From 22cc598b1e7c35e5be36a684bfa4474f42fe51f9 Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Fri, 21 Jun 2019 11:55:23 +0200
Subject: gnu: utf8proc: Update source and home page.

* gnu/packages/textutils.scm (utf8proc)[source, home-page]: Follow
redirected URLs.
---
 gnu/packages/textutils.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/textutils.scm b/gnu/packages/textutils.scm
index 79835e8578..14220b85f1 100644
--- a/gnu/packages/textutils.scm
+++ b/gnu/packages/textutils.scm
@@ -145,7 +145,7 @@ libenca and several charset conversion libraries and tools.")
      (origin
        (method url-fetch)
        (uri (string-append
-             "https://github.com/JuliaLang/utf8proc/archive/v"
+             "https://github.com/JuliaStrings/utf8proc/archive/v"
              version ".tar.gz"))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
@@ -181,7 +181,7 @@ libenca and several charset conversion libraries and tools.")
              (substitute* "data/GraphemeBreakTest.txt"
                (("÷") "/")
                (("×") "+")))))))
-    (home-page "https://julialang.org/utf8proc/")
+    (home-page "https://juliastrings.github.io/utf8proc/")
     (synopsis "C library for processing UTF-8 Unicode data")
     (description "utf8proc is a small C library that provides Unicode
 normalization, case-folding, and other operations for data in the UTF-8
-- 
cgit v1.2.3


From 39ff1d8930df2c53beb174cd9ee2b34a5c7b005d Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Fri, 21 Jun 2019 11:57:39 +0200
Subject: gnu: utf8proc: Do not use unstable tarball.

* gnu/packages/textutils.scm (utf8proc)[source]: Change to GIT-FETCH.
---
 gnu/packages/textutils.scm | 12 ++++++------
 1 file changed, 6 insertions(+), 6 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/textutils.scm b/gnu/packages/textutils.scm
index 14220b85f1..0b3ea492fb 100644
--- a/gnu/packages/textutils.scm
+++ b/gnu/packages/textutils.scm
@@ -143,13 +143,13 @@ libenca and several charset conversion libraries and tools.")
     (version "2.1.1")
     (source
      (origin
-       (method url-fetch)
-       (uri (string-append
-             "https://github.com/JuliaStrings/utf8proc/archive/v"
-             version ".tar.gz"))
-       (file-name (string-append name "-" version ".tar.gz"))
+       (method git-fetch)
+       (uri (git-reference
+             (url "https://github.com/JuliaStrings/utf8proc")
+             (commit (string-append "v" version))))
+       (file-name (git-file-name name version))
        (sha256
-        (base32 "1cnpigrazhslw65s4j1a56j7p6d7d61wsxxjf1218i9mkwv2yw17"))))
+        (base32 "1brr8nnpam7y8l9j8fppdpdqvfyfxliw20z41qfip6ygz9pvcsiq"))))
     (build-system gnu-build-system)
     (inputs                 ; test data that is otherwise downloaded with curl
      `(("NormalizationTest.txt"
-- 
cgit v1.2.3


From 99293380314651858ef2f58bc93429f46b1ce1d8 Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Fri, 21 Jun 2019 11:58:30 +0200
Subject: gnu: utf8proc: Update to 2.4.0.

* gnu/packages/textutils.scm (utf8proc): Update to 2.4.0.
[inputs]: Rename to ...
[native-inputs]: ... this.  Update Unicode test data and add PERL.
[arguments]: End phase on #t.
---
 gnu/packages/textutils.scm | 20 ++++++++++++--------
 1 file changed, 12 insertions(+), 8 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/textutils.scm b/gnu/packages/textutils.scm
index 0b3ea492fb..d1dc14e6d7 100644
--- a/gnu/packages/textutils.scm
+++ b/gnu/packages/textutils.scm
@@ -140,7 +140,7 @@ libenca and several charset conversion libraries and tools.")
 (define-public utf8proc
   (package
     (name "utf8proc")
-    (version "2.1.1")
+    (version "2.4.0")
     (source
      (origin
        (method git-fetch)
@@ -149,23 +149,26 @@ libenca and several charset conversion libraries and tools.")
              (commit (string-append "v" version))))
        (file-name (git-file-name name version))
        (sha256
-        (base32 "1brr8nnpam7y8l9j8fppdpdqvfyfxliw20z41qfip6ygz9pvcsiq"))))
+        (base32 "1i42hqwc8znqii9brangwkxk5cyc2lk95ip405fg88zr7z2ncr34"))))
     (build-system gnu-build-system)
-    (inputs                 ; test data that is otherwise downloaded with curl
+    (native-inputs           ;test data that is otherwise downloaded with curl
      `(("NormalizationTest.txt"
         ,(origin
            (method url-fetch)
-           (uri (string-append "http://www.unicode.org/Public/9.0.0/ucd/"
+           (uri (string-append "https://www.unicode.org/Public/12.1.0/ucd/"
                                "NormalizationTest.txt"))
            (sha256
-            (base32 "1fxrz0bilsbwl685336aqi88k62i6nqhm62rvy4zhg3bcm4dhj1d"))))
+            (base32 "0hb97k9xv1lr847hwz0719ksqy39s47xw6k01dgs1368jdibvawc"))))
        ("GraphemeBreakTest.txt"
         ,(origin
            (method url-fetch)
-           (uri (string-append "http://www.unicode.org/Public/9.0.0/ucd/"
+           (uri (string-append "https://www.unicode.org/Public/12.1.0/ucd/"
                                "auxiliary/GraphemeBreakTest.txt"))
            (sha256
-            (base32 "0qbhyhmf0778lc2hcwlpizrvmdxwpk959v2q2wb8abv09ba7wvn7"))))))
+            (base32 "0qc90ppmrwfn3y9cdn8jcjrn7qpdf0fhxkwh945yp4rvh37mbgcm"))))
+
+       ;; For tests.
+       ("perl" ,perl)))
     (arguments
      '(#:make-flags (list "CC=gcc"
                           (string-append "prefix=" (assoc-ref %outputs "out")))
@@ -180,7 +183,8 @@ libenca and several charset conversion libraries and tools.")
                        '("NormalizationTest.txt" "GraphemeBreakTest.txt"))
              (substitute* "data/GraphemeBreakTest.txt"
                (("÷") "/")
-               (("×") "+")))))))
+               (("×") "+"))
+             #t)))))
     (home-page "https://juliastrings.github.io/utf8proc/")
     (synopsis "C library for processing UTF-8 Unicode data")
     (description "utf8proc is a small C library that provides Unicode
-- 
cgit v1.2.3


From 6edbf8de877651495c7b9f6f41e921c501f3c9fb Mon Sep 17 00:00:00 2001
From: Rutger Helling <rhelling@mykolab.com>
Date: Fri, 21 Jun 2019 10:18:19 +0200
Subject: gnu: vulkan-headers: Update to 1.1.108.

* gnu/packages/vulkan.scm (vulkan-headers): Update to 1.1.108.
* gnu/packages/vulkan.scm (vulkan-loader): Update hash.
[arguments]: Add 'copy-headers1 and 'copy-headers2 phases.
* gnu/packages/vulkan.scm (vulkan-tools): Update hash.
---
 gnu/packages/vulkan.scm | 30 ++++++++++++++++++++++++++----
 1 file changed, 26 insertions(+), 4 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/vulkan.scm b/gnu/packages/vulkan.scm
index 6b151f0a31..86a0d711eb 100644
--- a/gnu/packages/vulkan.scm
+++ b/gnu/packages/vulkan.scm
@@ -159,7 +159,7 @@ interpretation of the specifications for these languages.")
 (define-public vulkan-headers
   (package
     (name "vulkan-headers")
-    (version "1.1.107")
+    (version "1.1.108")
     (source
      (origin
        (method git-fetch)
@@ -169,7 +169,7 @@ interpretation of the specifications for these languages.")
        (file-name (git-file-name name version))
        (sha256
         (base32
-         "0kyf83n6fghqmjj5jbwhy08yq5sl598qnmw3kbavrnw9avqqm0c4"))))
+         "0slj10rfcrd6xpfhm13x3q1ldz2qhk9p64cw0nw0qlmy40k1iy83"))))
     (build-system cmake-build-system)
     (arguments
      `(#:tests? #f))                    ; No tests.
@@ -193,7 +193,7 @@ interpretation of the specifications for these languages.")
        (file-name (git-file-name name version))
        (sha256
         (base32
-         "1p64k9x5r7nsrs0cn6d61687xbajqvsm78xk6j85w9wfin5dxs30"))))
+         "08v3sdkr0aii4a9jqhyz8j3x42zm2qswsiy6qsb47wz4bpi90zgy"))))
     (build-system cmake-build-system)
     (arguments
      `(#:tests? #f ;FIXME: 23/39 tests fail.  Try "tests/run_all_tests.sh".
@@ -203,6 +203,28 @@ interpretation of the specifications for these languages.")
            (lambda* (#:key inputs #:allow-other-keys)
              ;; Remove lines trying to build in a git commit id.
              (substitute* "CMakeLists.txt" ((".*spirv_tools_commit_id.h.*") ""))
+             #t))
+         ;; Make sure that the files needed for Mesa's Vulkan overlay are availabe.
+         (add-after 'unpack 'copy-headers1
+           (lambda* (#:key outputs #:allow-other-keys)
+             (install-file "tests/layers/vk_layer_data.h"
+                           (string-append (assoc-ref %outputs "out")
+                                          "/include/vulkan"))
+             (install-file "tests/layers/vk_layer_extension_utils.h"
+                           (string-append (assoc-ref %outputs "out")
+                                          "/include/vulkan"))
+             (install-file "loader/vk_loader_platform.h"
+                           (string-append (assoc-ref %outputs "out")
+                                          "/include/vulkan"))
+             #t))
+         (add-after 'build 'copy-headers2
+           (lambda* (#:key outputs #:allow-other-keys)
+             (install-file "vk_layer_dispatch_table.h"
+                           (string-append (assoc-ref %outputs "out")
+                                          "/include/vulkan"))
+             (install-file "vk_dispatch_table_helper.h"
+                           (string-append (assoc-ref %outputs "out")
+                                          "/include/vulkan"))
              #t)))
        #:configure-flags (list
                           "-DBUILD_TESTS=OFF" ; FIXME: Needs 'googletest' submodule.
@@ -244,7 +266,7 @@ and the ICD.")
        (file-name (git-file-name name version))
        (sha256
         (base32
-         "1mak96jdg3wv043b4jxyv1fm2cz4nnallg0yb90my3yp5q64grrw"))))
+         "1azch34l9b57wxvh2k5vc0qzmhnapli3348wwhs04z6izszyz4kf"))))
     (build-system cmake-build-system)
     (inputs
      `(("glslang" ,glslang)
-- 
cgit v1.2.3


From 301b2e74f986385664153e6e770e238b351f5cf0 Mon Sep 17 00:00:00 2001
From: Rutger Helling <rhelling@mykolab.com>
Date: Wed, 26 Jun 2019 08:20:27 +0200
Subject: gnu: mesa: Update to 19.1.1.

* gnu/packages/gl.scm (mesa): Update to 19.1.1.
[native-inputs]: Add glslang, vulkan-headers, vulkan-loader for i686-linux and
x86_64-linux.
[arguments]: Enable "-Dvulkan-overlay-layer" configuration flag for i686-linux
and x86_64-linux.
---
 gnu/packages/gl.scm | 19 +++++++++++++++++--
 1 file changed, 17 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/gl.scm b/gnu/packages/gl.scm
index 96e7fc7165..f0454a6fe3 100644
--- a/gnu/packages/gl.scm
+++ b/gnu/packages/gl.scm
@@ -46,6 +46,7 @@
   #:use-module (gnu packages python-xyz)
   #:use-module (gnu packages tls)
   #:use-module (gnu packages video)
+  #:use-module (gnu packages vulkan)
   #:use-module (gnu packages xdisorg)
   #:use-module (gnu packages xml)
   #:use-module (gnu packages xorg)
@@ -223,7 +224,7 @@ also known as DXTn or DXTC) for Mesa.")
 (define-public mesa
   (package
     (name "mesa")
-    (version "19.0.4")
+    (version "19.1.1")
     (source
       (origin
         (method url-fetch)
@@ -235,7 +236,7 @@ also known as DXTn or DXTC) for Mesa.")
                                   version "/mesa-" version ".tar.xz")))
         (sha256
          (base32
-          "0iyffj3xd7f0vsayirswh6aia37ba26hkihpz273hxwd8hpz7y9r"))
+          "10amy5sdmpjbskr3xazgk0jyli8xpgi0y1nsmjr76hx8nhb4n4bj"))
         (patches
          (search-patches "mesa-skip-disk-cache-test.patch"))))
     (build-system meson-build-system)
@@ -269,6 +270,13 @@ also known as DXTn or DXTC) for Mesa.")
       `(("bison" ,bison)
         ("flex" ,flex)
         ("gettext" ,gettext-minimal)
+        ,@(match (%current-system)
+            ((or "x86_64-linux" "i686-linux")
+             `(("glslang" ,glslang)
+               ("vulkan-headers" ,vulkan-headers)
+               ("vulkan-loader" ,vulkan-loader)))
+            (_
+             `()))
         ("pkg-config" ,pkg-config)
         ("python" ,python)
         ("python-mako" ,python-mako)
@@ -305,6 +313,13 @@ also known as DXTn or DXTC) for Mesa.")
              (_
               '("-Dvulkan-drivers=auto")))
 
+         ;; Enable the Vulkan overlay layer on i686-linux and x86-64-linux.
+         ,@(match (%current-system)
+             ((or "x86_64-linux" "i686-linux")
+              '("-Dvulkan-overlay-layer=true"))
+             (_
+              '("")))
+
          ;; Also enable the tests.
          "-Dbuild-tests=true"
 
-- 
cgit v1.2.3


From c24b896365ebf0c783140e53e000305e682d18c5 Mon Sep 17 00:00:00 2001
From: Rutger Helling <rhelling@mykolab.com>
Date: Wed, 26 Jun 2019 09:16:20 +0200
Subject: gnu: vulkan-headers: Update to 1.1.112.

* gnu/packages/vulkan.scm (vulkan-headers): Update to 1.1.112.
* gnu/packages/vulkan.scm (vulkan-loader): Update hash.
* gnu/packages/vulkan.scm (vulkan-tools): Update hash.
---
 gnu/packages/vulkan.scm | 8 ++++----
 1 file changed, 4 insertions(+), 4 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/vulkan.scm b/gnu/packages/vulkan.scm
index 86a0d711eb..9fb780de77 100644
--- a/gnu/packages/vulkan.scm
+++ b/gnu/packages/vulkan.scm
@@ -159,7 +159,7 @@ interpretation of the specifications for these languages.")
 (define-public vulkan-headers
   (package
     (name "vulkan-headers")
-    (version "1.1.108")
+    (version "1.1.112")
     (source
      (origin
        (method git-fetch)
@@ -169,7 +169,7 @@ interpretation of the specifications for these languages.")
        (file-name (git-file-name name version))
        (sha256
         (base32
-         "0slj10rfcrd6xpfhm13x3q1ldz2qhk9p64cw0nw0qlmy40k1iy83"))))
+         "0iia2wlq38hvxwip6r3k5946ylrlk42fw50mhf0pdjxjh02p8zn5"))))
     (build-system cmake-build-system)
     (arguments
      `(#:tests? #f))                    ; No tests.
@@ -193,7 +193,7 @@ interpretation of the specifications for these languages.")
        (file-name (git-file-name name version))
        (sha256
         (base32
-         "08v3sdkr0aii4a9jqhyz8j3x42zm2qswsiy6qsb47wz4bpi90zgy"))))
+         "1819bgmpjlikcc25bkmwwb7mp1rlyrq2v74wybg1g40ix70v0m0d"))))
     (build-system cmake-build-system)
     (arguments
      `(#:tests? #f ;FIXME: 23/39 tests fail.  Try "tests/run_all_tests.sh".
@@ -266,7 +266,7 @@ and the ICD.")
        (file-name (git-file-name name version))
        (sha256
         (base32
-         "1azch34l9b57wxvh2k5vc0qzmhnapli3348wwhs04z6izszyz4kf"))))
+         "0an9hqvvpfmfld2pkszzwi7ccb9g2ijjqqzlj24dqg9kqnmcr3x4"))))
     (build-system cmake-build-system)
     (inputs
      `(("glslang" ,glslang)
-- 
cgit v1.2.3


From 6ad087b82143e3eb4893bee76cfeba1e89b583ee Mon Sep 17 00:00:00 2001
From: Rutger Helling <rhelling@mykolab.com>
Date: Thu, 27 Jun 2019 13:26:42 +0200
Subject: gnu: mame: Update to 0.211.

* gnu/packages/emulators.scm (mame): Update to 0.211.
---
 gnu/packages/emulators.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/emulators.scm b/gnu/packages/emulators.scm
index a55e5b7a18..8d0162a2d1 100644
--- a/gnu/packages/emulators.scm
+++ b/gnu/packages/emulators.scm
@@ -1191,7 +1191,7 @@ play them on systems for which they were never designed!")
 (define-public mame
   (package
     (name "mame")
-    (version "0.210")
+    (version "0.211")
     (source
      (origin
        (method git-fetch)
@@ -1201,7 +1201,7 @@ play them on systems for which they were never designed!")
        (file-name (git-file-name name version))
        (sha256
         (base32
-         "08c62mc8aajzh44q36qvmrcq404hdzh3i8wwdfnvn0c4w8dbf486"))
+         "0gbxgncbzmmplijg0c1ibwsb87fbmfvs1kjflh002yyx8yvfw83z"))
        (modules '((guix build utils)))
        (snippet
         ;; Remove bundled libraries.
-- 
cgit v1.2.3


From bae0f8af21fafd222a31f84c0dd9aaefeed2370f Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Thu, 27 Jun 2019 23:17:19 +0200
Subject: gnu: pigx-scrnaseq: Update to 0.0.8.

* gnu/packages/bioinformatics.scm (pigx-scrnaseq): Update to 0.0.8.
---
 gnu/packages/bioinformatics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 4f4d3d9839..03463cb530 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -12748,7 +12748,7 @@ methylation and segmentation.")
 (define-public pigx-scrnaseq
   (package
     (name "pigx-scrnaseq")
-    (version "0.0.7")
+    (version "0.0.8")
     (source (origin
               (method url-fetch)
               (uri (string-append "https://github.com/BIMSBbioinfo/pigx_scrnaseq/"
@@ -12756,7 +12756,7 @@ methylation and segmentation.")
                                   "/pigx_scrnaseq-" version ".tar.gz"))
               (sha256
                (base32
-                "131zarirv16w8653m0d66jgjnwqfsxqc0hix0rypssz4d83bl51j"))))
+                "0zv0sc5amivxhb95vx2gfx6l9bh7n80fh7h47dalnwxxnfvnzai4"))))
     (build-system gnu-build-system)
     (arguments
      `(#:configure-flags
-- 
cgit v1.2.3


From 9969b436af8c2892e59ed14ffe94905b6b18c005 Mon Sep 17 00:00:00 2001
From: Mark H Weaver <mhw@netris.org>
Date: Thu, 27 Jun 2019 18:57:10 -0400
Subject: gnu: linux-libre@4.4: Update to 4.4.184.

* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.184.
---
 gnu/packages/linux.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/linux.scm b/gnu/packages/linux.scm
index 079300cf6d..efb1c659f8 100644
--- a/gnu/packages/linux.scm
+++ b/gnu/packages/linux.scm
@@ -486,8 +486,8 @@ It has been modified to remove all non-free binary blobs.")
                     #:configuration-file kernel-config))
 
 (define-public linux-libre-4.4
-  (make-linux-libre "4.4.183"
-                    "1v21n5kwnv9n18gfp2dz9hsdkwmfwigalr82xsnwbzhs0x561bxx"
+  (make-linux-libre "4.4.184"
+                    "05v295wk9fid17n5plkx6p9nwz6dvpcn2r7khwsq30sy3pg0vxv5"
                     '("x86_64-linux" "i686-linux")
                     #:configuration-file kernel-config
                     #:extra-options
-- 
cgit v1.2.3


From 1ad3e3f9f159d53e8ccbf4ca67afc10ae67428c5 Mon Sep 17 00:00:00 2001
From: Mark H Weaver <mhw@netris.org>
Date: Thu, 27 Jun 2019 18:58:06 -0400
Subject: gnu: linux-libre@4.9: Update to 4.9.184.

* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.184.
---
 gnu/packages/linux.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/linux.scm b/gnu/packages/linux.scm
index efb1c659f8..7110fd9474 100644
--- a/gnu/packages/linux.scm
+++ b/gnu/packages/linux.scm
@@ -480,8 +480,8 @@ It has been modified to remove all non-free binary blobs.")
                             %linux-libre-4.14-hash))
 
 (define-public linux-libre-4.9
-  (make-linux-libre "4.9.183"
-                    "1w3syih3fggwkpcl6zkmm9f6577r2jvack4br5ffccgcddkz52ia"
+  (make-linux-libre "4.9.184"
+                    "0q3ggndwf0rwsb3xv33zl9awkd1803h2l9b4g6d6ps3f2sjxwxwa"
                     '("x86_64-linux" "i686-linux")
                     #:configuration-file kernel-config))
 
-- 
cgit v1.2.3


From fbb5b688b6258d40e91a34b52a402eea246210d3 Mon Sep 17 00:00:00 2001
From: Mark H Weaver <mhw@netris.org>
Date: Thu, 27 Jun 2019 18:58:45 -0400
Subject: gnu: linux-libre@4.14: Update to 4.14.131.

* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.131.
(%linux-libre-4.14-hash): Update hash.
---
 gnu/packages/linux.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/linux.scm b/gnu/packages/linux.scm
index 7110fd9474..72b62faf42 100644
--- a/gnu/packages/linux.scm
+++ b/gnu/packages/linux.scm
@@ -466,8 +466,8 @@ It has been modified to remove all non-free binary blobs.")
   (make-linux-libre-headers %linux-libre-4.19-version
                             %linux-libre-4.19-hash))
 
-(define %linux-libre-4.14-version "4.14.130")
-(define %linux-libre-4.14-hash "1fk6ds0q2rykr6byvfass8f5a9k6qq9sk261wjcfp1gn8b9wmxws")
+(define %linux-libre-4.14-version "4.14.131")
+(define %linux-libre-4.14-hash "1qcf4cg83zpjirkj8l09y07x4zzskypngampvfw7zyazynwwgs1i")
 
 (define-public linux-libre-4.14
   (make-linux-libre %linux-libre-4.14-version
-- 
cgit v1.2.3


From 09debcf5aa84ef156158e3fd51a102e7331858be Mon Sep 17 00:00:00 2001
From: Nicolas Goaziou <mail@nicolasgoaziou.fr>
Date: Fri, 28 Jun 2019 09:28:33 +0200
Subject: gnu: Add quazip.

* gnu/packages/compression.scm (quazip): New variable.
---
 gnu/packages/compression.scm | 40 ++++++++++++++++++++++++++++++++++++++++
 1 file changed, 40 insertions(+)

(limited to 'gnu')

diff --git a/gnu/packages/compression.scm b/gnu/packages/compression.scm
index 024025fe52..a6a2a04f6f 100644
--- a/gnu/packages/compression.scm
+++ b/gnu/packages/compression.scm
@@ -23,6 +23,7 @@
 ;;; Copyright © 2018 Rutger Helling <rhelling@mykolab.com>
 ;;; Copyright © 2018 Joshua Sierles, Nextjournal <joshua@nextjournal.com>
 ;;; Copyright © 2018 Pierre Neidhardt <mail@ambrevar.xyz>
+;;; Copyright © 2019 Nicolas Goaziou <mail@nicolasgoaziou.fr>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -55,11 +56,13 @@
   #:use-module (gnu packages boost)
   #:use-module (gnu packages check)
   #:use-module (gnu packages curl)
+  #:use-module (gnu packages documentation)
   #:use-module (gnu packages file)
   #:use-module (gnu packages maths)
   #:use-module (gnu packages perl)
   #:use-module (gnu packages pkg-config)
   #:use-module (gnu packages python)
+  #:use-module (gnu packages qt)
   #:use-module (gnu packages tls)
   #:use-module (gnu packages valgrind)
   #:use-module (ice-9 match)
@@ -1886,3 +1889,40 @@ compressor.  UPX typically reduces the file size of programs and shared
 libraries by around 50%--70%, thus reducing disk space, network load times,
 download times, and other distribution and storage costs.")
     (license license:gpl2+)))
+
+(define-public quazip
+  (package
+    (name "quazip")
+    (version "0.8.1")
+    (source (origin
+              (method git-fetch)
+              (uri (git-reference
+                    (url "https://github.com/stachenov/quazip.git")
+                    (commit (string-append "v" version))))
+              (file-name (git-file-name name version))
+              (sha256
+               (base32
+                "1g473gnsbkvxpsv8lbsmhspn7jnq86b05zzgqh11r581v8ndvz5s"))))
+    (build-system cmake-build-system)
+    (arguments
+     `(#:tests? #f))                    ;no test
+    (native-inputs
+     `(("doxygen" ,doxygen)))
+    (inputs
+     `(("qtbase" ,qtbase)
+       ("zlib" ,zlib)))
+    (home-page "https://stachenov.github.io/quazip/index.html")
+    (synopsis "Qt/C++ wrapper for Minizip")
+    (description "QuaZIP is a simple C++ wrapper over Gilles Vollant's
+ZIP/UNZIP package that can be used to access ZIP archives.  It uses
+Trolltech's Qt toolkit.
+
+QuaZIP allows you to access files inside ZIP archives using QIODevice
+API, and that means that you can also use QTextStream, QDataStream or
+whatever you would like to use on your zipped files.
+
+QuaZIP provides complete abstraction of the ZIP/UNZIP API, for both
+reading from and writing to ZIP archives. ")
+    ;; Project is distributed under LGPL, but "quazip/z*" "quazip/unzip.*" are
+    ;; distributed under zlib terms.
+    (license (list license:lgpl2.1+ license:zlib))))
-- 
cgit v1.2.3


From 2668e06efdebd3779361ab885d2a32b03a805540 Mon Sep 17 00:00:00 2001
From: Nicolas Goaziou <mail@nicolasgoaziou.fr>
Date: Fri, 28 Jun 2019 09:29:13 +0200
Subject: gnu: krita: Update to 4.2.2.

* gnu/packages/kde.scm (krita): Update to 4.2.2.
[source]: Don't use NAME in source URI.
[arguments]: Remove obsolete configure flags.
[native-inputs]: Add pkg-config.
[inputs]: Add quazip, reorder alphabetically.
---
 gnu/packages/kde.scm | 51 +++++++++++++++++++++++----------------------------
 1 file changed, 23 insertions(+), 28 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/kde.scm b/gnu/packages/kde.scm
index 2fce704901..31b3670079 100644
--- a/gnu/packages/kde.scm
+++ b/gnu/packages/kde.scm
@@ -4,6 +4,7 @@
 ;;; Copyright © 2017, 2018 Mark Meyer <mark@ofosos.org>
 ;;; Copyright © 2017, 2018, 2019 Tobias Geerinckx-Rice <me@tobias.gr>
 ;;; Copyright © 2018 Gábor Boskovits <boskovits@gmail.com>
+;;; Copyright © 2019 Nicolas Goaziou <mail@nicolasgoaziou.fr>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -319,29 +320,21 @@ plugins, as well as code to create plugins, or complete applications.")
 (define-public krita
   (package
     (name "krita")
-    (version "4.1.7.101")
+    (version "4.2.2")
     (source (origin
               (method url-fetch)
               (uri (string-append
                     "mirror://kde/stable/krita/"
                     (version-prefix version 3)
-                    "/" name "-" version ".tar.gz"))
+                    "/krita-" version ".tar.gz"))
               (sha256
                (base32
-                "0pvghb17vj3y19wa1n1zfg3yl5206ir3y45znrgdgdw076m5pjav"))))
+                "1pzk5bqp3kh22djhvsvmsc7ybirs4hsnkpg1y9677m2gxwbqnnps"))))
     (build-system cmake-build-system)
     (arguments
      `(#:tests? #f
        #:configure-flags
-       (list "-DBUILD_TESTING=OFF" "-DKDE4_BUILD_TESTS=OFF"
-             (string-append "-DWITH_FFTW3="
-                            (assoc-ref %build-inputs "fftw"))
-             (string-append "-DWITH_GSL="
-                            (assoc-ref %build-inputs "gsl"))
-             (string-append "-DWITH_LibRaw="
-                            (assoc-ref %build-inputs "libraw"))
-             (string-append "-DWITH_TIFF="
-                            (assoc-ref %build-inputs "libtiff"))
+       (list "-DBUILD_TESTING=OFF"
              (string-append "-DCMAKE_CXX_FLAGS=-I"
                             (assoc-ref %build-inputs "ilmbase")
                             "/include/OpenEXR"))
@@ -366,14 +359,15 @@ plugins, as well as code to create plugins, or complete applications.")
        ("extra-cmake-modules" ,extra-cmake-modules)
        ("gettext-minimal" ,gettext-minimal)
        ("kitemmodels" ,kitemmodels)
+       ("pkg-config" ,pkg-config)
        ("qwt" ,qwt)
        ("vc" ,vc)))
     (inputs
-     `(("qtbase" ,qtbase)
-       ("qtdeclarative" ,qtdeclarative)
-       ("qtmultimedia" ,qtmultimedia)
-       ("qtx11extras" ,qtx11extras)
-       ("qtsvg" ,qtsvg)
+     `(("boost" ,boost)
+       ("exiv2" ,exiv2)
+       ("fftw" ,fftw)
+       ("gsl" ,gsl)
+       ("ilmbase" ,ilmbase)
        ("karchive" ,karchive)
        ("kcompletion" ,kcompletion)
        ("kconfig" ,kconfig)
@@ -387,23 +381,24 @@ plugins, as well as code to create plugins, or complete applications.")
        ("kwidgetsaddons" ,kwidgetsaddons)
        ("kwindowsystem" ,kwindowsystem)
        ("kxmlgui" ,kxmlgui)
-       ("boost" ,boost)
-       ("exiv2" ,exiv2)
        ("lcms" ,lcms)
-       ("libpng" ,libpng)
        ("libjpeg-turbo" ,libjpeg-turbo)
-       ("zlib" ,zlib)
+       ("libpng" ,libpng)
+       ("libraw" ,libraw-0.18)
+       ("libtiff" ,libtiff)
        ("libx11" ,libx11)
        ("libxcb" ,libxcb)
        ("libxi" ,libxi)
-       ("fftw" ,fftw)
-       ("gsl" ,gsl)
-       ("poppler-qt5" ,poppler-qt5)
-       ("libraw" ,libraw-0.18)
-       ("libtiff" ,libtiff)
+       ("openexr" ,openexr)
        ("perl" ,perl)
-       ("ilmbase" ,ilmbase)
-       ("openexr" ,openexr)))
+       ("poppler-qt5" ,poppler-qt5)
+       ("qtbase" ,qtbase)
+       ("qtdeclarative" ,qtdeclarative)
+       ("qtmultimedia" ,qtmultimedia)
+       ("qtsvg" ,qtsvg)
+       ("qtx11extras" ,qtx11extras)
+       ("quazip" ,quazip)
+       ("zlib" ,zlib)))
     (home-page "https://krita.org")
     (synopsis "Digital painting application")
     (description
-- 
cgit v1.2.3


From 5b786db86c12550cfbb7564b0d3472aa6401d4ec Mon Sep 17 00:00:00 2001
From: Efraim Flashner <efraim@flashner.co.il>
Date: Fri, 28 Jun 2019 10:38:15 +0300
Subject: gnu: atlas: All phases return #t.

* gnu/packages/maths.scm (atlas)[arguments]: Ensure all custom phases
return #t.
---
 gnu/packages/maths.scm | 6 ++++--
 1 file changed, 4 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index f16e108656..5b31596041 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -3369,13 +3369,15 @@ packages.")
              ;; Use `sh', not `/bin/sh'.
              (substitute* (find-files "." "Makefile|configure|SpewMakeInc\\.c")
                (("/bin/sh")
-                "sh"))))
+                "sh"))
+             #t))
          ;; Fix /bin/sh in generated make files.
          (add-after 'configure 'fix-/bin/sh-in-generated-files
            (lambda _
              (substitute* (find-files "." "^[Mm]ake\\.inc.*")
                (("/bin/sh")
-                "sh"))))
+                "sh"))
+             #t))
          ;; ATLAS configure program does not accepts the default flags
          ;; passed by the 'gnu-build-system'.
          (replace 'configure
-- 
cgit v1.2.3


From 458f410bc2d9a007101a699e3e91c1cdcf1bff89 Mon Sep 17 00:00:00 2001
From: Nicolas Goaziou <mail@nicolasgoaziou.fr>
Date: Fri, 28 Jun 2019 10:11:12 +0200
Subject: gnu: snap: Update to 5.

* gnu/packages/education.scm (snap): Update to 5.
---
 gnu/packages/education.scm | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/education.scm b/gnu/packages/education.scm
index 98aaad7e63..2bb61a744a 100644
--- a/gnu/packages/education.scm
+++ b/gnu/packages/education.scm
@@ -250,17 +250,17 @@ easy.")
 (define-public snap
   (package
     (name "snap")
-    (version "4.2.2.9")
+    (version "5")
     (source
      (origin
        (method git-fetch)
        (uri (git-reference
              (url "https://github.com/jmoenig/Snap.git")
-             (commit version)))
+             (commit (string-append "v" version))))
        (file-name (git-file-name name version))
        (sha256
         (base32
-         "07qyhh4f8gr1fqyvxa2i6lkzaaa0vl12yzllgp81rdil8z8bi976"))))
+         "0bh52n7nklaaq02qb56v7bvrslf047my6irl7g8h6xfjgw04yf20"))))
     (build-system trivial-build-system)
     (arguments
      `(#:modules ((guix build utils))
-- 
cgit v1.2.3


From 9d83e60e515dcb452dd7f041722307ae6278e73c Mon Sep 17 00:00:00 2001
From: Nicolas Goaziou <mail@nicolasgoaziou.fr>
Date: Fri, 28 Jun 2019 10:46:45 +0200
Subject: gnu: musescore: Update to 3.2.

* gnu/packages/music.scm (musescore): Update to 3.2.
---
 gnu/packages/music.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/music.scm b/gnu/packages/music.scm
index ca9cbd3343..4a852b091d 100644
--- a/gnu/packages/music.scm
+++ b/gnu/packages/music.scm
@@ -3718,7 +3718,7 @@ audio samples and various soft sythesizers.  It can receive input from a MIDI ke
 (define-public musescore
   (package
     (name "musescore")
-    (version "3.1")
+    (version "3.2")
     (source (origin
               (method git-fetch)
               (uri (git-reference
@@ -3727,7 +3727,7 @@ audio samples and various soft sythesizers.  It can receive input from a MIDI ke
               (file-name (git-file-name name version))
               (sha256
                (base32
-                "07xkn8gnnqzhj9cn1li5qpm2rfm86bmxbbfd76i1jx4v999icn0j"))
+                "0719p4hjlq7skga8q4hvnd5w33vhrd1a1aygvqm9pn4na02zazy6"))
               (modules '((guix build utils)))
               (snippet
                ;; Un-bundle OpenSSL and remove unused libraries.
-- 
cgit v1.2.3


From 4ee2cce327ce839f471fb28a095fe7299ed822af Mon Sep 17 00:00:00 2001
From: "Jakob L. Kreuze" <zerodaysfordays@sdf.lonestar.org>
Date: Thu, 27 Jun 2019 20:41:05 -0400
Subject: gnu: Add beets-bandcamp.

* gnu/packages/music.scm (beets-bandcamp): New variable.

Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
---
 gnu/packages/music.scm | 29 +++++++++++++++++++++++++++++
 1 file changed, 29 insertions(+)

(limited to 'gnu')

diff --git a/gnu/packages/music.scm b/gnu/packages/music.scm
index 4a852b091d..0a0677161a 100644
--- a/gnu/packages/music.scm
+++ b/gnu/packages/music.scm
@@ -21,6 +21,7 @@
 ;;; Copyright © 2018 Björn Höfling <bjoern.hoefling@bjoernhoefling.de>
 ;;; Copyright © 2019 Gabriel Hondet <gabrielhondet@gmail.com>
 ;;; Copyright © 2019 Timotej Lazar <timotej.lazar@araneo.si>
+;;; Copyright © 2019 Jakob L. Kreuze <zerodaysfordays@sdf.lonestar.org>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -129,6 +130,7 @@
   #:use-module (gnu packages tcl)
   #:use-module (gnu packages texinfo)
   #:use-module (gnu packages tex)
+  #:use-module (gnu packages time)
   #:use-module (gnu packages tls)
   #:use-module (gnu packages version-control)
   #:use-module (gnu packages video)
@@ -2816,6 +2818,33 @@ metadata as it goes using the MusicBrainz database.  Then it provides a variety
 of tools for manipulating and accessing your music.")
     (license license:expat)))
 
+(define-public beets-bandcamp
+  (package
+    (name "beets-bandcamp")
+    (version "0.1.3")
+    (source (origin
+              (method url-fetch)
+              (uri (pypi-uri "beets-bandcamp" version))
+              (sha256
+               (base32
+                "04awg0zdhhg5h510fc1p3qkvr2l1qm6nf85hlr9z8im8a7xlka0i"))))
+    (build-system python-build-system)
+    (arguments '(#:tests? #f))          ; there are no tests
+    (propagated-inputs
+     `(("beets" ,beets)
+       ("python-isodate" ,python-isodate)))
+    (inputs
+     `(("python-beautifulsoup4" ,python-beautifulsoup4)
+       ("python-requests" ,python-requests)
+       ("python-six" ,python-six)))
+    (home-page "https://github.com/unrblt/beets-bandcamp")
+    (synopsis "Bandcamp plugin for beets")
+    (description
+     "This plugin for beets automatically obtains tag data from @uref{Bandcamp,
+https://bandcamp.com/}.  It's also capable of getting song lyrics and album art
+using the beets FetchArt plugin.")
+    (license license:gpl2)))
+
 (define-public milkytracker
   (package
     (name "milkytracker")
-- 
cgit v1.2.3


From 4289d1d71cbbb1895354ec3b0cb8c99a4ce9f9be Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Fri, 28 Jun 2019 20:53:20 +0200
Subject: gnu: python-llvmlite: Build against LLVM 7.

This is a follow-up to commit c5296e205b65a9b53553cf45be2ab223d5e82df5.

* gnu/packages/llvm.scm (llvm-7, clang-runtime-7, clang-7): New public variables.
(python-llvmlite)[inputs]: Inherit from LLVM-7 instead of LLVM.
---
 gnu/packages/llvm.scm | 26 ++++++++++++++++++++++++--
 1 file changed, 24 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/llvm.scm b/gnu/packages/llvm.scm
index 732ffc0823..faf9e40049 100644
--- a/gnu/packages/llvm.scm
+++ b/gnu/packages/llvm.scm
@@ -371,6 +371,28 @@ with that of libgomp, the GNU Offloading and Multi Processing Library.")
                    "0svk1f70hvpwrjp6x5i9kqwrqwxnmcrw5s7f4cxyd100mdd12k08"
                    #:patches '("clang-7.0-libc-search-path.patch")))
 
+(define-public llvm-7
+  (package
+    (inherit llvm)
+    (version "7.0.1")
+    (source (origin
+              (method url-fetch)
+              (uri (string-append "https://llvm.org/releases/"
+                                  version "/llvm-" version ".src.tar.xz"))
+              (sha256
+               (base32
+                "16s196wqzdw4pmri15hadzqgdi926zln3an2viwyq0kini6zr3d3"))))))
+
+(define-public clang-runtime-7
+  (clang-runtime-from-llvm
+   llvm-7
+   "065ybd8fsc4h2hikbdyricj6pyv4r7r7kpcikhb2y5zf370xybkq"))
+
+(define-public clang-7
+  (clang-from-llvm llvm-7 clang-runtime
+                   "067lwggnbg0w1dfrps790r5l6k8n5zwhlsw7zb6zvmfpwpfn4nx4"
+                   #:patches '("clang-7.0-libc-search-path.patch")))
+
 (define-public llvm-6
   (package
     (inherit llvm)
@@ -542,9 +564,9 @@ with that of libgomp, the GNU Offloading and Multi Processing Library.")
     (inputs
      `(("llvm"
         ,(package
-           (inherit llvm)
+           (inherit llvm-7)
            (source (origin
-                     (inherit (package-source llvm))
+                     (inherit (package-source llvm-7))
                      (patches
                       (list
                        (origin
-- 
cgit v1.2.3


From aff3ecbfda62c39fe3414565b6366621b9aef978 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:18:54 +0200
Subject: gnu: r-dose: Update to 3.10.2.

* gnu/packages/bioconductor.scm (r-dose): Update to 3.10.2.
---
 gnu/packages/bioconductor.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 92f2e4f3ab..331dee069b 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -2915,14 +2915,14 @@ to multiple hypothesis correction.")
 (define-public r-dose
   (package
     (name "r-dose")
-    (version "3.10.1")
+    (version "3.10.2")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "DOSE" version))
        (sha256
         (base32
-         "0ab7mgj42fg6608qkciyqivr1n8s8r5ibvp0z3jfclrnyx6cl0w1"))))
+         "06jm1mnfd92s84f21562vsmj6jfkravfqf4lcxx2lk7s4ll66znj"))))
     (properties `((upstream-name . "DOSE")))
     (build-system r-build-system)
     (propagated-inputs
-- 
cgit v1.2.3


From 3c944fdace6ae388eb01c45f5975aec1d2f693b6 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:19:05 +0200
Subject: gnu: r-genomicscores: Update to 1.8.1.

* gnu/packages/bioconductor.scm (r-genomicscores): Update to 1.8.1.
---
 gnu/packages/bioconductor.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 331dee069b..f08b48aeb0 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -3406,14 +3406,14 @@ type and symbol colors.")
 (define-public r-genomicscores
   (package
     (name "r-genomicscores")
-    (version "1.8.0")
+    (version "1.8.1")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "GenomicScores" version))
        (sha256
         (base32
-         "17bd61icfycc61b5dij1968h026w7vfd9miwdcbppak1j6s08idq"))))
+         "0xgv5h6hwr4p2p05z8vzhivy97gfirm4rj1ihb5c8fhgc5vp85dy"))))
     (properties `((upstream-name . "GenomicScores")))
     (build-system r-build-system)
     (propagated-inputs
-- 
cgit v1.2.3


From 3e265d968bf998335583d2b82a056b7652f7a97c Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:19:19 +0200
Subject: gnu: r-rsubread: Update to 1.34.4.

* gnu/packages/bioconductor.scm (r-rsubread): Update to 1.34.4.
---
 gnu/packages/bioconductor.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index f08b48aeb0..29dac5b0f1 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -4749,14 +4749,14 @@ annotations.")
 (define-public r-rsubread
   (package
     (name "r-rsubread")
-    (version "1.34.2")
+    (version "1.34.4")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "Rsubread" version))
        (sha256
         (base32
-         "0bsrw61wcav0q22c5m6gr0vn1f3c3ld8gxj730wcab6dj196z6q3"))))
+         "1230p8nsakifmpsqfiaj8rpm7npa8ab903mfjmayfa71n6yzvcbs"))))
     (properties `((upstream-name . "Rsubread")))
     (build-system r-build-system)
     (inputs `(("zlib" ,zlib)))
-- 
cgit v1.2.3


From 0253b5d881e78c4920e6dc149d35cc6b2f92db05 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:19:27 +0200
Subject: gnu: r-systempiper: Update to 1.18.2.

* gnu/packages/bioinformatics.scm (r-systempiper): Update to 1.18.2.
---
 gnu/packages/bioinformatics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 03463cb530..8d6351501b 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -6960,14 +6960,14 @@ ungapped alignment formats.")
 (define-public r-systempiper
   (package
     (name "r-systempiper")
-    (version "1.18.1")
+    (version "1.18.2")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "systemPipeR" version))
        (sha256
         (base32
-         "1k57zyzagd7g7wl38l3cn9csylykxcllbfvyq7dz8pvihgkn0ssi"))))
+         "18s5vpmw766pm64w7bwwfgpsv9yzhwclf0ya1rpqz8qslw7bbdjf"))))
     (properties `((upstream-name . "systemPipeR")))
     (build-system r-build-system)
     (propagated-inputs
-- 
cgit v1.2.3


From f0c244229a3cb6e9d92c178c88a7526f697f1589 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:19:33 +0200
Subject: gnu: r-edger: Update to 3.26.5.

* gnu/packages/bioinformatics.scm (r-edger): Update to 3.26.5.
---
 gnu/packages/bioinformatics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 8d6351501b..1a08947c29 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -7467,13 +7467,13 @@ names in their natural, rather than lexicographic, order.")
 (define-public r-edger
   (package
     (name "r-edger")
-    (version "3.26.4")
+    (version "3.26.5")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "edgeR" version))
               (sha256
                (base32
-                "013glavk6a1wpyq3q35k343bdp6rf27w30q59i4kf47rp3i37g15"))))
+                "0iba4krz30dx5b0s89n5cfkwn64867s7vmvvfqms9lbcr4kj439m"))))
     (properties `((upstream-name . "edgeR")))
     (build-system r-build-system)
     (propagated-inputs
-- 
cgit v1.2.3


From 888085c36cb4eb82517c5d3ccf9285dd9b7df20b Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:19:41 +0200
Subject: gnu: r-biomart: Update to 2.40.1.

* gnu/packages/bioinformatics.scm (r-biomart): Update to 2.40.1.
---
 gnu/packages/bioinformatics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 1a08947c29..2c1149955d 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -7667,13 +7667,13 @@ annotation data packages using SQLite data storage.")
 (define-public r-biomart
   (package
     (name "r-biomart")
-    (version "2.40.0")
+    (version "2.40.1")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "biomaRt" version))
               (sha256
                (base32
-                "1i457s91bn7n60bzw3zk4h64xgmawlrr6bq4z4cb7jlm04hdq8qm"))))
+                "1abl0c4qbhfqf9ixdp74183phm7s8rszrr5ldczm59b8vyng8rhx"))))
     (properties
      `((upstream-name . "biomaRt")))
     (build-system r-build-system)
-- 
cgit v1.2.3


From c40bba2b366b0aab4033854325414d3d0de27490 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:19:46 +0200
Subject: gnu: r-genomicalignments: Update to 1.20.1.

* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.20.1.
---
 gnu/packages/bioinformatics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 2c1149955d..763879d768 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -7859,13 +7859,13 @@ samples.")
 (define-public r-genomicalignments
   (package
     (name "r-genomicalignments")
-    (version "1.20.0")
+    (version "1.20.1")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "GenomicAlignments" version))
               (sha256
                (base32
-                "13zw7bb1adgph9bf9b9y725nr0320b80y70p2yqf3bjb2klfxf55"))))
+                "0s3q97q4pgj5jwn4g95al44rahrwsncsf45v01v4071msx3xmjxq"))))
     (properties
      `((upstream-name . "GenomicAlignments")))
     (build-system r-build-system)
-- 
cgit v1.2.3


From dafd290d2160f30a07a118fb5b16767ec18ae867 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:19:52 +0200
Subject: gnu: r-genomicfeatures: Update to 1.36.3.

* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.36.3.
---
 gnu/packages/bioinformatics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 763879d768..e8af330c84 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -7939,13 +7939,13 @@ as well as query and modify the browser state, such as the current viewport.")
 (define-public r-genomicfeatures
   (package
     (name "r-genomicfeatures")
-    (version "1.36.1")
+    (version "1.36.3")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "GenomicFeatures" version))
               (sha256
                (base32
-                "02psq3jfgghdydwbydb1j792lvfg44l5npb44mx8d54ckr8658dd"))))
+                "0zkd57i5qjxsravv0gbyckc0wrnqzgxd61ibh3jmhmrccrr9ihn3"))))
     (properties
      `((upstream-name . "GenomicFeatures")))
     (build-system r-build-system)
-- 
cgit v1.2.3


From 7f17e60ab76e6e107fee6884be83443da0b69370 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:19:59 +0200
Subject: gnu: r-tximport: Update to 1.12.3.

* gnu/packages/bioinformatics.scm (r-tximport): Update to 1.12.3.
---
 gnu/packages/bioinformatics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index e8af330c84..2aacd38cd8 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -8562,13 +8562,13 @@ factors bound at the specific regions.")
 (define-public r-tximport
   (package
     (name "r-tximport")
-    (version "1.12.1")
+    (version "1.12.3")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "tximport" version))
               (sha256
                (base32
-                "1nq8v1sgkm2ssmvr2z3qw0zsk7zy0dzb95g1mfs8fkpjqh3nqq5s"))))
+                "070nx0blvvfhsnkbb5j899wy7dgalrh4xfcciir9l2xl67lna1zf"))))
     (build-system r-build-system)
     (home-page "https://bioconductor.org/packages/tximport")
     (synopsis "Import and summarize transcript-level estimates for gene-level analysis")
-- 
cgit v1.2.3


From 5b86bcfa684eeaa5f881c9fb2549f826f991fe4b Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:20:09 +0200
Subject: gnu: r-phangorn: Update to 2.5.5.

* gnu/packages/bioinformatics.scm (r-phangorn): Update to 2.5.5.
---
 gnu/packages/bioinformatics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 2aacd38cd8..8c140a1d24 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -10693,14 +10693,14 @@ memory usage and processing time is minimized.")
 (define-public r-phangorn
   (package
     (name "r-phangorn")
-    (version "2.5.3")
+    (version "2.5.5")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "phangorn" version))
        (sha256
         (base32
-         "1bv86yfk5r015s7ij6v4zz7bagwrw9m13yfs5853drxb19d5h1m3"))))
+         "0ihkaykqjmf80d8wrk3saphxvnv58zma6pd13633bd3cwanc33f5"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-ape" ,r-ape)
-- 
cgit v1.2.3


From 4ae5f18a25381da80c9094bc53837eb8155c6a0f Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:20:15 +0200
Subject: gnu: r-abbyyr: Update to 0.5.5.

* gnu/packages/cran.scm (r-abbyyr): Update to 0.5.5.
---
 gnu/packages/cran.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index e0f2b3bb87..69c659a58d 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -1115,14 +1115,14 @@ and several other tools.")
 (define-public r-abbyyr
   (package
     (name "r-abbyyr")
-    (version "0.5.4")
+    (version "0.5.5")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "abbyyR" version))
        (sha256
         (base32
-         "1jh1c1ad6mgw7brdh2isnza1qpjlfxnqr7jl76yd93axyfl76xjx"))))
+         "1vldnd3dg89aj6a73nhirirqddbfdrnzhb5m3679i60sark8nk6r"))))
     (properties `((upstream-name . "abbyyR")))
     (build-system r-build-system)
     (propagated-inputs
-- 
cgit v1.2.3


From 1f7e8d49c3082d955dd402ad878bb3da3b9739b4 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:20:21 +0200
Subject: gnu: r-performanceanalytics: Update to 1.5.3.

* gnu/packages/cran.scm (r-performanceanalytics): Update to 1.5.3.
---
 gnu/packages/cran.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 69c659a58d..0beec3c510 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -3196,14 +3196,14 @@ simplifying cross-class interoperability.")
 (define-public r-performanceanalytics
   (package
     (name "r-performanceanalytics")
-    (version "1.5.2")
+    (version "1.5.3")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "PerformanceAnalytics" version))
        (sha256
         (base32
-         "01bgm57z079g6r505w3bj293zkbd49fwa8sg55z87vizwavipml6"))))
+         "0jhjldwyxwq7a47zmk5y1jjck7hvq92p8rlgjvdfy51hx2dmlqqd"))))
     (properties
      `((upstream-name . "PerformanceAnalytics")))
     (build-system r-build-system)
-- 
cgit v1.2.3


From db794146ac8429cb6edc0135331a1bbb8b8da54b Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:20:26 +0200
Subject: gnu: r-xfun: Update to 0.8.

* gnu/packages/cran.scm (r-xfun): Update to 0.8.
---
 gnu/packages/cran.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 0beec3c510..c71d19c0b8 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -3617,14 +3617,14 @@ iVAT).")
 (define-public r-xfun
   (package
     (name "r-xfun")
-    (version "0.7")
+    (version "0.8")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "xfun" version))
        (sha256
         (base32
-         "1gllyyjhkvswcwa15h1f3kb1l1drs2ifpxy4jjanmmhaj7wcmvy9"))))
+         "05jlbi5byqpw0fkhmmxqglnaxh9gwbcigx77kcpw1pkxnpwfry62"))))
     (build-system r-build-system)
     (home-page "https://github.com/yihui/xfun")
     (synopsis "Miscellaneous functions")
-- 
cgit v1.2.3


From f5ec882390c4f8f8b5f64bf715c0b9e93f3fde76 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:20:31 +0200
Subject: gnu: r-tinytex: Update to 0.14.

* gnu/packages/cran.scm (r-tinytex): Update to 0.14.
---
 gnu/packages/cran.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index c71d19c0b8..cd59a4658e 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -3761,14 +3761,14 @@ terminals.")
 (define-public r-tinytex
   (package
     (name "r-tinytex")
-    (version "0.13")
+    (version "0.14")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "tinytex" version))
        (sha256
         (base32
-         "1bbphyrbk2rnyi0jhw4hj2w4l84kyhb0km901qd5qnnl0cy6dzvb"))))
+         "0aab7ybc6kkxxk3lzdmbla8zcpp6nmlahchc33miv28cmnqw363w"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-xfun" ,r-xfun)))
-- 
cgit v1.2.3


From 22b2d8b97f84c8ccfdd2d40aba54e4d2e58f12bc Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:20:38 +0200
Subject: gnu: r-quantmod: Update to 0.4-15.

* gnu/packages/cran.scm (r-quantmod): Update to 0.4-15.
---
 gnu/packages/cran.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index cd59a4658e..0e63faec1c 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -4009,14 +4009,14 @@ Fisher's method), and Sidak correction.")
 (define-public r-quantmod
   (package
     (name "r-quantmod")
-    (version "0.4-14")
+    (version "0.4-15")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "quantmod" version))
        (sha256
         (base32
-         "1csljagnpkr1mmc18h70b64zbyj07kx972nip9dng39jfg7ilnyr"))))
+         "0lyzaf5ypk93v6zj9gdghy05cc7cxgn9yasv1apx5r6qsjcfgwky"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-curl" ,r-curl)
-- 
cgit v1.2.3


From dacf52e0a3c4a9b80e429b8ed4b7f25d38c3ed36 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:20:44 +0200
Subject: gnu: r-cgdsr: Update to 1.3.0.

* gnu/packages/cran.scm (r-cgdsr): Update to 1.3.0.
[propagated-inputs]: Add r-httr.
---
 gnu/packages/cran.scm | 7 ++++---
 1 file changed, 4 insertions(+), 3 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 0e63faec1c..f856ee8572 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -4418,17 +4418,18 @@ fit into memory.")
 (define-public r-cgdsr
   (package
     (name "r-cgdsr")
-    (version "1.2.10")
+    (version "1.3.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "cgdsr" version))
        (sha256
         (base32
-         "1xyhw7mhmjichr1l6f9y1qvfj9wm87kfbm87ji7lcwf36gxh5g23"))))
+         "07yc819hkabpzzh0g0cbqza6bcfy67b2marrzz1lj97f9iba78ja"))))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-r-methodss3" ,r-r-methodss3)
+     `(("r-httr" ,r-httr)
+       ("r-r-methodss3" ,r-r-methodss3)
        ("r-r-oo" ,r-r-oo)))
     (home-page "https://github.com/cBioPortal/cgdsr")
     (synopsis "R-based API for accessing the MSKCC Cancer Genomics Data Server")
-- 
cgit v1.2.3


From a4bc73b2361ef2197925893a5e1b699fd30e6bd0 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:24:42 +0200
Subject: gnu: r-ellipsis: Update to 0.2.0.

* gnu/packages/cran.scm (r-ellipsis): Update to 0.2.0.
[propagated-inputs]: Add r-rlang.
---
 gnu/packages/cran.scm | 6 ++++--
 1 file changed, 4 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index f856ee8572..89d06d7f3e 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -97,15 +97,17 @@ the system clipboards.")
 (define-public r-ellipsis
   (package
     (name "r-ellipsis")
-    (version "0.1.0")
+    (version "0.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "ellipsis" version))
        (sha256
         (base32
-         "0pw94qpg81xmsdsagpqxddv7m2cmdszmyyq99dk3caqqj01z7wg6"))))
+         "0hdk79q4wn5nq52p8qd65kqz81l0b8gfzsbzyvmfais0p24qclib"))))
     (build-system r-build-system)
+    (propagated-inputs
+     `(("r-rlang" ,r-rlang)))
     (home-page "https://github.com/hadley/ellipsis")
     (synopsis "Tools for working with additional arguments")
     (description
-- 
cgit v1.2.3


From 0ccb34584c29400412626fd135111143d46d9a2f Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:24:56 +0200
Subject: gnu: r-ggpubr: Update to 0.2.1.

* gnu/packages/cran.scm (r-ggpubr): Update to 0.2.1.
---
 gnu/packages/cran.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 89d06d7f3e..ade55a374a 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -5388,14 +5388,14 @@ and adds the annotation to the plot.")
 (define-public r-ggpubr
   (package
     (name "r-ggpubr")
-    (version "0.2")
+    (version "0.2.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "ggpubr" version))
        (sha256
         (base32
-         "0rkpcjb1x7lvhj68aam5airbi534jqyiq12x5xk40a25iifhghq6"))))
+         "0a4dv6a752hwvc7l31xs7bgqhfzfdy94xp6wgwaxf5dxm46na7k1"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-cowplot" ,r-cowplot)
-- 
cgit v1.2.3


From 0d2e266220d8fbbf3128c9f24885c1144999c792 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:25:03 +0200
Subject: gnu: r-officer: Update to 0.3.5.

* gnu/packages/cran.scm (r-officer): Update to 0.3.5.
---
 gnu/packages/cran.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index ade55a374a..8d18e6d2a3 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -5722,14 +5722,14 @@ references and Rd files.")
 (define-public r-officer
   (package
     (name "r-officer")
-    (version "0.3.4")
+    (version "0.3.5")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "officer" version))
        (sha256
         (base32
-         "1m4b3mcn5j5q3nq0jp1nranh4rdb8vxcpabn6ryqk9m6709fvhjz"))))
+         "005kaxjhr40shpav2pg7s7gj8f49579r7rbgwlncbwv16nn0rbbg"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-base64enc" ,r-base64enc)
-- 
cgit v1.2.3


From c3447a92eeae4944e58336d796f864b541c0c979 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:25:09 +0200
Subject: gnu: r-prediction: Update to 0.3.14.

* gnu/packages/cran.scm (r-prediction): Update to 0.3.14.
---
 gnu/packages/cran.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 8d18e6d2a3..578d5c8fa0 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -5886,14 +5886,14 @@ parse and convert strings into cases like snake or camel among others.")
 (define-public r-prediction
   (package
     (name "r-prediction")
-    (version "0.3.6.2")
+    (version "0.3.14")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "prediction" version))
        (sha256
         (base32
-         "0kx7xbm2j6c8h6gk1iig4vfpg877psg16j74hl7zc2mv40sc6dy5"))))
+         "0awlq5lxfia6m2b91w73rksp93rbwv5gwqb36wbji4rgq41rzbrx"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-data-table" ,r-data-table)))
-- 
cgit v1.2.3


From 36c5f86fababce0dd9b88a836edc2e10d149728b Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:25:14 +0200
Subject: gnu: r-sjmisc: Update to 2.8.1.

* gnu/packages/cran.scm (r-sjmisc): Update to 2.8.1.
---
 gnu/packages/cran.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 578d5c8fa0..a10e8e5605 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -5965,14 +5965,14 @@ vice versa), or to deal with multiple declared missing values.")
 (define-public r-sjmisc
   (package
     (name "r-sjmisc")
-    (version "2.8.0")
+    (version "2.8.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "sjmisc" version))
        (sha256
         (base32
-         "0pgavkygsj8fa591pmasx78b4gd32sf2pa067yqvi82xha7dj5k4"))))
+         "1a30n3cyd9h9ilaiai9ywy53f03nikafc47rvpws2c2vghc8mbn7"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-dplyr" ,r-dplyr)
-- 
cgit v1.2.3


From c46a16407b6d9a1011d869137d4706fbc84e2f6f Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:25:23 +0200
Subject: gnu: r-flextable: Update to 0.5.5.

* gnu/packages/cran.scm (r-flextable): Update to 0.5.5.
---
 gnu/packages/cran.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index a10e8e5605..bf19c6e9db 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -6042,14 +6042,14 @@ functions.")
 (define-public r-flextable
   (package
     (name "r-flextable")
-    (version "0.5.4")
+    (version "0.5.5")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "flextable" version))
        (sha256
         (base32
-         "0h6ylgz1mn61d2kh1bym8hfl3r7nf4z092lmjsaav3h1ki3avrnl"))))
+         "1q6x9mfk5gikqjbbra1dn8hs1rq5ws99jdjav3m113gx9f2j5yxh"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-base64enc" ,r-base64enc)
-- 
cgit v1.2.3


From 56ab7acb96a9b8e0442871a2a54cbd77b2d553dd Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:25:28 +0200
Subject: gnu: r-ggstance: Update to 0.3.2.

* gnu/packages/cran.scm (r-ggstance): Update to 0.3.2.
---
 gnu/packages/cran.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index bf19c6e9db..60117399ff 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -6642,13 +6642,13 @@ and coverage methods to tune the choice of threshold.")
 (define-public r-ggstance
   (package
     (name "r-ggstance")
-    (version "0.3.1")
+    (version "0.3.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "ggstance" version))
        (sha256
-        (base32 "0v7f3xdaaridw6d4jvnsfwxmpjrasvx5vl555wsrn50aah17fkvh"))))
+        (base32 "078ih9s5b0xzf582qg0vjnxvg5qad5ms1v2vdd062ckahi8zz1r8"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-ggplot2" ,r-ggplot2)
-- 
cgit v1.2.3


From 992e03d2099f8229d3cd3e0b71f0aca1d5afe043 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:25:33 +0200
Subject: gnu: r-emmeans: Update to 1.3.5.1.

* gnu/packages/cran.scm (r-emmeans): Update to 1.3.5.1.
---
 gnu/packages/cran.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 60117399ff..5fac4f593f 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -7697,14 +7697,14 @@ Hothorn, Westfall, 2010, CRC Press).")
 (define-public r-emmeans
   (package
     (name "r-emmeans")
-    (version "1.3.5")
+    (version "1.3.5.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "emmeans" version))
        (sha256
         (base32
-         "0zyink60132f2a0491a94bf67hq8a0bwmw5wn19l0ms8iyiml9d2"))))
+         "0rgzjvmp3yqhwgfg96v17wi8gbafzbrmz134shj2jsf5bsmw6vbj"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-estimability" ,r-estimability)
-- 
cgit v1.2.3


From a634a76a063462a459adaefcebf06b54656c7c3f Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:25:39 +0200
Subject: gnu: r-bayestestr: Update to 0.2.2.

* gnu/packages/cran.scm (r-bayestestr): Update to 0.2.2.
---
 gnu/packages/cran.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 5fac4f593f..286be35249 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -7929,14 +7929,14 @@ differentiation.")
 (define-public r-bayestestr
   (package
     (name "r-bayestestr")
-    (version "0.2.0")
+    (version "0.2.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "bayestestR" version))
        (sha256
         (base32
-         "0729j4fdxkkvmh99nmny38dywidzgmipdjqbi2ljxygsn4jg7ysy"))))
+         "09r654lrhwwnshn5h2s2fbx3c8wigv3j4sva5hmfnkwjg8cclhd9"))))
     (properties `((upstream-name . "bayestestR")))
     (build-system r-build-system)
     (propagated-inputs
-- 
cgit v1.2.3


From da4754a3b17728b9a270fc7188714318f26c9efb Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:25:45 +0200
Subject: gnu: r-remotes: Update to 2.1.0.

* gnu/packages/cran.scm (r-remotes): Update to 2.1.0.
---
 gnu/packages/cran.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 286be35249..c24309f7a8 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -8212,14 +8212,14 @@ more information about packages, and where they were installed from.")
 (define-public r-remotes
   (package
     (name "r-remotes")
-    (version "2.0.4")
+    (version "2.1.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "remotes" version))
        (sha256
         (base32
-         "1jbn4kjimcr82zv5lnqxqa2487a96vn6jxf7wc6gnpxr6k06d61p"))))
+         "19v8dmnk9l4i9m64p7zgmj7y1vhnnwhi5kyn0k5d034zzkvchi49"))))
     (build-system r-build-system)
     (home-page "https://github.com/r-lib/remotes#readme")
     (synopsis "R package installation from remote repositories")
-- 
cgit v1.2.3


From 9f84c9e843ba024b2c40ddab00fd37677c4018e0 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:25:51 +0200
Subject: gnu: r-rgl: Update to 0.100.24.

* gnu/packages/cran.scm (r-rgl): Update to 0.100.24.
---
 gnu/packages/cran.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index c24309f7a8..fe2e280828 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -8725,14 +8725,14 @@ Bioconductor packages.")
 (define-public r-rgl
   (package
     (name "r-rgl")
-    (version "0.100.19")
+    (version "0.100.24")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "rgl" version))
        (sha256
         (base32
-         "09bhvx8aq104yzysfgd7wlnq4vrvmnd4jzgj0c32whjfal10fqsh"))))
+         "0nm3iyvhhmh0zlywkfmrq3vyh8z1l296xxfmcky0ifd2qnysfcqj"))))
     (build-system r-build-system)
     (native-inputs
      `(("pkg-config" ,pkg-config)))
-- 
cgit v1.2.3


From 93e72161ae1d6d41a245625e8ac9863d8f5a8a5c Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:25:56 +0200
Subject: gnu: r-rnifti: Update to 0.11.0.

* gnu/packages/cran.scm (r-rnifti): Update to 0.11.0.
---
 gnu/packages/cran.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index fe2e280828..51cb9b3d71 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -9558,14 +9558,14 @@ Touzet and Varre (2007).")
 (define-public r-rnifti
   (package
     (name "r-rnifti")
-    (version "0.10.0")
+    (version "0.11.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "RNifti" version))
        (sha256
         (base32
-         "07sfzps4yg5zdhbxh6i4rbjvbjvvf2d8i9jcf64ywbmi557sw1zv"))))
+         "0zs8ffa6gpi9cygxk7xjin6k3vpvfgb540a506zlk50bf6kc5nlf"))))
     (properties `((upstream-name . "RNifti")))
     (build-system r-build-system)
     (propagated-inputs `(("r-rcpp" ,r-rcpp)))
-- 
cgit v1.2.3


From 36ff60f539530110b3362a8a90184382e4db4274 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:26:01 +0200
Subject: gnu: r-bootstrap: Update to 2019.6.

* gnu/packages/cran.scm (r-bootstrap): Update to 2019.6.
---
 gnu/packages/cran.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 51cb9b3d71..98f85d043c 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -10593,14 +10593,14 @@ for association and heterogeneity.")
 (define-public r-bootstrap
   (package
     (name "r-bootstrap")
-    (version "2017.2")
+    (version "2019.6")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "bootstrap" version))
        (sha256
         (base32
-         "08lmsy7k8wsgv89yc904c6fidcymr1ma2ry4fl0p69p21v4iiwa4"))))
+         "1546jqhhw5h177ii8jkdikyd26rv6gwkav816np1zks4p7zgsljj"))))
     (build-system r-build-system)
     (native-inputs `(("gfortran" ,gfortran)))
     (home-page "https://cran.r-project.org/web/packages/bootstrap")
-- 
cgit v1.2.3


From d42fb7d2931e3bc52ea25eb0aa017de6295e2b72 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:26:12 +0200
Subject: gnu: r-future-apply: Update to 1.3.0.

* gnu/packages/cran.scm (r-future-apply): Update to 1.3.0.
---
 gnu/packages/cran.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 98f85d043c..e307d2d57c 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -11003,14 +11003,14 @@ the local machine to, say, distributed processing on a remote compute cluster.")
 (define-public r-future-apply
   (package
     (name "r-future-apply")
-    (version "1.2.0")
+    (version "1.3.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "future.apply" version))
        (sha256
         (base32
-         "00ma43ma3byrf9vfqqn9g8sn18c71ryhk7lpza5h7817f1kibw1h"))))
+         "0wd3bh114zkvrqlpn8gqz4ix1igr9hr8x72h2g00a7mqkfjfqx33"))))
     (properties `((upstream-name . "future.apply")))
     (build-system r-build-system)
     (propagated-inputs
-- 
cgit v1.2.3


From 2c4b38002eeb4f73136a3179920608bbce7ae3d8 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:26:18 +0200
Subject: gnu: r-cluster: Update to 2.1.0.

* gnu/packages/statistics.scm (r-cluster): Update to 2.1.0.
---
 gnu/packages/statistics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index 21fe65a08d..c1349a2cca 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -460,14 +460,14 @@ k-nearest neighbour, Learning Vector Quantization and Self-Organizing Maps.")
 (define-public r-cluster
   (package
     (name "r-cluster")
-    (version "2.0.9")
+    (version "2.1.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "cluster" version))
        (sha256
         (base32
-         "1bg5dvs4bzj0rp75jpxaklz12rvyh5w99h7zkvfgpgn86ljg1rlf"))))
+         "055af3yz2biqbsbwm4arwr1yqnj4gicpzv2i6dbfl5pnz2z5byga"))))
     (build-system r-build-system)
     (native-inputs
      `(("gfortran" ,gfortran)))
-- 
cgit v1.2.3


From 45ad3fa9e169a012e4ba17f58bced44ddbff7d21 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:26:23 +0200
Subject: gnu: r-gdtools: Update to 0.1.9.

* gnu/packages/statistics.scm (r-gdtools): Update to 0.1.9.
---
 gnu/packages/statistics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index c1349a2cca..cd6b7ff792 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -1198,14 +1198,14 @@ agnes cluster diagrams.")
 (define-public r-gdtools
   (package
     (name "r-gdtools")
-    (version "0.1.8")
+    (version "0.1.9")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "gdtools" version))
        (sha256
         (base32
-         "1ayy0s699ghaz34lklvcskfwman3x2n2772s5sa5x9k9xgsnxwcl"))))
+         "0w4fihf52q5qxxk0lg36x6yvjjl8vw66y60ncdjs5fvnxqn5z2vb"))))
     (build-system r-build-system)
     (native-inputs
      `(("pkg-config" ,pkg-config)))
-- 
cgit v1.2.3


From ef558bcfc5bb94090d4e1e8688c96e1c594f88ee Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:26:28 +0200
Subject: gnu: r-rlang: Update to 0.4.0.

* gnu/packages/statistics.scm (r-rlang): Update to 0.4.0.
---
 gnu/packages/statistics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index cd6b7ff792..e50202c866 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -1651,13 +1651,13 @@ defined in different packages.")
 (define-public r-rlang
   (package
     (name "r-rlang")
-    (version "0.3.4")
+    (version "0.4.0")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "rlang" version))
               (sha256
                (base32
-                "1pks7d2xavzgaxqrnk3f79qsmv4wqv93f8991jv93pnb1mxpyijf"))))
+                "038mmbmklw17ncgz53vrdx2506c1jj6di3y165bbx2sl2yia8j4p"))))
     (build-system r-build-system)
     (home-page "http://rlang.tidyverse.org")
     (synopsis "Functions for base types, core R and Tidyverse features")
-- 
cgit v1.2.3


From 0b17f1d1dd0659e304cc81b441a98ae8cddf5891 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:26:33 +0200
Subject: gnu: r-dbplyr: Update to 1.4.2.

* gnu/packages/statistics.scm (r-dbplyr): Update to 1.4.2.
---
 gnu/packages/statistics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index e50202c866..c6110a8084 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -1730,14 +1730,14 @@ database.")
 (define-public r-dbplyr
   (package
     (name "r-dbplyr")
-    (version "1.4.1")
+    (version "1.4.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "dbplyr" version))
        (sha256
         (base32
-         "15fs66qq2p20gi3y2jlcsw27ach8rwkkkgr1mz2qbiyddbsjks6g"))))
+         "1q2dflr88s5a1amzfld3087q422vf70052qn84zyd8895kdg10xp"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-assertthat" ,r-assertthat)
-- 
cgit v1.2.3


From 5eddf1e2913477ed87c4e9b4f71f33b545e4cee9 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:26:40 +0200
Subject: gnu: r-plotrix: Update to 3.7-6.

* gnu/packages/statistics.scm (r-plotrix): Update to 3.7-6.
---
 gnu/packages/statistics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index c6110a8084..b6c789abde 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -2537,13 +2537,13 @@ disk (or a connection).")
 (define-public r-plotrix
   (package
     (name "r-plotrix")
-    (version "3.7-5")
+    (version "3.7-6")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "plotrix" version))
               (sha256
                (base32
-                "0k6ivryac1k81z2dijjds376a9jxwk8rf5g48snj67cnjffkybxj"))))
+                "0ijfjlr7ls5hvfyzdmwab6bx0w3nvp0c8fgynj4355cj8mbzgmc3"))))
     (build-system r-build-system)
     (home-page "https://cran.r-project.org/web/packages/plotrix")
     (synopsis "Various plotting functions")
-- 
cgit v1.2.3


From 30f7acdb6b576323a213610b2f949d9233be7906 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:26:45 +0200
Subject: gnu: r-segmented: Update to 1.0-0.

* gnu/packages/statistics.scm (r-segmented): Update to 1.0-0.
---
 gnu/packages/statistics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index b6c789abde..e9a83802be 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -3004,14 +3004,14 @@ statements.")
 (define-public r-segmented
   (package
     (name "r-segmented")
-    (version "0.5-4.0")
+    (version "1.0-0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "segmented" version))
        (sha256
         (base32
-         "0wa0xjda2j33284jkp5hj1wdjysc5f4paj1s1lcixgawj4ckmxkz"))))
+         "1igsfkffpa60zn6j45lhw1zgr5pz6rjknv2f3sylnx5l9fdwibgf"))))
     (build-system r-build-system)
     (home-page "https://cran.r-project.org/web/packages/segmented")
     (synopsis "Regression models with breakpoints estimation")
-- 
cgit v1.2.3


From fad641716ef9a5f2f98df600bd8f74ba7c71ac08 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:26:49 +0200
Subject: gnu: r-mvtnorm: Update to 1.0-11.

* gnu/packages/statistics.scm (r-mvtnorm): Update to 1.0-11.
---
 gnu/packages/statistics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index e9a83802be..a609f02c67 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -3622,13 +3622,13 @@ vignettes.")
 (define-public r-mvtnorm
   (package
     (name "r-mvtnorm")
-    (version "1.0-10")
+    (version "1.0-11")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "mvtnorm" version))
               (sha256
                (base32
-                "04md0wmqgif24g0a4hx19ifn4kk8nx10986vf2d9vascig6ikpri"))))
+                "0lkjph661blc1nwfzg9w48a60wvj6ffh4zjwlisvracsx4nn2883"))))
     (build-system r-build-system)
     (inputs
      `(("gfortran" ,gfortran)))
-- 
cgit v1.2.3


From 666a5a649c336fd7d35ef3ef9a437ebd4d7e32df Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:26:54 +0200
Subject: gnu: r-mclust: Update to 5.4.4.

* gnu/packages/statistics.scm (r-mclust): Update to 5.4.4.
---
 gnu/packages/statistics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index a609f02c67..abae2f9591 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -4748,14 +4748,14 @@ models, generalized linear models and model-based clustering.")
 (define-public r-mclust
   (package
     (name "r-mclust")
-    (version "5.4.3")
+    (version "5.4.4")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "mclust" version))
        (sha256
         (base32
-         "18x5ych9zi3y87rxi4pf6f23sl2918dp9xxpw1pqa7p7drw817p6"))))
+         "039ymr57bq5327gypizw0v2qb81j6bkqhjdh8yj23qa5sh51phyc"))))
     (build-system r-build-system)
     (native-inputs
      `(("gfortran" ,gfortran)))
-- 
cgit v1.2.3


From 73a29d39b3244d4c410c654cf85f0ff5a8c60b28 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:27:04 +0200
Subject: gnu: r-fpc: Update to 2.2-3.

* gnu/packages/statistics.scm (r-fpc): Update to 2.2-3.
[propagated-inputs]: Remove r-mvtnorm.
---
 gnu/packages/statistics.scm | 5 ++---
 1 file changed, 2 insertions(+), 3 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index abae2f9591..f4ea1148bc 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -4967,14 +4967,14 @@ of the points.")
 (define-public r-fpc
   (package
     (name "r-fpc")
-    (version "2.2-2")
+    (version "2.2-3")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "fpc" version))
        (sha256
         (base32
-         "1lzqxi2jzc753j4356b949isx2nccd32mw2ch665q78nxccp145n"))))
+         "1dy3pla4jjgs46izqg2kxajlxr80sbr9896jbzb1qszrdx7af041"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-class" ,r-class)
@@ -4984,7 +4984,6 @@ of the points.")
        ("r-kernlab" ,r-kernlab)
        ("r-mass" ,r-mass)
        ("r-mclust" ,r-mclust)
-       ("r-mvtnorm" ,r-mvtnorm)
        ("r-prabclus" ,r-prabclus)
        ("r-robustbase" ,r-robustbase)))
     (home-page "https://cran.r-project.org/web/packages/fpc")
-- 
cgit v1.2.3


From 3d0c9ff83ec82a404bd25e270dc1262169af0c7e Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 29 Jun 2019 01:27:18 +0200
Subject: gnu: r-quantreg: Update to 5.41.

* gnu/packages/statistics.scm (r-quantreg): Update to 5.41.
---
 gnu/packages/statistics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index f4ea1148bc..31dff49daa 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -5137,14 +5137,14 @@ using modular prediction and response module classes.")
 (define-public r-quantreg
   (package
     (name "r-quantreg")
-    (version "5.40")
+    (version "5.41")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "quantreg" version))
        (sha256
         (base32
-         "1srni6lkgvy44ljxndz2j9ca702z2wy81f6z6mbbi6h06ni11qw6"))))
+         "110ax3ngn6i94h7iw7ha67kfsmj94hycp7lk62nmyvkp34vpfykh"))))
     (build-system r-build-system)
     (native-inputs
      `(("gfortran" ,gfortran)))
-- 
cgit v1.2.3


From f309420b2d6c2e20422eef89ade2b7837fe3801c Mon Sep 17 00:00:00 2001
From: Ivan Petkov <ivanppetkov@gmail.com>
Date: Mon, 17 Jun 2019 19:36:10 -0700
Subject: gnu: rust: remove debug-info patch thanks to newer gdb version

* gnu/local.mk: (dist_patch_DATA): Delete
%D%/packages/patches/rust-1.30-gdb-llvm.patch
* gnu/packages/rust.scm: (rust-1.30): Delete patch overrides.
(rust-1.31): Delete patch overrides.
---
 gnu/local.mk          |  1 -
 gnu/packages/rust.scm | 11 +----------
 2 files changed, 1 insertion(+), 11 deletions(-)

(limited to 'gnu')

diff --git a/gnu/local.mk b/gnu/local.mk
index f5d53b49b8..8f63d0bd14 100644
--- a/gnu/local.mk
+++ b/gnu/local.mk
@@ -1267,7 +1267,6 @@ dist_patch_DATA =						\
   %D%/packages/patches/rust-1.25-accept-more-detailed-gdb-lines.patch \
   %D%/packages/patches/rust-bootstrap-stage0-test.patch		\
   %D%/packages/patches/rust-coresimd-doctest.patch		\
-  %D%/packages/patches/rust-1.30-gdb-llvm.patch			\
   %D%/packages/patches/rust-reproducible-builds.patch		 \
   %D%/packages/patches/rxvt-unicode-escape-sequences.patch	\
   %D%/packages/patches/scalapack-blacs-mpi-deprecations.patch	\
diff --git a/gnu/packages/rust.scm b/gnu/packages/rust.scm
index 9c8088b2f7..76a38736ac 100644
--- a/gnu/packages/rust.scm
+++ b/gnu/packages/rust.scm
@@ -871,10 +871,7 @@ jemalloc = \"" jemalloc "/lib/libjemalloc_pic.a" "\"
                       (delete-file-recursively "src/llvm-emscripten")
                       (delete-file-recursively "src/tools/clang")
                       (delete-file-recursively "src/tools/lldb")
-                      #t))
-          (patches (map search-patch '("rust-1.25-accept-more-detailed-gdb-lines.patch"
-                                       "rust-1.30-gdb-llvm.patch"
-                                       "rust-reproducible-builds.patch")))))
+                      #t))))
       (inputs
        ;; Use LLVM 7.0
        (alist-replace "llvm" (list llvm)
@@ -918,12 +915,6 @@ jemalloc = \"" jemalloc "/lib/libjemalloc_pic.a" "\"
           "0sk84ff0cklybcp0jbbxcw7lk7mrm6kb6km5nzd6m64dy0igrlli")))
     (package
       (inherit base-rust)
-      (source
-        (origin
-          (inherit (package-source base-rust))
-          (patches (map search-patch '("rust-1.25-accept-more-detailed-gdb-lines.patch"
-                                       "rust-1.30-gdb-llvm.patch"
-                                       "rust-reproducible-builds.patch")))))
       (arguments
        (substitute-keyword-arguments (package-arguments base-rust)
          ((#:phases phases)
-- 
cgit v1.2.3


From f676b2a45fd3f91eb12006adb957ff55bfe8514b Mon Sep 17 00:00:00 2001
From: Ivan Petkov <ivanppetkov@gmail.com>
Date: Mon, 17 Jun 2019 19:39:08 -0700
Subject: gnu: rust: downgrade older versions to llvm@6

* gnu/packages/rust.scm: (rust-1.30): Remove llvm override.
---
 gnu/packages/rust.scm | 4 ----
 1 file changed, 4 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/rust.scm b/gnu/packages/rust.scm
index 76a38736ac..c83c8a6784 100644
--- a/gnu/packages/rust.scm
+++ b/gnu/packages/rust.scm
@@ -872,10 +872,6 @@ jemalloc = \"" jemalloc "/lib/libjemalloc_pic.a" "\"
                       (delete-file-recursively "src/tools/clang")
                       (delete-file-recursively "src/tools/lldb")
                       #t))))
-      (inputs
-       ;; Use LLVM 7.0
-       (alist-replace "llvm" (list llvm)
-                      (package-inputs base-rust)))
       (arguments
        (substitute-keyword-arguments (package-arguments base-rust)
          ((#:phases phases)
-- 
cgit v1.2.3


From f5de2b9a3e0070ec431e01c279192e6d93d6a1c8 Mon Sep 17 00:00:00 2001
From: Ivan Petkov <ivanppetkov@gmail.com>
Date: Mon, 17 Jun 2019 22:10:52 -0700
Subject: gnu: rust: use llvm@8

* gnu/packages/llvm.scm (llvm): Rename to...
(llvm-8): ...this.
(llvm): New variable.
* gnu/packages/rust.scm (rust)[inputs]: Use llvm-8
---
 gnu/packages/llvm.scm | 4 +++-
 gnu/packages/rust.scm | 3 +++
 2 files changed, 6 insertions(+), 1 deletion(-)

(limited to 'gnu')

diff --git a/gnu/packages/llvm.scm b/gnu/packages/llvm.scm
index faf9e40049..0315740bcd 100644
--- a/gnu/packages/llvm.scm
+++ b/gnu/packages/llvm.scm
@@ -48,7 +48,7 @@
   #:use-module (gnu packages python)
   #:use-module (gnu packages xml))
 
-(define-public llvm
+(define-public llvm-8
   (package
     (name "llvm")
     (version "8.0.0")
@@ -99,6 +99,8 @@ languages is in development.  The compiler infrastructure includes mirror sets
 of programming tools as well as libraries with equivalent functionality.")
     (license license:ncsa)))
 
+(define-public llvm llvm-8)
+
 (define* (clang-runtime-from-llvm llvm hash
                                   #:optional (patches '()))
   (package
diff --git a/gnu/packages/rust.scm b/gnu/packages/rust.scm
index c83c8a6784..9444d8be73 100644
--- a/gnu/packages/rust.scm
+++ b/gnu/packages/rust.scm
@@ -1056,6 +1056,9 @@ jemalloc = \"" jemalloc "/lib/libjemalloc_pic.a" "\"
            "0bbizy6b7002v1rdhrxrf5gijclbyizdhkglhp81ib3bf5x66kas")))
     (package
       (inherit base-rust)
+      (inputs
+       (alist-replace "llvm" (list llvm-8)
+                      (package-inputs base-rust)))
       (arguments
        (substitute-keyword-arguments (package-arguments base-rust)
          ((#:phases phases)
-- 
cgit v1.2.3


From d1555f34c0e35763f6de995db1106f30c6011f6f Mon Sep 17 00:00:00 2001
From: Eric Bavier <bavier@member.fsf.org>
Date: Fri, 28 Jun 2019 22:44:59 -0500
Subject: gnu: Add Perl Clone::Choose.

* gnu/packages/perl.scm (perl-clone-choose): New variable.
---
 gnu/packages/perl.scm | 28 +++++++++++++++++++++++++++-
 1 file changed, 27 insertions(+), 1 deletion(-)

(limited to 'gnu')

diff --git a/gnu/packages/perl.scm b/gnu/packages/perl.scm
index 909b7fa78a..d0df091494 100644
--- a/gnu/packages/perl.scm
+++ b/gnu/packages/perl.scm
@@ -2,7 +2,7 @@
 ;;; Copyright © 2012, 2013, 2014, 2015, 2016, 2017 Ludovic Courtès <ludo@gnu.org>
 ;;; Copyright © 2013 Andreas Enge <andreas@enge.fr>
 ;;; Copyright © 2015, 2016, 2017, 2019 Ricardo Wurmus <rekado@elephly.net>
-;;; Copyright © 2015, 2016, 2017 Eric Bavier <bavier@member.fsf.org>
+;;; Copyright © 2015, 2016, 2017, 2019 Eric Bavier <bavier@member.fsf.org>
 ;;; Copyright © 2015 Eric Dvorsak <eric@dvorsak.fr>
 ;;; Copyright © 2016, 2018 Mark H Weaver <mhw@netris.org>
 ;;; Copyright © 2016 Jochem Raat <jchmrt@riseup.net>
@@ -1283,6 +1283,32 @@ objects.")
     (home-page "https://metacpan.org/release/Clone")
     (license (package-license perl))))
 
+(define-public perl-clone-choose
+  (package
+    (name "perl-clone-choose")
+    (version "0.010")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (string-append "mirror://cpan/authors/id/H/HE/HERMES/"
+                           "Clone-Choose-" version ".tar.gz"))
+       (sha256
+        (base32
+         "0cin2bjn5z8xhm9v4j7pwlkx88jnvz8al0njdjwyvs6fb0glh8sn"))))
+    (build-system perl-build-system)
+    (native-inputs
+     `(("perl-clone" ,perl-clone)
+       ("perl-clone-pp" ,perl-clone-pp)
+       ("perl-test-without-module" ,perl-test-without-module)))
+    (propagated-inputs
+     `(("perl-module-runtime" ,perl-module-runtime)))
+    (home-page "https://metacpan.org/release/Clone-Choose")
+    (synopsis "Choose appropriate Perl @code{clone} utility")
+    (description "This @code{Clone::Choose} module checks several different
+modules which provide a @code{clone()} function and selects an appropriate
+one.")
+    (license perl-license)))
+
 (define-public perl-clone-pp
   (package
     (name "perl-clone-pp")
-- 
cgit v1.2.3


From 30833b1397eeb0e997a0be1d1424dc9b499124d5 Mon Sep 17 00:00:00 2001
From: Eric Bavier <bavier@member.fsf.org>
Date: Fri, 28 Jun 2019 22:45:48 -0500
Subject: gnu: stow: Update to 2.3.0.

* gnu/packages/package-management.scm (stow): Update to 2.3.0.
[propagated-inputs]: New field.
---
 gnu/packages/package-management.scm | 10 +++++++---
 1 file changed, 7 insertions(+), 3 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/package-management.scm b/gnu/packages/package-management.scm
index e1e7d6a5a0..e4820f403b 100644
--- a/gnu/packages/package-management.scm
+++ b/gnu/packages/package-management.scm
@@ -8,7 +8,7 @@
 ;;; Copyright © 2018 Julien Lepiller <julien@lepiller.eu>
 ;;; Copyright © 2018, 2019 Rutger Helling <rhelling@mykolab.com>
 ;;; Copyright © 2018 Sou Bunnbu <iyzsong@member.fsf.org>
-;;; Copyright © 2018 Eric Bavier <bavier@member.fsf.org>
+;;; Copyright © 2018, 2019 Eric Bavier <bavier@member.fsf.org>
 ;;; Copyright © 2019 Efraim Flashner <efraim@flashner.co.il>
 ;;; Copyright © 2019 Vagrant Cascadian <vagrant@reproducible-builds.org>
 ;;; Copyright © 2019 Jonathan Brielmaier <jonathan.brielmaier@web.de>
@@ -466,14 +466,14 @@ sub-directory.")
 (define-public stow
   (package
     (name "stow")
-    (version "2.2.2")
+    (version "2.3.0")
     (source (origin
               (method url-fetch)
               (uri (string-append "mirror://gnu/stow/stow-"
                                   version ".tar.gz"))
               (sha256
                (base32
-                "1pvky9fayms4r6fhns8jd0vavszd7d979w62vfd5n88v614pdxz2"))))
+                "0h8qr2rxsrkg6d8jxjk68r23jgn1dxdxyp4bnzzinpa8sjhfl905"))))
     (build-system gnu-build-system)
     (inputs
      `(("perl" ,perl)))
@@ -482,6 +482,10 @@ sub-directory.")
        ("perl-test-output" ,perl-test-output)
        ("perl-capture-tiny" ,perl-capture-tiny)
        ("perl-io-stringy" ,perl-io-stringy)))
+    (propagated-inputs
+     `(("perl-clone-choose" ,perl-clone-choose)
+       ("perl-clone" ,perl-clone)
+       ("perl-hash-merge" ,perl-hash-merge)))
     (home-page "https://www.gnu.org/software/stow/")
     (synopsis "Managing installed software packages")
     (description
-- 
cgit v1.2.3


From ad9baf38cef5cb637fbb541bca472f1d64950520 Mon Sep 17 00:00:00 2001
From: Tobias Geerinckx-Rice <me@tobias.gr>
Date: Sat, 29 Jun 2019 01:45:17 +0200
Subject: gnu: di: Update to 4.47.1.

* gnu/packages/admin.scm (di): Update to 4.47.1.
---
 gnu/packages/admin.scm | 8 ++++----
 1 file changed, 4 insertions(+), 4 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/admin.scm b/gnu/packages/admin.scm
index 3d8c247f57..411be40f5b 100644
--- a/gnu/packages/admin.scm
+++ b/gnu/packages/admin.scm
@@ -2220,19 +2220,19 @@ a new command using the matched rule, and runs it.")
 (define-public di
   (package
     (name "di")
-    (version "4.47")
+    (version "4.47.1")
     (source
      (origin
        (method url-fetch)
        (uri (string-append "https://gentoo.com/di/di-" version ".tar.gz"))
        (sha256
-        (base32 "0zlapxlzjizwzwa8xwrwibhcbkh0wx7n74gvjpp6wlwq7cgiq0xm"))))
+        (base32 "1bdbl9k3gqf4h6g21difqc0w17pjid6r587y19wi37vx36aava7f"))))
     (build-system gnu-build-system)
     (arguments
-     `(#:tests? #f                      ; obscure test failures.
+     `(#:tests? #f                      ; obscure test failures
        #:phases
        (modify-phases %standard-phases
-         (delete 'configure)
+         (delete 'configure)            ; no configure script
          (add-before 'build 'setup-environment
            (lambda* (#:key outputs #:allow-other-keys)
              (setenv "CC" "gcc")
-- 
cgit v1.2.3


From a3efe269b5e343c6b2593997a6f3fdc8d96976b8 Mon Sep 17 00:00:00 2001
From: Tobias Geerinckx-Rice <me@tobias.gr>
Date: Sat, 29 Jun 2019 06:27:04 +0200
Subject: gnu: flashrom: Update to 1.1.

* gnu/packages/flashing-tools.scm (flashrom): Update to 1.1.
---
 gnu/packages/flashing-tools.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/flashing-tools.scm b/gnu/packages/flashing-tools.scm
index f0547a1a8a..a8d6cfd5aa 100644
--- a/gnu/packages/flashing-tools.scm
+++ b/gnu/packages/flashing-tools.scm
@@ -48,7 +48,7 @@
 (define-public flashrom
   (package
     (name "flashrom")
-    (version "1.0.1")
+    (version "1.1")
     (source (origin
               (method url-fetch)
               (uri (string-append
@@ -56,7 +56,7 @@
                     version ".tar.bz2"))
               (sha256
                (base32
-                "0i6yrrl69hrqmwd7azj7x3j46m0qpvzmk3b5basym7mnlpfzhyfm"))))
+                "06afq680n9p34hi3vrkn12vd1pfyq2062db9qqbi4hi21k3skbdf"))))
     (build-system gnu-build-system)
     (inputs `(("dmidecode" ,dmidecode)
               ("pciutils" ,pciutils)
-- 
cgit v1.2.3


From 3a8bfebed94ba295432da8304b7ffb4a611ef761 Mon Sep 17 00:00:00 2001
From: Tobias Geerinckx-Rice <me@tobias.gr>
Date: Fri, 28 Jun 2019 16:33:01 +0200
Subject: etc: Remove hydra.gnu.org.pub key.
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

* etc/substitutes/hydra.gnu.org.pub: Delete file.
* guix/self.scm (miscellaneous-files): Don't install it.
* Makefile.am (dist_pkgdata_DATA): Remove it.
* gnu/services/base.scm (%default-authorized-guix-keys): Likewise.
(hydra-key-authorization): Rename to…
(substitute-key-authorization): …this.  Adjust only call site.
---
 gnu/services/base.scm  | 7 +++----
 gnu/system/install.scm | 4 ++--
 2 files changed, 5 insertions(+), 6 deletions(-)

(limited to 'gnu')

diff --git a/gnu/services/base.scm b/gnu/services/base.scm
index 3c1827fb70..537d30add5 100644
--- a/gnu/services/base.scm
+++ b/gnu/services/base.scm
@@ -1533,7 +1533,7 @@ GID."
     (('gnu rest ...) #t)
     (rest #f)))
 
-(define (hydra-key-authorization keys guix)
+(define (substitute-key-authorization keys guix)
   "Return a gexp with code to register KEYS, a list of files containing 'guix
 archive' public keys, with GUIX."
   (define default-acl
@@ -1570,8 +1570,7 @@ archive' public keys, with GUIX."
 
 (define %default-authorized-guix-keys
   ;; List of authorized substitute keys.
-  (list (file-append guix "/share/guix/hydra.gnu.org.pub")
-        (file-append guix "/share/guix/berlin.guixsd.org.pub")))
+  (list (file-append guix "/share/guix/berlin.guixsd.org.pub")))
 
 (define-record-type* <guix-configuration>
   guix-configuration make-guix-configuration
@@ -1688,7 +1687,7 @@ archive' public keys, with GUIX."
 
      ;; Optionally authorize substitute server keys.
      (if authorize-key?
-         (hydra-key-authorization keys guix)
+         (substitute-key-authorization keys guix)
          #~#f))))
 
 (define* (references-file item #:optional (name "references"))
diff --git a/gnu/system/install.scm b/gnu/system/install.scm
index 453b0bdd6d..912096027f 100644
--- a/gnu/system/install.scm
+++ b/gnu/system/install.scm
@@ -330,8 +330,8 @@ Access documentation at any time by pressing Alt-F2.\x1b[0m
           ;; The usual services.
           (syslog-service)
 
-          ;; The build daemon.  Register the hydra.gnu.org key as trusted.
-          ;; This allows the installation process to use substitutes by
+          ;; The build daemon.  Register the default substitute server key(s)
+          ;; as trusted to allow the installation process to use substitutes by
           ;; default.
           (service guix-service-type
                    (guix-configuration (authorize-key? #t)))
-- 
cgit v1.2.3


From bdb51ed6d16c8fb3f934991f991ca44fdbac715e Mon Sep 17 00:00:00 2001
From: Efraim Flashner <efraim@flashner.co.il>
Date: Sat, 29 Jun 2019 21:18:50 +0300
Subject: gnu: stow: Update license information.

* gnu/packages/package-management.scm (stow)[license]: Update to gpl3+.
---
 gnu/packages/package-management.scm | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

(limited to 'gnu')

diff --git a/gnu/packages/package-management.scm b/gnu/packages/package-management.scm
index e4820f403b..ca360b3884 100644
--- a/gnu/packages/package-management.scm
+++ b/gnu/packages/package-management.scm
@@ -494,7 +494,7 @@ of data and makes them appear to be merged into the same directory.  It is
 typically used for managing software packages installed from source, by
 letting you install them apart in distinct directories and then create
 symlinks to the files in a common directory such as /usr/local.")
-    (license license:gpl2+)))
+    (license license:gpl3+)))
 
 (define-public rpm
   (package
-- 
cgit v1.2.3


From 55d1d9eb2f0051404d0562622d5d85b701f5a973 Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Sat, 29 Jun 2019 19:07:40 +0200
Subject: gnu: gstreamer: Fix buffer offset problem.

* gnu/packages/patches/gstreamer-buffer-reset-offset.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/gstreamer.scm (gstreamer)[source](patches): New field.
[arguments]: Do not disable any tests.
---
 gnu/local.mk                                       |  1 +
 gnu/packages/gstreamer.scm                         | 15 +-----
 .../patches/gstreamer-buffer-reset-offset.patch    | 59 ++++++++++++++++++++++
 3 files changed, 62 insertions(+), 13 deletions(-)
 create mode 100644 gnu/packages/patches/gstreamer-buffer-reset-offset.patch

(limited to 'gnu')

diff --git a/gnu/local.mk b/gnu/local.mk
index 8f63d0bd14..0f4cb2a6e4 100644
--- a/gnu/local.mk
+++ b/gnu/local.mk
@@ -901,6 +901,7 @@ dist_patch_DATA =						\
   %D%/packages/patches/guile-relocatable.patch			\
   %D%/packages/patches/guile-rsvg-pkgconfig.patch		\
   %D%/packages/patches/guile-emacs-fix-configure.patch		\
+  %D%/packages/patches/gstreamer-buffer-reset-offset.patch	\
   %D%/packages/patches/gtk2-respect-GUIX_GTK2_PATH.patch	\
   %D%/packages/patches/gtk2-respect-GUIX_GTK2_IM_MODULE_FILE.patch \
   %D%/packages/patches/gtk2-theme-paths.patch			\
diff --git a/gnu/packages/gstreamer.scm b/gnu/packages/gstreamer.scm
index 2a818e078c..13c2c2fc27 100644
--- a/gnu/packages/gstreamer.scm
+++ b/gnu/packages/gstreamer.scm
@@ -110,6 +110,7 @@ arrays of data.")
       (uri (string-append
             "https://gstreamer.freedesktop.org/src/gstreamer/gstreamer-"
             version ".tar.xz"))
+      (patches (search-patches "gstreamer-buffer-reset-offset.patch"))
       (sha256
        (base32
         "003wy1p1in85p9sr5jsyhbnwqaiwz069flwkhyx7qhxy31qjz3hf"))))
@@ -119,19 +120,7 @@ arrays of data.")
      `(#:configure-flags
        (list (string-append "--with-html-dir="
                             (assoc-ref %outputs "doc")
-                            "/share/gtk-doc/html"))
-
-       ,@(if (not (target-64bit?))
-           ;; Skip test that fails on 32-bit systems:
-           ;; <https://gitlab.freedesktop.org/gstreamer/gstreamer/issues/316>.
-           `(#:phases (modify-phases %standard-phases
-                        (add-before 'check 'disable-gstbufferpool-test
-                          (lambda _
-                            (substitute* "tests/check/Makefile"
-                              (("^[[:blank:]]+gst/gstbufferpool.*$")
-                               ""))
-                              #t))))
-           '())))
+                            "/share/gtk-doc/html"))))
     (propagated-inputs `(("glib" ,glib))) ; required by gstreamer-1.0.pc.
     (native-inputs
      `(("bison" ,bison)
diff --git a/gnu/packages/patches/gstreamer-buffer-reset-offset.patch b/gnu/packages/patches/gstreamer-buffer-reset-offset.patch
new file mode 100644
index 0000000000..024892a60f
--- /dev/null
+++ b/gnu/packages/patches/gstreamer-buffer-reset-offset.patch
@@ -0,0 +1,59 @@
+Fix a buffer offset problem in GStreamer 1.16.  Initially reported by Mark H.
+Weaver in <https://lists.gnu.org/archive/html/guix-devel/2019-06/msg00140.html>.
+
+See also <https://gitlab.freedesktop.org/gstreamer/gstreamer/issues/316>.
+
+From 1734c9fc1a4f99b165383ae1eb02f04e0844a00c Mon Sep 17 00:00:00 2001
+From: Nicolas Dufresne <nicolas.dufresne@collabora.com>
+Date: Sat, 29 Jun 2019 09:22:05 -0400
+Subject: [PATCH] bufferpool: Fix the buffer size reset code
+
+The offset in gst_buffer_resize() is additive. So to move back the
+offset to zero, we need to pass the opposite of the current offset. This
+was raised through the related unit test failingon 32bit as on 64bit
+the alignment padding was enough to hide the issue. The test was
+modified to also fail on 64bit. This patch will remove spurious
+assertions like:
+
+  assertion 'bufmax >= bufoffs + offset + size' failed
+
+Fixes #316
+---
+ gst/gstbufferpool.c             | 7 +++++--
+ tests/check/gst/gstbufferpool.c | 2 +-
+ 2 files changed, 6 insertions(+), 3 deletions(-)
+
+diff --git a/gst/gstbufferpool.c b/gst/gstbufferpool.c
+index e5c7a5872..619860e63 100644
+--- a/gst/gstbufferpool.c
++++ b/gst/gstbufferpool.c
+@@ -1222,8 +1222,11 @@ default_reset_buffer (GstBufferPool * pool, GstBuffer * buffer)
+   GST_BUFFER_OFFSET_END (buffer) = GST_BUFFER_OFFSET_NONE;
+ 
+   /* if the memory is intact reset the size to the full size */
+-  if (!GST_BUFFER_FLAG_IS_SET (buffer, GST_BUFFER_FLAG_TAG_MEMORY))
+-    gst_buffer_resize (buffer, 0, pool->priv->size);
++  if (!GST_BUFFER_FLAG_IS_SET (buffer, GST_BUFFER_FLAG_TAG_MEMORY)) {
++    gsize offset;
++    gst_buffer_get_sizes (buffer, &offset, NULL);
++    gst_buffer_resize (buffer, -offset, pool->priv->size);
++  }
+ 
+   /* remove all metadata without the POOLED flag */
+   gst_buffer_foreach_meta (buffer, remove_meta_unpooled, pool);
+diff --git a/tests/check/gst/gstbufferpool.c b/tests/check/gst/gstbufferpool.c
+index f0c3c8d8e..dd9b2dc03 100644
+--- a/tests/check/gst/gstbufferpool.c
++++ b/tests/check/gst/gstbufferpool.c
+@@ -190,7 +190,7 @@ GST_START_TEST (test_buffer_modify_discard)
+   gst_buffer_pool_acquire_buffer (pool, &buf, NULL);
+   buffer_track_destroy (buf, &dcount);
+   /* do resize, as we didn't modify the memory, pool should reuse this buffer */
+-  gst_buffer_resize (buf, 5, 2);
++  gst_buffer_resize (buf, 8, 2);
+   gst_buffer_unref (buf);
+ 
+   /* buffer should've gone back into pool */
+-- 
+2.22.0
+
-- 
cgit v1.2.3


From 8e92d5465fc154fed5d06f7e4a64d7dcccded74d Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Sat, 29 Jun 2019 21:46:34 +0200
Subject: gnu: nginx: Update to 1.17.1.

* gnu/packages/web.scm (nginx): Update to 1.17.1.
---
 gnu/packages/web.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/web.scm b/gnu/packages/web.scm
index 82102f427f..124cc93e68 100644
--- a/gnu/packages/web.scm
+++ b/gnu/packages/web.scm
@@ -202,14 +202,14 @@ Interface} specification.")
     ;; ’stable’ and recommends that “in general you deploy the NGINX mainline
     ;; branch at all times” (https://www.nginx.com/blog/nginx-1-6-1-7-released/)
     ;; Consider updating the nginx-documentation package together with this one.
-    (version "1.17.0")
+    (version "1.17.1")
     (source (origin
               (method url-fetch)
               (uri (string-append "https://nginx.org/download/nginx-"
                                   version ".tar.gz"))
               (sha256
                (base32
-                "1aqgmrjzmklmv2iiyirk2h0hy35v1a76gczhjkxnms2krl35s6z2"))))
+                "0gp7cy2bbn8yi1wapjzssf4bhmn4d4vphdb0k1wiaq2fa6s2a63g"))))
     (build-system gnu-build-system)
     (inputs `(("openssl" ,openssl)
               ("pcre" ,pcre)
-- 
cgit v1.2.3


From 93ef8ca662fc3dce4e15977347baa0b9c50dd29e Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Sat, 29 Jun 2019 19:40:08 +0200
Subject: gnu: mesa: Do not pass an empty string argument to the build system.

This is a follow-up to commit 301b2e74f986385664153e6e770e238b351f5cf0.

* gnu/packages/gl.scm (mesa)[arguments]: Return the empty list instead of an
empty string for the non-matching case.
---
 gnu/packages/gl.scm | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

(limited to 'gnu')

diff --git a/gnu/packages/gl.scm b/gnu/packages/gl.scm
index cd82b17d15..9ed043c7ae 100644
--- a/gnu/packages/gl.scm
+++ b/gnu/packages/gl.scm
@@ -318,7 +318,7 @@ also known as DXTn or DXTC) for Mesa.")
              ((or "x86_64-linux" "i686-linux")
               '("-Dvulkan-overlay-layer=true"))
              (_
-              '("")))
+              '()))
 
          ;; Also enable the tests.
          "-Dbuild-tests=true"
-- 
cgit v1.2.3


From c2dad3f98300ac71fcac5c3048673a04c24fe1ec Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Sat, 29 Jun 2019 18:47:37 +0200
Subject: gnu: nss, nss-certs: Update to 3.44.1.

* gnu/packages/certs.scm (nss-certs): Update to 3.44.1.
* gnu/packages/nss.scm (nss): Likewise.
---
 gnu/packages/certs.scm | 4 ++--
 gnu/packages/nss.scm   | 4 ++--
 2 files changed, 4 insertions(+), 4 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/certs.scm b/gnu/packages/certs.scm
index ee8815d522..c41870332c 100644
--- a/gnu/packages/certs.scm
+++ b/gnu/packages/certs.scm
@@ -76,7 +76,7 @@
 (define-public nss-certs
   (package
     (name "nss-certs")
-    (version "3.44")
+    (version "3.44.1")
     (source (origin
               (method url-fetch)
               (uri (let ((version-with-underscores
@@ -87,7 +87,7 @@
                       "nss-" version ".tar.gz")))
               (sha256
                (base32
-                "1zvabgxlyvz3fnv4w89y4a5qkscjmm88naf929dgvvgfnrchwqm5"))))
+                "1y0jvva4s3j7cjz22kqw2lsml0an1295bgpc2raf7kc9r60cpr7w"))))
     (build-system gnu-build-system)
     (outputs '("out"))
     (native-inputs
diff --git a/gnu/packages/nss.scm b/gnu/packages/nss.scm
index 83f4431c2b..40a8002954 100644
--- a/gnu/packages/nss.scm
+++ b/gnu/packages/nss.scm
@@ -70,7 +70,7 @@ in the Mozilla clients.")
 (define-public nss
   (package
     (name "nss")
-    (version "3.44")
+    (version "3.44.1")
     (source (origin
               (method url-fetch)
               (uri (let ((version-with-underscores
@@ -81,7 +81,7 @@ in the Mozilla clients.")
                       "nss-" version ".tar.gz")))
               (sha256
                (base32
-                "1zvabgxlyvz3fnv4w89y4a5qkscjmm88naf929dgvvgfnrchwqm5"))
+                "1y0jvva4s3j7cjz22kqw2lsml0an1295bgpc2raf7kc9r60cpr7w"))
               ;; Create nss.pc and nss-config.
               (patches (search-patches "nss-pkgconfig.patch"
                                        "nss-increase-test-timeout.patch"))))
-- 
cgit v1.2.3


From 8cf7afe69d08918267c38f19ba06a4008e33489d Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Sat, 29 Jun 2019 18:48:06 +0200
Subject: gnu: libinput: Update to 1.13.4.

* gnu/packages/freedesktop.scm (libinput): Update to 1.13.4.
---
 gnu/packages/freedesktop.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/freedesktop.scm b/gnu/packages/freedesktop.scm
index 4b37ffdf3c..d77d6c58c4 100644
--- a/gnu/packages/freedesktop.scm
+++ b/gnu/packages/freedesktop.scm
@@ -152,14 +152,14 @@ freedesktop.org project.")
 (define-public libinput
   (package
     (name "libinput")
-    (version "1.13.2")
+    (version "1.13.4")
     (source (origin
               (method url-fetch)
               (uri (string-append "https://freedesktop.org/software/libinput/"
                                   "libinput-" version ".tar.xz"))
               (sha256
                (base32
-                "0vbapc90m49n0z8w8w4v0qf1iiwaixw9h79jfmps9pj8hdls17qx"))))
+                "07a0w7rak7rvnh6g4j0akwjxwinxfszc1xi9mrx12fv82k3mgsyk"))))
     (build-system meson-build-system)
     (arguments
      `(#:configure-flags '("-Ddocumentation=false")))
-- 
cgit v1.2.3


From 5e26ac3f6a468b5a3e88f512b4ac6a92ad650935 Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Sat, 29 Jun 2019 18:48:28 +0200
Subject: gnu: gtk+: Update to 3.24.9.

* gnu/packages/gtk.scm (gtk+): Update to 3.24.9.
---
 gnu/packages/gtk.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/gtk.scm b/gnu/packages/gtk.scm
index 2776bd31a3..e63e84a7c3 100644
--- a/gnu/packages/gtk.scm
+++ b/gnu/packages/gtk.scm
@@ -732,7 +732,7 @@ application suites.")
    (name "gtk+")
    ;; NOTE: When updating the version of 'gtk+', the hash of 'mate-themes' in
    ;;       mate.scm will also need to be updated.
-   (version "3.24.8")
+   (version "3.24.9")
    (source (origin
             (method url-fetch)
             (uri (string-append "mirror://gnome/sources/" name "/"
@@ -740,7 +740,7 @@ application suites.")
                                 name "-" version ".tar.xz"))
             (sha256
              (base32
-              "16f71bbkhwhndcsrpyhjia3b77cb5ksf5c45lyfgws4pkgg64sb6"))
+              "0dg6jf2763sp740ls6b5y86b5b9zhz3zj0sbmar2xpws1lkv0zjp"))
             (patches (search-patches "gtk3-respect-GUIX_GTK3_PATH.patch"
                                      "gtk3-respect-GUIX_GTK3_IM_MODULE_FILE.patch"))))
    (outputs '("out" "bin" "doc"))
-- 
cgit v1.2.3


From 966e4beadcf5dcc7537ccdbe42505c9129c5dd08 Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Sat, 29 Jun 2019 18:48:50 +0200
Subject: gnu: perl-net-ssleay: Update to 1.88.

* gnu/packages/tls.scm (perl-net-ssleay): Update to 1.88.
---
 gnu/packages/tls.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/tls.scm b/gnu/packages/tls.scm
index 8e20101e51..bd1606c164 100644
--- a/gnu/packages/tls.scm
+++ b/gnu/packages/tls.scm
@@ -643,14 +643,14 @@ certificates for free.")
 (define-public perl-net-ssleay
   (package
     (name "perl-net-ssleay")
-    (version "1.85")
+    (version "1.88")
     (source (origin
               (method url-fetch)
               (uri (string-append "mirror://cpan/authors/id/M/MI/MIKEM/"
                                   "Net-SSLeay-" version ".tar.gz"))
               (sha256
                (base32
-                "1j5h4ycm8538397l204d2d5fkm9595aj174pj7bkpbhwzfwqi0cx"))))
+                "1pfgh4h3szcpvqlcimc60pjbk9zwls99x5863sva0wc47i4dl010"))))
     (build-system perl-build-system)
     (inputs `(("openssl" ,openssl)))
     (arguments
-- 
cgit v1.2.3


From c50f15d67f5e6e15335150146903473b1e36c91e Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Sun, 30 Jun 2019 12:45:52 +0200
Subject: gnu: perl-net-ssleay: Update source URI.

This is a follow-up to commit 966e4beadcf5dcc7537ccdbe42505c9129c5dd08.

* gnu/packages/tls.scm (perl-net-ssleay)[source](uri): Update to current.
---
 gnu/packages/tls.scm | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

(limited to 'gnu')

diff --git a/gnu/packages/tls.scm b/gnu/packages/tls.scm
index bd1606c164..53f5ccb26f 100644
--- a/gnu/packages/tls.scm
+++ b/gnu/packages/tls.scm
@@ -646,7 +646,7 @@ certificates for free.")
     (version "1.88")
     (source (origin
               (method url-fetch)
-              (uri (string-append "mirror://cpan/authors/id/M/MI/MIKEM/"
+              (uri (string-append "mirror://cpan/authors/id/C/CH/CHRISN/"
                                   "Net-SSLeay-" version ".tar.gz"))
               (sha256
                (base32
-- 
cgit v1.2.3


From 730c1cc04ea1e458c4690e28db415e0c4ea136ff Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Sun, 30 Jun 2019 13:41:21 +0200
Subject: gnu: ImageMagick: Update to 6.9.10-50.

* gnu/packages/imagemagick.scm (imagemagick): Update to 6.9.10-50.
---
 gnu/packages/imagemagick.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/imagemagick.scm b/gnu/packages/imagemagick.scm
index dba193d8e5..769b0bda64 100644
--- a/gnu/packages/imagemagick.scm
+++ b/gnu/packages/imagemagick.scm
@@ -48,14 +48,14 @@
     ;; The 7 release series has an incompatible API, while the 6 series is still
     ;; maintained. Don't update to 7 until we've made sure that the ImageMagick
     ;; users are ready for the 7-series API.
-    (version "6.9.10-49")
+    (version "6.9.10-50")
     (source (origin
              (method url-fetch)
              (uri (string-append "mirror://imagemagick/ImageMagick-"
                                  version ".tar.xz"))
              (sha256
               (base32
-               "1w4vsppyn1h58x3z4hgly5qxp16q66l18y9rwavrravw0kiq64fs"))))
+               "1p8mqfz500bc6hapm64xr5qjrgmkfw7cq9m73xfzaxlriih8rm56"))))
     (build-system gnu-build-system)
     (arguments
      `(#:configure-flags '("--with-frozenpaths" "--without-gcc-arch")
-- 
cgit v1.2.3


From d1b93e91a47e4e6caa8313069a51ab9955ccf31d Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Sun, 30 Jun 2019 13:41:53 +0200
Subject: gnu: python-cython: Update to 0.29.11.

* gnu/packages/python-xyz.scm (python-cython): Update to 0.29.11.
---
 gnu/packages/python-xyz.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm
index 4ba40e95b0..8398dede79 100644
--- a/gnu/packages/python-xyz.scm
+++ b/gnu/packages/python-xyz.scm
@@ -3181,14 +3181,14 @@ provides additional functionality on the produced Mallard documents.")
 (define-public python-cython
   (package
     (name "python-cython")
-    (version "0.29.7")
+    (version "0.29.11")
     (source
      (origin
        (method url-fetch)
        (uri (pypi-uri "Cython" version))
        (sha256
         (base32
-         "1s61hq2ikawxp6qvmkbfvvaxy9rqj67cddzwgcfc3dwi44b83l2m"))))
+         "1866m01ggl2h3rky4hac3m5p048gg4a0jb09ljkknryiqln54fkn"))))
     (build-system python-build-system)
     ;; we need the full python package and not just the python-wrapper
     ;; because we need libpython3.3m.so
-- 
cgit v1.2.3


From ff68ddb032774c65279372c6d4bfab5d8825977e Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Sun, 30 Jun 2019 12:37:25 +0200
Subject: gnu: ungoogled-chromium: Build against ICU 64.

* gnu/packages/icu4c.scm (icu4c-64): New public variable.
* gnu/packages/chromium.scm (ungoogled-chromium)[inputs]: Change ICU4C to ICU4C-64.
---
 gnu/packages/chromium.scm |  6 +++++-
 gnu/packages/icu4c.scm    | 18 ++++++++++++++++++
 2 files changed, 23 insertions(+), 1 deletion(-)

(limited to 'gnu')

diff --git a/gnu/packages/chromium.scm b/gnu/packages/chromium.scm
index e357556956..79828ef589 100644
--- a/gnu/packages/chromium.scm
+++ b/gnu/packages/chromium.scm
@@ -714,7 +714,11 @@ from forcing GEXP-PROMISE."
        ("glib" ,glib)
        ("gtk+" ,gtk+)
        ("harfbuzz" ,harfbuzz)
-       ("icu4c" ,icu4c)
+
+       ;; Build against ICU 64 to prevent a localization problem in version 75
+       ;; and later: <https://github.com/Eloston/ungoogled-chromium/issues/778>.
+       ("icu4c" ,icu4c-64)
+
        ("jsoncpp" ,jsoncpp)
        ("lcms" ,lcms)
        ("libevent" ,libevent)
diff --git a/gnu/packages/icu4c.scm b/gnu/packages/icu4c.scm
index 6e93d6aed9..512967a305 100644
--- a/gnu/packages/icu4c.scm
+++ b/gnu/packages/icu4c.scm
@@ -4,6 +4,7 @@
 ;;; Copyright © 2016, 2017 Efraim Flashner <efraim@flashner.co.il>
 ;;; Copyright © 2017 Clément Lassieur <clement@lassieur.org>
 ;;; Copyright © 2017 Ricardo Wurmus <rekado@elephly.net>
+;;; Copyright © 2019 Marius Bakke <mbakke@fastmail.com>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -23,6 +24,7 @@
 (define-module (gnu packages icu4c)
   #:use-module (gnu packages)
   #:use-module (gnu packages perl)
+  #:use-module (gnu packages python)
   #:use-module (guix licenses)
   #:use-module (guix packages)
   #:use-module (guix download)
@@ -81,6 +83,22 @@ C/C++ part.")
    (license x11)
    (home-page "http://site.icu-project.org/")))
 
+(define-public icu4c-64
+  (package
+    (inherit icu4c)
+    (version "64.2")
+    (source (origin
+              (inherit (package-source icu4c))
+              (uri (string-append
+                    "http://download.icu-project.org/files/icu4c/" version "/icu4c-"
+                    (string-map (lambda (x) (if (char=? x #\.) #\_ x)) version)
+                    "-src.tgz"))
+              (sha256
+               (base32 "0v0xsf14xwlj125y9fd8lrhsaych4d8liv8gr746zng6g225szb2"))))
+    (native-inputs
+     `(;; For tests.
+       ("python" ,python)))))
+
 (define-public java-icu4j
   (package
     (name "java-icu4j")
-- 
cgit v1.2.3


From 1307aa4427160c11d6ab84c5b2e96ea172fa0f1e Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Sun, 30 Jun 2019 13:36:58 +0200
Subject: gnu: mbedtls-apache: Update to 2.16.2.

* gnu/packages/tls.scm (mbedtls-apache): Update to 2.16.2.
---
 gnu/packages/tls.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/tls.scm b/gnu/packages/tls.scm
index 8e20101e51..ea6dfda931 100644
--- a/gnu/packages/tls.scm
+++ b/gnu/packages/tls.scm
@@ -834,7 +834,7 @@ then ported to the GNU / Linux environment.")
 (define-public mbedtls-apache
   (package
     (name "mbedtls-apache")
-    (version "2.16.1")
+    (version "2.16.2")
     (source
      (origin
        (method url-fetch)
@@ -844,7 +844,7 @@ then ported to the GNU / Linux environment.")
                            version "-apache.tgz"))
        (sha256
         (base32
-         "08zz88gcb2jmpfsgy5b6qc3li6l39yw1dbimd18aziyd889nvl7b"))))
+         "1906hbwlkq32075hca4vjad03dcc36aycvmaz8yvhr3ygg6lz0x6"))))
     (build-system cmake-build-system)
     (arguments
      `(#:configure-flags
-- 
cgit v1.2.3


From 5dd0269244da42066133d19055c9eb82b9e9ae20 Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Sun, 30 Jun 2019 13:37:22 +0200
Subject: gnu: miniupnpc: Update to 2.1.20190625.

* gnu/packages/upnp.scm (miniupnpc): Update to 2.1.20190625.
---
 gnu/packages/upnp.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/upnp.scm b/gnu/packages/upnp.scm
index 3f3d80f576..a085fe9747 100644
--- a/gnu/packages/upnp.scm
+++ b/gnu/packages/upnp.scm
@@ -32,14 +32,14 @@
 (define-public miniupnpc
   (package
     (name "miniupnpc")
-    (version "2.1.20190408")
+    (version "2.1.20190625")
     (source
      (origin
        (method url-fetch)
        (uri (string-append "https://miniupnp.tuxfamily.org/files/"
                            name "-" version ".tar.gz"))
        (sha256
-        (base32 "1v0l2m8j7r6jiy871d6v11ls243xqn6s3856iwd3bmk5c37npi50"))))
+        (base32 "1yqp0d8x5ldjfma5x2vhpg1aaafdg0470ismccixww3rzpbza8w7"))))
     (build-system gnu-build-system)
     (native-inputs
      `(("python" ,python-2)))
-- 
cgit v1.2.3


From a3d1a3487a34820d2a0b3d5e6206e4df1c77c15c Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Sun, 30 Jun 2019 20:14:58 +0200
Subject: gnu: gtksourceviewmm: Build against gtksourceview@3.

* gnu/packages/gtk.scm (gtksourceviewmm)[propagated-inputs]: Change
GTKSOURCEVIEW to GTKSOURCEVIEW-3.
---
 gnu/packages/gtk.scm | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

(limited to 'gnu')

diff --git a/gnu/packages/gtk.scm b/gnu/packages/gtk.scm
index 2776bd31a3..3f835f51e5 100644
--- a/gnu/packages/gtk.scm
+++ b/gnu/packages/gtk.scm
@@ -1182,7 +1182,7 @@ extensive documentation, including API reference and a tutorial.")
      ;; In 'Requires' of gtksourceviewmm-3.0.pc.
      `(("glibmm" ,glibmm)
        ("gtkmm" ,gtkmm)
-       ("gtksourceview" ,gtksourceview)))
+       ("gtksourceview" ,gtksourceview-3)))
     (synopsis "C++ interface to the GTK+ 'GtkTextView' widget")
     (description
      "gtksourceviewmm is a portable C++ library that extends the standard GTK+
-- 
cgit v1.2.3


From 037bef7db4f67b1f7df879f8e41a971308ce8128 Mon Sep 17 00:00:00 2001
From: Danny Milosavljevic <dannym@scratchpost.org>
Date: Mon, 1 Jul 2019 12:08:08 +0200
Subject: gnu: behave: Fix build.

* gnu/packages/check.scm (behave)[propagated-inputs]: Add
python-importlib-metadata.
---
 gnu/packages/check.scm | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

(limited to 'gnu')

diff --git a/gnu/packages/check.scm b/gnu/packages/check.scm
index 9bc5036cf6..dae2b0e1d9 100644
--- a/gnu/packages/check.scm
+++ b/gnu/packages/check.scm
@@ -1924,7 +1924,8 @@ backported from Python 2.7 for Python 2.4+.")
        ("python-pyhamcrest" ,python-pyhamcrest)
        ("python-pytest" ,python-pytest)))
     (propagated-inputs
-     `(("python-six" ,python-six)
+     `(("python-importlib-metadata" ,python-importlib-metadata)
+       ("python-six" ,python-six)
        ("python-parse" ,python-parse)
        ("python-parse-type" ,python-parse-type)))
     (arguments
-- 
cgit v1.2.3


From 78c88baad56ae2843d809a8160631a7bae071315 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Ludovic=20Court=C3=A8s?= <ludo@gnu.org>
Date: Mon, 1 Jul 2019 12:29:02 +0200
Subject: gnu: guile: Add 2.2.6.

* gnu/packages/guile.scm (guile-2.2.5): Rename to...
(guile-2.2.6): ... this, and update to 2.2.6.
---
 gnu/packages/guile.scm | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/guile.scm b/gnu/packages/guile.scm
index f0a53e7c39..6e11a13c56 100644
--- a/gnu/packages/guile.scm
+++ b/gnu/packages/guile.scm
@@ -286,17 +286,17 @@ without requiring the source code to be rewritten.")
                   (max-silent-time . 36000))))) ;10 hours (needed on ARM
                                                 ;  when heavily loaded)
 
-(define-public guile-2.2.5
+(define-public guile-2.2.6
   (package
     (inherit guile-2.2)
-    (version "2.2.5")
+    (version "2.2.6")
     (source (origin
               (inherit (package-source guile-2.2))
               (uri (string-append "mirror://gnu/guile/guile-" version
                                   ".tar.xz"))
               (sha256
                (base32
-                "19w5ws1jvs01dpv756qv2cgs37rsnwq1f4f07mj0wra35pqp6c7w"))))))
+                "1269ymxm56j1z1lvq1y42rm961f2n7rinm3k6l00p9k52hrpcddk"))))))
 
 (define-public guile-next
   ;; This is the upcoming Guile 3.0, with JIT support.
-- 
cgit v1.2.3


From 2868804de69ed23f396fd8e68d6dd18c40518948 Mon Sep 17 00:00:00 2001
From: Nicolas Goaziou <mail@nicolasgoaziou.fr>
Date: Tue, 2 Jul 2019 00:13:08 +0200
Subject: gnu: python-duniterpy: Update to 0.54.3.

* gnu/packages/finance.scm (python-duniterpy): Update to 0.54.3.
---
 gnu/packages/finance.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/finance.scm b/gnu/packages/finance.scm
index cd5d3b7d9a..573ec0be15 100644
--- a/gnu/packages/finance.scm
+++ b/gnu/packages/finance.scm
@@ -935,7 +935,7 @@ Luhn and family of ISO/IEC 7064 check digit algorithms. ")
 (define-public python-duniterpy
   (package
     (name "python-duniterpy")
-    (version "0.54.1")
+    (version "0.54.3")
     (source
      (origin
        (method git-fetch)
@@ -946,7 +946,7 @@ Luhn and family of ISO/IEC 7064 check digit algorithms. ")
        (file-name (git-file-name name version))
        (sha256
         (base32
-         "15z5wc3ahvv8axyiqmf7hd4y91ahh1x4bfmgsqxwygyhswl1yjq8"))))
+         "1k3rpfc9zxj9z50cr4zjfyzdla9ap5mj1v1rlcriqmflgb5cmiba"))))
     (build-system python-build-system)
     (arguments
      ;; Tests fail with "AttributeError: module 'attr' has no attribute 's'".
-- 
cgit v1.2.3


From 7242d5792b9aee67da30cbe21b1b20265c12248d Mon Sep 17 00:00:00 2001
From: Nicolas Goaziou <mail@nicolasgoaziou.fr>
Date: Tue, 2 Jul 2019 00:38:36 +0200
Subject: gnu: giac: Update to 1.5.0-61.

* gnu/packages/algebra.scm (giac): Update to 1.5.0-61.
---
 gnu/packages/algebra.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/algebra.scm b/gnu/packages/algebra.scm
index 95189401f7..7e66e42f0a 100644
--- a/gnu/packages/algebra.scm
+++ b/gnu/packages/algebra.scm
@@ -331,7 +331,7 @@ precision.")
 (define-public giac
   (package
     (name "giac")
-    (version "1.5.0-57")
+    (version "1.5.0-61")
     (source (origin
               (method url-fetch)
               ;; "~parisse/giac" is not used because the maintainer regularly
@@ -343,7 +343,7 @@ precision.")
                                   "source/giac_" version ".tar.gz"))
               (sha256
                (base32
-                "08c93knsisbk9dkyyrignw0wvqbr1sa5czlvk5l307ahxbbmqncf"))))
+                "050vzpqq77fhky32sbisc0ysimgp60xjv39q7y45jkaabdkmclwh"))))
     (build-system gnu-build-system)
     (arguments
      `(#:modules ((ice-9 ftw)
-- 
cgit v1.2.3


From 0f0651295e742b399af4436f350662afb4a6f7af Mon Sep 17 00:00:00 2001
From: Nicolas Goaziou <mail@nicolasgoaziou.fr>
Date: Tue, 2 Jul 2019 00:45:05 +0200
Subject: gnu: silkaj: Update to 0.7.2.

* gnu/packages/finance.scm (silkaj): Update to 0.7.2.
---
 gnu/packages/finance.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/finance.scm b/gnu/packages/finance.scm
index 573ec0be15..03a8285fc1 100644
--- a/gnu/packages/finance.scm
+++ b/gnu/packages/finance.scm
@@ -993,7 +993,7 @@ main features are:
 (define-public silkaj
   (package
     (name "silkaj")
-    (version "0.7.0")
+    (version "0.7.2")
     (source
      (origin
        (method git-fetch)
@@ -1003,7 +1003,7 @@ main features are:
        (file-name (git-file-name name version))
        (sha256
         (base32
-         "0pnd5v15sgxxm114sbs0z24a4dars5hy1nabc9v9ask7kxzrxs9y"))))
+         "059k2kil2l8jcm4wp86w1z7y8p26rww7d3l5fzds0qq2dzvkvzgs"))))
     (build-system python-build-system)
     (arguments
      `(#:tests? #f))                    ;no test
-- 
cgit v1.2.3


From 27b3568b612721605240d531f0f45934bddffe9b Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Tue, 2 Jul 2019 01:57:13 +0200
Subject: gnu: tzdata: Update source URI.

* gnu/packages/base.scm (tzdata, tzdata-for-tests)[source, native-inputs]:
Update redirected URIs.
---
 gnu/packages/base.scm | 8 ++++----
 1 file changed, 4 insertions(+), 4 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/base.scm b/gnu/packages/base.scm
index 15f35009a9..59b50440aa 100644
--- a/gnu/packages/base.scm
+++ b/gnu/packages/base.scm
@@ -1219,7 +1219,7 @@ command.")
     (source (origin
              (method url-fetch)
              (uri (string-append
-                   "https://www.iana.org/time-zones/repository/releases/tzdata"
+                   "https://data.iana.org/time-zones/releases/tzdata"
                    version ".tar.gz"))
              (sha256
               (base32
@@ -1269,7 +1269,7 @@ command.")
     (inputs `(("tzcode" ,(origin
                           (method url-fetch)
                           (uri (string-append
-                                "http://www.iana.org/time-zones/repository/releases/tzcode"
+                                "https://data.iana.org/time-zones/releases/tzcode"
                                 version ".tar.gz"))
                           (sha256
                            (base32
@@ -1296,7 +1296,7 @@ and daylight-saving rules.")
      (source (origin
               (method url-fetch)
               (uri (string-append
-                    "https://www.iana.org/time-zones/repository/releases/tzdata"
+                    "https://data.iana.org/time-zones/releases/tzdata"
                     version ".tar.gz"))
               (sha256
                (base32
@@ -1305,7 +1305,7 @@ and daylight-saving rules.")
        `(("tzcode" ,(origin
                      (method url-fetch)
                      (uri (string-append
-                           "http://www.iana.org/time-zones/repository/releases/tzcode"
+                           "http://data.iana.org/time-zones/releases/tzcode"
                            version ".tar.gz"))
                      (sha256
                       (base32
-- 
cgit v1.2.3


From 48eb71aea807262210c38b5fb675d747adfccff3 Mon Sep 17 00:00:00 2001
From: Jan Nieuwenhuizen <janneke@gnu.org>
Date: Mon, 1 Jul 2019 15:37:10 +0200
Subject: gnu: emacsy: Update to 0.4.1.

* gnu/packages/guile-xyz.scm (emacsy): Update to 0.4.1.
---
 gnu/packages/guile-xyz.scm | 119 ++++++++++++++++++---------------------------
 1 file changed, 46 insertions(+), 73 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/guile-xyz.scm b/gnu/packages/guile-xyz.scm
index a8352380f7..f652a94d2e 100644
--- a/gnu/packages/guile-xyz.scm
+++ b/gnu/packages/guile-xyz.scm
@@ -2326,82 +2326,55 @@ more expressive and flexible than the traditional @code{format} procedure.")
       (license license:bsd-3))))
 
 (define-public emacsy
-  (let ((commit "7d49cc1425d5d209bdb82cac0d8ea0694b8b3784")
-        (revision "4"))
-    (package
-      (name "emacsy")
-      (version (string-append "0.1.2-" revision "." (string-take commit 7)))
-      (source (origin
-                (method git-fetch)
-                (uri (git-reference
-                      (url "https://gitlab.com/janneke/emacsy.git")
-                      (commit commit)))
-                (file-name (string-append name "-" version))
-                (sha256
-                 (base32
-                  "0k9yns1v8zn135w60sx96nqs2bm2p2dvcvlm987hkw4lbff9ii6i"))))
-      (build-system gnu-build-system)
-      (native-inputs
-       `(("emacsy-webkit-gtk"
-          ,(origin
-             (method git-fetch)
-             (uri (git-reference
-                   (url "https://gitlab.com/janneke/emacsy-webkit-gtk.git")
-                   (commit "35ded1b3e997fd779a17e0c4a2c73741718562d9")))
-             (file-name (string-append "emacsy-webkit-gtk" "-" version))
-             (sha256
-              (base32
-               "1gp0li2rbp6in926r3hrww6cnh864pp46v1din2pgmd7vzzl7kg0"))))
-         ("hello-emacsy"
-          ,(origin
-             (method git-fetch)
-             (uri (git-reference
-                   (url "https://gitlab.com/janneke/hello-emacsy.git")
-                   (commit "2c117e5286a261be4ff24938f3ae1d348396c538")))
-             (file-name (string-append "hello-emacsy" "-" version))
-             (sha256
-              (base32
-               "15ykd7s8axcy8ym4v71fgal4x28fxnim0pv0jmpi3dnhizr63zqn"))))
-         ("autoconf" ,autoconf)
-         ("automake" ,automake)
-         ("bzip2" ,bzip2)
-         ("guile" ,guile-2.2)
-         ("gettext" ,gnu-gettext)
-         ("libtool" ,libtool)
-         ("noweb" ,noweb)
-         ("perl" ,perl)
-         ("pkg-config" ,pkg-config)
-         ("texinfo" ,texinfo)
-         ("texlive" ,texlive)))
-      (propagated-inputs
-       `(("guile-lib" ,guile-lib)
-         ("guile-readline" ,guile-readline)
-         ("freeglut" ,freeglut)
-         ("gssettings-desktop-schemas" ,gsettings-desktop-schemas)
-         ("webkitgtk" ,webkitgtk)))
-      (inputs `(("guile" ,guile-2.2)))
-      (arguments
-       `(#:phases
-         (modify-phases %standard-phases
-           (add-after 'unpack 'unpack-examples
-             (lambda _
-               (copy-recursively (assoc-ref %build-inputs "emacsy-webkit-gtk")
-                                 "example/emacsy-webkit-gtk")
-               (copy-recursively (assoc-ref %build-inputs "hello-emacsy")
-                                 "example/hello-emacsy")))
-           (add-before 'configure 'setenv
-             (lambda _
-               (setenv "GUILE_AUTO_COMPILE" "0"))))))
-      (home-page "https://github.com/shanecelis/emacsy/")
-      (synopsis "Embeddable GNU Emacs-like library using Guile")
-      (description
-       "Emacsy is an embeddable GNU Emacs-like library that uses GNU Guile
+  (package
+    (name "emacsy")
+    (version "0.4.1")
+    (source (origin
+              (method url-fetch)
+              (uri (string-append
+                    "https://download.savannah.nongnu.org/releases/"
+                    name "/" name "-" version ".tar.gz"))
+              (sha256
+               (base32
+                "1cpb85dl1nibd34c2x2h7vfmjpkgh353p5b1w20v6cs6gmvgg4np"))))
+    (build-system gnu-build-system)
+    (native-inputs
+     `(("autoconf" ,autoconf)
+       ("automake" ,automake)
+       ("bzip2" ,bzip2)
+       ("guile" ,guile-2.2)
+       ("gettext" ,gnu-gettext)
+       ("libtool" ,libtool)
+       ("perl" ,perl)
+       ("pkg-config" ,pkg-config)
+       ("texinfo" ,texinfo)
+       ("texlive" ,texlive)))
+    (propagated-inputs
+     `(("dbus-glib" ,dbus-glib)
+       ("guile" ,guile-2.2)
+       ("guile-lib" ,guile-lib)
+       ("guile-readline" ,guile-readline)
+       ("glib-networking" ,glib-networking)
+       ("freeglut" ,freeglut)
+       ("gssettings-desktop-schemas" ,gsettings-desktop-schemas)
+       ("webkitgtk" ,webkitgtk)))
+    (arguments
+     `(#:phases
+       (modify-phases %standard-phases
+         (add-before 'configure 'setenv
+           (lambda _
+             (setenv "GUILE_AUTO_COMPILE" "0")
+             #t)))))
+    (home-page "https://savannah.nongnu.org/projects/emacsy")
+    (synopsis "Embeddable GNU Emacs-like library using Guile")
+    (description
+     "Emacsy is an embeddable Emacs-like library that uses GNU Guile
 as extension language.  Emacsy can give a C program an Emacsy feel with
 keymaps, minibuffer, recordable macros, history, tab completion, major
 and minor modes, etc., and can also be used as a pure Guile library.  It
-comes with a simple counter example using GLUT and browser examples in C
-using gtk+-3 and webkitgtk.")
-      (license license:gpl3+))))
+comes with a simple counter example using FreeGLUT and browser examples
+in C using Gtk+-3 and WebKitGtk.")
+    (license license:gpl3+)))
 
 (define-public guile-jpeg
   (let ((commit "6a1673578b297c2c1b28e44a76bd5c49e76a5046")
-- 
cgit v1.2.3


From 941ae98eae755a92a0e28d04490ee9a237cc585f Mon Sep 17 00:00:00 2001
From: Rutger Helling <rhelling@mykolab.com>
Date: Tue, 2 Jul 2019 09:35:01 +0200
Subject: gnu: faudio: Update to 19.07.

* gnu/packages/audio.scm (faudio): Update to 19.07.
---
 gnu/packages/audio.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/audio.scm b/gnu/packages/audio.scm
index b8dbc2f00a..eff4edeb59 100644
--- a/gnu/packages/audio.scm
+++ b/gnu/packages/audio.scm
@@ -3701,7 +3701,7 @@ library.")
 (define-public faudio
   (package
     (name "faudio")
-    (version "19.06.07")
+    (version "19.07")
     (source
      (origin
        (method git-fetch)
@@ -3710,7 +3710,7 @@ library.")
              (commit version)))
        (file-name (string-append name "-" version "-checkout"))
        (sha256
-        (base32 "1w37qp279lgpyvslwz3wlb4fp0i68ncd411rqdlk5s71b1zz466n"))))
+        (base32 "1wf6skc5agaikc9qgwk8bx56sad31fafs53lqqn4jmx8i76pl0lw"))))
     (arguments
      '(#:tests? #f                      ; No tests.
        #:configure-flags '("-DFFMPEG=ON")))
-- 
cgit v1.2.3


From 71a29277055708b509a477d97c8d5f9815f1b939 Mon Sep 17 00:00:00 2001
From: Amar Singh <nly@disroot.org>
Date: Sat, 29 Jun 2019 03:09:31 +0530
Subject: gnu: emacs-shroud: Update to 1.83.4.

* gnu/packages/emacs-xyz.scm (emacs-shroud): Update to 1.83.4.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
---
 gnu/packages/emacs-xyz.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/emacs-xyz.scm b/gnu/packages/emacs-xyz.scm
index 2a59ae522e..a27de2f778 100644
--- a/gnu/packages/emacs-xyz.scm
+++ b/gnu/packages/emacs-xyz.scm
@@ -550,7 +550,7 @@ for editing Racket's Scribble documentation syntax in Emacs.")
 (define-public emacs-shroud
   (package
     (name "emacs-shroud")
-    (version "1.15.1")
+    (version "1.83.4")
     (source
      (origin
        (method git-fetch)
@@ -559,7 +559,7 @@ for editing Racket's Scribble documentation syntax in Emacs.")
              (commit version)))
        (file-name (git-file-name name version))
        (sha256
-        (base32 "0wvm4lxqcc1p8v7rpqal3bnqgnpk1gs7v18i83f6cvi5d88jkgdg"))))
+        (base32 "1yvdjx0kp4y8w5yz2cbqq9n6xl5splvmsyyx8ld1xv0q1c9872nf"))))
     (build-system emacs-build-system)
     (propagated-inputs
      `(("emacs-bui" ,emacs-bui)
-- 
cgit v1.2.3


From 4bac5bba51383f5c01cd5a9a5efe7b9198be86c0 Mon Sep 17 00:00:00 2001
From: Efraim Flashner <efraim@flashner.co.il>
Date: Tue, 2 Jul 2019 11:42:56 +0300
Subject: gnu: Wrap program with libraries.

* gnu/packages/package-management.scm (stow)[arguments]: Add custom
'wrap-stow phase to wrap stow with necessary inputs.
[propagated-inputs]: Move perl-clone, perl-clone-choose, perl-hash-merge
to...
[inputs]: ... here.
---
 gnu/packages/package-management.scm | 21 ++++++++++++++++-----
 1 file changed, 16 insertions(+), 5 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/package-management.scm b/gnu/packages/package-management.scm
index ca360b3884..d0388e5d43 100644
--- a/gnu/packages/package-management.scm
+++ b/gnu/packages/package-management.scm
@@ -475,17 +475,28 @@ sub-directory.")
                (base32
                 "0h8qr2rxsrkg6d8jxjk68r23jgn1dxdxyp4bnzzinpa8sjhfl905"))))
     (build-system gnu-build-system)
+    (arguments
+     '(#:phases
+       (modify-phases %standard-phases
+         (add-after 'install 'wrap-stow
+           (lambda* (#:key inputs outputs #:allow-other-keys)
+             (let ((out (assoc-ref outputs "out")))
+               (wrap-program (string-append out "/bin/stow")
+                 `("PERL5LIB" ":" prefix
+                   ,(map (lambda (i) (string-append (assoc-ref inputs i)
+                                                    "/lib/perl5/site_perl"))
+                         '("perl-clone-choose" "perl-clone" "perl-hash-merge"))))
+               #t))))))
     (inputs
-     `(("perl" ,perl)))
+     `(("perl" ,perl)
+       ("perl-clone" ,perl-clone)
+       ("perl-clone-choose" ,perl-clone-choose)
+       ("perl-hash-merge" ,perl-hash-merge)))
     (native-inputs
      `(("perl-test-simple" ,perl-test-simple)
        ("perl-test-output" ,perl-test-output)
        ("perl-capture-tiny" ,perl-capture-tiny)
        ("perl-io-stringy" ,perl-io-stringy)))
-    (propagated-inputs
-     `(("perl-clone-choose" ,perl-clone-choose)
-       ("perl-clone" ,perl-clone)
-       ("perl-hash-merge" ,perl-hash-merge)))
     (home-page "https://www.gnu.org/software/stow/")
     (synopsis "Managing installed software packages")
     (description
-- 
cgit v1.2.3


From 697df13f613468f4c572f85d3411dbf60b7bc45a Mon Sep 17 00:00:00 2001
From: Efraim Flashner <efraim@flashner.co.il>
Date: Tue, 2 Jul 2019 15:04:56 +0300
Subject: gnu: octave-cli: Sort inputs alphabetically.

* gnu/packages/maths.scm (octave-cli)[inputs]: Sort inputs alphabetically.
---
 gnu/packages/maths.scm | 30 +++++++++++++++---------------
 1 file changed, 15 insertions(+), 15 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 5b31596041..7d2c4797f1 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -1463,30 +1463,30 @@ can solve two kinds of problems:
         "11wwxpy2q1bhxs2v41bqn05i2sb0905cj1xil6mg8l4k2kka4cq6"))))
     (build-system gnu-build-system)
     (inputs
-     `(("lapack" ,lapack)
-       ("qhull" ,qhull)
-       ("readline" ,readline)
-       ("gl2ps" ,gl2ps)
-       ("glpk" ,glpk)
+     `(("alsa-lib" ,alsa-lib)
+       ("arpack" ,arpack-ng)
+       ("curl" ,curl)
        ("fftw" ,fftw)
        ("fftwf" ,fftwf)
-       ("arpack" ,arpack-ng)
-       ("pcre" ,pcre)
        ("fltk" ,fltk)
        ("fontconfig" ,fontconfig)
        ("freetype" ,freetype)
-       ("hdf5" ,hdf5)
-       ("libxft" ,libxft)
-       ("mesa" ,mesa)
+       ("gl2ps" ,gl2ps)
+       ("glpk" ,glpk)
        ("glu" ,glu)
-       ("zlib" ,zlib)
-       ("curl" ,curl)
-       ("texinfo" ,texinfo)
        ("graphicsmagick" ,graphicsmagick)
-       ("suitesparse" ,suitesparse)
+       ("hdf5" ,hdf5)
+       ("lapack" ,lapack)
        ("libsndfile" ,libsndfile)
+       ("libxft" ,libxft)
+       ("mesa" ,mesa)
+       ("pcre" ,pcre)
        ("portaudio" ,portaudio)
-       ("alsa-lib" ,alsa-lib)))
+       ("qhull" ,qhull)
+       ("readline" ,readline)
+       ("suitesparse" ,suitesparse)
+       ("texinfo" ,texinfo)
+       ("zlib" ,zlib)))
     (native-inputs
      `(("lzip" ,lzip)
        ("gfortran" ,gfortran)
-- 
cgit v1.2.3


From 4c1cfe0faf78e95decdb908528a896ef8e31c217 Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Tue, 2 Jul 2019 14:09:30 +0200
Subject: gnu: perl-module-build: Update to 0.4229.

* gnu/packages/perl.scm (perl-module-build): Update to 0.4229.
---
 gnu/packages/perl.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/perl.scm b/gnu/packages/perl.scm
index d0df091494..9ab7c37a24 100644
--- a/gnu/packages/perl.scm
+++ b/gnu/packages/perl.scm
@@ -9588,7 +9588,7 @@ MYMETA.yml.")
 (define-public perl-module-build
   (package
     (name "perl-module-build")
-    (version "0.4220")
+    (version "0.4229")
     (source
      (origin
        (method url-fetch)
@@ -9596,7 +9596,7 @@ MYMETA.yml.")
                            "Module-Build-" version ".tar.gz"))
        (sha256
         (base32
-         "18mm6k7d7cmj9l6na1c50vbc8hc1pwsz38yxi9x6ydlrwz3hf4pv"))))
+         "064c03wxia7jz0i578awj4srykj0nnigm4p5r0dv0559rnk93r0z"))))
     (build-system perl-build-system)
     (propagated-inputs
      `(("perl-cpan-meta" ,perl-cpan-meta)))
-- 
cgit v1.2.3


From c6c0940ea33f034ea0efc5525feaeeebdc7b521d Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Tue, 2 Jul 2019 14:36:00 +0200
Subject: gnu: python-pycparser: Update to 2.19.

* gnu/packages/python-xyz.scm (python-pycparser): Update to 2.19.
[arguments]: End phases on #t.
---
 gnu/packages/python-xyz.scm | 7 ++++---
 1 file changed, 4 insertions(+), 3 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm
index 8398dede79..01b0f15cea 100644
--- a/gnu/packages/python-xyz.scm
+++ b/gnu/packages/python-xyz.scm
@@ -4413,14 +4413,14 @@ a general image processing tool.")
 (define-public python-pycparser
   (package
     (name "python-pycparser")
-    (version "2.18")
+    (version "2.19")
     (source
      (origin
       (method url-fetch)
       (uri (pypi-uri "pycparser" version))
       (sha256
        (base32
-        "09mjyw82ibqzl449g7swy8bfxnfpmas0815d2rkdjlcqw81wma4r"))))
+        "1cr5dcj9628lkz1qlwq3fv97c25363qppkmcayqvd05dpy573259"))))
     (outputs '("out" "doc"))
     (build-system python-build-system)
     (native-inputs
@@ -4443,7 +4443,8 @@ a general image processing tool.")
                            (copy-file (string-append "." file)
                                       (string-append doc file)))
                          '("/README.rst" "/CHANGES" "/LICENSE"))
-               (copy-recursively "examples" examples)))))))
+               (copy-recursively "examples" examples)
+               #t))))))
     (home-page "https://github.com/eliben/pycparser")
     (synopsis "C parser in Python")
     (description
-- 
cgit v1.2.3


From 6dc7a1934269b537e19876165a18caf2a18aad2a Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Tue, 2 Jul 2019 14:48:04 +0200
Subject: gnu: python-mako: Update to 1.0.13.

* gnu/packages/python-xyz.scm (python-mako): Update to 1.0.13.
---
 gnu/packages/python-xyz.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm
index 01b0f15cea..26b53b62ca 100644
--- a/gnu/packages/python-xyz.scm
+++ b/gnu/packages/python-xyz.scm
@@ -8672,14 +8672,14 @@ python-xdo for newer bindings.)")
 (define-public python-mako
   (package
     (name "python-mako")
-    (version "1.0.12")
+    (version "1.0.13")
     (source
      (origin
        (method url-fetch)
        (uri (pypi-uri "Mako" version))
        (sha256
         (base32
-         "0qj16ai937wrbpv1a9g395gybb9s06rmdj3arbp8fpl37bg6byhc"))))
+         "0h95n0g0k1jwxiqarr09navpfajarvbmpm8mhmw66c25qc675vlm"))))
     (build-system python-build-system)
     (propagated-inputs
      `(("python-markupsafe" ,python-markupsafe)))
-- 
cgit v1.2.3


From af65e4c289041bbf8d03d9655cfd8f62621a51ed Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Tue, 2 Jul 2019 14:49:47 +0200
Subject: gnu: ImageMagick: Update to 6.9.10-51.

* gnu/packages/imagemagick.scm (imagemagick): Update to 6.9.10-51.
---
 gnu/packages/imagemagick.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/imagemagick.scm b/gnu/packages/imagemagick.scm
index 769b0bda64..3cc9396d57 100644
--- a/gnu/packages/imagemagick.scm
+++ b/gnu/packages/imagemagick.scm
@@ -48,14 +48,14 @@
     ;; The 7 release series has an incompatible API, while the 6 series is still
     ;; maintained. Don't update to 7 until we've made sure that the ImageMagick
     ;; users are ready for the 7-series API.
-    (version "6.9.10-50")
+    (version "6.9.10-51")
     (source (origin
              (method url-fetch)
              (uri (string-append "mirror://imagemagick/ImageMagick-"
                                  version ".tar.xz"))
              (sha256
               (base32
-               "1p8mqfz500bc6hapm64xr5qjrgmkfw7cq9m73xfzaxlriih8rm56"))))
+               "03c5r14ycp7mmlk6pryfcnpvjjnghk3z7dbjd1b7m1bgzmw21jhj"))))
     (build-system gnu-build-system)
     (arguments
      `(#:configure-flags '("--with-frozenpaths" "--without-gcc-arch")
-- 
cgit v1.2.3


From 35a16f5f6d78f15309b8e8282f46887835db83e0 Mon Sep 17 00:00:00 2001
From: Rutger Helling <rhelling@mykolab.com>
Date: Tue, 2 Jul 2019 13:45:16 +0200
Subject: gnu: btrfs-progs: Update to 5.1.1.

* gnu/packages/linux.scm (btrfs-progs): Update to 5.1.1.
---
 gnu/packages/linux.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/linux.scm b/gnu/packages/linux.scm
index 72b62faf42..b4407a5133 100644
--- a/gnu/packages/linux.scm
+++ b/gnu/packages/linux.scm
@@ -3544,7 +3544,7 @@ and copy/paste text in the console and in xterm.")
 (define-public btrfs-progs
   (package
     (name "btrfs-progs")
-    (version "5.1")
+    (version "5.1.1")
     (source (origin
               (method url-fetch)
               (uri (string-append "mirror://kernel.org/linux/kernel/"
@@ -3552,7 +3552,7 @@ and copy/paste text in the console and in xterm.")
                                   "btrfs-progs-v" version ".tar.xz"))
               (sha256
                (base32
-                "0dgh56pamav8wb9nmabjwdlpcazvqc9pgzwablxn77mqh0qrhkaq"))))
+                "06xybs7rglxjqkbzl2409acb3rgmnc5zc0xhyaxsc2p1x5yipfcw"))))
     (build-system gnu-build-system)
     (outputs '("out"
                "static"))      ; static versions of the binaries in "out"
-- 
cgit v1.2.3


From 0323db5aef236647ac3318bdd028edac6b92da68 Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Tue, 2 Jul 2019 17:11:39 +0200
Subject: gnu: tzdata: Update to 2019b.

* gnu/packages/base.scm (tzdata): Update to 2019b.
---
 gnu/packages/base.scm | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/base.scm b/gnu/packages/base.scm
index 59b50440aa..90dd69cfa3 100644
--- a/gnu/packages/base.scm
+++ b/gnu/packages/base.scm
@@ -1215,7 +1215,7 @@ command.")
 (define-public tzdata
   (package
     (name "tzdata")
-    (version "2019a")
+    (version "2019b")
     (source (origin
              (method url-fetch)
              (uri (string-append
@@ -1223,7 +1223,7 @@ command.")
                    version ".tar.gz"))
              (sha256
               (base32
-               "0wlpqm4asvi0waaz24xj20iq40gqfypmb4nldjhkfgm09bgnsdlh"))))
+               "0r0clnlslwm15m1c61dinf1fi9ffgl6aipng7i7yryfwj0n0kn85"))))
     (build-system gnu-build-system)
     (arguments
      '(#:tests? #f
@@ -1273,7 +1273,7 @@ command.")
                                 version ".tar.gz"))
                           (sha256
                            (base32
-                            "1x9z8fpgnhzlsnps0hamb54ymaskjab7ys9m4i4gpk9hpiig2fc7"))))))
+                            "0vbmswvv3li25s31shyllq5v24449lxnrki9hr043nipjd09sirf"))))))
     (home-page "https://www.iana.org/time-zones")
     (synopsis "Database of current and historical time zones")
     (description "The Time Zone Database (often called tz or zoneinfo)
-- 
cgit v1.2.3


From e307f52e01f46f99d7e3e729b9cfac446c783fc4 Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Tue, 2 Jul 2019 17:14:34 +0200
Subject: gnu: postgresql@10: Update to 10.9.

* gnu/packages/databases.scm (postgresql): Update to 10.9.
---
 gnu/packages/databases.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/databases.scm b/gnu/packages/databases.scm
index 561a3b3b12..01ce5f1ae7 100644
--- a/gnu/packages/databases.scm
+++ b/gnu/packages/databases.scm
@@ -804,14 +804,14 @@ as a drop-in replacement of MySQL.")
 (define-public postgresql
   (package
     (name "postgresql")
-    (version "10.8")
+    (version "10.9")
     (source (origin
               (method url-fetch)
               (uri (string-append "https://ftp.postgresql.org/pub/source/v"
                                   version "/postgresql-" version ".tar.bz2"))
               (sha256
                (base32
-                "0pfdmy4w95b49w9rkn8dwvzmi2brpqfvbxd04y0k0s0xvymc565i"))
+                "0m0gbf7nwgag6a1z5f9xszwzgf2xhx0ncakyxwxlzs87n1zk32wm"))
               (patches (search-patches "postgresql-disable-resolve_symlinks.patch"))))
     (build-system gnu-build-system)
     (arguments
-- 
cgit v1.2.3


From f62b57ba74ebaee36c554b42933095612d1aee01 Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Mon, 1 Jul 2019 12:15:48 +0200
Subject: gnu: re2: Update to 2019-07-01.

* gnu/packages/regex.scm (re2): Update to 2019-07-01.
---
 gnu/packages/regex.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/regex.scm b/gnu/packages/regex.scm
index a64944080b..71dac09737 100644
--- a/gnu/packages/regex.scm
+++ b/gnu/packages/regex.scm
@@ -30,7 +30,7 @@
 (define-public re2
    (package
      (name "re2")
-     (version "2019-06-01")
+     (version "2019-07-01")
      (home-page "https://github.com/google/re2")
      (source (origin
                (method git-fetch)
@@ -38,7 +38,7 @@
                (file-name (git-file-name name version))
                (sha256
                 (base32
-                 "01613z66wgiffdngbq3031rwd92jf87j93h7y5mn8hlx19gg5k4j"))))
+                 "1ric6gdnf5mqj5iy5f81al49mr3mmjqj3nqi3mw2hjdbbgwkdn71"))))
      (build-system gnu-build-system)
      (arguments
       `(#:modules ((guix build gnu-build-system)
-- 
cgit v1.2.3


From b8d41cfc875b1a6c438ac138fdce9caa579b8486 Mon Sep 17 00:00:00 2001
From: Robert Vollmert <rob@vllmrt.net>
Date: Sun, 30 Jun 2019 22:54:48 +0200
Subject: gnu: ghc-primitive: Update to 0.6.4.0.

* gnu/packages/haskell.scm (ghc-primitive): Update to 0.6.4.0.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
---
 gnu/packages/haskell.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/haskell.scm b/gnu/packages/haskell.scm
index cfbd3bfb76..52f688a283 100644
--- a/gnu/packages/haskell.scm
+++ b/gnu/packages/haskell.scm
@@ -2685,7 +2685,7 @@ library, including the ability to split random number generators.")
 (define-public ghc-primitive
   (package
     (name "ghc-primitive")
-    (version "0.6.3.0")
+    (version "0.6.4.0")
     (outputs '("out" "doc"))
     (source
      (origin
@@ -2696,7 +2696,7 @@ library, including the ability to split random number generators.")
              ".tar.gz"))
        (sha256
         (base32
-         "0mcmbnj08wd6zfwn7xk6zf5hy5zwbla5v78pw0dpymqg9s0gzpnd"))))
+         "0r0cda7acvplgwaxy69kviv4jp7kkfi038by68gj4yfx4iwszgjc"))))
     (build-system haskell-build-system)
     (home-page
      "https://github.com/haskell/primitive")
-- 
cgit v1.2.3


From 8b5df106fdd52b8851bbdd978077e8ab257eb840 Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Tue, 2 Jul 2019 14:52:00 +0200
Subject: gnu: WebKitGTK: Update to 2.24.3.

* gnu/packages/webkit.scm (webkitgtk-2.24): Update to 2.24.3.
[source](patches): Remove.
* gnu/packages/patches/webkitgtk-sans-gstreamer-gl.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
---
 gnu/local.mk                                       |  1 -
 .../patches/webkitgtk-sans-gstreamer-gl.patch      | 24 ----------------------
 gnu/packages/webkit.scm                            |  5 ++---
 3 files changed, 2 insertions(+), 28 deletions(-)
 delete mode 100644 gnu/packages/patches/webkitgtk-sans-gstreamer-gl.patch

(limited to 'gnu')

diff --git a/gnu/local.mk b/gnu/local.mk
index 0f4cb2a6e4..6e90d88689 100644
--- a/gnu/local.mk
+++ b/gnu/local.mk
@@ -1370,7 +1370,6 @@ dist_patch_DATA =						\
   %D%/packages/patches/wavpack-CVE-2018-6767.patch		\
   %D%/packages/patches/wavpack-CVE-2018-7253.patch		\
   %D%/packages/patches/wavpack-CVE-2018-7254.patch		\
-  %D%/packages/patches/webkitgtk-sans-gstreamer-gl.patch	\
   %D%/packages/patches/weechat-python.patch			\
   %D%/packages/patches/wicd-bitrate-none-fix.patch		\
   %D%/packages/patches/wicd-get-selected-profile-fix.patch	\
diff --git a/gnu/packages/patches/webkitgtk-sans-gstreamer-gl.patch b/gnu/packages/patches/webkitgtk-sans-gstreamer-gl.patch
deleted file mode 100644
index 4577c81edb..0000000000
--- a/gnu/packages/patches/webkitgtk-sans-gstreamer-gl.patch
+++ /dev/null
@@ -1,24 +0,0 @@
-Fix build failure when USE_GSTREAMER_GL=off.  See
-<https://bugs.webkit.org/show_bug.cgi?id=196440>.
-
-This patch is taken from the upstream source repository:
-<https://git.webkit.org/?p=WebKit.git;a=commitdiff;h=e2dd6decbe25ea9498f1ba213808f34b232740c7>.
-
-diff --git a/Source/WebCore/platform/graphics/gstreamer/MediaPlayerPrivateGStreamerBase.cpp b/Source/WebCore/platform/graphics/gstreamer/MediaPlayerPrivateGStreamerBase.cpp
-index 00a2af6489e..5cb5f7536ac 100644
---- a/Source/WebCore/platform/graphics/gstreamer/MediaPlayerPrivateGStreamerBase.cpp
-+++ b/Source/WebCore/platform/graphics/gstreamer/MediaPlayerPrivateGStreamerBase.cpp
-@@ -1000,11 +1000,13 @@ void MediaPlayerPrivateGStreamerBase::updateTextureMapperFlags()
-         break;
-     }
- 
-+#if USE(GSTREAMER_GL)
-     // When the imxvpudecoder is used, the texture sampling of the
-     // directviv-uploaded texture returns an RGB value, so there's no need to
-     // convert it.
-     if (m_videoDecoderPlatform != WebKitGstVideoDecoderPlatform::ImxVPU)
-         m_textureMapperFlags |= TEXTURE_MAPPER_COLOR_CONVERT_FLAG;
-+#endif
- }
- #endif
- 
diff --git a/gnu/packages/webkit.scm b/gnu/packages/webkit.scm
index e9b7ab74a7..6b38998772 100644
--- a/gnu/packages/webkit.scm
+++ b/gnu/packages/webkit.scm
@@ -168,15 +168,14 @@ HTML/CSS applications to full-fledged web browsers.")
 (define-public webkitgtk-2.24
   (package/inherit webkitgtk
     (name "webkitgtk")
-    (version "2.24.2")
+    (version "2.24.3")
     (source (origin
               (method url-fetch)
               (uri (string-append "https://www.webkitgtk.org/releases/"
                                   name "-" version ".tar.xz"))
               (sha256
                (base32
-                "071jnjvjq6wsxx1jh4ql3j53h1nhphs5ga67fa5i9xjvs3qb3701"))
-              (patches (search-patches "webkitgtk-sans-gstreamer-gl.patch"))))
+                "0lbcrw5axwrbrajxq7fqywfyh0djqi23ynzb5wi5ghw2grnp83cl"))))
     (native-inputs
      `(("gcc" ,gcc-7)  ; webkitgtk-2.22 requires gcc-6 or newer
        ,@(package-native-inputs webkitgtk)))
-- 
cgit v1.2.3


From 334a2f4def1d4f9dc37718d847923cd941849607 Mon Sep 17 00:00:00 2001
From: Robert Vollmert <rob@vllmrt.net>
Date: Thu, 13 Jun 2019 15:50:37 +0200
Subject: gnu: postgres service: More secure default permissions.
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

This changes to 'peer' authentication for local socket connections,
and password-based authentication for local network connections.

* gnu/services/databases.scm (%default-postgres-hba): Change
authentication method.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
---
 gnu/services/databases.scm | 7 ++++---
 1 file changed, 4 insertions(+), 3 deletions(-)

(limited to 'gnu')

diff --git a/gnu/services/databases.scm b/gnu/services/databases.scm
index 7113f1f2a1..ec31489d48 100644
--- a/gnu/services/databases.scm
+++ b/gnu/services/databases.scm
@@ -5,6 +5,7 @@
 ;;; Copyright © 2017 Christopher Baines <mail@cbaines.net>
 ;;; Copyright © 2018 Clément Lassieur <clement@lassieur.org>
 ;;; Copyright © 2018 Julien Lepiller <julien@lepiller.eu>
+;;; Copyright © 2019 Robert Vollmert <rob@vllmrt.net>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -91,9 +92,9 @@
 (define %default-postgres-hba
   (plain-file "pg_hba.conf"
               "
-local	all	all			trust
-host	all	all	127.0.0.1/32 	trust
-host	all	all	::1/128 	trust"))
+local	all	all			peer
+host	all	all	127.0.0.1/32 	md5
+host	all	all	::1/128 	md5"))
 
 (define %default-postgres-ident
   (plain-file "pg_ident.conf"
-- 
cgit v1.2.3


From 52bb05c70274e5f235901cf8f6d190bfce728e87 Mon Sep 17 00:00:00 2001
From: guy fleury iteriteka <hoonandon@gmail.com>
Date: Fri, 24 May 2019 11:33:07 +0200
Subject: gnu: Add chafa.
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

* gnu/packages/image-viewers.scm (chaffa): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
---
 gnu/packages/image-viewers.scm | 26 ++++++++++++++++++++++++++
 1 file changed, 26 insertions(+)

(limited to 'gnu')

diff --git a/gnu/packages/image-viewers.scm b/gnu/packages/image-viewers.scm
index a5bfb28a88..7d2ff9a677 100644
--- a/gnu/packages/image-viewers.scm
+++ b/gnu/packages/image-viewers.scm
@@ -10,6 +10,7 @@
 ;;; Copyright © 2018, 2019 Tobias Geerinckx-Rice <me@tobias.gr>
 ;;; Copyright © 2018, 2019 Ricardo Wurmus <rekado@elephly.net>
 ;;; Copyright © 2019 Nicolas Goaziou <mail@nicolasgoaziou.fr>
+;;; Copyright © 2019 Guy Fleury Iteriteka <hoonandon@gmail.com>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -477,3 +478,28 @@ minimalism and usability in mind.  Its features include animated GIF
 controls, file history, rotation/mirroring, and multithreaded
 preloading.")
     (license license:gpl3+)))
+
+(define-public chafa
+  (package
+    (name "chafa")
+    (version "1.0.1")
+    (source (origin
+              (method url-fetch)
+              (uri (string-append "https://hpjansson.org/chafa/releases/chafa-"
+                                  version ".tar.xz"))
+              (sha256
+               (base32
+                "00cf2z52az0z6bzc3hfm4l8infipy5ck410wqmbaybd2csjr3m29"))))
+    (build-system gnu-build-system)
+    (native-inputs
+     `(("pkg-config" ,pkg-config)))
+    (inputs
+     `(("glib" ,glib)
+       ("imagemagick" ,imagemagick)))
+    (synopsis "Convert images to ANSI/Unicode characters")
+    (description
+     "Chafa is a command-line utility that converts all kinds of images,
+including animated GIFs, into ANSI/Unicode character output that can be
+displayed in a terminal.")
+    (home-page "https://hpjansson.org/chafa/")
+    (license license:lgpl3+)))
-- 
cgit v1.2.3


From c473bd1881d5093789b41cb6927ee3a5ed6d0439 Mon Sep 17 00:00:00 2001
From: Jacob MacDonald <jaccarmac@gmail.com>
Date: Fri, 7 Jun 2019 05:24:12 -0500
Subject: gnu: Add ghc-wl-pprint-annotated.
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

* gnu/packages/haskell.scm (ghc-wl-pprint-annotated): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
---
 gnu/packages/haskell.scm | 30 ++++++++++++++++++++++++++++++
 1 file changed, 30 insertions(+)

(limited to 'gnu')

diff --git a/gnu/packages/haskell.scm b/gnu/packages/haskell.scm
index cfbd3bfb76..f40d92b9f7 100644
--- a/gnu/packages/haskell.scm
+++ b/gnu/packages/haskell.scm
@@ -11591,4 +11591,34 @@ Replace some ASCII sequences by their Unicode equivalent (turned off by
 default)
 @end itemize")
     (license license:bsd-3)))
+
+(define-public ghc-wl-pprint-annotated
+  (package
+    (name "ghc-wl-pprint-annotated")
+    (version "0.1.0.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (string-append
+             "mirror://hackage/package/wl-pprint-annotated/wl-pprint-annotated-"
+             version
+             ".tar.gz"))
+       (sha256
+        (base32
+         "1br7qyf27iza213inwhf9bm2k6in0zbmfw6w4clqlc9f9cj2nrkb"))))
+    (build-system haskell-build-system)
+    (native-inputs
+     `(("ghc-tasty" ,ghc-tasty)
+       ("ghc-tasty-hunit" ,ghc-tasty-hunit)))
+    (home-page
+     "https://github.com/minad/wl-pprint-annotated#readme")
+    (synopsis
+     "Wadler/Leijen pretty printer with annotation support")
+    (description
+     "Annotations are useful for coloring.  This is a limited version of
+@code{wl-pprint-extras} without support for point effects and without the free
+monad.  Like in @code{annotated-wl-pprint}, only annotations are supported.
+Compared to @code{annotated-wl-pprint} this library provides a slightly
+modernized interface.")
+    (license license:bsd-3)))
 ;;; haskell.scm ends here
-- 
cgit v1.2.3


From cbff89d126bf5985cfa4884f543c0908c437ff41 Mon Sep 17 00:00:00 2001
From: Jacob MacDonald <jaccarmac@gmail.com>
Date: Fri, 7 Jun 2019 06:00:26 -0500
Subject: gnu: Add ghc-ansi-terminal-0.8.
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

* gnu/packages/haskell.scm (ghc-ansi-terminal-0.8): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
---
 gnu/packages/haskell.scm | 15 +++++++++++++++
 1 file changed, 15 insertions(+)

(limited to 'gnu')

diff --git a/gnu/packages/haskell.scm b/gnu/packages/haskell.scm
index f40d92b9f7..a7a8b762c4 100644
--- a/gnu/packages/haskell.scm
+++ b/gnu/packages/haskell.scm
@@ -4383,6 +4383,21 @@ allows cursor movement, screen clearing, color output showing or hiding the
 cursor, and changing the title.")
     (license license:bsd-3)))
 
+(define-public ghc-ansi-terminal-0.8
+  (package (inherit ghc-ansi-terminal)
+           (name "ghc-ansi-terminal")
+           (version "0.8.0.4")
+           (source
+            (origin
+              (method url-fetch)
+              (uri (string-append
+                    "https://hackage.haskell.org/package/ansi-terminal/ansi-terminal-"
+                    version
+                    ".tar.gz"))
+              (sha256
+               (base32
+                "0428gq8m3fdnb7ldcsyk97qcch76hcxbgh2666p6f76fs2qbhg7b"))))))
+
 (define-public ghc-vault
   (package
     (name "ghc-vault")
-- 
cgit v1.2.3


From 5a499d0f7d5b98443ed0b2c41f2651f66a84ab5e Mon Sep 17 00:00:00 2001
From: Jacob MacDonald <jaccarmac@gmail.com>
Date: Fri, 7 Jun 2019 06:09:24 -0500
Subject: gnu: ghc-ansi-wl-pprint: Use ghc-ansi-terminal-0.8.
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

* gnu/packages/haskell.scm (ghc-ansi-wl-pprint)[inputs]: Use ghc-ansi-terminal-0.8.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
---
 gnu/packages/haskell.scm | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

(limited to 'gnu')

diff --git a/gnu/packages/haskell.scm b/gnu/packages/haskell.scm
index a7a8b762c4..2c4baebcd8 100644
--- a/gnu/packages/haskell.scm
+++ b/gnu/packages/haskell.scm
@@ -4085,7 +4085,7 @@ instances of the @code{Pretty} class.")
          "0gnb4mkqryv08vncxnj0bzwcnd749613yw3cxfzw6y3nsldp4c56"))))
     (build-system haskell-build-system)
     (inputs
-     `(("ghc-ansi-terminal" ,ghc-ansi-terminal)))
+     `(("ghc-ansi-terminal" ,ghc-ansi-terminal-0.8)))
     (home-page "https://github.com/ekmett/ansi-wl-pprint")
     (synopsis "Wadler/Leijen Pretty Printer for colored ANSI terminal output")
     (description "This is a pretty printing library based on Wadler's paper
-- 
cgit v1.2.3


From 4e3ebbfb1649063bcc0f350523868c667e6699dd Mon Sep 17 00:00:00 2001
From: Jacob MacDonald <jaccarmac@gmail.com>
Date: Fri, 7 Jun 2019 05:28:36 -0500
Subject: gnu: ghc-ansi-terminal: Update to 0.9.1.
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

* gnu/packages/haskell.scm (ghc-ansi-terminal): Update to 0.9.1.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
---
 gnu/packages/haskell.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/haskell.scm b/gnu/packages/haskell.scm
index 2c4baebcd8..c16a291563 100644
--- a/gnu/packages/haskell.scm
+++ b/gnu/packages/haskell.scm
@@ -4362,7 +4362,7 @@ interface.")
 (define-public ghc-ansi-terminal
   (package
     (name "ghc-ansi-terminal")
-    (version "0.8.0.4")
+    (version "0.9.1")
     (source
      (origin
        (method url-fetch)
@@ -4372,7 +4372,7 @@ interface.")
              ".tar.gz"))
        (sha256
         (base32
-         "0428gq8m3fdnb7ldcsyk97qcch76hcxbgh2666p6f76fs2qbhg7b"))))
+         "1yr0ld0kqns3w3j9gl62bdwshvyazidx4dv1qkvq19ivnf08w23l"))))
     (build-system haskell-build-system)
     (inputs
      `(("ghc-colour" ,ghc-colour)))
-- 
cgit v1.2.3


From 3c69d462ce478b2d4e3939afd6b895a3e0534809 Mon Sep 17 00:00:00 2001
From: Jacob MacDonald <jaccarmac@gmail.com>
Date: Fri, 7 Jun 2019 05:36:25 -0500
Subject: gnu: Add ghc-concurrent-output.
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

* gnu/packages/haskell.scm (ghc-concurrent-output): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
---
 gnu/packages/haskell.scm | 35 +++++++++++++++++++++++++++++++++++
 1 file changed, 35 insertions(+)

(limited to 'gnu')

diff --git a/gnu/packages/haskell.scm b/gnu/packages/haskell.scm
index c16a291563..63d4360182 100644
--- a/gnu/packages/haskell.scm
+++ b/gnu/packages/haskell.scm
@@ -18,6 +18,7 @@
 ;;; Copyright © 2018 Arun Isaac <arunisaac@systemreboot.net>
 ;;; Copyright © 2018, 2019 Gabriel Hondet <gabrielhondet@gmail.com>
 ;;; Copyright © 2019 Robert Vollmert <rob@vllmrt.net>
+;;; Copyright © 2019 Jacob MacDonald <jaccarmac@gmail.com>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -11607,6 +11608,40 @@ default)
 @end itemize")
     (license license:bsd-3)))
 
+(define-public ghc-concurrent-output
+  (package
+    (name "ghc-concurrent-output")
+    (version "1.10.10")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (string-append
+             "mirror://hackage/package/concurrent-output/concurrent-output-"
+             version
+             ".tar.gz"))
+       (sha256
+        (base32
+         "1wnjxnwbc3l853kiiijagzjyb6fmhz3lmkwls24plbximl1qrr22"))))
+    (build-system haskell-build-system)
+    (inputs
+     `(("ghc-async" ,ghc-async)
+       ("ghc-stm" ,ghc-stm)
+       ("ghc-exceptions" ,ghc-exceptions)
+       ("ghc-ansi-terminal" ,ghc-ansi-terminal)
+       ("ghc-terminal-size" ,ghc-terminal-size)))
+    (home-page
+     "https://hackage.haskell.org/package/concurrent-output")
+    (synopsis
+     "Ungarble output from several threads or commands")
+    (description
+     "Lets multiple threads and external processes concurrently output to the
+console, without it getting all garbled up.
+
+Built on top of that is a way of defining multiple output regions, which are
+automatically laid out on the screen and can be individually updated by
+concurrent threads.  Can be used for progress displays etc.")
+    (license license:bsd-2)))
+
 (define-public ghc-wl-pprint-annotated
   (package
     (name "ghc-wl-pprint-annotated")
-- 
cgit v1.2.3


From 2c4e4bc6583579e0366849d588563d81e9802a0c Mon Sep 17 00:00:00 2001
From: Jacob MacDonald <jaccarmac@gmail.com>
Date: Fri, 7 Jun 2019 05:42:59 -0500
Subject: gnu: Add ghc-hedgehog.
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

* gnu/packages/haskell-check.scm (ghc-hedgehog): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
---
 gnu/packages/haskell-check.scm | 44 ++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 44 insertions(+)

(limited to 'gnu')

diff --git a/gnu/packages/haskell-check.scm b/gnu/packages/haskell-check.scm
index 550bb13a65..9b010fd5eb 100644
--- a/gnu/packages/haskell-check.scm
+++ b/gnu/packages/haskell-check.scm
@@ -822,3 +822,47 @@ minimal dependencies.")
 cryptographic ciphers, and is used by the test runners of various Haskell
 implementations of cryptographic ciphers.")
     (license license:bsd-3)))
+
+(define-public ghc-hedgehog
+  (package
+    (name "ghc-hedgehog")
+    (version "0.6.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (string-append
+             "mirror://hackage/package/hedgehog/hedgehog-"
+             version
+             ".tar.gz"))
+       (sha256
+        (base32
+         "0xz10ycdm5vk9nrcym1fi83k19frfwqz18bz8bnpzwvaj0j41yfj"))))
+    (build-system haskell-build-system)
+    (inputs
+     `(("ghc-ansi-terminal" ,ghc-ansi-terminal-0.8)
+       ("ghc-async" ,ghc-async)
+       ("ghc-concurrent-output" ,ghc-concurrent-output)
+       ("ghc-exceptions" ,ghc-exceptions)
+       ("ghc-lifted-async" ,ghc-lifted-async)
+       ("ghc-mmorph" ,ghc-mmorph)
+       ("ghc-monad-control" ,ghc-monad-control)
+       ("ghc-pretty-show" ,ghc-pretty-show)
+       ("ghc-primitive" ,ghc-primitive)
+       ("ghc-random" ,ghc-random)
+       ("ghc-resourcet" ,ghc-resourcet)
+       ("ghc-semigroups" ,ghc-semigroups)
+       ("ghc-stm" ,ghc-stm)
+       ("ghc-th-lift" ,ghc-th-lift)
+       ("ghc-transformers-base" ,ghc-transformers-base)
+       ("ghc-wl-pprint-annotated"
+        ,ghc-wl-pprint-annotated)))
+    (home-page "https://hedgehog.qa")
+    (synopsis "Property-based testing in the spirt of QuickCheck")
+    (description
+     "Hedgehog is a property-based testing system, in the spirit of
+QuickCheck.  Hedgehog uses integrated shrinking, so shrinks obey the invariants
+of generated values by construction.
+
+To get started quickly, see the examples:
+@uref{https://github.com/hedgehogqa/haskell-hedgehog/tree/master/hedgehog-example}")
+    (license license:bsd-3)))
-- 
cgit v1.2.3


From 252a4d59368d3fea9c63f12592044b856af20afe Mon Sep 17 00:00:00 2001
From: Jacob MacDonald <jaccarmac@gmail.com>
Date: Fri, 7 Jun 2019 05:48:14 -0500
Subject: gnu: Add ghc-validation.
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

* gnu/packages/haskell.scm (ghc-validation): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
---
 gnu/packages/haskell.scm | 54 ++++++++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 54 insertions(+)

(limited to 'gnu')

diff --git a/gnu/packages/haskell.scm b/gnu/packages/haskell.scm
index 63d4360182..d3ff27412f 100644
--- a/gnu/packages/haskell.scm
+++ b/gnu/packages/haskell.scm
@@ -11608,6 +11608,60 @@ default)
 @end itemize")
     (license license:bsd-3)))
 
+(define-public ghc-validation
+  (package
+    (name "ghc-validation")
+    (version "1.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (string-append
+             "mirror://hackage/package/validation/validation-"
+             version
+             ".tar.gz"))
+       (sha256
+        (base32
+         "1acj7mh3581ks405xswxw6667z7y1y0slisg6jvp6chc191ji9l5"))))
+    (build-system haskell-build-system)
+    (arguments
+     `(#:phases
+       (modify-phases %standard-phases
+         (add-after 'unpack 'add-setup-script
+           (lambda _
+             ;; The usual "Setup.hs" script is missing from the source.
+             (with-output-to-file "Setup.hs"
+               (lambda ()
+                 (format #t "import Distribution.Simple~%")
+                 (format #t "main = defaultMain~%"))))))))
+    (inputs
+     `(("ghc-semigroups" ,ghc-semigroups)
+       ("ghc-semigroupoids" ,ghc-semigroupoids)
+       ("ghc-bifunctors" ,ghc-bifunctors)
+       ("ghc-lens" ,ghc-lens)))
+    (native-inputs
+     `(("ghc-hedgehog" ,ghc-hedgehog)
+       ("ghc-hunit" ,ghc-hunit)))
+    (home-page "https://github.com/qfpl/validation")
+    (synopsis
+     "Data-type like Either but with an accumulating Applicative")
+    (description
+     "A data-type like Either but with differing properties and type-class
+instances.
+
+Library support is provided for this different representation, including
+@code{lens}-related functions for converting between each and abstracting over
+their similarities.
+
+The @code{Validation} data type is isomorphic to @code{Either}, but has an
+instance of @code{Applicative} that accumulates on the error side.  That is to
+say, if two (or more) errors are encountered, they are appended using a
+@{Semigroup} operation.
+
+As a consequence of this @code{Applicative} instance, there is no
+corresponding @code{Bind} or @code{Monad} instance.  @code{Validation} is an
+example of, \"An applicative functor that is not a monad.\"")
+    (license license:bsd-3)))
+
 (define-public ghc-concurrent-output
   (package
     (name "ghc-concurrent-output")
-- 
cgit v1.2.3


From c5ab53204eccf2983bfcdc8e6164d02a81e54d23 Mon Sep 17 00:00:00 2001
From: Katherine Cox-Buday <cox.katherine.e@gmail.com>
Date: Fri, 7 Jun 2019 15:24:58 -0500
Subject: gnu: Add trivial-utf-8.
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

* gnu/packages/lisp.scm (sbcl-trivial-utf-8, ecl-trivial-utf-8): New
variables.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
---
 gnu/packages/lisp.scm | 39 +++++++++++++++++++++++++++++++++++++++
 1 file changed, 39 insertions(+)

(limited to 'gnu')

diff --git a/gnu/packages/lisp.scm b/gnu/packages/lisp.scm
index 58813c2d84..37e375d356 100644
--- a/gnu/packages/lisp.scm
+++ b/gnu/packages/lisp.scm
@@ -5665,6 +5665,45 @@ basic everyday functions and macros.")
 (define-public ecl-fare-utils
   (sbcl-package->ecl-package sbcl-fare-utils))
 
+(define-public sbcl-trivial-utf-8
+  (let ((commit "4d427cfbb1c452436a0efb71c3205c9da67f718f")
+        (revision "1"))
+    (package
+      (name "sbcl-trivial-utf-8")
+      (version (git-version "0.0.0" revision commit))
+      (source
+       (origin
+         (method git-fetch)
+         (uri
+          (git-reference
+           (url (string-append "https://gitlab.common-lisp.net/"
+                               "trivial-utf-8/trivial-utf-8.git"))
+           (commit commit)))
+         (file-name (git-file-name name version))
+         (sha256
+          (base32
+           "1jz27gz8gvqdmvp3k9bxschs6d5b3qgk94qp2bj6nv1d0jc3m1l1"))))
+      (arguments
+       ;; Guix incorrectly assumes the "8" is part of the version
+       ;; number and lobs it off.
+       `(#:asd-file "trivial-utf-8.asd"
+         #:asd-system-name "trivial-utf-8"))
+      (build-system asdf-build-system/sbcl)
+      (synopsis "UTF-8 input/output library")
+      (description
+       "The Babel library solves a similar problem while understanding more
+encodings.  Trivial UTF-8 was written before Babel existed, but for new
+projects you might be better off going with Babel.  The one plus that Trivial
+UTF-8 has is that it doesn't depend on any other libraries.")
+      (home-page "https://common-lisp.net/project/trivial-utf-8/")
+      (license license:bsd-3))))
+
+(define-public cl-trivial-utf-8
+  (sbcl-package->cl-source-package sbcl-trivial-utf-8))
+
+(define-public ecl-trivial-utf-8
+  (sbcl-package->ecl-package sbcl-trivial-utf-8))
+
 (define-public sbcl-idna
   (package
     (name "sbcl-idna")
-- 
cgit v1.2.3


From 2e03bbeb7be35faa1cb5b41c119d378d221266f3 Mon Sep 17 00:00:00 2001
From: Zzull <bstrazzull@hotmail.fr>
Date: Sat, 15 Jun 2019 22:32:19 +0200
Subject: gnu: Add emacs-multi-term
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

* gnu/packages/emacs-xyz.scm (emacs-multi-term): New variable

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
---
 gnu/packages/emacs-xyz.scm | 32 ++++++++++++++++++++++++++++++++
 1 file changed, 32 insertions(+)

(limited to 'gnu')

diff --git a/gnu/packages/emacs-xyz.scm b/gnu/packages/emacs-xyz.scm
index a27de2f778..d337700914 100644
--- a/gnu/packages/emacs-xyz.scm
+++ b/gnu/packages/emacs-xyz.scm
@@ -16340,3 +16340,35 @@ themselves live in an Org-mode file.  As such, this leverages the power of
 Org-mode (the notes may have outlines, latex fragments, babel, etc...) while
 acting like notes that are made @emph{in} the document.")
     (license license:gpl3+)))
+
+(define-public emacs-multi-term
+  (let ((commit "0804b11e52b960c80f5cd0712ee1e53ae70d83a4"))
+    (package
+      (name "emacs-multi-term")
+      (version "1.2")
+      (source (origin
+                (method git-fetch)
+                (uri (git-reference
+                      (url "https://github.com/manateelazycat/multi-term.git")
+                      (commit commit)))
+                (file-name (git-file-name name version))
+                (sha256
+                 (base32
+                  "0apvidmvb7rv05qjnjhax42ma8wrimik5vxx620dlbv17svz7iyf"))))
+      (build-system emacs-build-system)
+      (inputs `(("zsh" ,zsh)))
+      (home-page "https://github.com/manateelazycat/multi-term")
+      (synopsis "Manage multiple terminal buffers in Emacs")
+      (description
+       "This package enhances @code{term.el} with the following features:
+
+@enumerate
+@item Functions to switch between multiple terminal buffers
+@item List of keys to be intercepted by @code{emacs-multi-term} instead of by
+the underlying terminal
+@item Kills the unused buffer left after exiting the terminal
+@item Kills the running sub-processes along with the terminal when killing the
+it forcibly
+@item Dedicated window for debugging program.
+@end enumerate")
+      (license license:gpl3+))))
-- 
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