Merge branch 'master' into staging

57 files changed, 827 insertions, 523 deletions

diff --git a/gnu/packages/admin.scm b/gnu/packages/admin.scm
index 3a250eeaa8..94145c04e8 100644
--- a/gnu/packages/admin.scm
+++ b/gnu/packages/admin.scm
@@ -181,14 +181,14 @@ and provides a \"top-like\" mode (monitoring).")
 (define-public shepherd
   (package
     (name "shepherd")
-    (version "0.5.0")
+    (version "0.6.0")
     (source (origin
               (method url-fetch)
-              (uri (string-append "https://alpha.gnu.org/gnu/shepherd/shepherd-"
+              (uri (string-append "mirror://gnu/shepherd/shepherd-"
                                   version ".tar.gz"))
               (sha256
                (base32
-                "1wmciqml9yplnx1s4ynn00giqyk06rbrcsgvpjj2df47sawk2jp8"))))
+                "1ys2w83vm62spr8bx38sccfdpy9fqmj7wfywm5k8ihsy2k61da2i"))))
     (build-system gnu-build-system)
     (arguments
      '(#:configure-flags '("--localstatedir=/var")))
@@ -211,8 +211,7 @@ the execution of system services, replacing similar functionality found in
 typical init systems.  It provides dependency-handling through a convenient
 interface and is based on GNU Guile.")
     (license license:gpl3+)
-    (home-page "https://www.gnu.org/software/shepherd/")
-    (properties '((ftp-server . "alpha.gnu.org")))))
+    (home-page "https://www.gnu.org/software/shepherd/")))
 
 (define-public daemontools
   (package
@@ -2925,7 +2924,7 @@ Logitech Unifying Receiver.")
   (package
     (name "lynis")
     ;; Also update the ‘lynis-sdk’ input to the commit matching this release.
-    (version "2.7.3")
+    (version "2.7.4")
     (source
      (origin
        (method git-fetch)
@@ -2934,7 +2933,7 @@ Logitech Unifying Receiver.")
              (commit version)))
        (file-name (git-file-name name version))
        (sha256
-        (base32 "0md1w86i3fy9l78i98ijr5136nbhdiik2dxyw9qnzmvdlvkqmw70"))
+        (base32 "1jjk5hcxmp4f4ppsljiq95l2ln6b03azydap3b35lsvxkjybv88k"))
        (modules '((guix build utils)))
        (snippet
         '(begin
@@ -2951,10 +2950,10 @@ Logitech Unifying Receiver.")
            (method git-fetch)
            (uri (git-reference
                  (url "https://github.com/CISOfy/lynis-sdk")
-                 (commit "c166b6a67a53b24f5c1fecd4eb5033f54279a5b3")))
+                 (commit "90f301e21c204792cf372f1cf05890a562f2e31b")))
            (file-name (git-file-name "lynis-sdk" version))
            (sha256
-            (base32 "0wa2azcmx6pj9axvq1jmwmz7826rj1c214asmmn1hq7pxmfw62zr"))))))
+            (base32 "1d0smr1fxrvbc3hl8lzy33im9ahzr0hgs3kk09r8g8xccjkcm52l"))))))
     (arguments
      `(#:phases
        (modify-phases %standard-phases
diff --git a/gnu/packages/astronomy.scm b/gnu/packages/astronomy.scm
index 6025af8323..ab5dcd92a7 100644
--- a/gnu/packages/astronomy.scm
+++ b/gnu/packages/astronomy.scm
@@ -1,7 +1,7 @@
 ;;; GNU Guix --- Functional package management for GNU
 ;;; Copyright © 2016 John Darrington <jmd@gnu.org>
 ;;; Copyright © 2018 Tobias Geerinckx-Rice <me@tobias.gr>
-;;; Copyright © 2018 Efraim Flashner <efraim@flashner.co.il>
+;;; Copyright © 2018, 2019 Efraim Flashner <efraim@flashner.co.il>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -23,6 +23,7 @@
   #:use-module ((guix licenses) #:prefix license:)
   #:use-module (guix download)
   #:use-module (guix utils)
+  #:use-module (gnu packages autotools)
   #:use-module (gnu packages image)
   #:use-module (gnu packages compression)
   #:use-module (gnu packages gettext)
@@ -103,7 +104,7 @@ header.")
 (define-public gnuastro
   (package
     (name "gnuastro")
-    (version "0.8")
+    (version "0.9")
     (source
      (origin
        (method url-fetch)
@@ -111,7 +112,7 @@ header.")
                            version ".tar.lz"))
        (sha256
         (base32
-         "0gx6iar3z07k9sdvpa6kchsz6fpk94xn5vcvbcigssl2dwqmlnkb"))))
+         "1c1894ixz3l8p1nmzkysgl9lz8vpqbfw1dd404kh6lvrpml7jzig"))))
     (inputs
      `(("cfitsio" ,cfitsio)
        ("gsl" ,gsl)
@@ -120,7 +121,8 @@ header.")
        ("wcslib" ,wcslib)
        ("zlib" ,zlib)))
     (native-inputs
-     `(("lzip" ,lzip)))
+     `(("libtool" ,libtool)
+       ("lzip" ,lzip)))
     (build-system gnu-build-system)
     (home-page "https://www.gnu.org/software/gnuastro/")
     (synopsis "Astronomy utilities")
diff --git a/gnu/packages/audio.scm b/gnu/packages/audio.scm
index 8160ba5487..7a79f4dcab 100644
--- a/gnu/packages/audio.scm
+++ b/gnu/packages/audio.scm
@@ -547,14 +547,14 @@ plugins are provided.")
 (define-public calf
   (package
     (name "calf")
-    (version "0.90.1")
+    (version "0.90.2")
     (source (origin
               (method url-fetch)
               (uri (string-append "https://calf-studio-gear.org/files/calf-"
                                   version ".tar.gz"))
               (sha256
                (base32
-                "0znwx5gidr5n503gya9n8gagr8cfym6cwlbiv2r6iksji7jc4fpb"))))
+                "0bn4j1klw2yfxz8clbmasaydifq25rdfsv0n6iisxrzcj1lx7sgh"))))
     (build-system gnu-build-system)
     (inputs
      `(("fluidsynth" ,fluidsynth)
@@ -713,7 +713,7 @@ emulation (valve, tape), bit fiddling (decimator, pointer-cast), etc.")
 (define-public csound
   (package
     (name "csound")
-    (version "6.12.0")
+    (version "6.12.2")
     (source (origin
               (method git-fetch)
               (uri (git-reference
@@ -722,7 +722,7 @@ emulation (valve, tape), bit fiddling (decimator, pointer-cast), etc.")
               (file-name (git-file-name name version))
               (sha256
                (base32
-                "0pv4s54cayvavdp6y30n3r1l5x83x9whyyd2v24y0dh224v3hbxi"))))
+                "01krxcf0alw9k7p5sv0s707600an4sl7lhw3bymbwgqrj0v2p9z2"))))
     (build-system cmake-build-system)
     (inputs
      `(("alsa-lib" ,alsa-lib)
@@ -1104,7 +1104,7 @@ follower.")
 (define-public fluidsynth
   (package
     (name "fluidsynth")
-    (version "2.0.4")
+    (version "2.0.5")
     (source (origin
               (method git-fetch)
               (uri (git-reference
@@ -1113,7 +1113,7 @@ follower.")
               (file-name (string-append name "-" version "-checkout"))
               (sha256
                (base32
-                "1v2vji02fbrjgypwb4fw2r90hnfwfbfh3d24j8vjwlbqxhxp16s0"))))
+                "0rv0apxbj0cgm8f8sqf5xr6kdi4q58ph92ip6cg716ha0ca5lr8y"))))
     (build-system cmake-build-system)
     (arguments
      '(#:tests? #f                      ; no check target
@@ -2120,14 +2120,14 @@ different audio devices such as ALSA or PulseAudio.")
 (define-public qjackctl
   (package
     (name "qjackctl")
-    (version "0.5.6")
+    (version "0.5.7")
     (source (origin
               (method url-fetch)
               (uri (string-append "mirror://sourceforge/qjackctl/qjackctl/"
                                   version "/qjackctl-" version ".tar.gz"))
               (sha256
                (base32
-                "0wlmbb9m7cf3wr7c2h2hji18592x2b119m7mx85wksjs6rjaq2mj"))))
+                "1g6a5j74p45yisl28bw4fcc9nr6b710ikk459p4mp6djh9gs8v95"))))
     (build-system gnu-build-system)
     (arguments
      '(#:tests? #f))                    ; no check target
@@ -2316,7 +2316,7 @@ aimed at audio/musical applications.")
 (define-public rubberband
   (package
     (name "rubberband")
-    (version "1.8.1")
+    (version "1.8.2")
     (source (origin
               (method url-fetch)
               (uri
@@ -2326,9 +2326,19 @@ aimed at audio/musical applications.")
               (file-name (string-append name "-" version ".tar.bz2"))
               (sha256
                (base32
-                "05amrbrxx0da3w7m237q51799r8xgs4ffqabi2qv06hq8dpcj386"))))
+                "0462fmjnfqpv2qi0s6ny42drqarkr0xy9lw8frjmfgzyzl5n9294"))))
     (build-system gnu-build-system)
-    (arguments `(#:tests? #f)) ; no check target
+    (arguments
+     `(#:tests? #f                      ; no check target
+       #:phases
+       (modify-phases %standard-phases
+         (add-after 'unpack 'skip-jni-installation
+           ;; ‘make install’ unconditionally installs librubberband-jni.so,
+           ;; which is never built by ‘make all’.  Skip it.
+           (lambda _
+             (substitute* "Makefile.in"
+               ((".*cp -f \\$\\(JNI_TARGET\\).*") ""))
+             #t)))))
     (inputs
      `(("ladspa" ,ladspa)
        ("libsamplerate" ,libsamplerate)
@@ -2861,14 +2871,14 @@ interface.")
 (define-public qsynth
   (package
     (name "qsynth")
-    (version "0.5.5")
+    (version "0.5.6")
     (source
      (origin
        (method url-fetch)
        (uri (string-append "mirror://sourceforge/qsynth/qsynth/" version
                            "/qsynth-" version ".tar.gz"))
        (sha256
-        (base32 "08x7znvbwi9miavcarymi7dsv8njmxzwzma20dbmz8j2aswm53w5"))))
+        (base32 "0h4hhja8qbyzd6v24flw9wr4mwl03nplryx1gyrppn7sg13l1sx6"))))
     (build-system gnu-build-system)
     (arguments
      `(#:tests? #f                      ; no "check" phase
@@ -3375,14 +3385,14 @@ on the ALSA software PCM plugin.")
 (define-public snd
   (package
     (name "snd")
-    (version "19.2")
+    (version "19.3")
     (source (origin
               (method url-fetch)
               (uri (string-append "ftp://ccrma-ftp.stanford.edu/pub/Lisp/"
                                   "snd-" version ".tar.gz"))
               (sha256
                (base32
-                "1a6ls2hyvggss12idca22hq5vsq4jw2xkwrx22dx29i9926gdr6h"))))
+                "16j3fqyw361wdsr1076f0p3va2y7wdzq1lvr4ijz1ajmbxdlc723"))))
     (build-system glib-or-gtk-build-system)
     (arguments
      `(#:tests? #f                      ; no tests
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index dc5d84653c..4cf6900498 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -9438,40 +9438,33 @@ and irregular enzymatic cleavages, mass measurement accuracy, etc.")
 (define-public r-seurat
   (package
     (name "r-seurat")
-    (version "2.3.4")
+    (version "3.0.0")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "Seurat" version))
               (sha256
                (base32
-                "0l8bv4i9nzz26mirnva10mq6pimibj24vk7vpvfypgn7xk4942hd"))))
+                "183lm2wk0i3g114jbdf7pb4ssizr48qzqv3cknbsiackr8kvpsvc"))))
     (properties `((upstream-name . "Seurat")))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-ape" ,r-ape)
        ("r-cluster" ,r-cluster)
        ("r-cowplot" ,r-cowplot)
-       ("r-dosnow" ,r-dosnow)
-       ("r-dplyr" ,r-dplyr)
-       ("r-dtw" ,r-dtw)
        ("r-fitdistrplus" ,r-fitdistrplus)
-       ("r-foreach" ,r-foreach)
-       ("r-fpc" ,r-fpc)
+       ("r-future" ,r-future)
+       ("r-future-apply" ,r-future-apply)
        ("r-ggplot2" ,r-ggplot2)
+       ("r-ggrepel" ,r-ggrepel)
        ("r-ggridges" ,r-ggridges)
-       ("r-gplots" ,r-gplots)
-       ("r-hdf5r" ,r-hdf5r)
-       ("r-hmisc" ,r-hmisc)
-       ("r-httr" ,r-httr)
        ("r-ica" ,r-ica)
        ("r-igraph" ,r-igraph)
        ("r-irlba" ,r-irlba)
-       ("r-lars" ,r-lars)
+       ("r-kernsmooth" ,r-kernsmooth)
        ("r-lmtest" ,r-lmtest)
        ("r-mass" ,r-mass)
        ("r-matrix" ,r-matrix)
        ("r-metap" ,r-metap)
-       ("r-mixtools" ,r-mixtools)
        ("r-pbapply" ,r-pbapply)
        ("r-plotly" ,r-plotly)
        ("r-png" ,r-png)
@@ -9480,12 +9473,14 @@ and irregular enzymatic cleavages, mass measurement accuracy, etc.")
        ("r-rcpp" ,r-rcpp)
        ("r-rcppeigen" ,r-rcppeigen)
        ("r-rcppprogress" ,r-rcppprogress)
-       ("r-reshape2" ,r-reshape2)
        ("r-reticulate" ,r-reticulate)
+       ("r-rlang" ,r-rlang)
        ("r-rocr" ,r-rocr)
+       ("r-rsvd" ,r-rsvd)
        ("r-rtsne" ,r-rtsne)
+       ("r-scales" ,r-scales)
+       ("r-sctransform" ,r-sctransform)
        ("r-sdmtools" ,r-sdmtools)
-       ("r-tidyr" ,r-tidyr)
        ("r-tsne" ,r-tsne)))
     (home-page "http://www.satijalab.org/seurat")
     (synopsis "Seurat is an R toolkit for single cell genomics")
diff --git a/gnu/packages/bootloaders.scm b/gnu/packages/bootloaders.scm
index d6ef7d52b5..b4eabaea48 100644
--- a/gnu/packages/bootloaders.scm
+++ b/gnu/packages/bootloaders.scm
@@ -90,7 +90,8 @@
               (base32
                "03vvdfhdmf16121v7xs8is2krwnv15wpkhkf16a4yf8nsfc3f2w1"))
              (patches (search-patches "grub-check-error-efibootmgr.patch"
-                                      "grub-binutils-compat.patch"))))
+                                      "grub-binutils-compat.patch"
+                                      "grub-efi-fat-serial-number.patch"))))
     (build-system gnu-build-system)
     (arguments
      `(#:phases (modify-phases %standard-phases
diff --git a/gnu/packages/cpp.scm b/gnu/packages/cpp.scm
index 4e8f12248f..e0af0dd1a9 100644
--- a/gnu/packages/cpp.scm
+++ b/gnu/packages/cpp.scm
@@ -72,16 +72,14 @@ operating system functions.")
 
 (define-public rct
   (let* ((commit "b3e6f41d9844ef64420e628e0c65ed98278a843a")
-         (revision "2")
-         (version (git-version "0.0.0" revision commit)))
+         (revision "2"))
     (package
       (name "rct")
-      (version version)
-      (home-page "https://github.com/Andersbakken/rct")
+      (version (git-version "0.0.0" revision commit))
       (source (origin
                 (method git-fetch)
                 (uri (git-reference
-                      (url home-page)
+                      (url "https://github.com/Andersbakken/rct")
                       (commit commit)))
                 (sha256
                  (base32
@@ -99,6 +97,7 @@ operating system functions.")
       (inputs
        `(("openssl" ,openssl)
          ("zlib" ,zlib)))
+      (home-page "https://github.com/Andersbakken/rct")
       (synopsis "C++ library providing Qt-like APIs on top of the STL")
       (description "Rct is a set of C++ tools that provide nicer (more Qt-like)
  APIs on top of Standard Template Library (@dfn{STL}) classes.")
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 47cd1d7217..742bc5f663 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -78,14 +78,14 @@
 (define-public r-clipr
   (package
     (name "r-clipr")
-    (version "0.5.0")
+    (version "0.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "clipr" version))
        (sha256
         (base32
-         "1grx0lyww1cxmdvsr44wmbhz9i6zmiwxbchb97gxrfi9gy5kyc7x"))))
+         "0k9kimkmmj9k7290sxiqn4kd1vvm4w7q9a44wp0w30b7yjpavx2m"))))
     (build-system r-build-system)
     (home-page "https://github.com/mdlincoln/clipr")
     (synopsis "Read and write from the system clipboard")
@@ -3050,14 +3050,14 @@ programming} (SQP) based solver).")
 (define-public r-hardyweinberg
   (package
     (name "r-hardyweinberg")
-    (version "1.6.1")
+    (version "1.6.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "HardyWeinberg" version))
        (sha256
         (base32
-         "16n8qanxx0p5ny5zqxafn8hwb1xv94y1wig1iql8as5a5qh8lwcz"))))
+         "15i7b444hikkfgqmx2ki827998xwra38k9v7a7kavwz6zmq5mmv9"))))
     (properties `((upstream-name . "HardyWeinberg")))
     (build-system r-build-system)
     (propagated-inputs
@@ -3317,14 +3317,14 @@ normalizations, minimum variance matching, and so on.")
 (define-public r-sdmtools
   (package
     (name "r-sdmtools")
-    (version "1.1-221")
+    (version "1.1-221.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "SDMTools" version))
        (sha256
         (base32
-         "1kacrpamshv7wz83yn45sfbw4m9c44xrrngzcklnwx8gcxx2knm6"))))
+         "1fsgnlc7glawimzijp11j53g5bnfp1mdq9wb0754idmxcdi8a99q"))))
     (properties `((upstream-name . "SDMTools")))
     (build-system r-build-system)
     (propagated-inputs `(("r-r-utils" ,r-r-utils)))
@@ -5489,14 +5489,14 @@ results to the user.")
 (define-public r-hdf5r
   (package
     (name "r-hdf5r")
-    (version "1.1.1")
+    (version "1.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "hdf5r" version))
        (sha256
         (base32
-         "1cq4rdfd0rqvy29ml3x1iid142ljnscs8f4d2y1na13hlvkl3k05"))))
+         "10gynjwaaxks8y9c2fl8k040j0nbwn372nil70009yfk9wrkx0aq"))))
     (build-system r-build-system)
     (inputs
      `(("hdf5" ,hdf5)
@@ -5605,14 +5605,14 @@ hierarchical models using Markov Chain Monte Carlo (MCMC) simulation.")
 (define-public r-rdpack
   (package
     (name "r-rdpack")
-    (version "0.10-1")
+    (version "0.11-0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "Rdpack" version))
        (sha256
         (base32
-         "0bbjnw88h54v40hzim00i8yd3p4rk9i84zfdmgcbnylscwvsf0av"))))
+         "11cd27s6zp5cxnwxcvz6rjf00y0r7aq8ywhzwpf1r4xy1z44kd4g"))))
     (properties `((upstream-name . "Rdpack")))
     (build-system r-build-system)
     (propagated-inputs
@@ -13253,14 +13253,14 @@ self-intersections from polygon data.")
 (define-public r-urltools
   (package
     (name "r-urltools")
-    (version "1.7.2")
+    (version "1.7.3")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "urltools" version))
        (sha256
         (base32
-         "18lp66f2l504b8q3j4xy8j9pyzzlljw9f112sn6qii1cg83072wm"))))
+         "04x3my655dd287cbsszbnf75q0swmjlxxrblcsay7a8n3df3a830"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-rcpp" ,r-rcpp)
@@ -13888,3 +13888,65 @@ regular expressions.  Regular expressions are a very powerful feature, however
 they are often difficult to interpret.  Rex allows you to build complex
 regular expressions from human readable expressions")
     (license license:expat)))
+
+(define-public r-sctransform
+  (package
+    (name "r-sctransform")
+    (version "0.2.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (cran-uri "sctransform" version))
+       (sha256
+        (base32
+         "1r5kiqqs318q59h2i8m7c6nhghp9w6q26ss2y5a390lkhsawgx6p"))))
+    (build-system r-build-system)
+    (propagated-inputs
+     `(("r-future" ,r-future)
+       ("r-future-apply" ,r-future-apply)
+       ("r-ggplot2" ,r-ggplot2)
+       ("r-gridextra" ,r-gridextra)
+       ("r-mass" ,r-mass)
+       ("r-matrix" ,r-matrix)
+       ("r-rcpp" ,r-rcpp)
+       ("r-rcppeigen" ,r-rcppeigen)
+       ("r-reshape2" ,r-reshape2)))
+    (home-page "https://github.com/ChristophH/sctransform")
+    (synopsis "Variance stabilizing transformations for Single Cell UMI Data")
+    (description
+     "This package provides a normalization method for single-cell UMI count
+data using a variance stabilizing transformation.  The transformation is based
+on a negative binomial regression model with regularized parameters.  As part
+of the same regression framework, this package also provides functions for
+batch correction, and data correction.")
+    (license license:gpl3)))
+
+(define-public r-styler
+  (package
+    (name "r-styler")
+    (version "1.1.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (cran-uri "styler" version))
+       (sha256
+        (base32
+         "1z24mi88snbz1avjw9phq0lzmigddvycc56s83nxzr9w9z85mh05"))))
+    (build-system r-build-system)
+    (propagated-inputs
+     `(("r-backports" ,r-backports)
+       ("r-cli" ,r-cli)
+       ("r-magrittr" ,r-magrittr)
+       ("r-purrr" ,r-purrr)
+       ("r-rematch2" ,r-rematch2)
+       ("r-rlang" ,r-rlang)
+       ("r-rprojroot" ,r-rprojroot)
+       ("r-tibble" ,r-tibble)
+       ("r-withr" ,r-withr)
+       ("r-xfun" ,r-xfun)))
+    (home-page "https://github.com/r-lib/styler")
+    (synopsis "Non-invasive pretty printing of R code")
+    (description
+     "This is a package for pretty-printing R code without changing the user's
+formatting intent.")
+    (license license:gpl3)))
diff --git a/gnu/packages/cups.scm b/gnu/packages/cups.scm
index 5b90d405ea..748f67ba1e 100644
--- a/gnu/packages/cups.scm
+++ b/gnu/packages/cups.scm
@@ -639,14 +639,14 @@ printer/driver specific, but spooler-independent PPD file.")
 (define-public foo2zjs
   (package
     (name "foo2zjs")
-    (version "20180910")
+    (version "20190413")
     (source (origin
               (method url-fetch)
               ;; XXX: This is an unversioned URL!
               (uri "http://foo2zjs.rkkda.com/foo2zjs.tar.gz")
               (sha256
                (base32
-                "1clddqy4y4vvws0lllv1v90dfiihihdc23bn93c544yb3fvmwmr6"))))
+                "00k22vmghxls7rk2hrbz9v17wi5z8vdk3fmsp2lrfghfcad8nhpx"))))
     (build-system gnu-build-system)
     (arguments
      '(#:phases (modify-phases %standard-phases
diff --git a/gnu/packages/databases.scm b/gnu/packages/databases.scm
index ed46f897b0..74c0efe07b 100644
--- a/gnu/packages/databases.scm
+++ b/gnu/packages/databases.scm
@@ -265,14 +265,14 @@ mapping from string keys to string values.")
 (define-public memcached
   (package
     (name "memcached")
-    (version "1.5.12")
+    (version "1.5.13")
     (source
      (origin
        (method url-fetch)
        (uri (string-append
              "https://memcached.org/files/memcached-" version ".tar.gz"))
        (sha256
-        (base32 "0aav15f0lh8k4i62aza2bdv4s8vv65j38pz2zc4v45snd3arfby0"))))
+        (base32 "0qsdkjrns4f02lmabq8c7mzl5n4382q2p6a0dvmsjdcpjisagqb1"))))
     (build-system gnu-build-system)
     (inputs
      `(("libevent" ,libevent)
@@ -1942,13 +1942,13 @@ for ODBC.")
 (define-public python-pyodbc
   (package
     (name "python-pyodbc")
-    (version "4.0.25")
+    (version "4.0.26")
     (source
      (origin
        (method url-fetch)
        (uri (pypi-uri "pyodbc" version))
        (sha256
-        (base32 "1bbwrb812w5i0x56jfn0l86mxc2ck904hl8y87mziay96znwia0f"))
+        (base32 "1qrxnf7ji5hml7z4y669k4wmk3iz2pcsr05bnn1n912asash09z5"))
        (file-name (string-append name "-" version ".tar.gz"))))
     (build-system python-build-system)
     (inputs
@@ -2189,13 +2189,13 @@ Database API 2.0T.")
 (define-public python-sqlalchemy
   (package
     (name "python-sqlalchemy")
-    (version "1.3.1")
+    (version "1.3.3")
     (source
      (origin
       (method url-fetch)
       (uri (pypi-uri "SQLAlchemy" version))
       (sha256
-       (base32 "12sr36646sipf9ac3n2xh8z0w5pz4d3dvw5qjv2kzvcls6wvf7vq"))))
+       (base32 "06c3lcv7nijsgqsjaaa4djrwlzgh9f910zlqxkmgq22h6jl4rici"))))
     (build-system python-build-system)
     (native-inputs
      `(("python-cython" ,python-cython) ; for C extensions
@@ -2571,15 +2571,15 @@ reasonable substitute.")
 (define-public python-redis
   (package
     (name "python-redis")
-    (version "3.2.0")
+    (version "3.2.1")
     (source
      (origin
        (method url-fetch)
        (uri (pypi-uri "redis" version))
        (sha256
-        (base32 "0m1b88wg1w6xdwg0siky5k86x8sh6smhbr42ixz41ra81lv34jbj"))))
+        (base32 "0wwj8il4c3aff15xwwcjfci367zxsakq05ps1a2il6yavp91i94c"))))
     (build-system python-build-system)
-    ;; Tests require a running Redis server
+    ;; Tests require a running Redis server.
     (arguments '(#:tests? #f))
     ;; As long as we are not running test, we do not need this input :-)
     ;;(native-inputs
diff --git a/gnu/packages/dictionaries.scm b/gnu/packages/dictionaries.scm
index e0cd7604b6..ee038ac8f5 100644
--- a/gnu/packages/dictionaries.scm
+++ b/gnu/packages/dictionaries.scm
@@ -3,7 +3,7 @@
 ;;; Copyright © 2016, 2017, 2018 Efraim Flashner <efraim@flashner.co.il>
 ;;; Copyright © 2016 Sou Bunnbu <iyzsong@gmail.com>
 ;;; Copyright © 2017, 2018 Nicolas Goaziou <mail@nicolasgoaziou.fr>
-;;; Copyright © 2018 Tobias Geerinckx-Rice <me@tobias.gr>
+;;; Copyright © 2018, 2019 Tobias Geerinckx-Rice <me@tobias.gr>
 ;;; Copyright © 2018 Pierre-Antoine Rouby <contact@parouby.fr>
 ;;; Copyright © 2018 Arun Isaac <arunisaac@systemreboot.net>
 ;;;
@@ -218,15 +218,15 @@ It comes with a German-English dictionary with approximately 270,000 entries.")
 (define-public grammalecte
   (package
     (name "grammalecte")
-    (version "0.6.5")
+    (version "1.0.1")
     (source
      (origin
        (method url-fetch/zipbomb)
-       (uri (string-append "https://www.dicollecte.org/grammalecte/zip/"
+       (uri (string-append "https://grammalecte.net/grammalecte/zip/"
                            "Grammalecte-fr-v" version ".zip"))
        (sha256
         (base32
-         "11byjs3ggdhia5f4vyfqfvbbczsfqimll98h98g7hlsrm7vrifb0"))))
+         "0p005mqgmckkbif3syv3d90rr1zsm5n5vvac5b29nn8g4v8jjpfs"))))
     (build-system python-build-system)
     (home-page "https://grammalecte.net")
     (synopsis  "French spelling and grammar checker")
@@ -245,7 +245,7 @@ and a Python library.")
 (define-public translate-shell
   (package
     (name "translate-shell")
-    (version "0.9.6.9")
+    (version "0.9.6.10")
     (source
       (origin
         (method git-fetch)
@@ -254,13 +254,12 @@ and a Python library.")
                (commit (string-append "v" version))))
         (file-name (git-file-name name version))
         (sha256
-         (base32
-          "1xyf0vdxmbgqcgsr1gvgwh1q4fh080h68radkim6pfcwzffliszm"))))
+         (base32 "1dmh3flldfhnqfay3a6c5hanqcjwrmbly1bq8mlk022qfi1fv33y"))))
     (build-system gnu-build-system)
     (arguments
      `(#:phases
        (modify-phases %standard-phases
-         (delete 'configure)            ; no configure phase
+         (delete 'configure)            ; no configure script
          (add-after 'unpack 'remove-unnecessary-file
            ;; This file gets generated during the build phase.
            (lambda _
diff --git a/gnu/packages/dns.scm b/gnu/packages/dns.scm
index 9cffe3b822..24b6384eab 100644
--- a/gnu/packages/dns.scm
+++ b/gnu/packages/dns.scm
@@ -294,14 +294,14 @@ asynchronous fashion.")
 (define-public nsd
   (package
     (name "nsd")
-    (version "4.1.26")
+    (version "4.1.27")
     (source
      (origin
        (method url-fetch)
        (uri (string-append "https://www.nlnetlabs.nl/downloads/nsd/nsd-"
                            version ".tar.gz"))
        (sha256
-        (base32 "1x0mvj4872dzj1rr9adnchdm4dhn41xmc459p5j4s0r13m1l32lz"))))
+        (base32 "1sjfbwr4vq25304hr9vmd9j821g2vzv8lpy95hpsravc80q5zaqv"))))
     (build-system gnu-build-system)
     (arguments
      `(#:configure-flags
diff --git a/gnu/packages/elf.scm b/gnu/packages/elf.scm
index 1f8263b9c5..99f49eb7a7 100644
--- a/gnu/packages/elf.scm
+++ b/gnu/packages/elf.scm
@@ -96,14 +96,14 @@ Executable and Linkable Format (@dfn{ELF}).  This includes @command{ld},
   (package
     (name "libabigail")
     (home-page "https://sourceware.org/libabigail/")
-    (version "1.5")
+    (version "1.6")
     (source (origin
               (method url-fetch)
-              (uri (string-append "https://sourceware.org/pub/" name
-                                  "/" name "-" version ".tar.gz"))
+              (uri (string-append "https://sourceware.org/pub/libabigail/"
+                                  "libabigail-" version ".tar.gz"))
               (sha256
                (base32
-                "0srfnkbm386sl2n85686nl28da6ksbs7jgnfks9k0n61c772aas4"))))
+                "04j07lhvwbp6qp8pdwbf7iqnr7kgpabmqylsw4invpmzwnyp6g6g"))))
     (build-system gnu-build-system)
     (arguments
      `(#:configure-flags '("--disable-static"
diff --git a/gnu/packages/emacs-xyz.scm b/gnu/packages/emacs-xyz.scm
index 04da4e3b40..92c2dd3184 100644
--- a/gnu/packages/emacs-xyz.scm
+++ b/gnu/packages/emacs-xyz.scm
@@ -2924,7 +2924,7 @@ These are distributed in separate files and can be used individually.")
     (description "Irony-mode provides Clang-assisted syntax checking and
 completion for C, C++, and ObjC in GNU Emacs.  Using @code{libclang} it can
 provide syntax checking and autocompletion on compiler level which is very
-resistent against false positives.  It also integrates well with other
+resistant against false positives.  It also integrates well with other
 packages like @code{eldoc-mode} and especially @code{company-mode} as
 described on the homepage.")
     (license license:gpl3+)))
@@ -14018,7 +14018,7 @@ opposed to character-based).")
 (define-public emacs-disk-usage
   (package
     (name "emacs-disk-usage")
-    (version "1.3.0")
+    (version "1.3.3")
     (home-page "https://gitlab.com/Ambrevar/emacs-disk-usage")
     (source
      (origin
@@ -14029,7 +14029,7 @@ opposed to character-based).")
              ".el"))
        (sha256
         (base32
-         "0ky6c34z7c6hd4yvcrcsidkfk2kvffkg63v02vch2i6hg1n6n028"))))
+         "0h1jwznd41gi0vg830ilfgm01q05zknikzahwasm9cizwm2wyizj"))))
     (build-system emacs-build-system)
     (synopsis "Sort and browse disk usage listings with Emacs")
     (description "Disk Usage is a file system analyzer: it offers a tabulated
diff --git a/gnu/packages/fpga.scm b/gnu/packages/fpga.scm
index 24a1219ce5..83854ef9c6 100644
--- a/gnu/packages/fpga.scm
+++ b/gnu/packages/fpga.scm
@@ -301,14 +301,14 @@ Includes the actual FTDI connector.")
 (define-public gtkwave
   (package
     (name "gtkwave")
-    (version "3.3.99")
+    (version "3.3.100")
     (source (origin
               (method url-fetch)
               (uri (string-append "http://gtkwave.sourceforge.net/"
-                                  name "-" version ".tar.gz"))
+                                  "gtkwave-" version ".tar.gz"))
               (sha256
                (base32
-                "0lc4y2vizrbxldjk5yw2i4y7pyprjdjqx3iafzjfnin694zp2630"))))
+                "1z60i5nh8dz8j9ii63fwaw7k0p3x0scp91478cxmdv4xhp4njlxa"))))
     (build-system gnu-build-system)
     (native-inputs
      `(("gperf" ,gperf)
diff --git a/gnu/packages/game-development.scm b/gnu/packages/game-development.scm
index 79b87856d5..5dd22215b8 100644
--- a/gnu/packages/game-development.scm
+++ b/gnu/packages/game-development.scm
@@ -1400,9 +1400,9 @@ Fenix.")
               ("openssl" ,openssl)
               ("sdl-mixer" ,sdl-mixer)
               ("bennu-game-development" ,bennu-game-development)))
-    (synopsis "Modules for the Bennu Game Developement programming language")
+    (synopsis "Modules for the Bennu Game Development programming language")
     (description "This package contains a collection of modules for the Bennu
-Game Developement programming language, from CD handling through SDL to
+Game Development programming language, from CD handling through SDL to
 joystick support.")))
 
 (define-public plib
diff --git a/gnu/packages/games.scm b/gnu/packages/games.scm
index 0b93409c76..da917e2870 100644
--- a/gnu/packages/games.scm
+++ b/gnu/packages/games.scm
@@ -7,7 +7,7 @@
 ;;; Copyright © 2014 Sylvain Beucler <beuc@beuc.net>
 ;;; Copyright © 2014, 2015, 2018, 2019 Ludovic Courtès <ludo@gnu.org>
 ;;; Copyright © 2014, 2015, 2016 Sou Bunnbu <iyzsong@gmail.com>
-;;; Copyright © 2014, 2015 Mark H Weaver <mhw@netris.org>
+;;; Copyright © 2014, 2015, 2019 Mark H Weaver <mhw@netris.org>
 ;;; Copyright © 2015, 2016 Andreas Enge <andreas@enge.fr>
 ;;; Copyright © 2015 David Hashe <david.hashe@dhashe.com>
 ;;; Copyright © 2015, 2017, 2018 Christopher Lemmer Webber <cwebber@dustycloud.org>
@@ -38,6 +38,7 @@
 ;;; Copyright © 2018 Alex Vong <alexvong1995@gmail.com>
 ;;; Copyright © 2019 Pierre Neidhardt <mail@ambrevar.xyz>
 ;;; Copyright © 2019 Oleg Pykhalov <go.wigust@gmail.com>
+;;; Copyright © 2019 Pierre Langlois <pierre.langlois@gmx.com>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -237,6 +238,56 @@ enemy, ally, weapon and mission types.  Features include simulated 4D texturing,
 mouse and joystick control, and original music.")
     (license license:gpl2)))
 
+(define-public alex4
+  (package
+    (name "alex4")
+    (version "1.2-alpha")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (string-append "https://github.com/carstene1ns/alex4/archive/"
+                           version ".tar.gz"))
+       (sha256
+        (base32 "0jj1g3v1a6lyfwp5g2ly0n9z65ryqck8jxvzr01kaqjj3lsfkrhg"))))
+    (build-system gnu-build-system)
+    (arguments
+     `(#:tests? #f ; no check target
+       #:make-flags
+       (list "-Csrc"
+             "CC=gcc"
+             "CFLAGS=-D_FILE_OFFSET_BITS=64"
+             (string-append "DATADIR=" (assoc-ref %outputs "out")
+                            "/share/" ,name)
+             (string-append "PREFIX=" (assoc-ref %outputs "out")))
+       #:phases
+       (modify-phases %standard-phases
+         (replace 'configure
+           (lambda _
+             (substitute* '("src/main.c"
+                            "src/shooter.c")
+               (("fcos") "fixcos")
+               (("fmul") "fixmul")
+               (("fsin") "fixsin"))
+             #t))
+         (add-after 'install 'install-data
+           (lambda* (#:key outputs #:allow-other-keys)
+             (let ((share (string-append (assoc-ref outputs "out")
+                                         "/share/" ,name)))
+               (install-file "alex4.ini" share)
+               #t))))))
+    (inputs
+     `(("allegro" ,allegro-4)
+       ("dumb" ,dumb-allegro4)))
+    (home-page "http://allegator.sourceforge.net/")
+    (synopsis "Retro platform game")
+    (description
+     "Guide Alex the Allegator through the jungle in order to save his
+girlfriend Lola from evil humans who want to make a pair of shoes out of her.
+Plenty of classic platforming in four nice colors guaranteed!
+
+The game includes a built-in editor so you can design and share your own maps.")
+    (license license:gpl2+)))
+
 (define-public armagetron-advanced
   (package
     (name "armagetron-advanced")
@@ -1795,7 +1846,7 @@ match, cannon keep, and grave-itation pit.")
 (define minetest-data
   (package
     (name "minetest-data")
-    (version "5.0.0")
+    (version "5.0.1")
     (source (origin
               (method git-fetch)
               (uri (git-reference
@@ -1804,7 +1855,7 @@ match, cannon keep, and grave-itation pit.")
               (file-name (git-file-name name version))
               (sha256
                (base32
-                "186i1pna2f3fwa2001y8mw5131h0sndhfdxzfqq2gnr1m83sjm0w"))))
+                "1hw3n7qqpasq6bivxhq01kr0d58w0gp46s0baxixp1fakd79p8a7"))))
     (build-system trivial-build-system)
     (native-inputs
      `(("source" ,source)))
@@ -1822,14 +1873,14 @@ match, cannon keep, and grave-itation pit.")
                      #t))))
     (synopsis "Main game data for the Minetest game engine")
     (description
-     "Game data for the Minetest infinite-world block sandox game.")
+     "Game data for the Minetest infinite-world block sandbox game.")
     (home-page "http://minetest.net")
     (license license:lgpl2.1+)))
 
 (define-public minetest
   (package
     (name "minetest")
-    (version "5.0.0")
+    (version "5.0.1")
     (source (origin
               (method git-fetch)
               (uri (git-reference
@@ -1838,7 +1889,7 @@ match, cannon keep, and grave-itation pit.")
               (file-name (git-file-name name version))
               (sha256
                (base32
-                "1b8n8nzlvmld1hl3zgs1xg4jbc1nsf1m2bn7fi794vdr06s6n911"))
+                "11i8fqjpdggqfdlx440k5758zy0nbf9phxan9r63mavc7mph88ay"))
               (modules '((guix build utils)))
               (snippet
                 '(begin
@@ -1865,7 +1916,7 @@ match, cannon keep, and grave-itation pit.")
      `(("pkg-config" ,pkg-config)))
     (inputs
      `(("curl" ,curl)
-       ("freetype" ,(@ (gnu packages fontutils) freetype))
+       ("freetype" ,freetype)
        ("gettext" ,gettext-minimal)
        ("gmp" ,gmp)
        ("irrlicht" ,irrlicht)
@@ -2066,7 +2117,7 @@ This game is based on the GPL version of the famous game TuxRacer.")
 (define-public supertuxkart
   (package
     (name "supertuxkart")
-    (version "0.9.3")
+    (version "1.0")
     (source
      (origin
        (method url-fetch)
@@ -2074,55 +2125,36 @@ This game is based on the GPL version of the famous game TuxRacer.")
                            version "/supertuxkart-" version "-src.tar.xz"))
        (sha256
         (base32
-         "1c4w47ibj87lgwiqygq8qi7jiz6gklj4dwf5bs5zk15s0rqlw0fq"))
+         "106rlp99hq18b4q1kdri3pl06cc4v7iqfp1hp9k2f8751lzz923d"))
        (modules '((guix build utils)))
        (snippet
         ;; Delete bundled library sources
         '(begin
-           ;; FIXME: try to unbundle enet, and angelscript
+           ;; Supertuxkart uses modified versions of the Irrlicht engine
+           ;; and the bullet library.  The developers gave an explanation
+           ;; here: http://forum.freegamedev.net/viewtopic.php?f=17&t=3906
+           ;; FIXME: try to unbundle angelscript
            (for-each delete-file-recursively
                      '("lib/zlib"
                        "lib/libpng"
                        "lib/jpeglib"
                        "lib/glew"
-                       "lib/wiiuse"))
-           (substitute* "CMakeLists.txt"
-             ;; Supertuxkart uses modified versions of the Irrlicht engine
-             ;; and the bullet library.  The developers gave an explanation here:
-             ;; http://forum.freegamedev.net/viewtopic.php?f=17&t=3906
-             (("add_subdirectory\\(.*/(glew|zlib)\"\\)") ""))
+                       "lib/wiiuse"
+                       "lib/enet"))
            #t))))
     (build-system cmake-build-system)
     (arguments
      `(#:tests? #f ; no check target
        #:configure-flags
        (list "-DUSE_WIIUSE=0"
-             ;; Do not use the bundled zlib
+             ;; Do not use the bundled zlib, glew and enet.
              "-DNO_IRR_COMPILE_WITH_ZLIB_=TRUE"
+             "-DUSE_SYSTEM_GLEW=TRUE"
+             "-DUSE_SYSTEM_ENET=TRUE"
              ;; FIXME: needs libopenglrecorder
              "-DBUILD_RECORDER=0"
              ;; Irrlicht returns an integer instead of a boolean
-             "-DCMAKE_C_FLAGS=-fpermissive")
-       #:phases
-       (modify-phases %standard-phases
-         ;; see https://github.com/supertuxkart/stk-code/issues/3557
-         (add-after 'unpack 'patch-for-mesa-18.3
-           (lambda _
-             (substitute* "src/graphics/gl_headers.hpp"
-               (("#if !defined\\(USE_GLES2\\)")
-                "#if !defined(USE_GLES2)\n#   define __gl_glext_h_"))
-             #t))
-         (add-after 'unpack 'unbundle
-           (lambda* (#:key inputs #:allow-other-keys)
-             (substitute* "CMakeLists.txt"
-               (("glew")
-                (string-append (assoc-ref inputs "glew")
-                               "/lib/libGLEW.a"))
-               (("include_directories\\(\"\\$\\{PROJECT_SOURCE_DIR\\}/lib/glew/include\"\\)")
-                (string-append "include_directories(\""
-                               (assoc-ref inputs "glew")
-                               "/include\")")))
-             #t)))))
+             "-DCMAKE_C_FLAGS=-fpermissive")))
     (inputs
      `(("glew" ,glew)
        ("zlib" ,zlib)
@@ -2136,7 +2168,9 @@ This game is based on the GPL version of the famous game TuxRacer.")
        ("curl" ,curl)
        ;; The following input is needed to build the bundled and modified
        ;; version of irrlicht.
-       ("libjpeg" ,libjpeg)))
+       ("libjpeg" ,libjpeg)
+       ("openssl" ,openssl)
+       ("enet" ,enet)))
     (native-inputs
      `(("pkg-config" ,pkg-config)))
     (home-page "https://supertuxkart.net/")
@@ -4476,7 +4510,7 @@ fish.  The whole game is accompanied by quiet, comforting music.")
 (define-public dungeon-crawl-stone-soup
   (package
     (name "dungeon-crawl-stone-soup")
-    (version "0.23.1")
+    (version "0.23.2")
     (source
      (origin
        (method url-fetch)
@@ -4489,8 +4523,7 @@ fish.  The whole game is accompanied by quiet, comforting music.")
              (string-append "http://crawl.develz.org/release/stone_soup-"
                             version "-nodeps.tar.xz")))
        (sha256
-        (base32
-         "0c3mx49kpz6i2xvv2dwsaj9s7mm4mif1h2qdkfyi80lv2j1ay51h"))
+        (base32 "1hw10hqhh688mrqs9vxrl17y1dzfjzsmxz6izg1a9dzmjlhrc01a"))
        (patches (search-patches "crawl-upgrade-saves.patch"))))
     (build-system gnu-build-system)
     (inputs
@@ -4512,7 +4545,7 @@ fish.  The whole game is accompanied by quiet, comforting music.")
          (list (string-append "SQLITE_INCLUDE_DIR=" sqlite "/include")
                (string-append "prefix=" out)
                "SAVEDIR=~/.crawl"
-               ;; Don't compile with SSE on systems which don't use it
+               ;; Don't compile with SSE on systems which don't have it.
                ,@(match (%current-system)
                    ((or "i686-linux" "x86_64-linux")
                     '())
@@ -6486,7 +6519,7 @@ the desired spell.")
 (define-public the-legend-of-edgar
   (package
     (name "the-legend-of-edgar")
-    (version "1.30")
+    (version "1.31")
     (source
      (origin
        (method url-fetch)
@@ -6494,10 +6527,9 @@ the desired spell.")
         (string-append "https://github.com/riksweeney/edgar/releases/download/"
                        version "/edgar-" version "-1.tar.gz"))
        (sha256
-        (base32
-         "0bhbs33dg0nb8wqlh6px1jj41j05f89ngdqwdkffabmjk7wq5isx"))))
+        (base32 "0i4851ci8a86ql4bhdq3xdfmf4b9z5zrd4xpc6vhi06697zgm13i"))))
     (build-system gnu-build-system)
-    (arguments '(#:tests? #f                    ; there are no tests
+    (arguments '(#:tests? #f            ; there are no tests
                  #:make-flags
                  (list "CC=gcc"
                        (string-append "PREFIX=" (assoc-ref %outputs "out"))
@@ -6507,14 +6539,13 @@ the desired spell.")
                    (delete 'configure)
                    (add-before 'build 'fix-env
                      (lambda* (#:key inputs #:allow-other-keys)
-                       (setenv "CPATH" (string-append (assoc-ref inputs "sdl")
-                                                      "/include/SDL/"))
+                       (setenv "CPATH"
+                               (string-append (assoc-ref inputs "sdl2-union")
+                                              "/include/SDL2"))
                        #t)))))
-    (inputs `(("sdl" ,sdl)
-              ("sdl-img" ,sdl-image)
-              ("sdl-mixer" ,sdl-mixer)
-              ("sdl-ttf" ,sdl-ttf)
-              ("zlib" ,zlib)))
+    (inputs
+     `(("sdl2-union" ,(sdl-union (list sdl2 sdl2-image sdl2-mixer sdl2-ttf)))
+       ("zlib" ,zlib)))
     (native-inputs
      `(("pkg-config" ,pkg-config)
        ("autoconf" ,autoconf)
diff --git a/gnu/packages/gnupg.scm b/gnu/packages/gnupg.scm
index 0795be3619..2ee65015a6 100644
--- a/gnu/packages/gnupg.scm
+++ b/gnu/packages/gnupg.scm
@@ -369,7 +369,7 @@ libskba (working with X.509 certificates and CMS data).")
 (define-public gpgme
   (package
     (name "gpgme")
-    (version "1.12.0")
+    (version "1.13.0")
     (source
      (origin
       (method url-fetch)
@@ -377,16 +377,7 @@ libskba (working with X.509 certificates and CMS data).")
                           ".tar.bz2"))
       (sha256
        (base32
-        "1n4c1q2ls7sqx1vpr3p5n8vbjkw6kqp8jxqa28p0x9j36wf9bp5l"))
-      ;; One test fails because the conflict keys have expired.  See
-      ;; https://dev.gnupg.org/T3815
-      (patches (list (origin
-                       (method url-fetch)
-                       (uri "https://dev.gnupg.org/rM66376f3e206a1aa791d712fb8577bb3490268f60?diff=1")
-                       (file-name "gpgme-fix-conflict-test-keys.patch")
-                       (sha256
-                        (base32
-                         "0j718iy5a9fhkrfs4gzrnm4ggi163prqf1i8lfmqczswvz88zfly")))))))
+        "0c6676g0yhfsmy32i1dgwh5cx0ja8vhcqf4k08zad177m53kxcnl"))))
     (build-system gnu-build-system)
     (native-inputs
      `(("gnupg" ,gnupg)))
diff --git a/gnu/packages/guile-xyz.scm b/gnu/packages/guile-xyz.scm
index e7f9e8fe93..03fd63837e 100644
--- a/gnu/packages/guile-xyz.scm
+++ b/gnu/packages/guile-xyz.scm
@@ -948,40 +948,37 @@ Guile.")
        `(("guile" ,guile-2.2)
          ("guile-email" ,guile-email))))))
 
-;; There has not been any release yet.
 (define-public guile-newt
-  (let ((commit "80c1e9e71945f833386d1632b52573e59325804f")
-        (revision "4"))
-    (package
-      (name "guile-newt")
-      (version (string-append "0-" revision "." (string-take commit 9)))
-      (source (origin
-                (method git-fetch)
-                (uri (git-reference
-                      (url "https://gitlab.com/mothacehe/guile-newt")
-                      (commit commit)))
-                (file-name (string-append name "-" version "-checkout"))
-                (sha256
-                 (base32
-                  "1w7qy4dw1f4bx622l6hw8mv49sf1ha8kch8j4nganyk8fj0wn695"))))
-      (build-system gnu-build-system)
-      (arguments
-       '(#:make-flags
-         '("GUILE_AUTO_COMPILE=0"))) ;to prevent guild warnings
-      (inputs
-       `(("guile" ,guile-2.2)
-         ("newt" ,newt)))
-      (native-inputs
-       `(("autoconf" ,autoconf)
-         ("automake" ,automake)
-         ("pkg-config" ,pkg-config)))
-      (synopsis "Guile bindings to Newt")
-      (description
-       "This package provides bindings for Newt, a programming library for
+  (package
+    (name "guile-newt")
+    (version "0.0.1")
+    (source (origin
+              (method git-fetch)
+              (uri (git-reference
+                    (url "https://gitlab.com/mothacehe/guile-newt")
+                    (commit version)))
+              (file-name (git-file-name name version))
+              (sha256
+               (base32
+                "1w7qy4dw1f4bx622l6hw8mv49sf1ha8kch8j4nganyk8fj0wn695"))))
+    (build-system gnu-build-system)
+    (arguments
+     '(#:make-flags
+       '("GUILE_AUTO_COMPILE=0"))) ;to prevent guild warnings
+    (inputs
+     `(("guile" ,guile-2.2)
+       ("newt" ,newt)))
+    (native-inputs
+     `(("autoconf" ,autoconf)
+       ("automake" ,automake)
+       ("pkg-config" ,pkg-config)))
+    (synopsis "Guile bindings to Newt")
+    (description
+     "This package provides bindings for Newt, a programming library for
 color text mode, widget based user interfaces.  The bindings are written in pure
 Scheme by using Guile’s foreign function interface.")
-      (home-page "https://gitlab.com/mothacehe/guile-newt")
-      (license license:gpl3+))))
+    (home-page "https://gitlab.com/mothacehe/guile-newt")
+    (license license:gpl3+)))
 
 (define-public guile-mastodon
   (package
@@ -1012,42 +1009,39 @@ Scheme by using Guile’s foreign function interface.")
 microblogging service.")
     (license license:gpl3+)))
 
-;; There has not been any release yet.
 (define-public guile-parted
-  (let ((commit "ea3f1a1f6844775fc59d3078d2a09c62ffb341b8")
-        (revision "0"))
-    (package
-      (name "guile-parted")
-      (version (string-append "0-" revision "." (string-take commit 9)))
-      (source (origin
-                (method git-fetch)
-                (uri (git-reference
-                      (url "https://gitlab.com/mothacehe/guile-parted")
-                      (commit commit)))
-                (file-name (string-append name "-" version "-checkout"))
-                (sha256
-                 (base32
-                  "1q7425gpjlwi2wvhzq7kw046yyx7v6j6jyzkd1cr861iz34mjwiq"))))
-      (build-system gnu-build-system)
-      (arguments
-       '(#:make-flags
-         '("GUILE_AUTO_COMPILE=0"))) ;to prevent guild warnings
-      (inputs
-       `(("guile" ,guile-2.2)
-         ("parted" ,parted)))
-      (propagated-inputs
-       `(("guile-bytestructures" ,guile-bytestructures)))
-      (native-inputs
-       `(("autoconf" ,autoconf)
-         ("automake" ,automake)
-         ("pkg-config" ,pkg-config)))
-      (synopsis "Guile bindings to GNU Parted")
-      (description
-       "This package provides bindings for GNU Parted library, a C library
-allowing disk partition tables creation and manipulation. The bindings are
+  (package
+    (name "guile-parted")
+    (version "0.0.1")
+    (source (origin
+              (method git-fetch)
+              (uri (git-reference
+                    (url "https://gitlab.com/mothacehe/guile-parted")
+                    (commit version)))
+              (file-name (git-file-name name version))
+              (sha256
+               (base32
+                "1q7425gpjlwi2wvhzq7kw046yyx7v6j6jyzkd1cr861iz34mjwiq"))))
+    (build-system gnu-build-system)
+    (arguments
+     '(#:make-flags
+       '("GUILE_AUTO_COMPILE=0"))) ;to prevent guild warnings
+    (inputs
+     `(("guile" ,guile-2.2)
+       ("parted" ,parted)))
+    (propagated-inputs
+     `(("guile-bytestructures" ,guile-bytestructures)))
+    (native-inputs
+     `(("autoconf" ,autoconf)
+       ("automake" ,automake)
+       ("pkg-config" ,pkg-config)))
+    (synopsis "Guile bindings to GNU Parted")
+    (description
+     "This package provides bindings for GNU Parted library, a C library
+allowing disk partition tables creation and manipulation.  The bindings are
 written in pure Scheme by using Guile's foreign function interface.")
-      (home-page "https://gitlab.com/mothacehe/guile-parted")
-      (license license:gpl3+))))
+    (home-page "https://gitlab.com/mothacehe/guile-parted")
+    (license license:gpl3+)))
 
 (define-public guile-xosd
   (package
diff --git a/gnu/packages/haskell.scm b/gnu/packages/haskell.scm
index 3d269cea83..4b4a4b5e00 100644
--- a/gnu/packages/haskell.scm
+++ b/gnu/packages/haskell.scm
@@ -12,7 +12,7 @@
 ;;; Copyright © 2017 Peter Mikkelsen <petermikkelsen10@gmail.com>
 ;;; Copyright © 2017, 2018 Alex Vong <alexvong1995@gmail.com>
 ;;; Copyright © 2017 rsiddharth <s@ricketyspace.net>
-;;; Copyright © 2017, 2018 Tobias Geerinckx-Rice <me@tobias.gr>
+;;; Copyright © 2017, 2018, 2019 Tobias Geerinckx-Rice <me@tobias.gr>
 ;;; Copyright © 2018 Tonton <tonton@riseup.net>
 ;;; Copyright © 2018, 2019 Timothy Sample <samplet@ngyro.com>
 ;;; Copyright © 2018 Arun Isaac <arunisaac@systemreboot.net>
@@ -1335,7 +1335,7 @@ Happy works in a similar way to the yacc tool for C.")
 (define-public ghc-haskell-lexer
   (package
     (name "ghc-haskell-lexer")
-    (version "1.0.1")
+    (version "1.0.2")
     (source
      (origin
        (method url-fetch)
@@ -1343,8 +1343,7 @@ Happy works in a similar way to the yacc tool for C.")
              "https://hackage.haskell.org/package/haskell-lexer/haskell-lexer-"
              version ".tar.gz"))
        (sha256
-        (base32
-         "0rj3r1pk88hh3sk3mj61whp8czz5kpxhbc78xlr04bxwqjrjmm6p"))))
+        (base32 "1wyxd8x33x4v5vxyzkhm610pl86gbkc8y439092fr1735q9g7kfq"))))
     (build-system haskell-build-system)
     (home-page "http://hackage.haskell.org/package/haskell-lexer")
     (synopsis "Fully compliant Haskell 98 lexer")
diff --git a/gnu/packages/ibus.scm b/gnu/packages/ibus.scm
index 77aecce9f2..f652cca1c2 100644
--- a/gnu/packages/ibus.scm
+++ b/gnu/packages/ibus.scm
@@ -57,7 +57,7 @@
 (define-public ibus
   (package
     (name "ibus")
-    (version "1.5.19")
+    (version "1.5.20")
     (source (origin
               (method url-fetch)
               (uri (string-append "https://github.com/ibus/ibus/"
@@ -65,23 +65,15 @@
                                   version "/ibus-" version ".tar.gz"))
               (sha256
                (base32
-                "0a94bnpm24581317hdnihwr4cniriml10p4ffgxg14xhvaccfrjb"))))
+                "0d6hcbw6ai91jl87lqnyn8bxi5y5kba5i9nz7knknyh69g5fbwac"))))
     (build-system glib-or-gtk-build-system)
     (arguments
      `(#:tests? #f  ; tests fail because there's no connection to dbus
        #:configure-flags `("--disable-emoji-dict" ; cannot find emoji.json path
-                           "--disable-python2"
                            "--enable-python-library"
                            ,(string-append "--with-ucd-dir="
                                            (getcwd) "/ucd")
                            "--enable-wayland")
-       #:make-flags
-       (list "CC=gcc"
-             (string-append "pyoverridesdir="
-                            (assoc-ref %outputs "out")
-                            "/lib/python"
-                            ,(version-major+minor (package-version python))
-                            "/site-packages/gi/overrides/"))
        #:phases
        (modify-phases %standard-phases
          (add-after 'unpack 'prepare-ucd-dir
@@ -90,6 +82,18 @@
              (symlink (assoc-ref inputs "unicode-blocks") "../ucd/Blocks.txt")
              (symlink (assoc-ref inputs "unicode-nameslist") "../ucd/NamesList.txt")
              #t))
+         (add-after 'unpack 'patch-python-target-directories
+           (lambda* (#:key outputs #:allow-other-keys)
+             (let ((root (string-append (assoc-ref outputs "out")
+                                        "/lib/python"
+                                        ,(version-major+minor (package-version python))
+                                        "/site-packages")))
+               (substitute* "configure"
+                 (("(py2?overridesdir)=.*" _ var)
+                  (string-append var "=" root "/gi/overrides/"))
+                 (("(pkgpython2dir=).*" _ var)
+                  (string-append var root "/ibus"))))
+             #t))
          (add-before 'configure 'disable-dconf-update
            (lambda _
              (substitute* "data/dconf/Makefile.in"
@@ -131,7 +135,7 @@
        ("gconf" ,gconf)
        ("gtk2" ,gtk+-2)
        ("gtk+" ,gtk+)
-       ("intltool" ,intltool)
+       ("gettext" ,gnu-gettext)
        ("json-glib" ,json-glib)
        ("libnotify" ,libnotify)
        ("libx11" ,libx11)
@@ -175,7 +179,7 @@ may also simplify input method development.")
 (define-public ibus-libpinyin
   (package
     (name "ibus-libpinyin")
-    (version "1.10.0")
+    (version "1.11.0")
     (source (origin
               (method url-fetch)
               (uri (string-append "https://github.com/libpinyin/ibus-libpinyin/"
@@ -183,7 +187,7 @@ may also simplify input method development.")
                                   "/ibus-libpinyin-" version ".tar.gz"))
               (sha256
                (base32
-                "0yq8aw4lddiviag8cnik6fp52vvk8lxv6bym13a3xya84c6zii3c"))))
+                "1sypbr5n96sf7mgqhxrwbawdmszgb6yi28iqkmfmb8xr93pwq7fq"))))
     (build-system glib-or-gtk-build-system)
     (arguments
      `(#:phases
@@ -209,6 +213,7 @@ may also simplify input method development.")
        ("sqlite" ,sqlite)
        ("python" ,python)
        ("pyxdg" ,python-pyxdg)
+       ("pygobject2" ,python-pygobject)
        ("gtk+" ,gtk+)))
     (native-inputs
      `(("pkg-config" ,pkg-config)
@@ -224,15 +229,15 @@ ZhuYin (Bopomofo) input method based on libpinyin for IBus.")
 (define-public libpinyin
   (package
     (name "libpinyin")
-    (version "2.2.0")
+    (version "2.3.0")
     (source (origin
               (method url-fetch)
               (uri (string-append "https://github.com/libpinyin/libpinyin/"
                                   "releases/download/" version
-                                  "/libpinyin-2.2.0.tar.gz"))
+                                  "/libpinyin-" version ".tar.gz"))
               (sha256
                (base32
-                "1c4wxvcvjxvk23mcwqvsfsv4nhimx4kpjhabxa28gx1ih10l88gj"))))
+                "14969v6w8n1aiqphl2386dws7dmsdwbzyqnlz4kr8ppm39m9rp5k"))))
     (build-system gnu-build-system)
     (inputs
      `(("glib" ,glib)
diff --git a/gnu/packages/image.scm b/gnu/packages/image.scm
index 3b2bb23252..4443e1c83d 100644
--- a/gnu/packages/image.scm
+++ b/gnu/packages/image.scm
@@ -87,6 +87,7 @@
   (package
    (name "libpng")
    (version "1.6.34")
+   (replacement libpng-1.6.37)
    (source (origin
             (method url-fetch)
             (uri (list (string-append "mirror://sourceforge/libpng/libpng16/"
@@ -112,6 +113,25 @@ library.  It supports almost all PNG features and is extensible.")
    (license license:zlib)
    (home-page "http://www.libpng.org/pub/png/libpng.html")))
 
+;; This graft exists to fix CVE-2018-14048, CVE-2018-14550, and CVE-2019-7317.
+(define-public libpng-1.6.37
+  (package
+    (inherit libpng)
+    (version "1.6.37")
+    (source (origin
+              (method url-fetch)
+              (uri (list (string-append "mirror://sourceforge/libpng/libpng16/"
+                                        version "/libpng-" version ".tar.xz")
+                         (string-append
+                          "ftp://ftp.simplesystems.org/pub/libpng/png/src"
+                          "/libpng16/libpng-" version ".tar.xz")
+                         (string-append
+                          "ftp://ftp.simplesystems.org/pub/libpng/png/src/history"
+                          "/libpng16/libpng-" version ".tar.xz")))
+              (sha256
+               (base32
+                "1jl8in381z0128vgxnvn33nln6hzckl7l7j9nqvkaf1m9n1p0pjh"))))))
+
 ;; libpng-apng should be updated when the APNG patch is released:
 ;; <https://bugs.gnu.org/27556>
 (define-public libpng-apng
@@ -1153,13 +1173,13 @@ the programmer.")
     (version "1.3")
     (source
      (origin
-       (method url-fetch)
-       (uri (string-append "https://github.com/myint/perceptualdiff/archive/v"
-                           version ".tar.gz"))
-       (file-name (string-append name "-" version ".tar.gz"))
-        (sha256
-         (base32
-          "0zl6xmp971fffg7fzcz2fbgxg5x2w7l8qa65c008i4kbkc9016ps"))))
+       (method git-fetch)
+       (uri (git-reference
+             (url "https://github.com/myint/perceptualdiff.git")
+             (commit (string-append "v" version))))
+       (file-name (git-file-name name version))
+       (sha256
+        (base32 "0yys55f9i9g3wjjg0j2m0p0k21zwnid8520a8lrr30khm4k5gibp"))))
     (build-system cmake-build-system)
     (inputs `(("freeimage" ,freeimage)))
     (arguments
@@ -1505,15 +1525,14 @@ in-memory raw vectors.")
 (define-public gifsicle
   (package
    (name "gifsicle")
-   (version "1.91")
+   (version "1.92")
    (source
      (origin
        (method url-fetch)
-       (uri (string-append "http://www.lcdf.org/gifsicle/gifsicle-"
+       (uri (string-append "https://www.lcdf.org/gifsicle/gifsicle-"
                            version ".tar.gz"))
        (sha256
-        (base32
-         "00586z1yz86qcblgmf16yly39n4lkjrscl52hvfxqk14m81fckha"))))
+        (base32 "0rffpzxcak19k6cngpxn73khvm3z1gswrqs90ycdzzb53p05ddas"))))
    (build-system gnu-build-system)
    (arguments
     '(#:phases
@@ -1528,9 +1547,9 @@ in-memory raw vectors.")
               (("/bin/rm")
                (which "rm")))
             #t)))))
-   (native-inputs `(("perl" ,perl))) ; Only for tests.
+   (native-inputs `(("perl" ,perl)))    ; only for tests
    (inputs `(("libx11" ,libx11)))
-   (home-page "http://www.lcdf.org/gifsicle/")
+   (home-page "https://www.lcdf.org/gifsicle/")
    (synopsis "Edit GIF images and animations")
    (description "Gifsicle is a command-line GIF image manipulation tool that:
 
diff --git a/gnu/packages/libedit.scm b/gnu/packages/libedit.scm
index b5e20f30f8..7681677938 100644
--- a/gnu/packages/libedit.scm
+++ b/gnu/packages/libedit.scm
@@ -1,7 +1,7 @@
 ;;; GNU Guix --- Functional package management for GNU
 ;;; Copyright © 2015 Federico Beffa <beffa@fbengineering.ch>
 ;;; Copyright © 2015 Ricardo Wurmus <rekado@elephly.net>
-;;; Copyright © 2018 Tobias Geerinckx-Rice <me@tobias.gr>
+;;; Copyright © 2018, 2019 Tobias Geerinckx-Rice <me@tobias.gr>
 ;;; Copyright © 2019 Gábor Boskovits <boskovits@gmail.com>
 ;;;
 ;;; This file is part of GNU Guix.
@@ -29,15 +29,14 @@
 (define-public libedit
   (package
     (name "libedit")
-    (version "20181209-3.1")
+    (version "20190324-3.1")
     (source
      (origin
       (method url-fetch)
       (uri (string-append "http://thrysoee.dk/editline"
-                          "/" name "-" version ".tar.gz"))
+                          "/libedit-" version ".tar.gz"))
       (sha256
-       (base32
-        "0r0hc4lg71xnn0vrrk2g7is42i0k0dra7cbw3fljq3q01c6df498"))))
+       (base32 "1bhvp8xkkgrg89k4ci1k8vjl3nhb6szd4ghy9lp4jrfgq58hz3xc"))))
     (build-system gnu-build-system)
     (inputs
      `(("ncurses" ,ncurses)))
diff --git a/gnu/packages/libreoffice.scm b/gnu/packages/libreoffice.scm
index 3b8fa514d1..9f5bedd913 100644
--- a/gnu/packages/libreoffice.scm
+++ b/gnu/packages/libreoffice.scm
@@ -554,8 +554,8 @@ Java.")
     (source
      (origin
       (method url-fetch)
-      (uri (string-append "https://dev-www.libreoffice.org/src/" name "/"
-                          name "-" version ".tar.xz"))
+      (uri (string-append "https://dev-www.libreoffice.org/src/libpagemaker/"
+                          "libpagemaker-" version ".tar.xz"))
       (sha256 (base32
                "17ai8ajffr0ixxmmcv3k5vgjlcsix38ldb4fw2arild70pbsrbb6"))))
     (build-system gnu-build-system)
@@ -581,8 +581,8 @@ created by PageMaker version 6.x and 7.")
     (source
      (origin
       (method url-fetch)
-      (uri (string-append "http://dev-www.libreoffice.org/src/" name "/"
-                          name "-" version ".tar.xz"))
+      (uri (string-append "http://dev-www.libreoffice.org/src/libvisio/"
+                          "libvisio-" version ".tar.xz"))
       (sha256 (base32
                "1yahpfl13qk6178irv8jn5ppxdn7isafqisyqsdw0lqxcz9h447y"))))
     (build-system gnu-build-system)
@@ -611,8 +611,8 @@ Microsoft Visio documents of all versions.")
     (source
      (origin
       (method url-fetch)
-      (uri (string-append "mirror://sourceforge/libwpd/" name "/"
-                          name "-" version "/" name "-" version ".tar.xz"))
+      (uri (string-append "mirror://sourceforge/libwpd/libodfgen/"
+                          "libodfgen-" version "/libodfgen-" version ".tar.xz"))
       (sha256 (base32
                "0cdq48wlpp8m0qmndybv64r0m4vh0qsqx69cn6ms533cjlgljgij"))))
     (build-system gnu-build-system)
@@ -638,14 +638,14 @@ text documents, vector drawings, presentations and spreadsheets.")
 (define-public libmwaw
   (package
     (name "libmwaw")
-    (version "0.3.14")
+    (version "0.3.15")
     (source
      (origin
       (method url-fetch)
-      (uri (string-append "mirror://sourceforge/" name "/" name "/" name "-"
-                          version "/" name "-" version ".tar.xz"))
+      (uri (string-append "mirror://sourceforge/libmwaw/libmwaw/libmwaw-"
+                          version "/libmwaw-" version ".tar.xz"))
       (sha256 (base32
-               "1s9wyf8pyh3fbazq2d2b6fgi7s7bid60viw2xbdkmn2ywlfbza5c"))))
+               "1cdhm9yhanyv3w4vr73zhgyynmkhhkp3dyld7m11jd2yy04vnh04"))))
     (build-system gnu-build-system)
     (native-inputs
      `(("doxygen" ,doxygen)
diff --git a/gnu/packages/linux.scm b/gnu/packages/linux.scm
index b429cda354..b44598996b 100644
--- a/gnu/packages/linux.scm
+++ b/gnu/packages/linux.scm
@@ -423,8 +423,8 @@ for ARCH and optionally VARIANT, or #f if there is no such configuration."
 It has been modified to remove all non-free binary blobs.")
     (license license:gpl2)))
 
-(define %linux-libre-version "5.0.7")
-(define %linux-libre-hash "0c8g20crv03xxxpirj0jylcxxy33dn9f9x7viv451rzh9frc5mal")
+(define %linux-libre-version "5.0.9")
+(define %linux-libre-hash "0j2xnpvc13370kprnnq79a08bq6dak0iab94d9hsc6m8v1rxaw2i")
 
 (define %linux-libre-5.0-patches
   (list %boot-logo-patch
@@ -459,8 +459,8 @@ It has been modified to remove all non-free binary blobs.")
 between the CDemu userspace daemon and linux kernel.")
     (license license:gpl2+)))
 
-(define %linux-libre-4.19-version "4.19.34")
-(define %linux-libre-4.19-hash "0rmpyj2qb651p2k2srpjndjxry87hr5vq0jkk4rvxjhm5y3sb65l")
+(define %linux-libre-4.19-version "4.19.36")
+(define %linux-libre-4.19-hash "0dvwza26spa742iznz7rfgsyl4f07x8i6jh2cv5hma9l9fpqc9pi")
 
 (define %linux-libre-4.19-patches
   (list %boot-logo-patch
@@ -473,8 +473,8 @@ between the CDemu userspace daemon and linux kernel.")
                     #:patches %linux-libre-4.19-patches
                     #:configuration-file kernel-config))
 
-(define %linux-libre-4.14-version "4.14.111")
-(define %linux-libre-4.14-hash "1b34f96yigdxxh5wg798933nrv7rak1w0v0q1jfviyrllrg3hkmq")
+(define %linux-libre-4.14-version "4.14.113")
+(define %linux-libre-4.14-hash "0z547pdi1vhybyhnfr5krsfyxmdwnv5p5fps9jjyx6rvkxasddvh")
 
 (define-public linux-libre-4.14
   (make-linux-libre %linux-libre-4.14-version
@@ -483,8 +483,8 @@ between the CDemu userspace daemon and linux kernel.")
                     #:configuration-file kernel-config))
 
 (define-public linux-libre-4.9
-  (make-linux-libre "4.9.168"
-                    "1nli5di7i7x4jyad7nappm1awz207rg18n08wb82b1w8rwqyqgy3"
+  (make-linux-libre "4.9.170"
+                    "15fz2qxvic4sfxm8vi0rghqqi5rv038xyrq9dl6fz6i1c7497g8s"
                     '("x86_64-linux" "i686-linux")
                     #:configuration-file kernel-config))
 
@@ -4148,7 +4148,7 @@ of flash storage.")
 (define-public libseccomp
   (package
     (name "libseccomp")
-    (version "2.4.0")
+    (version "2.4.1")
     (source (origin
               (method url-fetch)
               (uri (string-append "https://github.com/seccomp/libseccomp/"
@@ -4156,7 +4156,7 @@ of flash storage.")
                                   "/libseccomp-" version ".tar.gz"))
               (sha256
                (base32
-                "0paj1szszpf8plykrd66jqg1x3kmqs395rbjskahld2bnplcfx1f"))))
+                "1s06h2cgk0xxwmhwj72z33bllafc1xqnxzk2yyra2rmg959778qw"))))
     (build-system gnu-build-system)
     (native-inputs
      `(("which" ,which)))
diff --git a/gnu/packages/mail.scm b/gnu/packages/mail.scm
index 2ae3fda9a7..844e393a9e 100644
--- a/gnu/packages/mail.scm
+++ b/gnu/packages/mail.scm
@@ -919,51 +919,43 @@ ing, and tagging large collections of email messages.")
     (license gpl3+)))
 
 (define-public notmuch-addrlookup-c
-  ;; This commit includes a compatibility fix for notmuch-0.25, and is not
-  ;; currently part of any release.  Please update this package when
-  ;; notmuch-addrlookup-c-9 is released.
-  (let ((commit "88f156d04990a71c6ad6fc2757b537b44e3c4d00")
-        (revision "1"))          ;Guix package revision
-    (package
-      (name "notmuch-addrlookup-c")
-      (version (string-append "8-" revision "."
-                              (string-take commit 7)))
-      (source (origin
-                (method git-fetch)
-                (uri (git-reference
-                      (url "https://github.com/aperezdc/notmuch-addrlookup-c.git")
-                      (commit commit)))
-                (file-name (string-append name "-" version "-checkout"))
-                (sha256
-                 (base32
-                  "0v0wzs7qzy4n1hbql8s10qrwgalcxdzbxf8pj6cii1pv2jwmkxbm"))))
-      (build-system gnu-build-system)
-      (arguments
-       '(#:tests? #f ; no tests
-         #:make-flags (list "CC=gcc"
-                            (string-append "PREFIX="
-                                           (assoc-ref %outputs "out")))
-         #:phases (modify-phases %standard-phases
-                    (delete 'configure)
-                    ;; Remove vim code completion config, it's not needed to
-                    ;; build (or be patched).
-                    (add-before 'patch-source-shebangs 'delete-ycm-file
-                                (lambda _ (delete-file ".ycm_extra_conf.py")))
-                    (replace 'install
-                             (lambda* (#:key outputs #:allow-other-keys)
-                               (let ((bin (string-append
-                                           (assoc-ref outputs "out") "/bin")))
-                                 (install-file "notmuch-addrlookup" bin)))))))
-      (native-inputs
-       `(("pkg-config" ,pkg-config)))
-      (inputs
-       `(("glib" ,glib)
-         ("notmuch" ,notmuch)))
-      (home-page "https://github.com/aperezdc/notmuch-addrlookup-c")
-      (synopsis "Address lookup tool for Notmuch")
-      (description "This is an address lookup tool using a Notmuch database,
+  (package
+    (name "notmuch-addrlookup-c")
+    (version (string-append "9"))
+    (source (origin
+              (method git-fetch)
+              (uri (git-reference
+                    (url "https://github.com/aperezdc/notmuch-addrlookup-c.git")
+                    (commit (string-append "v" version))))
+              (file-name (string-append name "-" version "-checkout"))
+              (sha256
+               (base32
+                "1j3zdx161i1x4w0nic14ix5i8hd501rb31daf8api0k8855sx4rc"))))
+    (build-system gnu-build-system)
+    (arguments
+     '(#:tests? #f ; no tests
+       #:make-flags (list "CC=gcc")
+       #:phases (modify-phases %standard-phases
+                  (delete 'configure)
+                  ;; Remove vim code completion config, it's not needed to
+                  ;; build (or be patched).
+                  (add-before 'patch-source-shebangs 'delete-ycm-file
+                    (lambda _ (delete-file ".ycm_extra_conf.py")))
+                  (replace 'install
+                    (lambda* (#:key outputs #:allow-other-keys)
+                      (let ((bin (string-append
+                                  (assoc-ref outputs "out") "/bin")))
+                        (install-file "notmuch-addrlookup" bin)))))))
+    (native-inputs
+     `(("pkg-config" ,pkg-config)))
+    (inputs
+     `(("glib" ,glib)
+       ("notmuch" ,notmuch)))
+    (home-page "https://github.com/aperezdc/notmuch-addrlookup-c")
+    (synopsis "Address lookup tool for Notmuch")
+    (description "This is an address lookup tool using a Notmuch database,
 useful for email address completion.")
-      (license license:expat))))
+    (license license:expat)))
 
 (define-public python-notmuch
   (package
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 9bf5f03390..25de298d5a 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -7,7 +7,7 @@
 ;;; Copyright © 2014 Mathieu Lirzin <mathieu.lirzin@openmailbox.org>
 ;;; Copyright © 2015, 2016, 2017, 2018, 2019 Ricardo Wurmus <rekado@elephly.net>
 ;;; Copyright © 2015 Sou Bunnbu <iyzsong@gmail.com>
-;;; Copyright © 2015 Mark H Weaver <mhw@netris.org>
+;;; Copyright © 2015, 2018 Mark H Weaver <mhw@netris.org>
 ;;; Copyright © 2015, 2016, 2017, 2018, 2019 Efraim Flashner <efraim@flashner.co.il>
 ;;; Copyright © 2015 Fabian Harfert <fhmgufs@web.de>
 ;;; Copyright © 2016 Roel Janssen <roel@gnu.org>
@@ -2796,12 +2796,12 @@ to BMP, JPEG or PNG image formats.")
              ;; of Debian's Maxima package.
              ;; If Maxima can successfully run this, the binary to be installed
              ;; should be fine.
-             (zero?
-              (system
-               (string-append "./maxima-local "
-                              "--lisp=gcl "
-                              "--batch-string=\"run_testsuite();\" "
-                              "| grep -q \"No unexpected errors found\"")))))
+             (invoke "sh" "-c"
+                     (string-append
+                      "./maxima-local "
+                      "--lisp=gcl "
+                      "--batch-string=\"run_testsuite();\" "
+                      "| grep -q \"No unexpected errors found\""))))
          ;; Make sure the doc and emacs files are found in the
          ;; standard location.  Also configure maxima to find gnuplot
          ;; without having it on the PATH.
diff --git a/gnu/packages/mtools.scm b/gnu/packages/mtools.scm
index 5be3da0137..b93d5789b9 100644
--- a/gnu/packages/mtools.scm
+++ b/gnu/packages/mtools.scm
@@ -1,6 +1,6 @@
 ;;; GNU Guix --- Functional package management for GNU
 ;;; Copyright © 2013 John Darrington <jmd@gnu.org>
-;;; Copyright © 2015 Ludovic Courtès <ludo@gnu.org>
+;;; Copyright © 2015, 2019 Ludovic Courtès <ludo@gnu.org>
 ;;; Copyright © 2018 Tobias Geerinckx-Rice <me@tobias.gr>
 ;;; Copyright © 2018 Efraim Flashner <efraim@flashner.co.il>
 ;;;
@@ -23,20 +23,22 @@
   #:use-module (guix licenses)
   #:use-module (guix packages)
   #:use-module (guix download)
-  #:use-module (guix build-system gnu))
+  #:use-module (guix build-system gnu)
+  #:use-module (gnu packages))
 
 (define-public mtools
   (package
     (name "mtools")
     (version "4.0.23")
-    (source
-     (origin
-      (method url-fetch)
-      (uri (string-append "mirror://gnu/mtools/mtools-"
-                          version ".tar.bz2"))
-      (sha256
-       (base32
-        "1qwfxzr964fasxlzhllahk8mzh7c82s808wvly95dsqsflkdp27i"))))
+    (source (origin
+              (method url-fetch)
+              (uri (string-append "mirror://gnu/mtools/mtools-"
+                                  version ".tar.bz2"))
+              (sha256
+               (base32
+                "1qwfxzr964fasxlzhllahk8mzh7c82s808wvly95dsqsflkdp27i"))
+              (patches
+               (search-patches "mtools-mformat-uninitialized.patch"))))
     (build-system gnu-build-system)
     (home-page "https://www.gnu.org/software/mtools/")
     (synopsis "Access MS-DOS disks without mounting")
diff --git a/gnu/packages/music.scm b/gnu/packages/music.scm
index 10a23c919f..c0b0163d62 100644
--- a/gnu/packages/music.scm
+++ b/gnu/packages/music.scm
@@ -5,7 +5,7 @@
 ;;; Copyright © 2016 Al McElrath <hello@yrns.org>
 ;;; Copyright © 2016, 2017 Efraim Flashner <efraim@flashner.co.il>
 ;;; Copyright © 2016, 2018 Leo Famulari <leo@famulari.name>
-;;; Copyright © 2016, 2017 Kei Kebreau <kkebreau@posteo.net>
+;;; Copyright © 2016, 2017, 2019 Kei Kebreau <kkebreau@posteo.net>
 ;;; Copyright © 2016 John J. Foerch <jjfoerch@earthlink.net>
 ;;; Copyright © 2016 Alex Griffin <a@ajgrf.com>
 ;;; Copyright © 2017 ng0 <ng0@n0.is>
@@ -81,6 +81,7 @@
   #:use-module (gnu packages fonts)
   #:use-module (gnu packages fontutils)
   #:use-module (gnu packages freedesktop)
+  #:use-module (gnu packages game-development)
   #:use-module (gnu packages gcc)
   #:use-module (gnu packages gnupg)
   #:use-module (gnu packages gettext)
@@ -446,6 +447,51 @@ background while you work.")
     (home-page "http://www.denemo.org")
     (license license:gpl3+)))
 
+(define-public dumb
+  (package
+    (name "dumb")
+    (version "2.0.3")
+    (source
+     (origin
+       (method git-fetch)
+       (uri (git-reference
+             (url "https://github.com/kode54/dumb.git")
+             (commit version)))
+       (sha256
+        (base32 "1cnq6rb14d4yllr0yi32p9jmcig8avs3f43bvdjrx4r1mpawspi6"))
+       (file-name (git-file-name name version))))
+    (build-system cmake-build-system)
+    (arguments
+     '(#:tests? #f ; no check target
+       #:configure-flags
+       (list "-DBUILD_SHARED_LIBS=ON"
+             "-DBUILD_EXAMPLES=OFF")))
+    (home-page "https://github.com/kode54/dumb")
+    (synopsis "Module audio renderer library")
+    (description
+     "DUMB is a tracker library with support for IT, XM, S3M and MOD files.  It
+targets maximum accuracy to the original formats, with low-pass resonant filters
+for the IT files, accurate timing and pitching, and three resampling quality
+settings (aliasing, linear interpolation and cubic interpolation).")
+    ;; The DUMB license is a bit peculiar.
+    ;; Clause 8 states that clauses 4, 5 and 6 are null and void, leaving only
+    ;; the first three clauses for genuine consideration.
+    ;; Clauses 1, 2 and 3 are analogous to clauses 1, 2 and 3 of the zlib
+    ;; license, a known free software license.
+    ;; Therefore, the DUMB license may be considered a free software license.
+    (license (license:fsf-free "file://LICENSE"))))
+
+(define-public dumb-allegro4
+  (package
+    (inherit dumb)
+    (name "dumb-allegro4")
+    (arguments
+     (substitute-keyword-arguments (package-arguments dumb)
+       ((#:configure-flags flags)
+        `(cons "-DBUILD_ALLEGRO4=ON" ,flags))))
+    (inputs
+     `(("allegro" ,allegro-4)))))
+
 (define-public hydrogen
   (package
     (name "hydrogen")
@@ -721,7 +767,16 @@ audio and video).")
     (arguments
      `(#:scons-flags (list (string-append "PREFIX=" %output))
        #:scons ,scons-python2
-       #:tests? #f)) ;no "check" target
+       #:tests? #f ; no "check" target
+       #:phases
+       (modify-phases %standard-phases
+         (add-after 'unpack 'replace-removed-scons-syntax
+           (lambda _
+             (substitute* "SConstruct"
+               (("BoolOption") "BoolVariable")
+               (("PathOption") "PathVariable")
+               (("Options") "Variables"))
+             #t)))))
     (inputs
      `(("boost" ,boost)
        ("jack" ,jack-1)
diff --git a/gnu/packages/nano.scm b/gnu/packages/nano.scm
index 04877f33ba..cb4ca996d4 100644
--- a/gnu/packages/nano.scm
+++ b/gnu/packages/nano.scm
@@ -1,6 +1,6 @@
 ;;; GNU Guix --- Functional package management for GNU
 ;;; Copyright © 2012 Nikita Karetnikov <nikita@karetnikov.org>
-;;; Copyright © 2015, 2016, 2017, 2018 Efraim Flashner <efraim@flashner.co.il>
+;;; Copyright © 2015, 2016, 2017, 2018, 2019 Efraim Flashner <efraim@flashner.co.il>
 ;;; Copyright © 2016 Rene Saavedra <rennes@openmailbox.org>
 ;;; Copyright © 2018 Tobias Geerinckx-Rice <me@tobias.gr>
 ;;;
@@ -30,7 +30,7 @@
 (define-public nano
   (package
     (name "nano")
-    (version "4.0")
+    (version "4.1")
     (source
      (origin
       (method url-fetch)
@@ -38,7 +38,7 @@
                           version ".tar.xz"))
       (sha256
        (base32
-        "1hxsx6qi7897d8bwkbnijlwvnn1dfy5pd1b7v2kj8ikq6pmcybqy"))))
+        "1l11sa957g8njfz9v8q1f2m3w2xz1rf7i7dl37kgvmiql2bfbgc6"))))
     (build-system gnu-build-system)
     (inputs
      `(("gettext" ,gettext-minimal)
diff --git a/gnu/packages/ocaml.scm b/gnu/packages/ocaml.scm
index 6bb15dc5e9..ee8b82d8f4 100644
--- a/gnu/packages/ocaml.scm
+++ b/gnu/packages/ocaml.scm
@@ -405,7 +405,7 @@ underlying solvers like Cplex, Gurobi, Lpsolver, Glpk, CbC, SCIP or WBO.")
                 "00yvyfm4j423zqndvgc1ycnmiffaa2l9ab40cyg23pf51qmzk2jm"))
               (patches
                (search-patches
-                "ocaml-dose3-Add-unix-as-dependency-to-dose3.common-in-META.in.patch"
+                "ocaml-dose3-add-unix-dependency.patch"
                 "ocaml-dose3-Fix-for-ocaml-4.06.patch"
                 "ocaml-dose3-dont-make-printconf.patch"
                 "ocaml-dose3-Install-mli-cmx-etc.patch"))))
@@ -5653,7 +5653,7 @@ storage of large amounts of data.")
     (properties `((upstream-name . "ppx_hash")))
     (home-page "https://github.com/janestreet/ppx_hash")
     (synopsis "Generation of hash functions from type expressions and definitions")
-    (description "This package is a collecton of ppx rewriters that generate
+    (description "This package is a collection of ppx rewriters that generate
 hash functions from type exrpessions and definitions.")
     (license license:asl2.0)))
 
diff --git a/gnu/packages/package-management.scm b/gnu/packages/package-management.scm
index 4808687227..6708a761eb 100644
--- a/gnu/packages/package-management.scm
+++ b/gnu/packages/package-management.scm
@@ -110,8 +110,8 @@
   ;; Note: the 'update-guix-package.scm' script expects this definition to
   ;; start precisely like this.
   (let ((version "0.16.0")
-        (commit "d78bfd27bdc449cf93fe4c5497d242c2da1aeac8")
-        (revision 12))
+        (commit "b8b1e4d9a2a976c4cd9933bb6a7451340f17e9ec")
+        (revision 13))
     (package
       (name "guix")
 
@@ -127,7 +127,7 @@
                       (commit commit)))
                 (sha256
                  (base32
-                  "1i24snn7dq7r8c3mf4waz13k11lglhgvx0zb6xqiqiplmb6f7q6n"))
+                  "1rljn9db8lxajbdcl94a6i7skk4a3rgjs25mxf35hnh0lpipqa03"))
                 (file-name (string-append "guix-" version "-checkout"))))
       (build-system gnu-build-system)
       (arguments
@@ -137,9 +137,6 @@
                             (string-append "--with-bash-completion-dir="
                                            (assoc-ref %outputs "out")
                                            "/etc/bash_completion.d")
-                            (string-append "--with-libgcrypt-prefix="
-                                           (assoc-ref %build-inputs
-                                                      "libgcrypt"))
 
                             ;; Set 'DOT_USER_PROGRAM' to the empty string so
                             ;; we don't keep a reference to Graphviz, whose
diff --git a/gnu/packages/parallel.scm b/gnu/packages/parallel.scm
index ceedae2e61..8b64878553 100644
--- a/gnu/packages/parallel.scm
+++ b/gnu/packages/parallel.scm
@@ -48,14 +48,14 @@
 (define-public parallel
   (package
     (name "parallel")
-    (version "20190322")
+    (version "20190422")
     (source
      (origin
       (method url-fetch)
       (uri (string-append "mirror://gnu/parallel/parallel-"
                           version ".tar.bz2"))
       (sha256
-       (base32 "12q0ys0dp019wykx7jcqbrilz8798hgb66k97aj2s2m7xdpw41ym"))))
+       (base32 "0xdl5fnh1vpjp3zpmqsrbbgjixazlhl4d9awk42nz4snzynysjxl"))))
     (build-system gnu-build-system)
     (arguments
      `(#:phases
diff --git a/gnu/packages/password-utils.scm b/gnu/packages/password-utils.scm
index 5c11d8c437..b238d39a70 100644
--- a/gnu/packages/password-utils.scm
+++ b/gnu/packages/password-utils.scm
@@ -6,7 +6,7 @@
 ;;; Copyright © 2016 Jessica Tallon <tsyesika@tsyesika.se>
 ;;; Copyright © 2016 Andreas Enge <andreas@enge.fr>
 ;;; Copyright © 2016 Lukas Gradl <lgradl@openmailbox.org>
-;;; Copyright © 2016 Alex Griffin <a@ajgrf.com>
+;;; Copyright © 2016, 2019 Alex Griffin <a@ajgrf.com>
 ;;; Copyright © 2017 Leo Famulari <leo@famulari.name>
 ;;; Copyright © 2017, 2018 Clément Lassieur <clement@lassieur.org>
 ;;; Copyright © 2017, 2018, 2019 Tobias Geerinckx-Rice <me@tobias.gr>
@@ -48,6 +48,7 @@
   #:use-module (gnu packages)
   #:use-module (gnu packages admin)
   #:use-module (gnu packages aidc)
+  #:use-module (gnu packages authentication)
   #:use-module (gnu packages base)
   #:use-module (gnu packages check)
   #:use-module (gnu packages compression)
@@ -74,6 +75,7 @@
   #:use-module (gnu packages python-web)
   #:use-module (gnu packages python-xyz)
   #:use-module (gnu packages suckless)
+  #:use-module (gnu packages tcl)
   #:use-module (gnu packages tls)
   #:use-module (gnu packages qt)
   #:use-module (gnu packages version-control)
@@ -423,6 +425,19 @@ any X11 window.")
        (modify-phases %standard-phases
          (delete 'configure)
          (delete 'build)
+         (add-before 'install 'patch-system-extension-dir
+           (lambda* (#:key outputs #:allow-other-keys)
+             (let* ((out (assoc-ref outputs "out"))
+                    (extension-dir (string-append out "/lib/password-store/extensions")))
+               (substitute* "src/password-store.sh"
+                 (("^SYSTEM_EXTENSION_DIR=.*$")
+                  ;; lead with whitespace to prevent 'make install' from
+                  ;; overwriting it again
+                  (string-append " SYSTEM_EXTENSION_DIR=\""
+                                 "${PASSWORD_STORE_SYSTEM_EXTENSION_DIR:-"
+                                 extension-dir
+                                 "}\"\n"))))
+             #t))
          (add-before 'install 'patch-passmenu-path
            (lambda* (#:key inputs #:allow-other-keys)
              (substitute* "contrib/dmenu/passmenu"
@@ -461,6 +476,10 @@ any X11 window.")
        ;; timeout in some circumstances.
        #:parallel-tests? #f
        #:test-target "test"))
+    (native-search-paths
+     (list (search-path-specification
+            (variable "PASSWORD_STORE_SYSTEM_EXTENSION_DIR")
+            (files '("lib/password-store/extensions")))))
     (inputs
      `(("dmenu" ,dmenu)
        ("getopt" ,util-linux)
@@ -482,6 +501,55 @@ changes to your password database to a git repository that can be managed
 through the pass command.")
     (license license:gpl2+)))
 
+(define-public pass-otp
+  (package
+    (name "pass-otp")
+    (version "1.2.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri
+        (string-append "https://github.com/tadfisher/pass-otp/releases/"
+                       "download/v" version "/pass-otp-" version ".tar.gz"))
+       (sha256
+        (base32
+         "0rrs3iazq80dn0wbl20xkh270428jd8l99m5gd7hl93s4r4sc82p"))))
+    (build-system gnu-build-system)
+    (arguments
+     '(#:make-flags
+       (let* ((out      (assoc-ref %outputs "out"))
+              (bashcomp (string-append out "/etc/bash_completion.d")))
+         (list (string-append "PREFIX=" %output)
+               (string-append "BASHCOMPDIR=" bashcomp)))
+       #:phases
+       (modify-phases %standard-phases
+         (delete 'configure)
+         (add-after 'build 'patch-oath-path
+           (lambda* (#:key inputs #:allow-other-keys)
+             (substitute* "otp.bash"
+               (("^OATH=.*$")
+                (string-append
+                 "OATH="
+                 (assoc-ref inputs "oath-toolkit")
+                 "/bin/oathtool\n")))
+             #t)))
+       #:test-target "test"))
+    (inputs
+     `(("oath-toolkit" ,oath-toolkit)))
+    (native-inputs
+     `(("password-store" ,password-store)
+       ("expect" ,expect)
+       ("git" ,git)
+       ("gnupg" ,gnupg)
+       ("which" ,which)))
+    (home-page "https://github.com/tadfisher/pass-otp")
+    (synopsis "Pass extension for managing one-time-password (OTP) tokens")
+    (description
+     "Pass OTP is an extension for password-store that allows adding
+one-time-password (OTP) secrets, generating OTP codes, and displaying secret
+key URIs using the standard otpauth:// scheme.")
+    (license license:gpl3+)))
+
 (define-public argon2
   (package
     (name "argon2")
diff --git a/gnu/packages/patches/grub-efi-fat-serial-number.patch b/gnu/packages/patches/grub-efi-fat-serial-number.patch
new file mode 100644
index 0000000000..ad92f9bc9e
--- /dev/null
+++ b/gnu/packages/patches/grub-efi-fat-serial-number.patch
@@ -0,0 +1,27 @@
+Change 'grub-mkrescue' to honor the 'GRUB_FAT_SERIAL_NUMBER'
+environment variable.  That way, the caller can specify a fixed
+serial number (instead of the randomly chosen one) to create EFI
+images (the 'efi.img' file) that are reproducible bit-for-bit.
+
+Patch by Ludovic Courtès <ludo@gnu.org>.
+
+--- grub-2.02/util/grub-mkrescue.c	2019-04-20 19:15:26.180242812 +0200
++++ grub-2.02/util/grub-mkrescue.c	2019-04-20 21:56:34.672370849 +0200
+@@ -788,8 +788,15 @@ main (int argc, char *argv[])
+ 
+       efiimgfat = grub_util_path_concat (2, iso9660_dir, "efi.img");
+       int rv;
+-      rv = grub_util_exec ((const char * []) { "mformat", "-C", "-f", "2880", "-L", "16", "-i",
+-	    efiimgfat, "::", NULL });
++
++      const char *fat_serial_number = getenv ("GRUB_FAT_SERIAL_NUMBER");
++      const char *mformat_args[] =
++	{ "mformat", "-C", "-f", "2880", "-L", "16",
++	  fat_serial_number != NULL ? "-N" : "-C",
++	  fat_serial_number != NULL ? fat_serial_number : "-C",
++	  "-i", efiimgfat, "::", NULL };
++
++      rv = grub_util_exec (mformat_args);
+       if (rv != 0)
+ 	grub_util_error ("`%s` invocation failed\n", "mformat");
+       rv = grub_util_exec ((const char * []) { "mcopy", "-s", "-i", efiimgfat, efidir_efi, "::/", NULL });
diff --git a/gnu/packages/patches/linkchecker-mark-more-tests-that-require-the-network.patch b/gnu/packages/patches/linkchecker-tests-require-network.patch
index f3e488cec2..f3e488cec2 100644
--- a/gnu/packages/patches/linkchecker-mark-more-tests-that-require-the-network.patch
+++ b/gnu/packages/patches/linkchecker-tests-require-network.patch
diff --git a/gnu/packages/patches/mtools-mformat-uninitialized.patch b/gnu/packages/patches/mtools-mformat-uninitialized.patch
new file mode 100644
index 0000000000..ae69d45c99
--- /dev/null
+++ b/gnu/packages/patches/mtools-mformat-uninitialized.patch
@@ -0,0 +1,20 @@
+Fix a bug whereby 'mformat' could end up passing uninitialized bytes
+to write(2).  This could be reproduced with:
+
+  mformat -C -f 1440 -L 16  -N 77777777 -i  /tmp/x ::
+
+where the output of /tmp/x would be non-deterministic.
+
+Patch by Ludovic Courtès <ludo@gnu.org>.
+
+--- mtools-4.0.23/mformat.c	2019-04-21 00:12:01.496116195 +0200
++++ mtools-4.0.23/mformat.c	2019-04-21 00:12:36.675967157 +0200
+@@ -927,6 +927,7 @@ void mformat(int argc, char **argv, int
+ 	
+ 	char *endptr;
+ 
++	memset(&boot.bytes, '\0', sizeof boot);
+ 	hs = hs_set = 0;
+ 	argtracks = 0;
+ 	argheads = 0;
+
diff --git a/gnu/packages/patches/ocaml-dose3-Add-unix-as-dependency-to-dose3.common-in-META.in.patch b/gnu/packages/patches/ocaml-dose3-add-unix-dependency.patch
index d2cc44c784..d2cc44c784 100644
--- a/gnu/packages/patches/ocaml-dose3-Add-unix-as-dependency-to-dose3.common-in-META.in.patch
+++ b/gnu/packages/patches/ocaml-dose3-add-unix-dependency.patch
diff --git a/gnu/packages/patches/openssh-CVE-2018-20685.patch b/gnu/packages/patches/openssh-CVE-2018-20685.patch
deleted file mode 100644
index 463c08a9d4..0000000000
--- a/gnu/packages/patches/openssh-CVE-2018-20685.patch
+++ /dev/null
@@ -1,44 +0,0 @@
-Fix CVE-2018-20685:
-
-https://cve.mitre.org/cgi-bin/cvename.cgi?name=CVE-2018-20685
-
-Patch copied from upstream source repository:
-
-https://github.com/openssh/openssh-portable/commit/6010c0303a422a9c5fa8860c061bf7105eb7f8b2
-
-From 6010c0303a422a9c5fa8860c061bf7105eb7f8b2 Mon Sep 17 00:00:00 2001
-From: "djm@openbsd.org" <djm@openbsd.org>
-Date: Fri, 16 Nov 2018 03:03:10 +0000
-Subject: [PATCH] upstream: disallow empty incoming filename or ones that refer
- to the
-
-current directory; based on report/patch from Harry Sintonen
-
-OpenBSD-Commit-ID: f27651b30eaee2df49540ab68d030865c04f6de9
----
- scp.c | 5 +++--
- 1 file changed, 3 insertions(+), 2 deletions(-)
-
-diff --git a/scp.c b/scp.c
-index 60682c68..4f3fdcd3 100644
---- a/scp.c
-+++ b/scp.c
-#@@ -1,4 +1,4 @@
-#-/* $OpenBSD: scp.c,v 1.197 2018/06/01 04:31:48 dtucker Exp $ */
-#+/* $OpenBSD: scp.c,v 1.198 2018/11/16 03:03:10 djm Exp $ */
-# /*
-#  * scp - secure remote copy.  This is basically patched BSD rcp which
-#  * uses ssh to do the data transfer (instead of using rcmd).
-@@ -1106,7 +1106,8 @@ sink(int argc, char **argv)
- 			SCREWUP("size out of range");
- 		size = (off_t)ull;
- 
--		if ((strchr(cp, '/') != NULL) || (strcmp(cp, "..") == 0)) {
-+		if (*cp == '\0' || strchr(cp, '/') != NULL ||
-+		    strcmp(cp, ".") == 0 || strcmp(cp, "..") == 0) {
- 			run_err("error: unexpected filename: %s", cp);
- 			exit(1);
- 		}
--- 
-2.20.1
-
diff --git a/gnu/packages/perl.scm b/gnu/packages/perl.scm
index 86d07c3ccc..b2fcd2b9e4 100644
--- a/gnu/packages/perl.scm
+++ b/gnu/packages/perl.scm
@@ -2541,9 +2541,22 @@ the DateTime.pm class.")
         (base32
          "0kz5kz47awf2bhb85xx5rbajkr093ipm2d2vkhqs8lqq0f305r3a"))))
     (build-system perl-build-system)
+    (arguments
+     '(#:phases
+       (modify-phases %standard-phases
+         (add-after 'unpack 'patch-tzdata
+           (lambda* (#:key inputs #:allow-other-keys)
+             (substitute* "lib/DateTime/TimeZone/Local/Unix.pm"
+               (("our \\$ZoneinfoDir = '\\/usr\\/share\\/zoneinfo';")
+                (string-append "our $ZoneinfoDir = '"
+                               (assoc-ref inputs "tzdata") "/share/zoneinfo"
+                               "';")))
+             #t)))))
     (native-inputs
      `(("perl-test-fatal" ,perl-test-fatal)
        ("perl-test-requires" ,perl-test-requires)))
+    (inputs
+     `(("tzdata" ,tzdata)))
     (propagated-inputs
      `(("perl-class-singleton" ,perl-class-singleton)
        ("perl-list-allutils" ,perl-list-allutils)
@@ -8421,7 +8434,7 @@ text sequences from strings.")
     (source
      (origin
        (method url-fetch)
-       (uri (string-append "mirror://cpan/authors/id/M/MA/MAKAMAKA/"
+       (uri (string-append "mirror://cpan/authors/id/I/IS/ISHIGAKI/"
                            "Text-CSV-" version ".tar.gz"))
        (sha256
         (base32 "1llccsl6sr11g9affh43m6q5r85qgnpi9n7idcs1vi9cn4ww0kp7"))))
diff --git a/gnu/packages/python-crypto.scm b/gnu/packages/python-crypto.scm
index fd9c95dd0a..6248be0c9b 100644
--- a/gnu/packages/python-crypto.scm
+++ b/gnu/packages/python-crypto.scm
@@ -970,14 +970,14 @@ derivation function.")
 (define-public python-service-identity
   (package
     (name "python-service-identity")
-    (version "17.0.0")
+    (version "18.1.0")
     (source
      (origin
        (method url-fetch)
        (uri (pypi-uri "service_identity" version))
        (sha256
         (base32
-         "1aq24cn3nnsjr9g797dayhx4g653h6bd41ksqhidzq0rvarzn0a0"))))
+         "0b9f5qiqjy8ralzgwjgkhx82h6h8sa7532psmb8mkd65md5aan08"))))
     (build-system python-build-system)
     (propagated-inputs
      `(("python-attrs" ,python-attrs)
diff --git a/gnu/packages/python-web.scm b/gnu/packages/python-web.scm
index 065c06df2a..50d7097d38 100644
--- a/gnu/packages/python-web.scm
+++ b/gnu/packages/python-web.scm
@@ -897,14 +897,14 @@ dispatching systems can be built.")
 (define-public python-zope-interface
   (package
     (name "python-zope-interface")
-    (version "4.1.3")
+    (version "4.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (pypi-uri "zope.interface" version))
        (sha256
         (base32
-         "0ks8h73b2g4bkad821qbv0wzjppdrwys33i7ka45ik3wxjg1l8if"))))
+         "1rgh2x3rcl9r0v0499kf78xy86rnmanajf4ywmqb943wpk50sg8v"))))
     (build-system python-build-system)
     (native-inputs
      `(("python-zope-event" ,python-zope-event)))
@@ -2959,14 +2959,14 @@ ecosystem.")
 (define-public python-hyperlink
   (package
     (name "python-hyperlink")
-    (version "18.0.0")
+    (version "19.0.0")
     (source
       (origin
         (method url-fetch)
         (uri (pypi-uri "hyperlink" version))
         (sha256
          (base32
-          "01m3y19arfqljksngy8grc966zdb4larysralb8cajzi8kvly6zh"))))
+          "0m2nhi0j8wmgfscf974wd5v1xfq8mah286hil6npy1ys0m3y7222"))))
     (build-system python-build-system)
     (propagated-inputs
      `(("python-idna" ,python-idna)))
diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm
index 1b75ed70e3..5fd8a2d0eb 100644
--- a/gnu/packages/python-xyz.scm
+++ b/gnu/packages/python-xyz.scm
@@ -26,7 +26,7 @@
 ;;; Copyright © 2016, 2017 ng0 <ng0@n0.is>
 ;;; Copyright © 2016 Dylan Jeffers <sapientech@sapientech@openmailbox.org>
 ;;; Copyright © 2016 David Craven <david@craven.ch>
-;;; Copyright © 2016, 2017, 2018 Marius Bakke <mbakke@fastmail.com>
+;;; Copyright © 2016, 2017, 2018, 2019 Marius Bakke <mbakke@fastmail.com>
 ;;; Copyright © 2016, 2017 Stefan Reichör <stefan@xsteve.at>
 ;;; Copyright © 2016 Dylan Jeffers <sapientech@sapientech@openmailbox.org>
 ;;; Copyright © 2016, 2017 Alex Vong <alexvong1995@gmail.com>
@@ -615,24 +615,27 @@ version identifier.")
 (define-public python-serpent
   (package
     (name "python-serpent")
-    (version "1.27")
+    (version "1.28")
     (source
      (origin
        (method url-fetch)
        (uri (pypi-uri "serpent" version))
        (sha256
-        (base32
-         "04p9dsrm5pv8vhk3flvih55kgvlzpi38hlaykdiakddmgwqw93bg"))))
+        (base32 "1arnckykpkvv2qrp49l1k7q5mr5pisswl0rvdx98x8wsl1n361pk"))))
     (build-system python-build-system)
+    (native-inputs
+     `(("python-attrs" ,python-attrs)
+       ("python-pytz" ,python-pytz)))
     (home-page "https://github.com/irmen/Serpent")
     (synopsis "Serializer for literal Python expressions")
     (description
-     "Serpent provides ast.literal_eval() compatible object tree
-serialization.  It serializes an object tree into bytes (utf-8 encoded string)
-that can be decoded and then passed as-is to ast.literal_eval() to rebuild it
-as the original object tree.  As such it is safe to send serpent data to other
-machines over the network for instance (because only safe literals are
-encoded).")
+     "Serpent provides @code{ast.literal_eval()}-compatible object tree
+serialization.  It serializes an object tree into bytes (an utf-8 encoded
+string) that can be decoded and then passed as-is to @code{ast.literal_eval()}
+to rebuild the original object tree.
+
+Because only safe literals are encoded, it is safe to send serpent data to
+other machines, such as over the network.")
     (license license:expat)))
 
 (define-public python-setuptools
@@ -889,7 +892,7 @@ of @code{xmlfile}.")
 (define-public python-openpyxl
   (package
     (name "python-openpyxl")
-    (version "2.6.0")
+    (version "2.6.2")
     (source
      (origin
        ;; We use the upstream repository, as the tests are not included in the
@@ -900,8 +903,7 @@ of @code{xmlfile}.")
              (changeset version)))
        (file-name (string-append name "-" version "-checkout"))
        (sha256
-        (base32
-         "1x47ngn7ybaqdbvg90c8h2x0j6yfdfj25gjfinp2w5rf62gsany7"))))
+        (base32 "1qhij6kcvdxqjy4g6193nsv4q7fy8n4fwyd3c2z047idlm6s3j4w"))))
     (build-system python-build-system)
     (arguments
      `(#:phases (modify-phases %standard-phases
@@ -1722,6 +1724,37 @@ from git information.
 (define-public python2-pbr
   (package-with-python2 python-pbr))
 
+(define-public python-pyrsistent
+  (package
+    (name "python-pyrsistent")
+    (version "0.14.11")
+    (home-page "https://github.com/tobgu/pyrsistent")
+    (source (origin
+              (method url-fetch)
+              (uri (pypi-uri "pyrsistent" version))
+              (sha256
+               (base32
+                "1qkh74bm296mp5g3r11lgsksr6bh4w1bf8pji4nmxdlfj542ga1w"))))
+    (build-system python-build-system)
+    (native-inputs
+     `(("python-hypothesis" ,python-hypothesis)
+       ("python-pytest" ,python-pytest)
+       ("python-pytest-runner" ,python-pytest-runner)))
+    (propagated-inputs
+     `(("python-six" ,python-six)))
+    (synopsis "Persistent data structures for Python")
+    (description
+     "Pyrsistent is a number of persistent collections (by some referred to as
+functional data structures).  Persistent in the sense that they are immutable.
+
+All methods on a data structure that would normally mutate it instead return a
+new copy of the structure containing the requested updates.  The original
+structure is left untouched.")
+    (license license:expat)))
+
+(define-public python2-pyrsistent
+  (package-with-python2 python-pyrsistent))
+
 (define-public python-exif-read
   (package
     (name "python-exif-read")
@@ -1892,21 +1925,28 @@ between Julian dates and Gregorian dates.")
 (define-public python-jsonschema
   (package
     (name "python-jsonschema")
-    (version "2.6.0")
+    (version "3.0.1")
     (source (origin
              (method url-fetch)
              (uri (pypi-uri "jsonschema" version))
              (sha256
               (base32
-               "00kf3zmpp9ya4sydffpifn0j0mzm342a2vzh82p6r0vh10cg7xbg"))))
+               "03g20i1xfg4qdlk4475pl4pp7y0h37g1fbgs5qhy678q9xb822hc"))))
     (build-system python-build-system)
     (arguments
      '(#:phases
        (modify-phases %standard-phases
-         (replace 'check (lambda _ (invoke "nosetests"))))))
+         (replace 'check
+           (lambda _
+             (setenv "PYTHONPATH" (string-append ".:" (getenv "PYTHONPATH")))
+             (invoke "trial" "jsonschema"))))))
     (native-inputs
-     `(("python-nose" ,python-nose)
-       ("python-vcversioner" ,python-vcversioner)))
+     `(("python-setuptools_scm" ,python-setuptools-scm)
+       ("python-twisted" ,python-twisted)))
+    (propagated-inputs
+     `(("python-attrs" ,python-attrs)
+       ("python-pyrsistent" ,python-pyrsistent)
+       ("python-six" ,python-six)))
     (home-page "https://github.com/Julian/jsonschema")
     (synopsis "Implementation of JSON Schema for Python")
     (description
@@ -1918,11 +1958,9 @@ between Julian dates and Gregorian dates.")
   (let ((jsonschema (package-with-python2
                      (strip-python2-variant python-jsonschema))))
     (package (inherit jsonschema)
-             (native-inputs
-              `(("python2-mock" ,python2-mock)
-                ,@(package-native-inputs jsonschema)))
              (propagated-inputs
-              `(("python2-functools32" ,python2-functools32))))))
+              `(("python2-functools32" ,python2-functools32)
+                ,@(package-propagated-inputs jsonschema))))))
 
 (define-public python-schema
   (package
@@ -6928,14 +6966,14 @@ versions of Python.")
 (define-public python-idna
   (package
     (name "python-idna")
-    (version "2.7")
+    (version "2.8")
     (source
      (origin
        (method url-fetch)
        (uri (pypi-uri "idna" version))
        (sha256
         (base32
-         "05jam7d31767dr12x0rbvvs8lxnpb1mhdb2zdlfxgh83z6k3hjk8"))))
+         "01rlkigdxg17sf9yar1jl8n18ls59367wqh59hnawlyg53vb6my3"))))
     (build-system python-build-system)
     (home-page "https://github.com/kjd/idna")
     (synopsis "Internationalized domain names in applications")
@@ -9664,23 +9702,19 @@ format.")
 (define-public python-twisted
   (package
     (name "python-twisted")
-    (version "17.5.0")
+    (version "19.2.0")
     (source (origin
               (method url-fetch)
               (uri (pypi-uri "Twisted" version ".tar.bz2"))
               (sha256
                (base32
-                "1sh2h23nnizcdyrl2rn7zxijglikxwz7z7grqpvq496zy2aa967i"))))
+                "1gmb8d57s13d8znvqnxi47vqzqz141z443dbxg9wjkp8ia9f220p"))))
     (build-system python-build-system)
     (arguments
      '(#:tests? #f)) ; FIXME: Some tests are failing.
-       ;; #:phases
-       ;; (modify-phases %standard-phases
-       ;;   (replace 'check
-       ;;     (lambda _
-       ;;       (zero? (system* "./bin/trial" "twisted")))))
     (propagated-inputs
      `(("python-zope-interface" ,python-zope-interface)
+       ("python-pyhamcrest" ,python-pyhamcrest)
        ("python-incremental" ,python-incremental)
        ("python-hyperlink" ,python-hyperlink)
        ("python-constantly" ,python-constantly)
@@ -11577,13 +11611,13 @@ instead of servers and network commands.")
 (define-public python-automat
   (package
     (name "python-automat")
-    (version "0.6.0")
+    (version "0.7.0")
     (source (origin
               (method url-fetch)
               (uri (pypi-uri "Automat" version))
               (sha256
                (base32
-                "1a7nsrljysfmdqmpn2apfa1gg6rfah4y9sizvns8gb08rx7d07rw"))))
+                "03ivg70n3b1cbcd2zvjhk8y4kmqxcvhmili39lmgx09dza1qpmyb"))))
     (build-system python-build-system)
     ;; We disable the tests because they require python-twisted, while
     ;; python-twisted depends on python-automat.  Twisted is optional, but the
@@ -11610,13 +11644,13 @@ transducers).")
 (define-public python-m2r
   (package
     (name "python-m2r")
-    (version "0.1.12")
+    (version "0.2.1")
     (source (origin
               (method url-fetch)
               (uri (pypi-uri "m2r" version))
               (sha256
                (base32
-                "1axrwnf425sz4qz3c0qc7yhhki4myzb8rki7pczcsgzznzmqdyxd"))))
+                "16gdm8i06jjmlpvckpfmlkr4693dh0vs192vgsqn84fsdkbbm45z"))))
     (build-system python-build-system)
     (propagated-inputs
      `(("python-docutils" ,python-docutils)
@@ -13832,11 +13866,12 @@ and works only with Python 2 and NumPy < 1.9.")
     (synopsis "Send files to the user's @file{~/Trash} directory")
     (description "This package provides a Python library to send files to the
 user's @file{~/Trash} directory.")
+    (properties `((python2-variant . ,(delay python2-send2trash))))
     (license license:bsd-3)))
 
 (define-public python2-send2trash
   (package
-    (inherit (package-with-python2 python-send2trash))
+    (inherit (package-with-python2 (strip-python2-variant python-send2trash)))
     (arguments
      (substitute-keyword-arguments (package-arguments python-send2trash)
        ((#:phases phases)
@@ -13845,8 +13880,7 @@ user's @file{~/Trash} directory.")
              (lambda _
                (setenv "PYTHONPATH"
                        (string-append (getcwd) ":" (getenv "PYTHONPATH")))
-               #t))))))
-    (properties `((python2-variant . ,(delay python-send2trash))))))
+               #t))))))))
 
 (define-public python-yapf
   (package
@@ -14899,16 +14933,15 @@ object-oriented library such as @code{scikit-learn}.")
 (define-public python-dill
   (package
     (name "python-dill")
-    (version "0.2.8.2")
+    (version "0.2.9")
     (source
      (origin
        (method url-fetch)
        (uri (pypi-uri "dill" version))
        (sha256
-        (base32
-         "1cymzn9fxwdy33h21zkk4gqgzvd25110hh3zdqnvnwa3p52c4kb2"))))
+        (base32 "0vwqyi6hyz2r29zydc78dqymkbc5y7gia16xcdh215cikxph9mpn"))))
     (build-system python-build-system)
-    ;; FIXME: The check phase fails with "don't know how to make test".
+    ;; FIXME: The check phase fails with "don't know how to make test from: …".
     (arguments '(#:tests? #f))
     (home-page "https://pypi.org/project/dill")
     (synopsis "Serialize all of Python")
diff --git a/gnu/packages/security-token.scm b/gnu/packages/security-token.scm
index c88a1c6b2a..5451a0059a 100644
--- a/gnu/packages/security-token.scm
+++ b/gnu/packages/security-token.scm
@@ -95,7 +95,7 @@ readers and is needed to communicate with such devices through the
 (define-public eid-mw
   (package
     (name "eid-mw")
-    (version "4.4.13")
+    (version "4.4.16")
     (source
      (origin
        (method git-fetch)
@@ -103,7 +103,7 @@ readers and is needed to communicate with such devices through the
              (url "https://github.com/Fedict/eid-mw")
              (commit (string-append "v" version))))
        (sha256
-        (base32 "14bgn2k0xbd6241qdghg787pgxy7k9rvcspaf74zwwyibaqknzyx"))))
+        (base32 "1q82fw63xzrnrgh1wyh457hal6vfdl6swqfq7l6kviywiwlzx7kd"))))
     (build-system glib-or-gtk-build-system)
     (native-inputs
      `(("autoconf" ,autoconf)
diff --git a/gnu/packages/shellutils.scm b/gnu/packages/shellutils.scm
index 88c0f32e99..59a8b744eb 100644
--- a/gnu/packages/shellutils.scm
+++ b/gnu/packages/shellutils.scm
@@ -128,13 +128,14 @@ are already there.")
          (delete 'configure)
          ;; Help the build scripts find the Go language dependencies.
          (add-before 'unpack 'setup-go-environment
-           (assoc-ref go:%standard-phases 'setup-go-environment)))))
-    (inputs
+           (assoc-ref go:%standard-phases 'setup-go-environment))
+         (add-after 'install 'remove-go-references
+           (assoc-ref go:%standard-phases 'remove-go-references)))))
+    (native-inputs
      `(("go" ,go)
        ("go-github-com-burntsushi-toml" ,go-github-com-burntsushi-toml)
-       ("go-github-com-direnv-go-dotenv" ,go-github-com-direnv-go-dotenv)))
-    (native-inputs
-      `(("which" ,which)))
+       ("go-github-com-direnv-go-dotenv" ,go-github-com-direnv-go-dotenv)
+       ("which" ,which)))
     (home-page "https://direnv.net/")
     (synopsis "Environment switcher for the shell")
     (description
diff --git a/gnu/packages/ssh.scm b/gnu/packages/ssh.scm
index 83a831660d..e887cd7e70 100644
--- a/gnu/packages/ssh.scm
+++ b/gnu/packages/ssh.scm
@@ -164,15 +164,14 @@ a server that supports the SSH-2 protocol.")
 (define-public openssh
   (package
    (name "openssh")
-   (version "7.9p1")
+   (version "8.0p1")
    (source (origin
              (method url-fetch)
              (uri (string-append "mirror://openbsd/OpenSSH/portable/"
                                  name "-" version ".tar.gz"))
-             (patches (search-patches "openssh-CVE-2018-20685.patch"))
              (sha256
               (base32
-               "1b8sy6v0b8v4ggmknwcqx3y1rjcpsll0f1f8f4vyv11x4ni3njvb"))))
+               "0s7xh4s0qcipnjh9ls5blxcpvhyd116z9dxn3q1yi64lwrwki55x"))))
    (build-system gnu-build-system)
    (native-inputs `(("groff" ,groff)
                     ("pkg-config" ,pkg-config)))
diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index 26e5f62666..fac4c51a54 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -5284,14 +5284,14 @@ to Applied regression, Second Edition, Sage, 2011.")
 (define-public r-caret
   (package
     (name "r-caret")
-    (version "6.0-82")
+    (version "6.0-83")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "caret" version))
        (sha256
         (base32
-         "0zgkmiiarl7ll2ffyciikah61jyps41fin5pjb5l8ja2b26lgrdg"))))
+         "1vyw43z73wa4nrbbyq6km18yh1352g03j93cw2zr1dphl56mxplv"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-foreach" ,r-foreach)
diff --git a/gnu/packages/sync.scm b/gnu/packages/sync.scm
index 1aae3a8ed6..136ffec9e7 100644
--- a/gnu/packages/sync.scm
+++ b/gnu/packages/sync.scm
@@ -252,7 +252,7 @@ over the Internet in an HTTP and CDN friendly way;
 (define-public rclone
   (package
     (name "rclone")
-    (version "1.46")
+    (version "1.47.0")
     (source (origin
               (method git-fetch)
               (uri (git-reference
@@ -261,7 +261,7 @@ over the Internet in an HTTP and CDN friendly way;
               (file-name (git-file-name name version))
               (sha256
                (base32
-                "1fl52dl41n76r678nzkxa2kgk9khn1fxraxgk8jd3ayc787qs9ia"))))
+                "1nxwjr9jly6wh1ixr6a7zhlg4b3298v940040fsm0n3lcljd37zx"))))
     ;; FIXME: Rclone bundles some libraries Guix already provides.  Need to
     ;; un-bundle them.
     (build-system go-build-system)
diff --git a/gnu/packages/textutils.scm b/gnu/packages/textutils.scm
index 7436fdeb97..da5cd011d8 100644
--- a/gnu/packages/textutils.scm
+++ b/gnu/packages/textutils.scm
@@ -519,7 +519,7 @@ in a portable way.")
      (origin
        (method url-fetch)
        (uri (string-append "http://www.lbreyer.com/gpl/"
-                           name "-" version ".tar.gz"))
+                           "dbacl-" version ".tar.gz"))
        (sha256
         (base32
          "0224g6x71hyvy7jikfxmgcwww1r5lvk0jx36cva319cb9nmrbrq7"))))
diff --git a/gnu/packages/valgrind.scm b/gnu/packages/valgrind.scm
index 9952fa1647..f1584c896a 100644
--- a/gnu/packages/valgrind.scm
+++ b/gnu/packages/valgrind.scm
@@ -79,3 +79,18 @@ tools.  There are Valgrind tools that can automatically detect many memory
 management and threading bugs, and profile your programs in detail.  You can
 also use Valgrind to build new tools.")
     (license gpl2+)))
+
+(define-public valgrind-3.15
+  (package
+    (inherit valgrind)
+    (version "3.15.0")
+    (source (origin
+              (method url-fetch)
+              (uri (list (string-append "http://www.valgrind.org/downloads"
+                                        "/valgrind-" version ".tar.bz2")
+                         (string-append "ftp://sourceware.org/pub/valgrind"
+                                        "/valgrind-" version ".tar.bz2")))
+              (sha256
+               (base32
+                "1ccawxrni8brcvwhygy12iprkvz409hbr9xkk1bd03gnm2fplz21"))
+              (patches (search-patches "valgrind-enable-arm.patch"))))))
diff --git a/gnu/packages/version-control.scm b/gnu/packages/version-control.scm
index 22771a129c..3432e70c1b 100644
--- a/gnu/packages/version-control.scm
+++ b/gnu/packages/version-control.scm
@@ -23,6 +23,7 @@
 ;;; Copyright © 2018 Timothy Sample <samplet@ngyro.com>
 ;;; Copyright © 2018 Arun Isaac <arunisaac@systemreboot.net>
 ;;; Copyright © 2019 Jovany Leandro G.C <bit4bit@riseup.net>
+;;; Copyright © 2019 Kei Kebreau <kkebreau@posteo.net>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -47,6 +48,7 @@
   #:use-module (guix git-download)
   #:use-module (guix build-system cmake)
   #:use-module (guix build-system gnu)
+  #:use-module (guix build-system go)
   #:use-module (guix build-system python)
   #:use-module (guix build-system trivial)
   #:use-module (gnu packages apr)
@@ -2144,3 +2146,27 @@ design goals are to reduce the pain of resolving merge conflicts by finding
 the smallest possible conflicts and to allow a merge to be saved, tested,
 interrupted, published, and collaborated on while in progress.")
     (license license:gpl2+)))
+
+(define-public git-lfs
+  (package
+    (name "git-lfs")
+    (version "2.7.1")
+    (source (origin
+              (method git-fetch)
+              (uri (git-reference
+                    (url "https://github.com/git-lfs/git-lfs")
+                    (commit (string-append "v" version))))
+              (file-name (git-file-name name version))
+              (sha256
+               (base32
+                "10v38w8qfz0x8750kv31n8gg2dimvq4wz40m374pd1xaypfs9670"))))
+    (build-system go-build-system)
+    (arguments
+     '(#:import-path "github.com/git-lfs/git-lfs"))
+    (home-page "https://git-lfs.github.com/")
+    (synopsis "Git extension for versioning large files")
+    (description
+     "Git Large File Storage (LFS) replaces large files such as audio samples,
+videos, datasets, and graphics with text pointers inside Git, while storing the
+file contents on a remote server.")
+    (license license:expat)))
diff --git a/gnu/packages/video.scm b/gnu/packages/video.scm
index 9bc3073ab0..ade3b0b852 100644
--- a/gnu/packages/video.scm
+++ b/gnu/packages/video.scm
@@ -1446,7 +1446,7 @@ access to mpv's powerful playback capabilities.")
 (define-public youtube-dl
   (package
     (name "youtube-dl")
-    (version "2019.04.07")
+    (version "2019.04.17")
     (source (origin
               (method url-fetch)
               (uri (string-append "https://github.com/rg3/youtube-dl/releases/"
@@ -1454,7 +1454,7 @@ access to mpv's powerful playback capabilities.")
                                   version ".tar.gz"))
               (sha256
                (base32
-                "1krx4y8nzpaqpq9qs8dnv2y988jpdccyfl9sdx9wrb0baycl119k"))))
+                "0dznw06qbb75glzirhnsbsd5xqix08jxdngbd21wndxcj1yq5y8a"))))
     (build-system python-build-system)
     (arguments
      ;; The problem here is that the directory for the man page and completion
@@ -3425,11 +3425,11 @@ transitions, and effects and then export your film to many common formats.")
 (define-public dav1d
   (package
     (name "dav1d")
-    (version "0.2.1")
+    (version "0.2.2")
     (source
       (origin
         (method url-fetch)
-        (uri (list ;; The canonical download site
+        (uri (list ;; The canonical download site.
                    (string-append "https://downloads.videolan.org/pub/videolan/"
                                   "dav1d/" version "/dav1d-" version ".tar.xz")
 
@@ -3437,7 +3437,7 @@ transitions, and effects and then export your film to many common formats.")
                    (string-append "https://code.videolan.org/videolan/dav1d/-/"
                                   "archive/" version "/dav1d-" version ".tar.bz2")))
         (sha256
-         (base32 "0cp7harg2gf61v35hyki2ddk9yr0xli9bkk3smxblabmq9rv5cs3"))))
+         (base32 "1llf4v486avj83d31670vdd5nshbq10qrx9vwrm1j078dh4ax4q0"))))
     (build-system meson-build-system)
     (native-inputs `(("nasm" ,nasm)))
     (home-page "https://code.videolan.org/videolan/dav1d")
diff --git a/gnu/packages/vulkan.scm b/gnu/packages/vulkan.scm
index cd77211377..60a9661040 100644
--- a/gnu/packages/vulkan.scm
+++ b/gnu/packages/vulkan.scm
@@ -41,37 +41,33 @@
   #:use-module (gnu packages xorg))
 
 (define-public spirv-headers
-  ;; Keep updated in accordance with
-  ;; https://github.com/google/shaderc/blob/known-good/known_good.json
-  (let ((commit "8bea0a266ac9b718aa0818d9e3a47c0b77c2cb23")
-        (revision "4"))
-    (package
-      (name "spirv-headers")
-      (version (string-append "0.0-" revision "." (string-take commit 9)))
-      (source
-       (origin
-         (method git-fetch)
-         (uri (git-reference
-               (url "https://github.com/KhronosGroup/SPIRV-Headers")
-               (commit commit)))
-         (sha256
-          (base32
-           "01qyjghjz42hmyw9111zz20a1paf37ps39p4xbj8abjba65d8lqx"))
-         (file-name (string-append name "-" version "-checkout"))))
-      (build-system cmake-build-system)
-      (arguments
-       `(#:tests? #f ;; No tests
-         #:phases (modify-phases %standard-phases
-                    (replace 'install
-                      (lambda* (#:key outputs #:allow-other-keys)
-                        (invoke "cmake" "-E" "copy_directory"
-                                        "../source/include/spirv"
-                                        (string-append (assoc-ref outputs "out")
-                                                       "/include/spirv")))))))
-      (home-page "https://github.com/KhronosGroup/SPIRV-Headers")
-      (synopsis "Machine-readable files from the SPIR-V Registry")
-      (description
-       "SPIRV-Headers is a repository containing machine-readable files from
+  (package
+    (name "spirv-headers")
+    (version "1.3.7")
+    (source
+     (origin
+       (method git-fetch)
+       (uri (git-reference
+             (url "https://github.com/KhronosGroup/SPIRV-Headers")
+             (commit version)))
+       (sha256
+        (base32
+         "0m56smanfcczjfif4yfcqhjj4d4sc088kwg6dgia8fwdsjavdm4d"))
+      (file-name (string-append name "-" version "-checkout"))))
+    (build-system cmake-build-system)
+    (arguments
+     `(#:tests? #f ;; No tests
+       #:phases (modify-phases %standard-phases
+                  (replace 'install
+                    (lambda* (#:key outputs #:allow-other-keys)
+                      (invoke "cmake" "-E" "copy_directory"
+                                      "../source/include/spirv"
+                                      (string-append (assoc-ref outputs "out")
+                                                     "/include/spirv")))))))
+    (home-page "https://github.com/KhronosGroup/SPIRV-Headers")
+    (synopsis "Machine-readable files from the SPIR-V Registry")
+    (description
+     "SPIRV-Headers is a repository containing machine-readable files from
 the SPIR-V Registry.  This includes:
 @itemize
 @item Header files for various languages.
@@ -79,9 +75,9 @@ the SPIR-V Registry.  This includes:
 and for the GLSL.std.450 extended instruction set.
 @item The XML registry file.
 @end itemize\n")
-      (license (license:x11-style
-                (string-append "https://github.com/KhronosGroup/SPIRV-Headers/blob/"
-                               commit "/LICENSE"))))))
+    (license (license:x11-style
+              (string-append "https://github.com/KhronosGroup/SPIRV-Headers/blob/"
+                             version "/LICENSE")))))
 
 (define-public spirv-tools
   (package
@@ -124,7 +120,7 @@ parser,disassembler, validator, and optimizer for SPIR-V.")
 (define-public glslang
   (package
     (name "glslang")
-    (version "7.11.3113")
+    (version "7.11.3188")
     (source
      (origin
        (method git-fetch)
@@ -133,7 +129,7 @@ parser,disassembler, validator, and optimizer for SPIR-V.")
              (commit version)))
        (sha256
         (base32
-         "1kzv2b4q1fddxd7c0hc754nd6rw6y9vijb9fsi13xzzq9dficgb6"))
+         "04y4dd1cqdkd4qffmhgmg3agf9j07ii2w38vpp4jw53ir818bqdq"))
        (file-name (string-append name "-" version "-checkout"))))
     (build-system cmake-build-system)
     (arguments
diff --git a/gnu/packages/web.scm b/gnu/packages/web.scm
index fd6bfbab22..7d8e51b5af 100644
--- a/gnu/packages/web.scm
+++ b/gnu/packages/web.scm
@@ -5435,8 +5435,7 @@ Instagram and YouTube.")
              (url "https://github.com/linkchecker/linkchecker")
              (commit (string-append "v" version))))
        (patches
-        (search-patches
-         "linkchecker-mark-more-tests-that-require-the-network.patch"))
+        (search-patches "linkchecker-tests-require-network.patch"))
        (file-name (git-file-name name version))
        (sha256
         (base32
diff --git a/gnu/packages/wm.scm b/gnu/packages/wm.scm
index 2695b5f99c..c7dea8ba9b 100644
--- a/gnu/packages/wm.scm
+++ b/gnu/packages/wm.scm
@@ -8,7 +8,7 @@
 ;;; Copyright © 2016, 2019 Efraim Flashner <efraim@flashner.co.il>
 ;;; Copyright © 2016 Al McElrath <hello@yrns.org>
 ;;; Copyright © 2016 Carlo Zancanaro <carlo@zancanaro.id.au>
-;;; Copyright © 2016, 2017, 2018 Ludovic Courtès <ludo@gnu.org>
+;;; Copyright © 2016, 2017, 2018, 2019 Ludovic Courtès <ludo@gnu.org>
 ;;; Copyright © 2016, 2017, 2018 ng0 <ng0@n0.is>
 ;;; Copyright © 2016 doncatnip <gnopap@gmail.com>
 ;;; Copyright © 2016 Ivan Vilata i Balaguer <ivan@selidor.net>
@@ -811,7 +811,7 @@ experience.")
      "Awesome has been designed as a framework window manager.  It is fast, small,
 dynamic and extensible using the Lua programming language.")
     (license license:gpl2+)
-    (home-page "https://awesome.naquadah.org/")))
+    (home-page "https://awesomewm.org/")))
 
 (define-public menumaker
   (package
diff --git a/gnu/packages/xdisorg.scm b/gnu/packages/xdisorg.scm
index c4b7f9a87f..739de9d25a 100644
--- a/gnu/packages/xdisorg.scm
+++ b/gnu/packages/xdisorg.scm
@@ -574,7 +574,7 @@ selection's dimensions to stdout.")
 (define-public maim
   (package
     (name "maim")
-    (version "5.5.2")
+    (version "5.5.3")
     (source (origin
               (method git-fetch)
               (uri (git-reference
@@ -583,7 +583,7 @@ selection's dimensions to stdout.")
               (file-name (git-file-name name version))
               (sha256
                (base32
-                "14mfxdm39kc5jk8wysrzx05ag2g4sk9l24i8m5pzqn8j611150v3"))))
+                "1kbxsz8whfxl5blwsvpva2q95zwy72argwhi1cfqh5lrhzq5zrpp"))))
     (build-system cmake-build-system)
     (arguments
      '(#:tests? #f))            ; no "check" target
diff --git a/gnu/packages/xml.scm b/gnu/packages/xml.scm
index f739f207e7..6ae9cd65d5 100644
--- a/gnu/packages/xml.scm
+++ b/gnu/packages/xml.scm
@@ -929,14 +929,14 @@ XSL-T processor.  It also performs any necessary post-processing.")
 (define-public xmlsec
   (package
     (name "xmlsec")
-    (version "1.2.27")
+    (version "1.2.28")
     (source (origin
               (method url-fetch)
               (uri (string-append "https://www.aleksey.com/xmlsec/download/"
                                   "xmlsec1-" version ".tar.gz"))
               (sha256
                (base32
-                "1dlf263mvxj9n4lnhhjawc2hv45agrwjf8kxk7k8h9g9v2x5dmwp"))))
+                "1m12caglhyx08g8lh2sl3nkldlpryzdx2d572q73y3m33s0w9vhk"))))
     (build-system gnu-build-system)
     (propagated-inputs                  ; according to xmlsec1.pc
      `(("libxml2" ,libxml2)
diff --git a/gnu/packages/xorg.scm b/gnu/packages/xorg.scm
index d3e6b79277..5d8b3498e6 100644
--- a/gnu/packages/xorg.scm
+++ b/gnu/packages/xorg.scm
@@ -2915,8 +2915,8 @@ X server.")
 
 
 (define-public xf86-video-intel
-  (let ((commit "33ee0c3b21ea279e08d0863fcb2e874f0974b00e")
-        (revision "12"))
+  (let ((commit "6afed33b2d673d88674f0c76efe500ae414e8e1b")
+        (revision "13"))
     (package
       (name "xf86-video-intel")
       (version (git-version "2.99.917" revision commit))
@@ -2929,7 +2929,7 @@ X server.")
                (commit commit)))
          (sha256
           (base32
-           "1ryjaj52nd2fbrjf1id5fr5vndzvv287rggbj3lzhbwzxv52r0gj"))
+           "1s3fqlqzmql7s15m7qy21vai93n6q9f0ccpv0p353rwfx16mmf35"))
          (file-name (git-file-name name version))))
       (build-system gnu-build-system)
       (inputs `(("mesa" ,mesa)
@@ -6001,7 +6001,7 @@ basic eye-candy effects.")
 (define-public xpra
   (package
     (name "xpra")
-    (version "2.5")
+    (version "2.5.1")
     (source
      (origin
        (method url-fetch)
@@ -6009,7 +6009,7 @@ basic eye-candy effects.")
                            version ".tar.xz"))
        (sha256
         (base32
-         "0q6c7ijgpp2wk6jlh0pzqki1w60i36wyl2zfwkg0gpdh40ypab3x"))))
+         "14l3bs7mlkd2lphjhnbw5dr95pg7x1k61s9wk35dra4li2xjy1lm"))))
     (build-system python-build-system)
     (inputs `(("ffmpeg" ,ffmpeg)
               ("flac" ,flac)
@@ -6347,7 +6347,7 @@ output.")
 (define-public console-setup
   (package
     (name "console-setup")
-    (version "1.190")
+    (version "1.191")
     (source
      (origin
        (method git-fetch)
@@ -6355,7 +6355,7 @@ output.")
              (url "https://salsa.debian.org/installer-team/console-setup.git")
              (commit version)))
        (sha256
-        (base32 "0qklm9ww1wap2bs7hp31xkfjyhdrirg2mk4hiv7h6fiqckzmdwvd"))
+        (base32 "0wplhjadk530fqxhfnizil32rcvkcl5m2r18yskspcib53r4pmim"))
        (file-name (git-file-name name version))))
     (build-system gnu-build-system)
     (arguments