo@gnu.org>
 ;;; Copyright © 2016 Ricardo Wurmus <rekado@elephly.net>
-;;; Copyright © 2016 Efraim Flashner <efraim@flashner.co.il>
+;;; Copyright © 2016, 2017 Efraim Flashner <efraim@flashner.co.il>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -43,7 +43,7 @@
 (define-public babl
   (package
     (name "babl")
-    (version "0.1.18")
+    (version "0.1.28")
     (source (origin
               (method url-fetch)
               (uri (list (string-append "https://download.gimp.org/pub/babl/"
@@ -54,7 +54,7 @@
                                         version ".tar.bz2")))
               (sha256
                (base32
-                "1ygvnq22pf0zvf3bj7h67vvbpz7b8hhjvrr79ribws7sr5dljfj8"))))
+                "00w6xfcv960c98qvxv81gcbj8l1jiab9sggmdl77m19awwiyvwv3"))))
     (build-system gnu-build-system)
     (home-page "http://gegl.org/babl/")
     (synopsis "Image pixel format conversion library")
@@ -83,26 +83,27 @@ provided as well as the framework to add new color models and data types.")
               (patches (search-patches "gegl-CVE-2012-4433.patch"))))
     (build-system gnu-build-system)
     (arguments
-     `(;; More than just the one test disabled below now fails; disable them
+     '(;; More than just the one test disabled below now fails; disable them
        ;; all according to the rationale given below.
        #:tests? #f
+       #:configure-flags '("LDFLAGS=-lm")
        #:phases
-       (alist-cons-before
-        'build 'pre-build
-        (lambda _
-          ;; This test program seems to crash on exit. Specifically, whilst
-          ;; g_object_unreffing bufferA and bufferB - This seems to be a bug
-          ;; in the destructor.  This is just a test program so will not have
-          ;; any wider effect, although might be hiding another problem.
-          ;; According to advice received on irc.gimp.org#gegl although 0.2.0
-          ;; is the latest released version, any bug reports against it will
-          ;; be ignored.  So we are on our own.
-          (substitute* "tools/img_cmp.c"
-            (("g_object_unref \\(buffer.\\);") ""))
+       (modify-phases %standard-phases
+         (add-before 'build 'pre-build
+           (lambda _
+             ;; This test program seems to crash on exit. Specifically, whilst
+             ;; g_object_unreffing bufferA and bufferB - This seems to be a bug
+             ;; in the destructor.  This is just a test program so will not have
+             ;; any wider effect, although might be hiding another problem.
+             ;; According to advice received on irc.gimp.org#gegl although 0.2.0
+             ;; is the latest released version, any bug reports against it will
+             ;; be ignored.  So we are on our own.
+             (substitute* "tools/img_cmp.c"
+               (("g_object_unref \\(buffer.\\);") ""))
 
-          (substitute* "tests/compositions/Makefile"
-            (("/bin/sh") (which "sh"))))
-        %standard-phases)))
+             (substitute* "tests/compositions/Makefile"
+               (("/bin/sh") (which "sh")))
+             #t)))))
     (inputs
      `(("babl" ,babl)
        ("glib" ,glib)
diff --git a/gnu/packages/glib.scm b/gnu/packages/glib.scm
index 926703e159..c5c48731fe 100644
--- a/gnu/packages/glib.scm
+++ b/gnu/packages/glib.scm
@@ -283,7 +283,7 @@ shared NFS home directories.")
     "GLib provides data structure handling for C, portability wrappers,
 and interfaces for such runtime functionality as an event loop, threads,
 dynamic loading, and an object system.")
-   (home-page "http://developer.gnome.org/glib/")
+   (home-page "https://developer.gnome.org/glib/")
    (license license:lgpl2.0+)))                        ; some files are under lgpl2.1+
 
 (define gobject-introspection
diff --git a/gnu/packages/gnome.scm b/gnu/packages/gnome.scm
index b334d7cbc0..7133a61d86 100644
--- a/gnu/packages/gnome.scm
+++ b/gnu/packages/gnome.scm
@@ -141,7 +141,7 @@
 (define-public brasero
   (package
     (name "brasero")
-    (version "3.12.1")
+    (version "3.12.2")
     (source (origin
              (method url-fetch)
              (uri (string-append "mirror://gnome/sources/" name "/"
@@ -149,7 +149,7 @@
                                  name "-" version ".tar.xz"))
              (sha256
               (base32
-               "09vi2hyhl0bz7imv3ky6h7x5m3d546n968wcghydwrkvwm9ylpls"))))
+               "0h90y674j26rvjahb8cc0w79zx477rb6zaqcj26wzvq8kmpic8k8"))))
     (build-system glib-or-gtk-build-system)
     (arguments
      `(#:configure-flags (list
@@ -165,7 +165,7 @@
            (lambda* (#:key inputs #:allow-other-keys)
              (substitute* "plugins/growisofs/burn-growisofs.c"
                (("\"growisofs") (string-append "\"" (which "growisofs"))))
-             #t )))))
+             #t)))))
     (propagated-inputs
      `(("hicolor-icon-theme" ,hicolor-icon-theme)))
     (native-inputs
@@ -345,6 +345,13 @@ formats like PNG, SVG, PDF and EPS.")
              ;; The ca-certificates.crt is not available in the build
              ;; environment.
              (setenv "SSL_CERT_FILE" "/dev/null")
+             #t))
+         (add-before 'check 'disable-failing-tests
+           (lambda _
+             ;; The PicasaWeb API tests fail with gnome-online-accounts@3.24.2.
+             ;; They have been removed in libgdata 0.17.6, so just do the same.
+             (substitute* "gdata/tests/Makefile"
+               (("picasaweb\\$\\(EXEEXT\\) ") ""))
              #t)))))
     (native-inputs
      `(("glib:bin" ,glib "bin")
@@ -578,7 +585,7 @@ and keep up to date translations of documentation.")
      `(("p11-kit" ,p11-kit)
        ("glib" ,glib)
        ("gtk+" ,gtk+)))
-    (home-page "http://www.gnome.org")
+    (home-page "https://www.gnome.org")
     (synopsis "Libraries for displaying certificates and accessing key stores")
     (description
      "The GCR package contains libraries used for displaying certificates and
@@ -609,7 +616,7 @@ GNOME Desktop.")
     (propagated-inputs
      ;; Referred to in .h files and .pc.
      `(("glib" ,glib)))
-    (home-page "http://www.gnome.org")
+    (home-page "https://www.gnome.org")
     (synopsis "Accessing passwords from the GNOME keyring")
     (description
      "Client library to access passwords from the GNOME keyring.")
@@ -673,7 +680,7 @@ GNOME Desktop.")
        ("libxslt" ,libxslt) ;for documentation
        ("docbook-xml" ,docbook-xml-4.2)
        ("docbook-xsl" ,docbook-xsl)))
-    (home-page "http://www.gnome.org")
+    (home-page "https://www.gnome.org")
     (synopsis "Daemon to store passwords and encryption keys")
     (description
      "gnome-keyring is a program that keeps passwords and other secrets for
@@ -744,7 +751,7 @@ forgotten when the session ends.")
        ("pkg-config" ,pkg-config)
        ("xmllint" ,libxml2)))
     (home-page
-     "http://www.gnome.org/projects/evince/")
+     "https://www.gnome.org/projects/evince/")
     (synopsis "GNOME's document viewer")
     (description
      "Evince is a document viewer for multiple document formats.  It
@@ -843,7 +850,7 @@ GNOME and KDE desktops to the icon names proposed in the specification.")
      `(("icon-naming-utils" ,icon-naming-utils)
        ("intltool" ,intltool)
        ("pkg-config" ,pkg-config)))
-    (home-page "http://art.gnome.org/")
+    (home-page "https://art.gnome.org/")
     (synopsis
      "GNOME icon theme")
     (description
@@ -1142,7 +1149,7 @@ XML/CSS rendering engine.")
      `(("gdk-pixbuf" ,gdk-pixbuf)
        ("glib" ,glib)
        ("libxml2" ,libxml2)))
-    (home-page "http://www.gnome.org/projects/libgsf")
+    (home-page "https://www.gnome.org/projects/libgsf")
     (synopsis "GNOME's Structured File Library")
     (description
      "Libgsf aims to provide an efficient extensible I/O abstraction for
@@ -1377,7 +1384,7 @@ is intended for user preferences; not arbitrary data storage.")
                          (string-append "INTLTOOL_" tool " = intltool-"
                                         (string-downcase tool) "\n")))
                       #t)))))
-    (home-page "http://www.gnome.org")
+    (home-page "https://www.gnome.org")
     (synopsis "Base MIME and Application database for GNOME")
     (description  "GNOME Mime Data is a module which contains the base MIME
 and Application database for GNOME.  The data stored by this module is
@@ -1832,7 +1839,7 @@ Hints specification (EWMH).")
 (define-public gnumeric
   (package
     (name "gnumeric")
-    (version "1.12.34")
+    (version "1.12.35")
     (source (origin
               (method url-fetch)
               (uri (string-append "mirror://gnome/sources/" name "/"
@@ -1840,7 +1847,7 @@ Hints specification (EWMH).")
                                   name "-" version ".tar.xz"))
               (sha256
                (base32
-                "09f7h4lvwzyl0amd3axapwbsrnrvvpwxyhs540jlrv425n0j0j8b"))))
+                "02kcq2af16m9mlzgkbdzswhw0nl6zf01dmvsfq3shy1mab7f7cbp"))))
     (build-system glib-or-gtk-build-system)
     (arguments
      `(;; The gnumeric developers don't worry much about failing tests.
@@ -1995,7 +2002,7 @@ passwords in the GNOME keyring.")
        ("gobject-introspection" ,gobject-introspection))) ; for gir tests
     (propagated-inputs
      `(("glib" ,glib))) ; required by libvala-0.26.pc
-    (home-page "http://live.gnome.org/Vala/")
+    (home-page "https://live.gnome.org/Vala/")
     (synopsis "Compiler for the GObject type system")
     (description
      "Vala is a programming language that aims to bring modern programming
@@ -2029,7 +2036,7 @@ libraries written in C.")
      `(("gtk+" ,gtk+)                             ;required by vte-2.91.pc
        ("gnutls" ,gnutls)                         ;ditto
        ("pcre2" ,pcre2)))                         ;ditto
-    (home-page "http://www.gnome.org/")
+    (home-page "https://www.gnome.org/")
     (synopsis "Virtual Terminal Emulator")
     (description
      "VTE is a library (libvte) implementing a terminal emulator widget for
@@ -2299,7 +2306,7 @@ indicators etc).")
      `(("python" ,python-2)
        ("python2-pygtk" ,python2-pygtk)
        ("librsvg" ,librsvg)))
-    (home-page "http://www.gnome.org")
+    (home-page "https://www.gnome.org")
     (synopsis "Python bindings to librsvg")
     (description
      "This packages provides Python bindings to librsvg, the SVG rendering
@@ -2350,7 +2357,7 @@ library.")
        ("gnutls" ,gnutls)
        ("gsettings-desktop-schemas" ,gsettings-desktop-schemas)
        ("p11-kit" ,p11-kit)))
-    (home-page "http://www.gnome.org")
+    (home-page "https://www.gnome.org")
     (synopsis "Network-related GIO modules")
     (description
      "This package contains various network related extensions for the GIO
@@ -3020,7 +3027,7 @@ services for numerous locations.")
        ("librsvg" ,librsvg)
        ("xf86-input-wacom" ,xf86-input-wacom)
        ("network-manager" ,network-manager)))
-    (home-page "http://www.gnome.org")
+    (home-page "https://www.gnome.org")
     (synopsis "GNOME settings daemon")
     (description
      "This package contains the daemon responsible for setting the various
@@ -3343,7 +3350,7 @@ GL based interactive canvas library.")
        ("cairo" ,cairo)
        ("gtk+3" ,gtk+)
        ("glib" ,glib)))
-    (home-page "http://projects.gnome.org/libchamplain/")
+    (home-page "https://projects.gnome.org/libchamplain/")
     (synopsis "C library providing a ClutterActor to display maps")
     (description
      "libchamplain is a C library providing a ClutterActor to display maps.
@@ -3512,7 +3519,7 @@ as possible!")
             (variable "GRL_PLUGIN_PATH")
             (files (list (string-append "lib/grilo-"
                                         (version-major+minor version)))))))
-    (home-page "http://live.gnome.org/Grilo")
+    (home-page "https://live.gnome.org/Grilo")
     (synopsis "Framework for discovering and browsing media")
     (description
      "Grilo is a framework focused on making media discovery and browsing easy
@@ -3565,7 +3572,7 @@ for application developers.")
        ;; with: "assertion failed: (source)".  Outside of the build container,
        ;; most tests succeed.
        #:tests? #f))
-    (home-page "http://live.gnome.org/Grilo")
+    (home-page "https://live.gnome.org/Grilo")
     (synopsis "Plugins for the Grilo media discovery library")
     (description
      "Grilo is a framework focused on making media discovery and browsing easy
@@ -4087,7 +4094,7 @@ a secret password store, an adblocker, and a modern UI.")
 (define-public epiphany
   (package
     (name "epiphany")
-    (version "3.24.2")
+    (version "3.24.3")
     (source (origin
               (method url-fetch)
               (uri (string-append "mirror://gnome/sources/" name "/"
@@ -4095,7 +4102,7 @@ a secret password store, an adblocker, and a modern UI.")
                                   name "-" version ".tar.xz"))
               (sha256
                (base32
-                "13f5h7mbxdyjf93jp46hiaxsrngpr6frgf69d8iza7arc060vg2s"))))
+                "0m51cclpnb7lxk8w526rriyb2bi3aj17fbcvikhkg7qd65v1dxgy"))))
     (build-system glib-or-gtk-build-system)
     (arguments
      ;; FIXME: tests run under Xvfb, but fail with:
@@ -4564,7 +4571,7 @@ configuration program to choose applications starting on login.")
      `(("gtk+" ,gtk+)
        ("readline" ,readline)))
     (synopsis "Javascript bindings for GNOME")
-    (home-page "http://live.gnome.org/Gjs")
+    (home-page "https://live.gnome.org/Gjs")
     (description
      "Gjs is a javascript binding for GNOME.  It's mainly based on spidermonkey
 javascript engine and the GObject introspection framework.")
@@ -4573,7 +4580,7 @@ javascript engine and the GObject introspection framework.")
 (define-public gedit
   (package
     (name "gedit")
-    (version "3.22.0")
+    (version "3.22.1")
     (source (origin
               (method url-fetch)
               (uri (string-append "mirror://gnome/sources/" name "/"
@@ -4581,11 +4588,10 @@ javascript engine and the GObject introspection framework.")
                                   name "-" version ".tar.xz"))
               (sha256
                (base32
-                "0i9z5d31vibb3dd329gwvyga38zq5k1a2glcdq7m93ycbl5mlfq6"))))
+                "0as9r5zvnyrxh699q6jnd0p9ddqy5qamfbxggpdjzagzixhw6yxa"))))
     (build-system glib-or-gtk-build-system)
     (arguments
-     `(#:configure-flags '("--disable-spell") ; XXX: gspell not packaged yet
-       #:phases
+     `(#:phases
        (modify-phases %standard-phases
          (add-after
           'install 'wrap-gedit
@@ -4611,6 +4617,7 @@ javascript engine and the GObject introspection framework.")
        ("pkg-config" ,pkg-config)))
     (inputs
      `(("glib" ,glib)
+       ("gspell" ,gspell)
        ("gtk+" ,gtk+)
        ("gtksourceview" ,gtksourceview)
        ("libpeas" ,libpeas)
@@ -4651,7 +4658,7 @@ powerful general purpose text editor.")
      `(("libnotify" ,libnotify)
        ("webkitgtk" ,webkitgtk)))
     (synopsis "Display graphical dialog boxes from shell scripts")
-    (home-page "http://www.gnome.org")
+    (home-page "https://www.gnome.org")
     (description
      "Zenity is a rewrite of gdialog, the GNOME port of dialog which allows you
 to display dialog boxes from the commandline and shell scripts.")
@@ -4660,7 +4667,7 @@ to display dialog boxes from the commandline and shell scripts.")
 (define-public mutter
   (package
     (name "mutter")
-    (version "3.24.2")
+    (version "3.24.4")
     (source (origin
               (method url-fetch)
               (uri (string-append "mirror://gnome/sources/" name "/"
@@ -4668,7 +4675,7 @@ to display dialog boxes from the commandline and shell scripts.")
                                   name "-" version ".tar.xz"))
               (sha256
                (base32
-                "043q3384vwrkjdfhbwn9pwdml6z0g0ad0cj2fjnjzg6402i67071"))))
+                "1slspy5krbqfvnma72lvdnxjf8ag2cvxssa8bvi7y3xxy7xv603k"))))
     ;; NOTE: Since version 3.21.x, mutter now bundles and exports forked
     ;; versions of cogl and clutter.  As a result, many of the inputs,
     ;; propagated-inputs, and configure flags used in cogl and clutter are
@@ -4749,7 +4756,7 @@ to display dialog boxes from the commandline and shell scripts.")
        ("xkeyboard-config" ,xkeyboard-config)
        ("zenity" ,zenity)))
     (synopsis "Window and compositing manager")
-    (home-page "http://www.gnome.org")
+    (home-page "https://www.gnome.org")
     (description
      "Mutter is a window and compositing manager that displays and manages your
 desktop via OpenGL.  Mutter combines a sophisticated display engine using the
@@ -4760,7 +4767,7 @@ window manager.")
 (define-public gnome-online-accounts
   (package
     (name "gnome-online-accounts")
-    (version "3.24.1")
+    (version "3.24.2")
     (source (origin
               (method url-fetch)
               (uri (string-append "mirror://gnome/sources/" name "/"
@@ -4768,7 +4775,7 @@ window manager.")
                                   name "-" version ".tar.xz"))
               (sha256
                (base32
-                "0lgniqmkr6ffdw3kcqd34lvp969j2q2qzcy30zkzl5c09r7anc0a"))))
+                "1fmgywfcvlb5sa0slxxlg80gafiaal8vnq6h5lcybqa12lnxa2mp"))))
     (build-system glib-or-gtk-build-system)
     (native-inputs
      `(("glib:bin" ,glib "bin") ; for glib-compile-schemas, etc.
@@ -5034,7 +5041,7 @@ users.")
        ("util-linux" ,util-linux)
        ("elogind" ,elogind)))
     (synopsis "Network connection manager")
-    (home-page "http://www.gnome.org/projects/NetworkManager/")
+    (home-page "https://www.gnome.org/projects/NetworkManager/")
     (description
      "NetworkManager is a system network service that manages your network
 devices and connections, attempting to keep active network connectivity when
@@ -5097,7 +5104,7 @@ services.")
        ("jansson" ,jansson) ; for team support
        ("modem-manager" ,modem-manager)))
     (synopsis "Applet for managing network connections")
-    (home-page "http://www.gnome.org/projects/NetworkManager/")
+    (home-page "https://www.gnome.org/projects/NetworkManager/")
     (description
      "This package contains a systray applet for NetworkManager.  It displays
 the available networks and allows users to easily switch between them.")
@@ -5198,7 +5205,7 @@ libxml2.")
        ("libcanberra" ,libcanberra)
        ("linux-pam" ,linux-pam)))
     (synopsis "Display manager for GNOME")
-    (home-page "http://wiki.gnome.org/Projects/GDM/")
+    (home-page "https://wiki.gnome.org/Projects/GDM/")
     (description
      "GNOME Display Manager is a system service that is responsible for
 providing graphical log-ins and managing local and remote displays.")
@@ -5491,7 +5498,7 @@ easy, safe, and automatic.")
 (define-public tracker
   (package
     (name "tracker")
-    (version "1.12.0")
+    (version "1.12.2")
     (source (origin
               (method url-fetch)
               (uri (string-append "mirror://gnome/sources/" name "/"
@@ -5499,7 +5506,7 @@ easy, safe, and automatic.")
                                   name "-" version ".tar.xz"))
               (sha256
                (base32
-                "0vsrzzkcfvmylhpk1ww6xdx8z9sgjs0gn74gz82qngjyq3c3s6c3"))))
+                "1zdzh8l5ahi906i40i4pqw2cs1hwrl6l9a7fp344a3idk3pl5szb"))))
     (build-system glib-or-gtk-build-system)
     (native-inputs
      `(("gnome-common" ,gnome-common)
@@ -6512,18 +6519,19 @@ that support the Assistive Technology Service Provider Interface (AT-SPI).")
                                     "/lib/aspell"))
              #t)))))
     (inputs
-     `(("enchant" ,enchant)
-       ("iso-codes" ,iso-codes)
-       ("gtk+" ,gtk+)
-       ("glib" ,glib)))
+     `(("gtk+" ,gtk+)
+       ("glib" ,glib)
+       ("iso-codes" ,iso-codes)))
     (native-inputs
      `(("glib" ,glib "bin")
        ("pkg-config" ,pkg-config)
        ("xmllint" ,libxml2)
 
        ;; For tests.
-       ("xorg-server" ,xorg-server)
-       ("aspell-dict-en" ,aspell-dict-en)))
+       ("aspell-dict-en" ,aspell-dict-en)
+       ("xorg-server" ,xorg-server)))
+    (propagated-inputs
+     `(("enchant" ,enchant)))           ; enchant.pc is required by gspell-1.pc
     (home-page "https://wiki.gnome.org/Projects/gspell")
     (synopsis "GNOME's alternative spell checker")
     (description
diff --git a/gnu/packages/gnunet.scm b/gnu/packages/gnunet.scm
index 9ca2d9502b..497afaf668 100644
--- a/gnu/packages/gnunet.scm
+++ b/gnu/packages/gnunet.scm
@@ -5,7 +5,7 @@
 ;;; Copyright © 2015 Efraim Flashner <efraim@flashner.co.il>
 ;;; Copyright © 2016 Ricardo Wurmus <rekado@elephly.net>
 ;;; Copyright © 2016 Mark H Weaver <mhw@netris.org>
-;;; Copyright © 2016, 2017 ng0 <ng0@no-reply.infotropique.org>
+;;; Copyright © 2016, 2017 ng0 <ng0@infotropique.org>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -186,14 +186,14 @@ and support for SSL3 and TLS.")
 (define-public gnurl
   (package
    (name "gnurl")
-   (version "7.54.1")
+   (version "7.55.0")
    (source (origin
             (method url-fetch)
             (uri (string-append "https://gnunet.org/sites/default/files/"
                                 name "-" version ".tar.bz2"))
             (sha256
              (base32
-              "0szbj352h95sgc9kbx9wzkgjksmg3g5k6cvlc7hz3wrbdh5gb0a4"))))
+              "0i9bik76rbyag3mbxbk8j383iaxs5v7lmjkn4v36ascl6bdks6vn"))))
    (build-system gnu-build-system)
    (outputs '("out"
               "doc"))                             ; 1.5 MiB of man3 pages
diff --git a/gnu/packages/gnupg.scm b/gnu/packages/gnupg.scm
index ca4f1d34f2..fd850c0469 100644
--- a/gnu/packages/gnupg.scm
+++ b/gnu/packages/gnupg.scm
@@ -203,14 +203,14 @@ compatible to GNU Pth.")
 (define-public gnupg
   (package
     (name "gnupg")
-    (version "2.1.22")
+    (version "2.1.23")
     (source (origin
               (method url-fetch)
               (uri (string-append "mirror://gnupg/gnupg/gnupg-" version
                                   ".tar.bz2"))
               (sha256
                (base32
-                "1msazgy1q1pp7y2xr46z0il4pfzmzgzkp7v0hv5cz4hvkspnywa6"))))
+                "0xqd5nm4j3w9lwk35vg57gl2i8bfkmx7d24i44gkbscm2lwpci59"))))
     (build-system gnu-build-system)
     (native-inputs
      `(("pkg-config" ,pkg-config)))
@@ -229,8 +229,7 @@ compatible to GNU Pth.")
        ("sqlite" ,sqlite)
        ("zlib" ,zlib)))
    (arguments
-    `(#:configure-flags '("--enable-gpg2-is-gpg"
-                          ;; Otherwise, the test suite looks for the `gpg`
+    `(#:configure-flags '(;; Otherwise, the test suite looks for the `gpg`
                           ;; executable in its installation directory in
                           ;; /gnu/store before it has been installed.
                           "--enable-gnupg-builddir-envvar")
diff --git a/gnu/packages/gnuzilla.scm b/gnu/packages/gnuzilla.scm
index 0fb25d8432..1daaa79c73 100644
--- a/gnu/packages/gnuzilla.scm
+++ b/gnu/packages/gnuzilla.scm
@@ -509,52 +509,86 @@ standards.")
         (mozilla-patch "icecat-CVE-2017-5470-pt20.patch" "38273203b827" "12p9r4spdp09d6ic9sqspvdr50lmc1p86ydz2fxdifb1f95njhx0")
         (mozilla-patch "icecat-bug-1357022.patch"        "5bd51bc3f587" "0z5drxpfjvb7s43qgcr404h8ckchgakwwwi4nxpx2i653w22a743")
         (mozilla-patch "icecat-bug-1318845.patch"        "512efd480dac" "13cmqap795ayh6gh3b5bc6002pz0wp92qngs7fh5qqklc7a0gkzv")
-        (mozilla-patch "icecat-bug-1371586.patch"        "d0c92199b9ed" "0qmsm7d4h6ysx3an247kpx9qpksfms7hrjgpdrghdbxla1hc4nc9")
+        (mozilla-patch "icecat-CVE-2017-7798-pt1.patch"  "d0c92199b9ed" "0qmsm7d4h6ysx3an247kpx9qpksfms7hrjgpdrghdbxla1hc4nc9")
         (mozilla-patch "icecat-bug-1364513.patch"        "88e9c2137640" "1mh4l745q1wlabn9sz47n0vy3h7c66fcay2b9dwa16iqwvh3lpiw")
         (mozilla-patch "icecat-bug-1366203.patch"        "08dd87b6bb8f" "15bfwfwwd978mlcpk1d6m7506k8c2y402md7wzf6piabxl5kk6cf")
-        (mozilla-patch "icecat-bug-1368576.patch"        "5a51a9ef8149" "0j0f9j0pryv3ik4bizhv8s6rr4dl1mjm01c23msayr0vbnpcagcs")
-        (mozilla-patch "icecat-bug-1369913.patch"        "f47eaebc0c5c" "1b52xm3awpigasaz0hk5b13l7v4ry9vrawf571lzy2wwhphs4nxx")
-        (mozilla-patch "icecat-bug-1371424.patch"        "40ce248a8c15" "1b722fiifr999ga0991cg5mlhidcnvf3zx2aiq5zjaabqn0f4dzk")
-        (mozilla-patch "icecat-bug-1372112.patch"        "0c8359ac6718" "1w0v2p5jnhzvcsx8h1bglwjhp5y5bg1g8pzpvjw7pg1wlq2frccr")
-        (mozilla-patch "icecat-bug-1354443-pt1.patch"    "8c27a68ee87e" "0kn05q8nvp26w5rnj8r0byw89h2awmwn04l9l3xv2i5w2a7zmjzf")
-        (mozilla-patch "icecat-bug-1354443-pt2.patch"    "b2ee0c5466da" "0jgwsppq0606lwg5jk9q69lqa14q3j7h3c7q6mxbz7zqrcg7d0zg")
-        (mozilla-patch "icecat-bug-1354443-pt3.patch"    "25f6ec16e501" "1yqd5ndwgd8x2pj9k2bnaq3rb1g7wikq0ii7l4dm6bqwabi2rdsg")
-        (mozilla-patch "icecat-bug-1354443-pt4.patch"    "30443b4f758e" "0riszl3xnpfq5ffywygrc12nsvx0ffd36d5rf4vp87r8lj3fr55r")
-        (mozilla-patch "icecat-bug-1354443-pt5.patch"    "1b934ab92c59" "114cvfzfxgkwwd4zpnrmm2kx6m94k0b3xcraba9aawwwhdxj6a1d")
-        (mozilla-patch "icecat-bug-1354443-pt6.patch"    "830a345dc0e7" "01riivv033w3mr8b2myaw38rz2za1bdlhybny737ly68hhc67xdz")
-        (mozilla-patch "icecat-bug-1365189.patch"        "5c26df489768" "1fdw4zbn0ilfghanxky4y7qcmkpkks2q1aqkzv26dnhhrr8350a1")
-        (mozilla-patch "icecat-bug-1365875.patch"        "f21e4d78a0a8" "0szsc3zm3wgrw8pxm0rz54whkrc14yy4d8vwmxgqsdns43qjgkpk")
-        (mozilla-patch "icecat-bug-1346590.patch"        "f19b6c6a0c6c" "0wkr010qnh4127z1j7fp45sqdk2da9x7j2k405r0x5bgqdd09qzp")
-        (mozilla-patch "icecat-bug-1376087.patch"        "8353a3fa4106" "0kzs8pl6spjwgdsmiw702zvbvz73ng9zf184clsfr82l8kmggbgw")
-        (mozilla-patch "icecat-bug-1371889.patch"        "b38fed9a9772" "14vzsldlv4hjpxgnl6fjjbzhgcwsmd52v06cgmv0a7y3lnggj3hp")
-        (mozilla-patch "icecat-bug-1322896.patch"        "c254d3cc826c" "0pixwr18qik87c8qf4irg6hdffd8rbwpng73jxg05h7s827nfw3g")
-        (mozilla-patch "icecat-bug-1368652.patch"        "6356dbf20658" "0a0hsxkik7ysfa48w8k21lidaabwpmxi1d3214r5zqkqqfhn9qjm")
+        (mozilla-patch "icecat-CVE-2017-7779-pt01.patch" "5a51a9ef8149" "0j0f9j0pryv3ik4bizhv8s6rr4dl1mjm01c23msayr0vbnpcagcs")
+        (mozilla-patch "icecat-CVE-2017-7779-pt02.patch" "f47eaebc0c5c" "1b52xm3awpigasaz0hk5b13l7v4ry9vrawf571lzy2wwhphs4nxx")
+        (mozilla-patch "icecat-CVE-2017-7779-pt03.patch" "40ce248a8c15" "1b722fiifr999ga0991cg5mlhidcnvf3zx2aiq5zjaabqn0f4dzk")
+        (mozilla-patch "icecat-CVE-2017-7798-pt2.patch"  "0c8359ac6718" "1w0v2p5jnhzvcsx8h1bglwjhp5y5bg1g8pzpvjw7pg1wlq2frccr")
+        (mozilla-patch "icecat-CVE-2017-7779-pt04.patch" "8c27a68ee87e" "0kn05q8nvp26w5rnj8r0byw89h2awmwn04l9l3xv2i5w2a7zmjzf")
+        (mozilla-patch "icecat-CVE-2017-7779-pt05.patch" "b2ee0c5466da" "0jgwsppq0606lwg5jk9q69lqa14q3j7h3c7q6mxbz7zqrcg7d0zg")
+        (mozilla-patch "icecat-CVE-2017-7779-pt06.patch" "25f6ec16e501" "1yqd5ndwgd8x2pj9k2bnaq3rb1g7wikq0ii7l4dm6bqwabi2rdsg")
+        (mozilla-patch "icecat-CVE-2017-7779-pt07.patch" "30443b4f758e" "0riszl3xnpfq5ffywygrc12nsvx0ffd36d5rf4vp87r8lj3fr55r")
+        (mozilla-patch "icecat-CVE-2017-7779-pt08.patch" "1b934ab92c59" "114cvfzfxgkwwd4zpnrmm2kx6m94k0b3xcraba9aawwwhdxj6a1d")
+        (mozilla-patch "icecat-CVE-2017-7779-pt09.patch" "830a345dc0e7" "01riivv033w3mr8b2myaw38rz2za1bdlhybny737ly68hhc67xdz")
+        (mozilla-patch "icecat-CVE-2017-7786.patch"      "5c26df489768" "1fdw4zbn0ilfghanxky4y7qcmkpkks2q1aqkzv26dnhhrr8350a1")
+        (mozilla-patch "icecat-CVE-2017-7791.patch"      "f21e4d78a0a8" "0szsc3zm3wgrw8pxm0rz54whkrc14yy4d8vwmxgqsdns43qjgkpk")
+        (mozilla-patch "icecat-CVE-2017-7779-pt10.patch" "f19b6c6a0c6c" "0wkr010qnh4127z1j7fp45sqdk2da9x7j2k405r0x5bgqdd09qzp")
+        (mozilla-patch "icecat-CVE-2017-7784.patch"      "8353a3fa4106" "0kzs8pl6spjwgdsmiw702zvbvz73ng9zf184clsfr82l8kmggbgw")
+        (mozilla-patch "icecat-bug-1371889.patch"        "b38fed9a9772" "14vzsldlv4hjpxgnl6fjjbzhgcwsmd52v06cgmv0a7y3lnggj3hp"); XXX backed out upstream
+        (mozilla-patch "icecat-CVE-2017-7787.patch"      "c254d3cc826c" "0pixwr18qik87c8qf4irg6hdffd8rbwpng73jxg05h7s827nfw3g")
+        (mozilla-patch "icecat-CVE-2017-7792.patch"      "6356dbf20658" "0a0hsxkik7ysfa48w8k21lidaabwpmxi1d3214r5zqkqqfhn9qjm")
         (mozilla-patch "icecat-bug-1358073.patch"        "8d6e685d061b" "0430gwg7zzbg0q9w2m04s5ljh47bc8x1gxvmkzbn23bh1wy4d4sq")
         (mozilla-patch "icecat-bug-1370869.patch"        "3b8fde840188" "0vkymvzkfpzpg86npa5vpvvf564k18hkfdz8857rl0z4dp4rybzx")
-        (mozilla-patch "icecat-bug-1369994.patch"        "267b649087ff" "04wzazdm0kvbfcgmlhx8qs1ibqn8sbvqdsd237rja5wpr761xxf1")
+        (mozilla-patch "icecat-CVE-2017-7779-pt11.patch" "267b649087ff" "04wzazdm0kvbfcgmlhx8qs1ibqn8sbvqdsd237rja5wpr761xxf1")
         (mozilla-patch "icecat-bug-1354796.patch"        "69d1a9de76b9" "1q0p4kf8pvnkwwff3lz526pjj15a25pf724awblkcnzamwbib5ns")
         (mozilla-patch "icecat-bug-1363027.patch"        "c5eaa2d51b9f" "1xyj5n1vqhscc369q6wxibs2igbilaiwyc0q9cq64j2qx8q0yqah")
         (mozilla-patch "icecat-bug-1364189.patch"        "852a7781259e" "12y344p54avz5mrqirq14zp4csx8ydilnjv9nsw48kpa9y0l5xsg")
         (mozilla-patch "icecat-bug-1342417.patch"        "37ccdc5fff2b" "1acywg8girplbs7wjrjbvkximhiyizddmnkkq1ldd0l3qbx9nihc")
-        (mozilla-patch "icecat-bug-1362924-pt1.patch"    "057ed884ecb0" "1m49bqkq5lzc2j59wgwy0gbzvqj50p9lfn7cbc2n01v6d7m8rc2j")
-        (mozilla-patch "icecat-bug-1362924-pt2.patch"    "dd7ed649b82f" "1fama1l2vx4p6ahhrsrpysfbk9nh5gwbi4pdnclpyxd42idsdqxs")
-        (mozilla-patch "icecat-bug-1353312.patch"        "731958f7ff4d" "0l3i3mkb6rslnjag3caf4xyhjzxn91wfs0g6dbika4sxnhfs5d4i")
+        (mozilla-patch "icecat-CVE-2017-7779-pt12.patch" "057ed884ecb0" "1m49bqkq5lzc2j59wgwy0gbzvqj50p9lfn7cbc2n01v6d7m8rc2j")
+        (mozilla-patch "icecat-CVE-2017-7779-pt13.patch" "dd7ed649b82f" "1fama1l2vx4p6ahhrsrpysfbk9nh5gwbi4pdnclpyxd42idsdqxs")
+        (mozilla-patch "icecat-CVE-2017-7753.patch"      "731958f7ff4d" "0l3i3mkb6rslnjag3caf4xyhjzxn91wfs0g6dbika4sxnhfs5d4i")
         (mozilla-patch "icecat-bug-1364870.patch"        "de8deecbcb02" "048ic1vk7fd7wxqjgjqlnb7kv03ynaa4wkrk0ka8m39pkjh3yyxj")
         (mozilla-patch "icecat-bug-1365333.patch"        "e3d13b270f45" "0jr8hpxpmfgrbh09xd9nj597cdnc6kl6gs5nir4zlzbbn8kp3429")
         (mozilla-patch "icecat-bug-1372063.patch"        "58a144bf9677" "12y8vikbzcfcfiidjdq67dvdhhvylx68wdgnypsafrd1q8dx9jza")
         (mozilla-patch "icecat-bug-1373970.patch"        "8321ef71adb5" "1wk8kq9n2vhqlinvvw01avv3c7qj0k3qnn7dj0whnl08a5yrqhpl")
         (mozilla-patch "icecat-bug-1338646.patch"        "322c18d011af" "1yqb7zmjz211ryb98pjj7axbj6bwkj63rmfyifsybdy3zpb4nf48")
-        (mozilla-patch "icecat-bug-1371283.patch"        "f9bc084fbb8a" "1ssml15yzx9s0wraq4n0xvq5bw7j8xq0p2y39h8j3f1c448n0j50")
+        (mozilla-patch "icecat-CVE-2017-7779-pt14.patch" "f9bc084fbb8a" "1ssml15yzx9s0wraq4n0xvq5bw7j8xq0p2y39h8j3f1c448n0j50")
         (mozilla-patch "icecat-bug-1359477.patch"        "9b70b5b852e4" "0z2bi7w46g7mm8msav8vz28mgvnv21z3a5876n9gpw317gns4d6a")
-        (mozilla-patch "icecat-bug-1366903.patch"        "6785c2a852da" "0p9jr171qi59scr5lrj6g0mv8mgm1i1wglr3jd16xywb0ymynnn5")
-        (mozilla-patch "icecat-bug-1368105.patch"        "11c8e23f0fd7" "0zcikv6dn7biii4gspv2kfvma5hc76hk86jahm3zl2zlkk8ikfm9")
+        (mozilla-patch "icecat-CVE-2017-7779-pt15.patch" "6785c2a852da" "0p9jr171qi59scr5lrj6g0mv8mgm1i1wglr3jd16xywb0ymynnn5")
+        (mozilla-patch "icecat-CVE-2017-7779-pt16.patch" "11c8e23f0fd7" "0zcikv6dn7biii4gspv2kfvma5hc76hk86jahm3zl2zlkk8ikfm9")
         (mozilla-patch "icecat-bug-1355168.patch"        "f45ba43512ad" "0p28q5acns5zjj7ks2x5lrmwzzps741507sq31xvrpzan5yav37x")
         (mozilla-patch "icecat-bug-1308820.patch"        "e9a10fac6aae" "1s2zaka6ik1rmylamyh38vsqnqlblbqdhjpp0cv08fjb9flh5sbw")
         (mozilla-patch "icecat-bug-1305036.patch"        "c42a348f2ed0" "1pz7qbdv9xvyd1dy7g9h047c0gmrgp5qdy2360qjk6879n74h1zb")
         (mozilla-patch "icecat-bug-1342913.patch"        "f02db36497d2" "0g1kg418l1cibh5k1sjqj2vs2jcblpbn7b06qazk2kzcg70vf5gv")
-        (mozilla-patch "icecat-bug-1374047.patch"        "0a44ed156da5" "1y8z1czm7f91p9bpd32b9k43nl0b9g4fzwv4w0khby9y38xgvcbs")
-        (mozilla-patch "icecat-bug-1371259.patch"        "0a86729d653e" "0wyh7qskjwq9274d25p2ajylaab5mj5h8by58rz9lxsz06zrnz9f")
-        (mozilla-patch "icecat-bug-1378826.patch"        "98ff43fb228a" "0ih0nsmk8rzdrajzlnryqiqb71jg7v4p71hfla2hrlvn41r3709m")))
+        (mozilla-patch "icecat-CVE-2017-7800.patch"      "0a44ed156da5" "1y8z1czm7f91p9bpd32b9k43nl0b9g4fzwv4w0khby9y38xgvcbs")
+        (mozilla-patch "icecat-CVE-2017-7801.patch"      "0a86729d653e" "0wyh7qskjwq9274d25p2ajylaab5mj5h8by58rz9lxsz06zrnz9f")
+        (mozilla-patch "icecat-CVE-2017-7779-pt17.patch" "98ff43fb228a" "0ih0nsmk8rzdrajzlnryqiqb71jg7v4p71hfla2hrlvn41r3709m")
+        (mozilla-patch "icecat-CVE-2017-7802.patch"      "09f62bfc5800" "07q18qzxja1cywihr5vhhws328zghrwc6ldx8kcsawia1r1i5gp7")
+        (mozilla-patch "icecat-bug-1321803-pt1.patch"    "cfb75012cfbd" "1bwwfm1vhr7ddsvmi1cinwdq6f4nd71fkd9lbnlhmh4ix63gz2yl")
+        (mozilla-patch "icecat-bug-1321803-pt2.patch"    "0f3f951461d7" "1rp1cj4c0dkhd4pda88kx499h7ycw3037yh2khff78y61ckg2a85")
+        (mozilla-patch "icecat-bug-1321803-pt3.patch"    "b654a39db998" "1v79mh8lrnn7q40c8zj24byrqyw3x8fwcw25w90wqajnbf0ixskx")
+        (mozilla-patch "icecat-bug-1334338.patch"        "1be1fe3c9622" "1mhd9nyp8map76hgwrhm1k955fz8y5iszdvvgrv3z1r1h77k0nz0")
+        (mozilla-patch "icecat-bug-1379538.patch"        "8fa66bc91b07" "1l44rwkdrv9y41nfb9h3fkykk3ci7xclp6rfwbbzm4293l00adrd")
+        (mozilla-patch "icecat-CVE-2017-7779-pt18.patch" "7c095249ef8a" "05dbvxlmh7jljjmis540nfgk2nn968prmxrm96674avn33989sqy")
+        (mozilla-patch "icecat-bug-1073952.patch"        "06db7fb30689" "19qf9lrwy48fjzz3wpjfxsgqab68dnlci8jrwsljhpy6787xwxg2")
+        (mozilla-patch "icecat-CVE-2017-7803.patch"      "c52d8ce8d5df" "03l9hk278b9mw75rxpn2ay1slyz21axa2l7dfxwkvj5vdn7ykdbj")
+        (mozilla-patch "icecat-CVE-2017-7779-pt19.patch" "d68c9edf056f" "0zfz0l9m675n4vvm87n8g3bdhhysla4qnywli5kwjy4krj9kq6qa")
+        (mozilla-patch "icecat-CVE-2017-7779-pt20.patch" "5dd82ab194b9" "10mdzwxibnmqs7y5arf8sjnva31i5vhbprlc63n74h8gh8k5kdlp")
+        (mozilla-patch "icecat-CVE-2017-7779-pt21.patch" "8fc70b2b57a8" "0yszfmb47x3rrzn5wncv112c1b7xw11j62adx4f7950fdj7zqr32")
+        (mozilla-patch "icecat-bug-1379444.patch"        "47dd26630291" "0r2rc634sr4a5mfc53p1wx8d0zm6dsxiw2vzc7l89mac0d0cmi5n")
+        (mozilla-patch "icecat-bug-1372467.patch"        "0f906e04a41d" "0f2zdpnb23yg3v5f1ha24cmagcwa01kf2xz1l2lcws4ss1w5b4a9")
+        (mozilla-patch "icecat-bug-1372383.patch"        "56349462ff47" "17gc7kf0i367c1yh2w1701k8snvdm04nznc3q3yxdl3wxkh3c3sb")
+        (mozilla-patch "icecat-CVE-2017-7779-pt22.patch" "7b79969a18ee" "0ixycxbjh0wmihrhzpyjbkcnvwwrzs3ffb0lymzvqnr90yxvxhyy")
+        (mozilla-patch "icecat-CVE-2017-7779-pt23.patch" "f0ab032fd674" "04wc4i94cfj2vcawrv7hgbb70fkxggi7s6srk3i184686rczzpyw")
+        (mozilla-patch "icecat-bug-1308908.patch"        "48a89721d076" "01gvdzy6whp2dqmjvx49f4mvl75dhjgr8dvx71pg4sx3xmdbkzyq")
+        (mozilla-patch "icecat-bug-1347667.patch"        "ef1d17821945" "0s6gaarnvnibgf9x0xqcymaqc63lnbh9fm2g33i8cpp1xjhmywcv")
+        (mozilla-patch "icecat-bug-1367128-pt1.patch"    "5a0f69630b03" "1vqbwmy58qxwfaisq0dxvvbsd5w5i4yb691i78gw1dv7kgf523qy")
+        (mozilla-patch "icecat-bug-1367128-pt2.patch"    "7db52eca97b2" "081p8izjxscylfs090c9mzlmfvpdfvg1qsf5rik30hvifcpxp6lq")
+        (mozilla-patch "icecat-bug-1367128-pt3.patch"    "c448439eb5dc" "18gp7mg3zh9dxi1300mcm0zk67nlmvp5q50gnyc1v2sv0gs6fdfb")
+        (mozilla-patch "icecat-bug-1377016.patch"        "319a986ae1f4" "1dlmrklkpx42c72pblpw1fi91dhqarqyl3ldnd4943x2hsy3am8k")
+        (mozilla-patch "icecat-bug-1342433.patch"        "09f5bd33efb8" "0dky981ggyc0237mbbyy1chndk0aznkhw00d3lrafiyxsyk6vg3z")
+        (mozilla-patch "icecat-bug-1359058-pt1.patch"    "7ccb26caa02f" "1q97f4qbwjnz6f3g5dcy2v0av9jgbaplaz9pnm5yqdc250f5bhjz")
+        (mozilla-patch "icecat-bug-1359058-pt2.patch"    "a93c1a40f0d8" "0gafbwv2npdjqh41fpvzmzdw3kcw1b41gm3jg9biwqxxwnvqqmfj")
+        (mozilla-patch "icecat-bug-1382303-pt1.patch"    "688c9284fb12" "1rqimwkh8krihabsx7x2awvxls8n9dm2bmbl133fnkp2sjya979w")
+        (mozilla-patch "icecat-bug-1382303-pt2.patch"    "7f969ba7b6e8" "036n1yrmmb6gydxcgyps89g63kj1w2rihk1zsmk7yw3crln226ai")
+        (mozilla-patch "icecat-bug-1382303-pt3.patch"    "7e7b4f104462" "0wkw72qqyql528hvssrqyq72f5csfxa5fgv5s903csh97vawfl7i")
+        (mozilla-patch "icecat-bug-1383000.patch"        "ce65d0641c07" "08bxn3b8rgjhkvdndc7mrd0k1715wbpa5qaxhslxlgj6lpkgk0b1")
+        (mozilla-patch "icecat-CVE-2017-7807.patch"      "a86c77d533ee" "0mzfxpyk4484dk3j1sgplakx39ya0jnp3plxvcmvlc47ry60yq93")
+        (mozilla-patch "icecat-bug-1346620.patch"        "d71000abc9bf" "10d632nq5zbhndrsx2vpkl7jprlnas361n1yh9s9szn8k4mj01rf")
+        (mozilla-patch "icecat-bug-1381016.patch"        "c74486f87dc3" "1l938a2lhrlqfhmgrpypx13v6jw08528m4gnllr2h5sk2x65czip")
+        (mozilla-patch "icecat-bug-1371657.patch"        "20a1a6ad46d5" "17yn5dpymrymgdywah403fzw0p2y9bjkccg0h4d221i3pwns4bcz")))
       (modules '((guix build utils)))
       (snippet
        '(begin
diff --git a/gnu/packages/graph.scm b/gnu/packages/graph.scm
new file mode 100644
index 0000000000..683bfeec66
--- /dev/null
+++ b/gnu/packages/graph.scm
@@ -0,0 +1,118 @@
+;;; GNU Guix --- Functional package management for GNU
+;;; Copyright © 2017 Ricardo Wurmus <rekado@elephly.net>
+;;;
+;;; This file is part of GNU Guix.
+;;;
+;;; GNU Guix is free software; you can redistribute it and/or modify it
+;;; under the terms of the GNU General Public License as published by
+;;; the Free Software Foundation; either version 3 of the License, or (at
+;;; your option) any later version.
+;;;
+;;; GNU Guix is distributed in the hope that it will be useful, but
+;;; WITHOUT ANY WARRANTY; without even the implied warranty of
+;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;;; GNU General Public License for more details.
+;;;
+;;; You should have received a copy of the GNU General Public License
+;;; along with GNU Guix.  If not, see <http://www.gnu.org/licenses/>.
+
+(define-module (gnu packages graph)
+  #:use-module (guix download)
+  #:use-module (guix packages)
+  #:use-module (guix build-system gnu)
+  #:use-module (guix build-system python)
+  #:use-module (guix build-system r)
+  #:use-module ((guix licenses) #:prefix license:)
+  #:use-module (gnu packages)
+  #:use-module (gnu packages gcc)
+  #:use-module (gnu packages compression)
+  #:use-module (gnu packages maths)
+  #:use-module (gnu packages multiprecision)
+  #:use-module (gnu packages pkg-config)
+  #:use-module (gnu packages statistics)
+  #:use-module (gnu packages xml))
+
+(define-public igraph
+  (package
+    (name "igraph")
+    (version "0.7.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (string-append "http://igraph.org/nightly/get/c/igraph-"
+                           version ".tar.gz"))
+       (sha256
+        (base32
+         "1pxh8sdlirgvbvsw8v65h6prn7hlm45bfsl1yfcgd6rn4w706y6r"))))
+    (build-system gnu-build-system)
+    (arguments
+     `(#:configure-flags
+       (list "--with-external-glpk"
+             "--with-external-blas"
+             "--with-external-lapack")))
+    (inputs
+     `(("gmp" ,gmp)
+       ("glpk" ,glpk)
+       ("libxml2" ,libxml2)
+       ("lapack" ,lapack)
+       ("openblas" ,openblas)
+       ("zlib" ,zlib)))
+    (home-page "http://igraph.org")
+    (synopsis "Network analysis and visualization")
+    (description
+     "This package provides a library for the analysis of networks and graphs.
+It can handle large graphs very well and provides functions for generating
+random and regular graphs, graph visualization, centrality methods and much
+more.")
+    (license license:gpl2+)))
+
+(define-public python-igraph
+  (package (inherit igraph)
+    (name "python-igraph")
+    (version "0.7.1.post6")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (pypi-uri "python-igraph" version))
+       (sha256
+        (base32
+         "0xp61zz710qlzhmzbfr65d5flvsi8zf2xy78s6rsszh719wl5sm5"))))
+    (build-system python-build-system)
+    (arguments '())
+    (inputs
+     `(("igraph" ,igraph)))
+    (native-inputs
+     `(("pkg-config" ,pkg-config)))
+    (home-page "http://pypi.python.org/pypi/python-igraph")
+    (synopsis "Python bindings for the igraph network analysis library")))
+
+(define-public r-igraph
+  (package
+    (name "r-igraph")
+    (version "1.1.2")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (cran-uri "igraph" version))
+       (sha256
+        (base32
+         "1v26wyk52snh8z6m5p7yqwcd9dbqifhm57j112i9x53ppi0npcc9"))))
+    (build-system r-build-system)
+    (native-inputs
+     `(("gfortran" ,gfortran)))
+    (inputs
+     `(("gmp" ,gmp)
+       ("libxml2" ,libxml2)))
+    (propagated-inputs
+     `(("r-irlba" ,r-irlba)
+       ("r-magrittr" ,r-magrittr)
+       ("r-matrix" ,r-matrix)
+       ("r-pkgconfig" ,r-pkgconfig)))
+    (home-page "http://igraph.org")
+    (synopsis "Network analysis and visualization")
+    (description
+     "This package provides routines for simple graphs and network analysis.
+It can handle large graphs very well and provides functions for generating
+random and regular graphs, graph visualization, centrality methods and much
+more.")
+    (license license:gpl2+)))
diff --git a/gnu/packages/gtk.scm b/gnu/packages/gtk.scm
index b2aa6ecff5..e942f51719 100644
--- a/gnu/packages/gtk.scm
+++ b/gnu/packages/gtk.scm
@@ -1355,7 +1355,7 @@ can also be used to document application code.")
     (inputs
      ;; Don't propagate GTK+ to reduce "profile pollution".
      `(("gtk+" ,gtk+-2))) ; required by gtk-engines-2.pc
-    (home-page "http://live.gnome.org/GnomeArt")
+    (home-page "https://live.gnome.org/GnomeArt")
     (synopsis "Theming engines for GTK+ 2.x")
     (description
      "This package contains the standard GTK+ 2.x theming engines including
@@ -1385,7 +1385,7 @@ Redmond95 and ThinIce.")
        ("intltool" ,intltool)))
     (propagated-inputs
      `(("gtk+" ,gtk+-2)))
-    (home-page "http://live.gnome.org/GnomeArt")
+    (home-page "https://live.gnome.org/GnomeArt")
     (synopsis "Cairo-based theming engine for GTK+ 2.x")
     (description
      "Murrine is a cairo-based GTK+ theming engine.  It is named after the
diff --git a/gnu/packages/image-viewers.scm b/gnu/packages/image-viewers.scm
index 644780b5e9..b8a8af9280 100644
--- a/gnu/packages/image-viewers.scm
+++ b/gnu/packages/image-viewers.scm
@@ -2,7 +2,7 @@
 ;;; Copyright © 2013, 2017 Ludovic Courtès <ludo@gnu.org>
 ;;; Copyright © 2014 Ian Denhardt <ian@zenhack.net>
 ;;; Copyright © 2015, 2016 Alex Kost <alezost@gmail.com>
-;;; Copyright © 2016 Efraim Flashner <efraim@flashner.co.il>
+;;; Copyright © 2016, 2017 Efraim Flashner <efraim@flashner.co.il>
 ;;; Copyright © 2017 Alex Griffin <a@ajgrf.com>
 ;;; Copyright © 2017 ng0 <contact.ng0@cryptolab.net>
 ;;; Copyright © 2017 Mathieu Othacehe <m.othacehe@gmail.com>
@@ -214,7 +214,13 @@ it and customize it for your needs.")
        (modify-phases %standard-phases
          (add-after 'unpack 'autogen
            (lambda _
-             (zero? (system* "sh" "autogen.sh")))))))
+             (zero? (system* "sh" "autogen.sh"))))
+         (add-before 'install 'skip-gtk-update-icon-cache
+           (lambda _
+             ;; Don't create 'icon-theme.cache'
+             (substitute* (find-files "data" "^Makefile$")
+               (("gtk-update-icon-cache") (which "true")))
+             #t)))))
     (native-inputs
      `(("automake" ,automake)
        ("autoconf" ,autoconf)
diff --git a/gnu/packages/libreoffice.scm b/gnu/packages/libreoffice.scm
index f7775ff4a0..5faa8db7e5 100644
--- a/gnu/packages/libreoffice.scm
+++ b/gnu/packages/libreoffice.scm
@@ -4,6 +4,7 @@
 ;;; Copyright © 2016 Efraim Flashner <efraim@flashner.co.il>
 ;;; Copyright © 2017 Alex Griffin <a@ajgrf.com>
 ;;; Copyright © 2017 Thomas Danckaert <post@thomasdanckaert.be>
+;;; Copyright © 2017 Tobias Geerinckx-Rice <me@tobias.gr>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -695,19 +696,29 @@ Zoner Draw version 4 and 5.")
 (define-public hunspell
   (package
     (name "hunspell")
-    (version "1.5.4")
+    (version "1.6.1")
     (source
      (origin
       (method url-fetch)
       (uri (string-append "https://github.com/hunspell/hunspell/archive/v"
                           version ".tar.gz"))
       (sha256 (base32
-               "0ngwk18dwd8p5a5f20h2jlgrz9wbc1k189mmmprb2zmqwfi02b45"))
+               "0j9c20sj7bgd6f77193g1ihy8w905byk2gdhdc0r9dsh7irr7x9h"))
       (file-name (string-append name "-" version ".tar.gz"))))
     (build-system gnu-build-system)
+    (native-inputs
+     `(("autoconf" ,autoconf)
+       ("automake" ,automake)
+       ("libtool" ,libtool)))
     (inputs
      `(("perl" ,perl)))
-    (home-page "http://hunspell.sourceforge.net/")
+    (arguments
+     `(#:phases
+       (modify-phases %standard-phases
+         (add-after 'unpack 'bootstrap
+           (lambda _
+             (zero? (system* "autoreconf" "-vfi")))))))
+    (home-page "https://hunspell.github.io/")
     (synopsis "Spell checker")
     (description "Hunspell is a spell checker and morphological analyzer
 library and program designed for languages with rich morphology and complex
diff --git a/gnu/packages/linux.scm b/gnu/packages/linux.scm
index 5a8201e80e..31572bd7dd 100644
--- a/gnu/packages/linux.scm
+++ b/gnu/packages/linux.scm
@@ -366,8 +366,8 @@ It has been modified to remove all non-free binary blobs.")
 
 (define %intel-compatible-systems '("x86_64-linux" "i686-linux"))
 
-(define %linux-libre-version "4.12.4")
-(define %linux-libre-hash "13c6ka4fhzi41bjlssbkz84hkag7knqpvfyp2jjhm3wm25r4lhw8")
+(define %linux-libre-version "4.12.5")
+(define %linux-libre-hash "0kybil1h07fwl9rb0rvmp0w356hi2v1azw603r18vh9x93i8b8xi")
 
 (define-public linux-libre
   (make-linux-libre %linux-libre-version
@@ -376,20 +376,20 @@ It has been modified to remove all non-free binary blobs.")
                     #:configuration-file kernel-config))
 
 (define-public linux-libre-4.9
-  (make-linux-libre "4.9.40"
-                    "1qaqi2dcydyxw79yj9pa7yxf13ss4rng7bgg0i1dl63c3g7qjgcz"
+  (make-linux-libre "4.9.41"
+                    "1mkx7rvcny8b0yjkzd8zc53d15h1w8y75m0x6jx0dz3r9y3k0nql"
                     %intel-compatible-systems
                     #:configuration-file kernel-config))
 
 (define-public linux-libre-4.4
-  (make-linux-libre "4.4.79"
-                    "03x1nc2fxmh29sf2fbsqzmw8qrdzv5gakr9xrg1shxh31c6xr3xr"
+  (make-linux-libre "4.4.80"
+                    "1s0d7lsapghgk6jh6igx2fhzj1f6nwmvhqrl2hdwf3dx14z93mp2"
                     %intel-compatible-systems
                     #:configuration-file kernel-config))
 
 (define-public linux-libre-4.1
-  (make-linux-libre "4.1.42"
-                    "1g5jhn7cm6ixn7w8ciqm6qgxv7k1jg50v6k05hsvzvrqfpaxqlbz"
+  (make-linux-libre "4.1.43"
+                    "0ycqmvczj7lm7czilnwpyp14n2lzilyx7m43rsq1qdm2m5rp4q2w"
                     %intel-compatible-systems
                     #:configuration-file kernel-config))
 
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index e29a3864df..9096838d6f 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -2,7 +2,7 @@
 ;;; Copyright © 2013, 2014, 2015, 2016 Andreas Enge <andreas@enge.fr>
 ;;; Copyright © 2013 Nikita Karetnikov <nikita@karetnikov.org>
 ;;; Copyright © 2014, 2016, 2017 John Darrington <jmd@gnu.org>
-;;; Copyright © 2014, 2015, 2016 Eric Bavier <bavier@member.fsf.org>
+;;; Copyright © 2014, 2015, 2016, 2017 Eric Bavier <bavier@member.fsf.org>
 ;;; Copyright © 2014 Federico Beffa <beffa@fbengineering.ch>
 ;;; Copyright © 2014 Mathieu Lirzin <mathieu.lirzin@openmailbox.org>
 ;;; Copyright © 2015, 2016, 2017 Ricardo Wurmus <rekado@elephly.net>
@@ -1216,7 +1216,7 @@ September 2004}")
 (define-public petsc
   (package
     (name "petsc")
-    (version "3.7.2")
+    (version "3.7.6")
     (source
      (origin
       (method url-fetch)
@@ -1224,7 +1224,7 @@ September 2004}")
       (uri (string-append "http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/"
                           "petsc-lite-" version ".tar.gz"))
       (sha256
-       (base32 "0jfrq6rd4zagw1iimz05m2w91k0jvz3qbik1lk8pqcxw3rvdqk5d"))))
+       (base32 "1y3f5jjq0v5b62i3sabp4kp5mgfyp3vnk0dxhwkrhpypax77nzxh"))))
     (build-system gnu-build-system)
     (native-inputs
      `(("python" ,python-2)
@@ -1247,6 +1247,10 @@ September 2004}")
                          (assoc-ref %build-inputs "superlu") "/include")
          ,(string-append "--with-superlu-lib="
                          (assoc-ref %build-inputs "superlu") "/lib/libsuperlu.a"))
+       #:make-flags
+       ;; Honor (parallel-job-count) for build.  Do not use --with-make-np,
+       ;; whose value is dumped to $out/lib/petsc/conf/petscvariables.
+       (list (format #f "MAKE_NP=~a" (parallel-job-count)))
        #:phases
        (modify-phases %standard-phases
         (replace 'configure
@@ -1261,13 +1265,17 @@ September 2004}")
               (format #t "configure flags: ~s~%" flags)
               (zero? (apply system* "./configure" flags)))))
         (add-after 'configure 'clean-local-references
-          (lambda* (#:key inputs outputs #:allow-other-keys)
+          (lambda* (#:key outputs #:allow-other-keys)
             (let ((out (assoc-ref outputs "out")))
               (substitute* (find-files "." "^petsc(conf|machineinfo).h$")
                 ;; Prevent build directory from leaking into compiled code
                 (((getcwd)) out)
                 ;; Scrub timestamp for reproducibility
                 ((".*Libraries compiled on.*") ""))
+              (substitute* (find-files "." "petscvariables")
+                ;; Do not expose build machine characteristics, set to defaults.
+                (("MAKE_NP = [:digit:]+") "MAKE_NP = 2")
+                (("NPMAX = [:digit:]+") "NPMAX = 2"))
               #t)))
         (add-after 'install 'clean-install
           ;; Try to keep installed files from leaking build directory names.
@@ -1342,16 +1350,15 @@ scientific applications modeled by partial differential equations.")
 (define-public slepc
   (package
     (name "slepc")
-    (version "3.7.1")
+    (version "3.7.4")
     (source
      (origin
        (method url-fetch)
-       (uri (string-append "http://slepc.upv.es/download/download.php?"
-                           "filename=slepc-" version ".tar.gz"))
-       (file-name (string-append name "-" version ".tar.gz"))
+       (uri (string-append "http://slepc.upv.es/download/distrib/slepc-"
+                           version ".tar.gz"))
        (sha256
         (base32
-         "1hijlmrvxvfqslnx8yydzw5xqbsn1yy02g32w0hln1z3cgr1c0k7"))))
+         "12pbl8yd6r8k9xjlr1qw25rs0k1acgic7hw1s6l6bhiv9s285drg"))))
     (build-system gnu-build-system)
     (native-inputs
      `(("python" ,python-2)))
@@ -1365,6 +1372,8 @@ scientific applications modeled by partial differential equations.")
        #:configure-flags
        `(,(string-append "--with-arpack-dir="
                          (assoc-ref %build-inputs "arpack") "/lib"))
+       #:make-flags                     ;honor (parallel-job-count)
+       `(,(format #f "MAKE_NP=~a" (parallel-job-count)))
        #:phases
        (modify-phases %standard-phases
          (replace 'configure
@@ -2415,7 +2424,7 @@ Fresnel integrals, and similar related functions as well.")
 (define-public suitesparse
   (package
     (name "suitesparse")
-    (version "4.4.3")
+    (version "4.5.5")
     (source
      (origin
        (method url-fetch)
@@ -2424,33 +2433,31 @@ Fresnel integrals, and similar related functions as well.")
              version ".tar.gz"))
        (sha256
         (base32
-         "100hdzr0mf4mzlwnqpmwpfw4pymgsf9n3g0ywb1yps2nk1zbkdy5"))))
+         "1dnr6pmjzc2qmbkmb4shigx1l74ilf6abn7svyd6brxgvph8vadr"))
+       (modules '((guix build utils)))
+       (snippet
+        ;; Remove bundled metis source
+        '(delete-file-recursively "metis-5.1.0"))))
     (build-system gnu-build-system)
     (arguments
-     '(#:parallel-build? #f ;cholmod build fails otherwise
-       #:tests? #f  ;no "check" target
+     '(#:tests? #f  ;no "check" target
        #:make-flags
        (list "CC=gcc"
              "BLAS=-lblas"
              "TBB=-ltbb"
-             "CHOLMOD_CONFIG=-DNPARTITION" ;required when METIS is not used
+             "MY_METIS_LIB=-lmetis"
              (string-append "INSTALL_LIB="
                             (assoc-ref %outputs "out") "/lib")
              (string-append "INSTALL_INCLUDE="
-                            (assoc-ref %outputs "out") "/include"))
+                            (assoc-ref %outputs "out") "/include")
+             "library")
        #:phases
-       (alist-cons-before
-        'install 'prepare-out
-        ;; README.txt states that the target directories must exist prior to
-        ;; running "make install".
-        (lambda _
-          (mkdir-p (string-append (assoc-ref %outputs "out") "/lib"))
-          (mkdir-p (string-append (assoc-ref %outputs "out") "/include")))
-        ;; no configure script
-        (alist-delete 'configure %standard-phases))))
+       (modify-phases %standard-phases
+         (delete 'configure))))         ;no configure script
     (inputs
      `(("tbb" ,tbb)
-       ("lapack" ,lapack)))
+       ("lapack" ,lapack)
+       ("metis" ,metis)))
     (home-page "http://faculty.cse.tamu.edu/davis/suitesparse.html")
     (synopsis "Suite of sparse matrix software")
     (description
@@ -2686,7 +2693,7 @@ revised simplex and the branch-and-bound methods.")
 (define-public dealii
   (package
     (name "dealii")
-    (version "8.4.1")
+    (version "8.5.0")
     (source
      (origin
        (method url-fetch)
@@ -2694,7 +2701,7 @@ revised simplex and the branch-and-bound methods.")
                            "download/v" version "/dealii-" version ".tar.gz"))
        (sha256
         (base32
-         "1bdksvvyp1rj37df1ndh8j3x9nzpc3sazw8nd0hzvnlw0qnyk800"))
+         "0yfpy4zh8j7hmqakw17zdlmvfdcmhwgs66wcb716plc4y7v3z4g6"))
        (modules '((guix build utils)))
        (snippet
         ;; Remove bundled sources: UMFPACK, TBB, muParser, and boost
@@ -2713,21 +2720,10 @@ revised simplex and the branch-and-bound methods.")
        ("suitesparse" ,suitesparse)))   ;for UMFPACK
     (arguments
      `(#:build-type "DebugRelease" ;only supports Release, Debug, or DebugRelease
-       #:configure-flags '("-DCOMPAT_FILES=OFF") ;Follow new directory structure
-       #:phases (modify-phases %standard-phases
-                  (add-after
-                   'install 'hint-example-prefix
-                   ;; Set Cmake hints in examples so that they can find this
-                   ;; deal.II when configuring.
-                   (lambda* (#:key outputs #:allow-other-keys)
-                     (let* ((out (assoc-ref %outputs "out"))
-                            (exmpl (string-append out "/share/doc"
-                                                  "/dealii/examples")))
-                       (substitute* (find-files exmpl "CMakeLists.txt")
-                         (("([[:space:]]*HINTS.*)\n" _ line)
-                          (string-append line " $ENV{HOME}/.guix-profile "
-                                         out "\n")))
-                       #t))))))
+       #:configure-flags
+       ;; Work around a bug in libsuitesparseconfig linking
+       ;; see https://github.com/dealii/dealii/issues/4745
+       '("-DCMAKE_POSITION_INDEPENDENT_CODE:BOOL=ON")))
     (home-page "https://www.dealii.org")
     (synopsis "Finite element library")
     (description
diff --git a/gnu/packages/moreutils.scm b/gnu/packages/moreutils.scm
index b343a8db6d..03ffa8f992 100644
--- a/gnu/packages/moreutils.scm
+++ b/gnu/packages/moreutils.scm
@@ -1,7 +1,7 @@
 ;;; GNU Guix --- Functional package management for GNU
 ;;; Copyright © 2015 Taylan Ulrich Bayırlı/Kammer <taylanbayirli@gmail.com>
 ;;; Copyright © 2016, 2017 Efraim Flashner <efraim@flashner.co.il>
-;;; Copyright © 2016 Tobias Geerinckx-Rice <me@tobias.gr>
+;;; Copyright © 2016, 2017 Tobias Geerinckx-Rice <me@tobias.gr>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -30,21 +30,20 @@
 (define-public moreutils
   (package
     (name "moreutils")
-    (version "0.60")
+    (version "0.61")
     (source
      (origin
        (method url-fetch)
        (uri (list
              (string-append
-              "mirror://debian/pool/main/m/moreutils/moreutils_"
-              version ".orig.tar.xz")
-             ;; The main Debian mirrors only hold the current packages.
+              "https://git.joeyh.name/index.cgi/moreutils.git/snapshot/"
+              name "-" version ".tar.gz")
              (string-append
-              "http://snapshot.debian.org/archive/debian-debug/20170109T210531Z"
-              "/pool/main/m/moreutils/moreutils_0.60.orig.tar.xz")))
+              "http://drabczyk.org/"
+              name "-" version ".tar.gz")))
        (sha256
         (base32
-         "1i8pphg5i5y4x1s1hz73gqhispgspr13bysmk9vh7l6jrfx1hbg4"))))
+         "12rhzy8hw8vljlf10b7ys9zky0p94fdvd6ihq8w8cnkia4rd6izb"))))
     (build-system gnu-build-system)
     ;; For building the manual pages.
     (native-inputs
diff --git a/gnu/packages/patches/ruby-puma-ignore-broken-test.patch b/gnu/packages/patches/ruby-puma-ignore-broken-test.patch
deleted file mode 100644
index 8961ffa4ca..0000000000
--- a/gnu/packages/patches/ruby-puma-ignore-broken-test.patch
+++ /dev/null
@@ -1,13 +0,0 @@
-diff --git a/test/test_cli.rb b/test/test_cli.rb
-index 9c515c6..6bd439f 100644
---- a/test/test_cli.rb
-+++ b/test/test_cli.rb
-@@ -88,7 +88,7 @@ class TestCLI < Test::Unit::TestCase
-     s << "GET /stats HTTP/1.0\r\n\r\n"
-     body = s.read
- 
--    assert_match(/\{ "workers": 2, "phase": 0, "booted_workers": 0, "old_workers": 0, "worker_status": \[\{ "pid": \d+, "index": 0, "phase": 0, "booted": false, "last_checkin": "[^"]+", "last_status": \{\} \},\{ "pid": \d+, "index": 1, "phase": 0, "booted": false, "last_checkin": "[^"]+", "last_status": \{\} \}\] \}/, body.split("\r\n").last)
-+    #assert_match(/\{ "workers": 2, "phase": 0, "booted_workers": 0, "old_workers": 0, "worker_status": \[\{ "pid": \d+, "index": 0, "phase": 0, "booted": false, "last_checkin": "[^"]+", "last_status": \{\} \},\{ "pid": \d+, "index": 1, "phase": 0, "booted": false, "last_checkin": "[^"]+", "last_status": \{\} \}\] \}/, body.split("\r\n").last)
- 
-     # wait until the first status ping has come through
-     sleep 6
diff --git a/gnu/packages/python.scm b/gnu/packages/python.scm
index bc00c021a1..90a7dc661b 100644
--- a/gnu/packages/python.scm
+++ b/gnu/packages/python.scm
@@ -7982,14 +7982,14 @@ Debian-related files, such as:
 (define-public python-nbformat
   (package
     (name "python-nbformat")
-    (version "4.1.0")
+    (version "4.3.0")
     (source
      (origin
        (method url-fetch)
        (uri (pypi-uri "nbformat" version))
        (sha256
         (base32
-         "0mq8iki3d4mnx7wy05phss7x98mds4fqydin8lcagidp1knw1xnv"))))
+         "12s7j4qja8b5bs1kyw5dzmrqbjxxj8wk52cyasbiqbv7fblcrssz"))))
     (build-system python-build-system)
     (arguments `(#:tests? #f)) ; no test target
     (propagated-inputs
diff --git a/gnu/packages/ruby.scm b/gnu/packages/ruby.scm
index 414b38c4fe..02cc6e6fde 100644
--- a/gnu/packages/ruby.scm
+++ b/gnu/packages/ruby.scm
@@ -49,6 +49,7 @@
 (define-public ruby
   (package
     (name "ruby")
+    (replacement ruby-2.4.1)
     (version "2.4.0")
     (source
      (origin
@@ -102,6 +103,26 @@ a focus on simplicity and productivity.")
     (home-page "https://ruby-lang.org")
     (license license:ruby)))
 
+(define-public ruby-2.4.1
+  (package
+    (inherit ruby)
+    (name "ruby")
+    (version "2.4.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (string-append "http://cache.ruby-lang.org/pub/ruby/"
+                           (version-major+minor version)
+                           "/ruby-" version ".tar.xz"))
+       (sha256
+        (base32
+         "0m763zf2v0jhrha3cx21g4dif6vc9gm714invs8h3sg35ncskj2g"))
+       (modules '((guix build utils)))
+       (snippet `(begin
+                   ;; Remove bundled libffi
+                   (delete-file-recursively "ext/fiddle/libffi-3.2.1")
+                   #t))))))
+
 (define-public ruby-2.3
   (package
     (inherit ruby)
@@ -2544,14 +2565,14 @@ you about the changes.")
 (define-public ruby-activesupport
   (package
     (name "ruby-activesupport")
-    (version "5.0.0")
+    (version "5.1.3")
     (source
      (origin
        (method url-fetch)
        (uri (rubygems-uri "activesupport" version))
        (sha256
         (base32
-         "0k7zhnz0aw1ym8phs10r85f91ja45vsd058fm9v0h2k0igw12cpf"))))
+         "16r18n6b1nlky0xx2lw8c1f15gr2vm34xz5g4byjcxf88m1s07xh"))))
     (build-system ruby-build-system)
     (arguments
      `(#:phases
@@ -2857,51 +2878,61 @@ including comments and whitespace.")
     (license license:expat)))
 
 (define-public ruby-tdiff
-  (package
-    (name "ruby-tdiff")
-    (version "0.3.3")
-    (source (origin
-              (method url-fetch)
-              (uri (rubygems-uri "tdiff" version))
-              (sha256
-               (base32
-                "0k41jbvn8qq4mgrixnhlk742b971d136i8wpbcv2cczvi22xpc86"))))
-    (build-system ruby-build-system)
-    (native-inputs
-     `(("ruby-rspec-2" ,ruby-rspec-2)
-       ("ruby-yard" ,ruby-yard)
-       ("ruby-rubygems-tasks" ,ruby-rubygems-tasks)))
-    (synopsis "Calculate the differences between two tree-like structures")
-    (description
-     "This library provides functions to calculate the differences between two
+  ;; Use a newer than released snapshot so that rspec-2 is not required.
+  (let ((commit "b662a6048f08abc45c1a834e5f34dd1c662935e2"))
+    (package
+      (name "ruby-tdiff")
+      (version (string-append "0.3.3-1." (string-take commit 8)))
+      (source (origin
+                (method git-fetch)
+                (uri (git-reference
+                      (url "https://github.com/postmodern/tdiff.git")
+                      (commit commit)))
+                (file-name (string-append name "-" version "-checkout"))
+                (sha256
+                 (base32
+                  "0n3gq8rx49f7ln6zqlshqfg2mgqyy30rsdjlnki5mv307ykc7ad4"))))
+      (build-system ruby-build-system)
+      (native-inputs
+       `(("ruby-rspec" ,ruby-rspec)
+         ("ruby-yard" ,ruby-yard)
+         ("ruby-rubygems-tasks" ,ruby-rubygems-tasks)))
+      (synopsis "Calculate the differences between two tree-like structures")
+      (description
+       "This library provides functions to calculate the differences between two
 tree-like structures.  It is similar to Ruby's built-in @code{TSort} module.")
-    (home-page "https://github.com/postmodern/tdiff")
-    (license license:expat)))
+      (home-page "https://github.com/postmodern/tdiff")
+      (license license:expat))))
 
 (define-public ruby-nokogiri-diff
-  (package
-    (name "ruby-nokogiri-diff")
-    (version "0.2.0")
-    (source (origin
-              (method url-fetch)
-              (uri (rubygems-uri "nokogiri-diff" version))
-              (sha256
-               (base32
-                "0njr1s42war0bj1axb2psjvk49l74a8wzr799wckqqdcb6n51lc1"))))
-    (build-system ruby-build-system)
-    (propagated-inputs
-     `(("ruby-tdiff" ,ruby-tdiff)
-       ("ruby-nokogiri" ,ruby-nokogiri)))
-    (native-inputs
-     `(("ruby-rspec-2" ,ruby-rspec-2)
-       ("ruby-yard" ,ruby-yard)
-       ("ruby-rubygems-tasks" ,ruby-rubygems-tasks)))
-    (synopsis "Calculate the differences between two XML/HTML documents")
-    (description
-     "@code{Nokogiri::Diff} adds the ability to calculate the
+  ;; Use a newer than released snapshot so that rspec-2 is not required.
+  (let ((commit "a38491e4d8709b7406f2cae11a50226d927d06f5"))
+    (package
+      (name "ruby-nokogiri-diff")
+      (version (string-append "0.2.0-1." (string-take commit 8)))
+      (source (origin
+                (method git-fetch)
+                (uri (git-reference
+                      (url "https://github.com/postmodern/nokogiri-diff.git")
+                      (commit commit)))
+                (file-name (string-append name "-" version "-checkout"))
+                (sha256
+                 (base32
+                  "1ah2sfjh9n1p0ln2wkqzfl448ml7j4zfy6dhp1qgzq2m41php6rf"))))
+      (build-system ruby-build-system)
+      (propagated-inputs
+       `(("ruby-tdiff" ,ruby-tdiff)
+         ("ruby-nokogiri" ,ruby-nokogiri)))
+      (native-inputs
+       `(("ruby-rspec" ,ruby-rspec)
+         ("ruby-yard" ,ruby-yard)
+         ("ruby-rubygems-tasks" ,ruby-rubygems-tasks)))
+      (synopsis "Calculate the differences between two XML/HTML documents")
+      (description
+       "@code{Nokogiri::Diff} adds the ability to calculate the
 differences (added or removed nodes) between two XML/HTML documents.")
-    (home-page "https://github.com/postmodern/nokogiri-diff")
-    (license license:expat)))
+      (home-page "https://github.com/postmodern/nokogiri-diff")
+      (license license:expat))))
 
 (define-public ruby-rack
   (package
@@ -3998,7 +4029,7 @@ part of the Prawn PDF generator.")
 (define-public ruby-puma
   (package
     (name "ruby-puma")
-    (version "3.6.0")
+    (version "3.9.1")
     (source
      (origin
        (method url-fetch)
@@ -4008,32 +4039,17 @@ part of the Prawn PDF generator.")
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
         (base32
-         "08aws79n9slcr50d9lwm011cp1pxvr1409c2jmyjxywvrc0a30v1"))
-       ;; Ignore broken tests reported upstream.
-       ;; https://github.com/puma/puma/issues/995
-       ;; https://github.com/puma/puma/issues/1044
-       (patches (search-patches "ruby-puma-ignore-broken-test.patch"))))
+         "03pifga841h17brh4vgia8i2ybh3cmsyg0dbybzdf6dq51wzcxdx"))))
     (build-system ruby-build-system)
     (arguments
-     `(#:phases
+     `(#:tests? #f ; Tests require an out-dated version of minitest.
+       #:phases
        (modify-phases %standard-phases
-         (add-after 'unpack 'delete-integration-tests
-           (lambda _
-             ;; One broken test in this file cannot be easily removed in
-             ;; isolation, it probably causes race conditions.  So we delete
-             ;; the entire file.
-             (delete-file "test/test_integration.rb")
-             #t))
          (add-before 'build 'fix-gemspec
            (lambda _
              (substitute* "puma.gemspec"
                (("git ls-files") "find * |sort"))
              #t)))))
-    (native-inputs
-     `(("ruby-hoe" ,ruby-hoe)
-       ("ruby-rake-compiler" ,ruby-rake-compiler)
-       ("ruby-hoe-git" ,ruby-hoe-git)
-       ("ruby-rack" ,ruby-rack)))
     (synopsis "Simple, concurrent HTTP server for Ruby/Rack")
     (description
      "Puma is a simple, fast, threaded, and highly concurrent HTTP 1.1 server
diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index 55a8a2a483..bdee8e59c7 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -1031,14 +1031,14 @@ aesthetic attributes.")
 (define-public r-gdtools
   (package
     (name "r-gdtools")
-    (version "0.1.4")
+    (version "0.1.5")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "gdtools" version))
        (sha256
         (base32
-         "0l8c4bh6765x9s6rw3mfm1bgicdzdngir1kxh9pxx4sidrdndcip"))))
+         "09y9x09gri33ghhrvjjnj5k5rk0kdpsk3wq02cln8gmywd6728vk"))))
     (build-system r-build-system)
     (native-inputs
      `(("r-rcpp" ,r-rcpp)
@@ -3280,37 +3280,6 @@ optimized in C++, and the main interface function provides an easy way of
 performing parallel computations on multicore machines.")
     (license license:gpl2+)))
 
-(define-public r-igraph
-  (package
-    (name "r-igraph")
-    (version "1.1.2")
-    (source
-     (origin
-       (method url-fetch)
-       (uri (cran-uri "igraph" version))
-       (sha256
-        (base32
-         "1v26wyk52snh8z6m5p7yqwcd9dbqifhm57j112i9x53ppi0npcc9"))))
-    (build-system r-build-system)
-    (native-inputs
-     `(("gfortran" ,gfortran)))
-    (inputs
-     `(("gmp" ,gmp)
-       ("libxml2" ,libxml2)))
-    (propagated-inputs
-     `(("r-irlba" ,r-irlba)
-       ("r-magrittr" ,r-magrittr)
-       ("r-matrix" ,r-matrix)
-       ("r-pkgconfig" ,r-pkgconfig)))
-    (home-page "http://igraph.org")
-    (synopsis "Network analysis and visualization")
-    (description
-     "This package provides routines for simple graphs and network analysis.
-It can handle large graphs very well and provides functions for generating
-random and regular graphs, graph visualization, centrality methods and much
-more.")
-    (license license:gpl2+)))
-
 (define-public r-r-methodss3
   (package
     (name "r-r-methodss3")
@@ -4217,13 +4186,13 @@ representation of R code.")
 (define-public r-ggbeeswarm
   (package
     (name "r-ggbeeswarm")
-    (version "0.5.3")
+    (version "0.6.0")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "ggbeeswarm" version))
               (sha256
                (base32
-                "1jgp55rvmzc4agcrlsjn8m5lk85di9c4wj94xzikqkql4lvq3qpd"))))
+                "0crk29p5vi1r3a988kms4y7r0iqwgwzsikgvh18r9wbzyr98bb5v"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-beeswarm" ,r-beeswarm)
@@ -4632,6 +4601,111 @@ can be efficiently implemented directly in the R language.")
 regression methodology including model selections and multivariate statistics.")
     (license license:gpl2+)))
 
+(define-public r-pcapp
+  (package
+    (name "r-pcapp")
+    (version "1.9-72")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (cran-uri "pcaPP" version))
+       (sha256
+        (base32
+         "0i2822bv86dpqmk3q17x61nsp3gjjnn4nr8191rwvbiib7xhpgaq"))))
+    (properties `((upstream-name . "pcaPP")))
+    (build-system r-build-system)
+    (propagated-inputs
+     `(("r-mvtnorm" ,r-mvtnorm)))
+    (home-page "http://cran.r-project.org/web/packages/pcaPP")
+    (synopsis "Robust PCA by projection pursuit")
+    (description
+     "This package provides functions for robust @dfn{principal component
+analysis} (PCA) by projection pursuit.")
+    (license license:gpl3+)))
+
+(define-public r-rrcov
+  (package
+    (name "r-rrcov")
+    (version "1.4-3")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (cran-uri "rrcov" version))
+       (sha256
+        (base32
+         "0kagqggi634mvrhd67ia7mpjrj5v6w2wq0z3kyppg5xkvzh335nq"))))
+    (build-system r-build-system)
+    (propagated-inputs
+     `(("r-cluster" ,r-cluster)
+       ("r-lattice" ,r-lattice)
+       ("r-mvtnorm" ,r-mvtnorm)
+       ("r-pcapp" ,r-pcapp)
+       ("r-robustbase" ,r-robustbase)))
+    (native-inputs
+     `(("gfortran" ,gfortran)))
+    (home-page "http://cran.r-project.org/web/packages/rrcov")
+    (synopsis "Scalable robust estimators with high breakdown Point")
+    (description
+     "This package provides an implementation of robust location and scatter
+estimation and robust multivariate analysis with high breakdown point.")
+    (license license:gpl2+)))
+
+(define-public r-fit-models
+  (package
+    (name "r-fit-models")
+    (version "0.5-14")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (cran-uri "fit.models" version))
+       (sha256
+        (base32
+         "0vjbzmx0ambm6yzidb4vbgmhclwzwv2iz2cwl54ccdkvx4cx3fck"))))
+    (properties `((upstream-name . "fit.models")))
+    (build-system r-build-system)
+    (propagated-inputs
+     `(("r-lattice" ,r-lattice)))
+    (home-page "http://cran.r-project.org/web/packages/fit.models")
+    (synopsis "Compare fitted models")
+    (description
+     "The @code{fit.models} function and its associated methods (coefficients, print,
+summary, plot, etc.) were originally provided in the @code{robust} package to
+compare robustly and classically fitted model objects.  The aim of the
+@code{fit.models} package is to separate this fitted model object comparison
+functionality from the robust package and to extend it to support fitting
+methods (e.g., classical, robust, Bayesian, regularized, etc.) more
+generally.")
+    ;; Any version of the GPL
+    (license (list license:gpl2+ license:gpl3+))))
+
+(define-public r-robust
+  (package
+    (name "r-robust")
+    (version "0.4-18")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (cran-uri "robust" version))
+       (sha256
+        (base32
+         "1b7qh1aff500nd6dh4y2ipmjgdiq8991shflb63pc39vpc0ny6g4"))))
+    (build-system r-build-system)
+    (propagated-inputs
+     `(("r-fit-models" ,r-fit-models)
+       ("r-lattice" ,r-lattice)
+       ("r-mass" ,r-mass)
+       ("r-robustbase" ,r-robustbase)
+       ("r-rrcov" ,r-rrcov)))
+    (native-inputs
+     `(("gfortran" ,gfortran)))
+    (home-page "http://cran.r-project.org/web/packages/robust")
+    (synopsis "Port of the S+ \"Robust Library\"")
+    (description
+     "This package is a port of the S+ \"Robust Library\".  It provides
+methods for robust statistics, notably for robust regression and robust
+multivariate analysis.")
+    (license license:gpl2)))
+
 (define-public r-trimcluster
   (package
     (name "r-trimcluster")
diff --git a/gnu/packages/virtualization.scm b/gnu/packages/virtualization.scm
index 628396e52c..49998120d2 100644
--- a/gnu/packages/virtualization.scm
+++ b/gnu/packages/virtualization.scm
@@ -478,7 +478,7 @@ virtualization library.")
 (define-public virt-manager
   (package
     (name "virt-manager")
-    (version "1.4.1")
+    (version "1.4.2")
     (source (origin
               (method url-fetch)
               (uri (string-append "https://virt-manager.org/download/sources"
@@ -486,7 +486,7 @@ virtualization library.")
                                   version ".tar.gz"))
               (sha256
                (base32
-                "0i1rkxz730vw1nqghrp189jhhp53pw81k0h71hhxmyqlkyclkig6"))))
+                "0x6mnqw8bng3r69pvmnq9q6yyhicxg22yz62b6dzbb4z16xl1r23"))))
     (build-system python-build-system)
     (arguments
      `(#:python ,python-2
author	Mark H Weaver <mhw@netris.org>	2017-08-09 17:25:31 -0400
committer	Mark H Weaver <mhw@netris.org>	2017-08-09 17:25:31 -0400
commit	cc294bcee6bfaa4524ac43450e41f083539f9cb1 (patch)
tree	1248811a6fd39e9169fd4b3c58f456bd21d1c7d5 /gnu/packages
parent	32b7506c987d8b7281382da4831958a64c048fc1 (diff)
parent	ae7f246cf1c7e20ebf4025024bb10361938abaa2 (diff)
download	patches-cc294bcee6bfaa4524ac43450e41f083539f9cb1.tar patches-cc294bcee6bfaa4524ac43450e41f083539f9cb1.tar.gz