Merge remote-tracking branch 'origin/master' into core-updates-frozen

41 files changed, 4136 insertions, 1595 deletions

diff --git a/gnu/home/services/shells.scm b/gnu/home/services/shells.scm
index e2730967b2..81d07da86c 100644
--- a/gnu/home/services/shells.scm
+++ b/gnu/home/services/shells.scm
@@ -305,18 +305,50 @@ source ~/.profile
 ;;; Bash.
 ;;;
 
+(define (bash-serialize-aliases field-name val)
+  #~(string-append
+     #$@(map
+         (match-lambda
+           ((key . #f)
+            "")
+           ((key . #t)
+            #~(string-append "alias " #$key "\n"))
+           ((key . value)
+            #~(string-append "alias " #$key "=\"" #$value "\"\n")))
+         val)))
+
 (define-configuration home-bash-configuration
   (package
    (package bash)
    "The Bash package to use.")
   (guix-defaults?
    (boolean #t)
-   "Add sane defaults like reading @file{/etc/bashrc}, coloring output
-for @code{ls} provided by guix to @file{.bashrc}.")
+   "Add sane defaults like reading @file{/etc/bashrc} and coloring the output of
+@command{ls} to the end of the @file{.bashrc} file.")
   (environment-variables
    (alist '())
-   "Association list of environment variables to set for the Bash session."
+   "Association list of environment variables to set for the Bash session.  The
+rules for the @code{home-environment-variables-service-type} apply
+here (@pxref{Essential Home Services}).  The contents of this field will be
+added after the contents of the @code{bash-profile} field."
    serialize-posix-env-vars)
+  (aliases
+   (alist '())
+   "Association list of aliases to set for the Bash session.  The aliases will be
+defined after the contents of the @code{bashrc} field has been put in the
+@file{.bashrc} file.  The alias will automatically be quoted, so something line
+this:
+
+@lisp
+'((\"ls\" . \"ls -alF\"))
+@end lisp
+
+turns into
+
+@example
+alias ls=\"ls -alF\"
+@end example"
+   bash-serialize-aliases)
   (bash-profile
    (text-config '())
    "List of file-like objects, which will be added to @file{.bash_profile}.
@@ -387,10 +419,10 @@ alias grep='grep --color=auto'\n")
       (if (or extra-content
               (not (null? ((configuration-field-getter field-obj) config))))
           `(,(object->snake-case-string file-name)
-            ,(mixed-text-file
+            ,(apply mixed-text-file
               (object->snake-case-string file-name)
-              (if extra-content extra-content "")
-              (serialize-field field)))
+              (cons (serialize-field field)
+                    (if extra-content extra-content '()))))
           '())))
 
   (filter
@@ -413,8 +445,8 @@ if [ -f ~/.bashrc ]; then source ~/.bashrc; fi
      ,@(list (file-if-not-empty
               'bashrc
               (if (home-bash-configuration-guix-defaults? config)
-                  guix-bashrc
-                  #f))
+                  (list (serialize-field 'aliases) guix-bashrc)
+                  (list (serialize-field 'alises))))
              (file-if-not-empty 'bash-logout)))))
 
 (define (add-bash-packages config)
@@ -423,36 +455,52 @@ if [ -f ~/.bashrc ]; then source ~/.bashrc; fi
 (define-configuration/no-serialization home-bash-extension
   (environment-variables
    (alist '())
-   "Association list of environment variables to set.")
+   "Additional environment variables to set.  These will be combined with the
+environment variables from other extensions and the base service to form one
+coherent block of environment variables.")
+  (aliases
+   (alist '())
+   "Additional aliases to set.  These will be combined with the aliases from
+other extensions and the base service.")
   (bash-profile
    (text-config '())
-   "List of file-like objects.")
+   "Additional text blocks to add to @file{.bash_profile}, which will be combined
+with text blocks from other extensions and the base service.")
   (bashrc
    (text-config '())
-   "List of file-like objects.")
+   "Additional text blocks to add to @file{.bashrc}, which will be combined
+with text blocks from other extensions and the base service.")
   (bash-logout
    (text-config '())
-   "List of file-like objects."))
+   "Additional text blocks to add to @file{.bash_logout}, which will be combined
+with text blocks from other extensions and the base service."))
 
 (define (home-bash-extensions original-config extension-configs)
-  (home-bash-configuration
-   (inherit original-config)
-   (environment-variables
-    (append (home-bash-configuration-environment-variables original-config)
-            (append-map
-             home-bash-extension-environment-variables extension-configs)))
-   (bash-profile
-    (append (home-bash-configuration-bash-profile original-config)
-            (append-map
-             home-bash-extension-bash-profile extension-configs)))
-   (bashrc
-    (append (home-bash-configuration-bashrc original-config)
-            (append-map
-             home-bash-extension-bashrc extension-configs)))
-   (bash-logout
-    (append (home-bash-configuration-bash-logout original-config)
-            (append-map
-             home-bash-extension-bash-logout extension-configs)))))
+  (match original-config
+    (($ <home-bash-configuration> _ _ _ environment-variables aliases
+                                  bash-profile bashrc bash-logout)
+     (home-bash-configuration
+      (inherit original-config)
+      (environment-variables
+       (append environment-variables
+               (append-map
+                home-bash-extension-environment-variables extension-configs)))
+      (aliases
+       (append aliases
+               (append-map
+                home-bash-extension-aliases extension-configs)))
+      (bash-profile
+       (append bash-profile
+               (append-map
+                home-bash-extension-bash-profile extension-configs)))
+      (bashrc
+       (append bashrc
+               (append-map
+                home-bash-extension-bashrc extension-configs)))
+      (bash-logout
+       (append bash-logout
+               (append-map
+                home-bash-extension-bash-logout extension-configs)))))))
 
 (define home-bash-service-type
   (service-type (name 'home-bash)
@@ -609,10 +657,16 @@ Install and configure Fish, the friendly interactive shell.")))
    'home-shell-profile-configuration))
 
 (define (generate-home-bash-documentation)
-  (generate-documentation
-   `((home-bash-configuration
-      ,home-bash-configuration-fields))
-   'home-bash-configuration))
+  (string-append
+   (generate-documentation
+    `((home-bash-configuration
+       ,home-bash-configuration-fields))
+    'home-bash-configuration)
+   "\n\n"
+   (generate-documentation
+    `((home-bash-extension
+       ,home-bash-extension-fields))
+    'home-bash-extension)))
 
 (define (generate-home-zsh-documentation)
   (generate-documentation
diff --git a/gnu/local.mk b/gnu/local.mk
index 26197c40b9..872fb0128a 100644
--- a/gnu/local.mk
+++ b/gnu/local.mk
@@ -1323,7 +1323,6 @@ dist_patch_DATA =						\
   %D%/packages/patches/julia-SOURCE_DATE_EPOCH-mtime.patch	\
   %D%/packages/patches/julia-tracker-16-compat.patch		\
   %D%/packages/patches/kdbusaddons-kinit-file-name.patch	\
-  %D%/packages/patches/libblockdev-glib-compat.patch		\
   %D%/packages/patches/libffi-3.3-powerpc-fixes.patch		\
   %D%/packages/patches/libffi-float128-powerpc64le.patch	\
   %D%/packages/patches/librime-fix-build-with-gcc10.patch	\
diff --git a/gnu/packages/admin.scm b/gnu/packages/admin.scm
index 3062ddc874..f9eeffaa0b 100644
--- a/gnu/packages/admin.scm
+++ b/gnu/packages/admin.scm
@@ -2522,14 +2522,13 @@ of supported upstream metrics systems simultaneously.")
 (define-public ansible-core
   (package
     (name "ansible-core")
-    (version "2.11.4")
+    (version "2.11.6")
     (source
      (origin
        (method url-fetch)
        (uri (pypi-uri "ansible-core" version))
        (sha256
-        (base32
-         "0jgahcv2pyc5ky0wir55a1h9q9d6rgqj60rqmvlpbj76vz1agsi2"))))
+        (base32 "0fih7nxszni8imi5sywsifd976v77ydhip43pzg7dd65qy1h5mck"))))
     (build-system python-build-system)
     (arguments
      `(#:modules ((guix build python-build-system)
diff --git a/gnu/packages/audio.scm b/gnu/packages/audio.scm
index f1540659c2..f4cfe18a87 100644
--- a/gnu/packages/audio.scm
+++ b/gnu/packages/audio.scm
@@ -15,7 +15,7 @@
 ;;; Copyright © 2018 Clément Lassieur <clement@lassieur.org>
 ;;; Copyright © 2018 Brett Gilio <brettg@gnu.org>
 ;;; Copyright © 2018, 2019 Marius Bakke <mbakke@fastmail.com>
-;;; Copyright © 2018 Thorsten Wilms <t_w_@freenet.de>
+;;; Copyright © 2018, 2021 Thorsten Wilms <t_w_@freenet.de>
 ;;; Copyright © 2018 Eric Bavier <bavier@member.fsf.org>
 ;;; Copyright © 2018 Brendan Tildesley <mail@brendan.scot>
 ;;; Copyright © 2019, 2021 Pierre Langlois <pierre.langlois@gmx.com>
@@ -616,7 +616,7 @@ streams from live audio.")
 (define-public ardour
   (package
     (name "ardour")
-    (version "6.8")
+    (version "6.9")
     (source (origin
               (method git-fetch)
               (uri (git-reference
@@ -634,7 +634,7 @@ namespace ARDOUR { const char* revision = \"" version "\" ; const char* date = \
                     #t)))
               (sha256
                (base32
-                "16x7bkzbrk0rgywq5vrkhf2z3jj08jw1bvaq9vwlf2b4h4sd7i4s"))
+                "0vlcbd70y0an881zv87kc3akmaiz4w7whsy3yaiiqqjww35jg1mm"))
               (file-name (string-append name "-" version))))
     (build-system waf-build-system)
     (arguments
@@ -2207,14 +2207,14 @@ synchronous execution of all clients, and low latency operation.")
 (define-public jalv
   (package
     (name "jalv")
-    (version "1.6.4")
+    (version "1.6.6")
     (source (origin
               (method url-fetch)
               (uri (string-append "https://download.drobilla.net/jalv-"
                                   version ".tar.bz2"))
               (sha256
                (base32
-                "1wwfn7yzbs37s2rdlfjgks63svd5g14yyzd2gdl7h0z12qncwsy2"))))
+                "05lycfq0f06zjp5xqvzjz9hx9kmqx72yng1lghh76hv63dw43lcj"))))
     (build-system waf-build-system)
     (arguments
      `(#:tests? #f                      ; no check target
@@ -2612,14 +2612,14 @@ frequencies.  This data is then formatted to MIDI and written to disk.")
 (define-public lilv
   (package
     (name "lilv")
-    (version "0.24.10")
+    (version "0.24.12")
     (source (origin
              (method url-fetch)
              (uri (string-append "https://download.drobilla.net/lilv-"
                                  version ".tar.bz2"))
              (sha256
               (base32
-               "1565zy0yz46cf2f25pi46msdnzkj6bbhml9gfigdpjnsdlyskfyi"))))
+               "0qchfsyrsrp2pdpd59025kllycr04ddpzd03ha1iz70ci687g8r6"))))
     (build-system waf-build-system)
     (arguments
      `(#:tests? #f                      ; no check target
@@ -2629,15 +2629,13 @@ frequencies.  This data is then formatted to MIDI and written to disk.")
           (lambda* (#:key outputs #:allow-other-keys)
             (setenv "LDFLAGS"
                     (string-append "-Wl,-rpath="
-                                   (assoc-ref outputs "out") "/lib"))
-            #t))
+                                   (assoc-ref outputs "out") "/lib"))))
          (add-after 'unpack 'full-store-path-to-shared-library
            (lambda* (#:key outputs #:allow-other-keys)
              (with-directory-excursion "bindings/python"
                (substitute* "lilv.py"
                  (("liblilv-0.so") (string-append (assoc-ref outputs "out")
-                                                  "/lib/liblilv-0.so"))))
-             #t)))))
+                                                  "/lib/liblilv-0.so")))))))))
     ;; Required by lilv-0.pc.
     (propagated-inputs
      `(("lv2" ,lv2)
@@ -2658,14 +2656,14 @@ significantly faster and have minimal dependencies.")
 (define-public lv2
   (package
     (name "lv2")
-    (version "1.18.0")
+    (version "1.18.2")
     (source (origin
              (method url-fetch)
              (uri (string-append "https://lv2plug.in/spec/lv2-"
                                  version ".tar.bz2"))
              (sha256
               (base32
-               "0gs7401xz23q9vajqr31aa2db8dvssgyh5zrvr4ipa6wig7yb8wh"))))
+               "0pp0n9x1rg8d4fw853z9cvfifjdi4bl85yjxxddqa1acfjy1z2af"))))
     (build-system waf-build-system)
     (arguments
      `(#:tests? #f                      ; no check target
@@ -3316,7 +3314,7 @@ Suil currently supports every combination of Gtk, Qt, and X11.")
 (define-public libebur128
   (package
     (name "libebur128")
-    (version "1.2.4")
+    (version "1.2.6")
     (source
      (origin
        (method git-fetch)
@@ -3325,7 +3323,7 @@ Suil currently supports every combination of Gtk, Qt, and X11.")
              (commit (string-append "v" version))))
        (file-name (git-file-name name version))
        (sha256
-        (base32 "0n81rnm8dm1zmibkr2v3q79rsd609y0dbbsrbay18njcjva88p0g"))))
+        (base32 "0xkpz5rzz1j1srhprbh89669gw8z5f1njpvcnxqgf7qax69vd8sh"))))
     (build-system cmake-build-system)
     (arguments
      `(;; Tests require proprietary .wav files. See
@@ -4921,7 +4919,7 @@ workstations as well as consumer software such as music players.")
 (define-public redkite
   (package
     (name "redkite")
-    (version "1.3.0")                     ;marked unmaintained as of Oct. 2021
+    (version "1.3.1")                     ;marked unmaintained as of Oct. 2021
     (source
      (origin
        (method git-fetch)
@@ -4930,7 +4928,7 @@ workstations as well as consumer software such as music players.")
              (commit (string-append "v" version))))
        (file-name (git-file-name name version))
        (sha256
-        (base32 "16j9zp5i7svq3g38rfb6h257qfgnd2brrxi7cjd2pdax9xxwj40y"))))
+        (base32 "1zb2k2a4m7z2ravqrjn8fq8lic20wbr2m8kja3p3113jsk7j9zvd"))))
     (build-system cmake-build-system)
     (arguments
      `(#:tests? #f))                    ;no tests included
diff --git a/gnu/packages/benchmark.scm b/gnu/packages/benchmark.scm
index dda0123d42..9741814c82 100644
--- a/gnu/packages/benchmark.scm
+++ b/gnu/packages/benchmark.scm
@@ -1,5 +1,5 @@
 ;;; GNU Guix --- Functional package management for GNU
-;;; Copyright © 2016, 2017 Marius Bakke <mbakke@fastmail.com>
+;;; Copyright © 2016, 2017, 2021 Marius Bakke <marius@gnu.org>
 ;;; Copyright © 2017 Dave Love <fx@gnu.org>
 ;;; Copyright © 2018–2021 Tobias Geerinckx-Rice <me@tobias.gr>
 ;;; Copyright © 2018, 2019 Ricardo Wurmus <rekado@elephly.net>
@@ -47,7 +47,6 @@
   #:use-module (gnu packages python-science)
   #:use-module (gnu packages python-web)
   #:use-module (gnu packages python-xyz)
-  #:use-module (gnu packages storage)
   #:use-module (ice-9 match))
 
 (define-public fio
@@ -63,55 +62,41 @@
                 "0ba9cnjrnm3nwcfbhh5x2sycr54j3yn1rqn76kjdyz40f3pdg3qm"))))
     (build-system gnu-build-system)
     (arguments
-     '(#:test-target "test"
+     `(#:modules (,@%gnu-build-system-modules
+                  (ice-9 textual-ports))
+       #:test-target "test"
+       #:configure-flags '("--disable-native") ;don't generate code for the build CPU
        #:phases
        (modify-phases %standard-phases
-         (add-after
-          'unpack 'patch-paths
-          (lambda* (#:key inputs outputs #:allow-other-keys)
-            (let ((out (assoc-ref outputs "out"))
-                  (gnuplot (search-input-file inputs "/bin/gnuplot")))
-              (substitute* "tools/plot/fio2gnuplot"
-                (("/usr/share/fio") (string-append out "/share/fio"))
-                ;; FIXME (upstream): The 'gnuplot' executable is used inline
-                ;; in various os.system() calls mixed with *.gnuplot filenames.
-                (("; do gnuplot") (string-append "; do " gnuplot))
-                (("gnuplot mymath") (string-append gnuplot " mymath"))
-                (("gnuplot mygraph") (string-append gnuplot " mygraph"))))))
          (replace 'configure
-           (lambda* (#:key outputs #:allow-other-keys)
+           (lambda* (#:key (configure-flags ''()) outputs #:allow-other-keys)
              ;; The configure script doesn't understand some of the
-             ;; GNU options, so we can't use #:configure-flags.
+             ;; GNU options, so we can't use the stock phase.
              (let ((out (assoc-ref outputs "out")))
-               (invoke "./configure"
-                       (string-append "--prefix=" out)))))
+               (apply invoke "./configure"
+                      (string-append "--prefix=" out)
+                      configure-flags))))
          ;; The main `fio` executable is fairly small and self contained.
-         ;; Moving the auxiliary python and gnuplot scripts to a separate
-         ;; output saves almost 400 MiB on the closure.
+         ;; Moving the auxiliary scripts to a separate output saves ~100 MiB
+         ;; on the closure.
          (add-after 'install 'move-outputs
            (lambda* (#:key outputs #:allow-other-keys)
              (let ((oldbin (string-append (assoc-ref outputs "out") "/bin"))
-                   (newbin (string-append (assoc-ref outputs "utils") "/bin")))
+                   (newbin (string-append (assoc-ref outputs "utils") "/bin"))
+                   (script? (lambda* (file #:rest _)
+                              (call-with-input-file file
+                                (lambda (port)
+                                  (char=? #\# (peek-char port)))))))
                (mkdir-p newbin)
                (for-each (lambda (file)
-                           (let ((src (string-append oldbin "/" file))
-                                 (dst (string-append newbin "/" file)))
-                             (link src dst)
-                             (delete-file src)))
-                         '("fio2gnuplot"  "fiologparser_hist.py"
-                           "fiologparser.py"))
-               ;; Make sure numpy et.al is found.
-               (wrap-program (string-append newbin "/fiologparser_hist.py")
-                 `("GUIX_PYTHONPATH" ":" prefix (,(getenv "GUIX_PYTHONPATH"))))))))))
+                           (link file (string-append newbin "/" (basename file)))
+                           (delete-file file))
+                         (find-files oldbin script?))))))))
     (outputs '("out" "utils"))
     (inputs
-     `(("ceph" ,ceph "lib")
-       ("libaio" ,libaio)
-       ("gnuplot" ,gnuplot)
-       ("zlib" ,zlib)
-       ("python-numpy" ,python2-numpy)
-       ("python-pandas" ,python2-pandas)
-       ("python" ,python-2)))
+     `(("libaio" ,libaio)
+       ("python" ,python)
+       ("zlib" ,zlib)))
     (home-page "https://github.com/axboe/fio")
     (synopsis "Flexible I/O tester")
     (description
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 90a0e1f288..47bfa11e68 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -1055,13 +1055,13 @@ All datasets are restricted to protein coding genes.")
 (define-public r-aneufinder
   (package
     (name "r-aneufinder")
-    (version "1.20.0")
+    (version "1.22.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "AneuFinder" version))
               (sha256
                (base32
-                "0m6wphlriq7y21ih1p2kzml5jzcic79jc52kkk59dkjj8j88yllk"))))
+                "0xn8952fkchhx7m8dam6gjy86j551xp1cs67510s1qrmfgzpkjp0"))))
     (build-system r-build-system)
     (native-inputs
      `(("r-knitr" ,r-knitr)))
@@ -1401,14 +1401,14 @@ across the entire multi-'omics experiment.")
 (define-public r-biocversion
   (package
     (name "r-biocversion")
-    (version "3.13.1")
+    (version "3.14.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BiocVersion" version))
        (sha256
         (base32
-         "0rsw8g4g1pcjw1zbx8x17yd3drhxqk4sx3cy3ddzy5731hl6mbfi"))))
+         "0qwzkh2alw7xhjprh719la0lg1q38pmjbipy3s2fy79m4xy8y8ik"))))
     (properties `((upstream-name . "BiocVersion")))
     (build-system r-build-system)
     (home-page "https://bioconductor.org/packages/BiocVersion/")
@@ -1421,13 +1421,13 @@ of Bioconductor.")
 (define-public r-biocgenerics
   (package
     (name "r-biocgenerics")
-    (version "0.38.0")
+    (version "0.40.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "BiocGenerics" version))
               (sha256
                (base32
-                "1kv7lzmyki3hi771v01nml1v1hzz8pyhqqv0xcdzqy354mlgx4m6"))))
+                "0nr5x4r8f2krnfrxm7wrzgzr7nbljypi985cbwx5hxhn95zmfifh"))))
     (properties
      `((upstream-name . "BiocGenerics")))
     (build-system r-build-system)
@@ -1441,13 +1441,13 @@ packages.")
 (define-public r-coverageview
   (package
     (name "r-coverageview")
-    (version "1.30.0")
+    (version "1.32.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "CoverageView" version))
               (sha256
                (base32
-                "1xhirbjdw09cqm4xvysxqicvqjbahavwvs7shg4cb05gwyd2ha8g"))))
+                "0sb1h5qsk41c9xisq73agqh502wv6p2j1k45s32a4bkdynf696as"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-s4vectors" ,r-s4vectors)
@@ -1468,13 +1468,13 @@ how the coverage distributed across the genome.")
 (define-public r-cummerbund
   (package
    (name "r-cummerbund")
-   (version "2.34.0")
+   (version "2.36.0")
    (source (origin
              (method url-fetch)
              (uri (bioconductor-uri "cummeRbund" version))
              (sha256
               (base32
-               "1avvmvrmldbscc7xd6a6k22xjykbzafvqf87wh5z9rx3qlzswsjx"))))
+               "0130hrlz2jabbshis1g11ndda8b8vlirzi7a004li3cgdghscxql"))))
    (build-system r-build-system)
    (propagated-inputs
     `(("r-biobase" ,r-biobase)
@@ -1498,13 +1498,13 @@ used visualizations.")
 (define-public r-decipher
   (package
     (name "r-decipher")
-    (version "2.20.0")
+    (version "2.22.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "DECIPHER" version))
               (sha256
                (base32
-                "0mr7glkx2d37l9nszs52m0kycpm14vxl5gdp3z7i5j7yig1sw2nk"))))
+                "0a9k3f70jmd17kxf1zjmdzrfjs0dmwfad2zgz6wihxh5s1shc8qm"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biostrings" ,r-biostrings)
@@ -1522,13 +1522,13 @@ biological sequences.")
 (define-public r-deepsnv
   (package
     (name "r-deepsnv")
-    (version "1.38.0")
+    (version "1.40.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "deepSNV" version))
               (sha256
                (base32
-                "0zz56hf417m7bgg2g2wpbaik30pi6h2nam1n5bviqgdn4mv8n0bs"))))
+                "1wi6j6yb6i9fs9yszfywqz3w50mhl85dkfmr4w3phwvkf0xkn81w"))))
     (properties `((upstream-name . "deepSNV")))
     (build-system r-build-system)
     (propagated-inputs
@@ -1558,13 +1558,13 @@ bases such as COSMIC.")
 (define-public r-delayedarray
   (package
     (name "r-delayedarray")
-    (version "0.18.0")
+    (version "0.20.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "DelayedArray" version))
               (sha256
                (base32
-                "0w632262dqzcnvq9s6jvc7naz93dayx51fsv05s0zb6cjwygbqjr"))))
+                "1cm6zh01mvhiq7zrik7q3dmgxinyjz1nyg6rfj93kpkvcb5d4wpj"))))
     (properties
      `((upstream-name . "DelayedArray")))
     (build-system r-build-system)
@@ -1591,13 +1591,13 @@ array-like objects like @code{DataFrame} objects (typically with Rle columns),
 (define-public r-bluster
   (package
    (name "r-bluster")
-   (version "1.2.1")
+   (version "1.4.0")
    (source (origin
             (method url-fetch)
             (uri (bioconductor-uri "bluster" version))
             (sha256
              (base32
-              "128zd5vwlhmrkq0bpp1dxnkrcqfz1mjmdjlla4wqbjv7v6yyn6lg"))))
+              "1j24l12i3aga4qd827sj8b160yvrhlznggb4piddkmhjc0sppbjm"))))
    (properties `((upstream-name . "bluster")))
    (build-system r-build-system)
    (propagated-inputs
@@ -1621,13 +1621,13 @@ and evaluate clustering results.")
 (define-public r-ideoviz
   (package
     (name "r-ideoviz")
-    (version "1.28.0")
+    (version "1.30.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "IdeoViz" version))
               (sha256
                (base32
-                "17sx0v5lq2zmg098ps4ksj1h0yla3vlh6s2w1ahqsq0nvm193scm"))))
+                "0cclk2pcb2mvsfxhw0zq3qlnfkblb1gqxnn7xypmlf0bm6hcvl4g"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biobase" ,r-biobase)
@@ -1645,13 +1645,13 @@ arbitrary genomic intervals along chromosomal ideogram.")
 (define-public r-iranges
   (package
     (name "r-iranges")
-    (version "2.26.0")
+    (version "2.28.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "IRanges" version))
               (sha256
                (base32
-                "0dzj8wqbjzilh2dsaj3ylx958xqrv0c688ayfq2r1z7rs75qy7kx"))))
+                "07zs231wbfwwc1c1165rhp711fbss40p9l8kyjjv9flzpr3hr1pg"))))
     (properties
      `((upstream-name . "IRanges")))
     (build-system r-build-system)
@@ -1803,14 +1803,14 @@ performing parallel computations on multicore machines.")
 (define-public r-affy
   (package
     (name "r-affy")
-    (version "1.70.0")
+    (version "1.72.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "affy" version))
        (sha256
         (base32
-         "0vz5y92gqcm0qk57qlba85bk683lzdr7vkmxv109rq6i17vdkkrm"))))
+         "0z66pyn2020h3x22xabkmnjxb20kbgblivvk7mqjk9134wvvf15a"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-affyio" ,r-affyio)
@@ -1831,14 +1831,14 @@ analysis.")
 (define-public r-affycomp
   (package
     (name "r-affycomp")
-    (version "1.68.0")
+    (version "1.70.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "affycomp" version))
        (sha256
         (base32
-         "07my5scdh6h0y1bx1h9y5m4fa8bnmw389f83gkb7cf19w4vp36b2"))))
+         "0kawlfff82ikrbrfyyy38zm5wj5xdri2ii9wgwilnq50z5qc6r21"))))
     (properties `((upstream-name . "affycomp")))
     (build-system r-build-system)
     (propagated-inputs `(("r-biobase" ,r-biobase)))
@@ -1852,14 +1852,14 @@ measures for Affymetrix Oligonucleotide Arrays.")
 (define-public r-affycompatible
   (package
     (name "r-affycompatible")
-    (version "1.52.0")
+    (version "1.54.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "AffyCompatible" version))
        (sha256
         (base32
-         "1xwz22wf2smsvmd0d5lfadbsgscnl3fl9msypy2mml38k048p6vj"))))
+         "1qlfh1gcwa6akd5dhdqh260yaw1j6dap6a15ghwf74rchi5218sg"))))
     (properties
      `((upstream-name . "AffyCompatible")))
     (build-system r-build-system)
@@ -1880,14 +1880,14 @@ Command Console} (AGCC)-compatible sample annotation files.")
 (define-public r-affycontam
   (package
     (name "r-affycontam")
-    (version "1.50.0")
+    (version "1.52.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "affyContam" version))
        (sha256
         (base32
-         "0242ga68wrdk1kcmxfdbq73a0d3zhrzdlzkzphfg3q0zjbvg49jj"))))
+         "1vw3nxg9jvlw0zg9h70w2ww8l42qpyvgf12hsla9hyyfhj3m6i9f"))))
     (properties `((upstream-name . "affyContam")))
     (build-system r-build-system)
     (propagated-inputs
@@ -1905,14 +1905,14 @@ problems in CEL-level data to help evaluate performance of quality metrics.")
 (define-public r-affycoretools
   (package
     (name "r-affycoretools")
-    (version "1.64.0")
+    (version "1.66.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "affycoretools" version))
        (sha256
         (base32
-         "1dx861spr3kn1dxwhf43s5l1r7bmrq0h6538l3q64iiwzzc6krdh"))))
+         "1ccyaj129ii9f47r41qsy34y6ck4wna55j8vz3v3hbldddn93f40"))))
     (properties `((upstream-name . "affycoretools")))
     (build-system r-build-system)
     (propagated-inputs
@@ -1947,14 +1947,14 @@ to streamline the more common analyses that a Biostatistician might see.")
 (define-public r-affyio
   (package
     (name "r-affyio")
-    (version "1.62.0")
+    (version "1.64.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "affyio" version))
        (sha256
         (base32
-         "07kibqsm888g06qqqa4648ph877kriy74kprbri8nyx83y8aspjr"))))
+         "02lqdq8hcldkf9qbyhhllkm3smpqc51sn2d9gbkm74r96fx37lvm"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-zlibbioc" ,r-zlibbioc)))
@@ -1971,14 +1971,14 @@ CDF file formats.")
 (define-public r-affxparser
   (package
     (name "r-affxparser")
-    (version "1.64.1")
+    (version "1.66.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "affxparser" version))
        (sha256
         (base32
-         "0lr0kmp087j2g4i5kd7rh8a038ymp6z82861lyql2fwk5dh80043"))))
+         "1bd0f8ifj6l7dx2m3wpmd0mji2gdf39mzgcjf9lbvvmbqnbxbcal"))))
     (properties `((upstream-name . "affxparser")))
     (build-system r-build-system)
     (home-page "https://github.com/HenrikBengtsson/affxparser")
@@ -1999,14 +1999,14 @@ structure.")
 (define-public r-annotate
   (package
     (name "r-annotate")
-    (version "1.70.0")
+    (version "1.72.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "annotate" version))
        (sha256
         (base32
-         "13ny596wh65sw7dbw0zd4h84d6k1w99g91c4sqy83mdzgpv73sz7"))))
+         "0p7q5hdk7003q72vg4hrgdzn463spybxhrkvcq3a6l6jkgy9sf84"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-annotationdbi" ,r-annotationdbi)
@@ -2026,13 +2026,13 @@ microarrays.")
 (define-public r-annotationdbi
   (package
     (name "r-annotationdbi")
-    (version "1.54.1")
+    (version "1.56.1")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "AnnotationDbi" version))
               (sha256
                (base32
-                "0fcammls431pgmp47r85k0zh3bz42bajbqdmafd31kpqncc1ijal"))))
+                "1svh5zcb7ymz463z5641l2cvzniswxasjjix2plfhqs0yqf1j9qg"))))
     (properties
      `((upstream-name . "AnnotationDbi")))
     (build-system r-build-system)
@@ -2056,13 +2056,13 @@ annotation data packages using SQLite data storage.")
 (define-public r-annotationfilter
   (package
     (name "r-annotationfilter")
-    (version "1.16.0")
+    (version "1.18.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "AnnotationFilter" version))
               (sha256
                (base32
-                "0799jja6v7l3jsi26wbjalkr5lriaxid05xb5g36iq93myhaj0sa"))))
+                "15fp1228yb06jm5cblvhw3qv9mlpbjfggaz2nvi3p46mby1vs64w"))))
     (properties
      `((upstream-name . "AnnotationFilter")))
     (build-system r-build-system)
@@ -2082,14 +2082,14 @@ used by @code{ensembldb}, @code{Organism.dplyr}, and other packages.")
 (define-public r-annotationforge
   (package
     (name "r-annotationforge")
-    (version "1.34.0")
+    (version "1.36.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "AnnotationForge" version))
        (sha256
         (base32
-         "1by3diy0y4809k97cw97mp4j177gn1dzhqil8myij1r7b8sk7hax"))))
+         "02wvni5q560idi6677g5f4md73z4qzjl5yycxv5dbvgbl2picisz"))))
     (properties
      `((upstream-name . "AnnotationForge")))
     (build-system r-build-system)
@@ -2114,14 +2114,14 @@ databases.  Packages produced are intended to be used with AnnotationDbi.")
 (define-public r-annotationhub
   (package
     (name "r-annotationhub")
-    (version "3.0.1")
+    (version "3.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "AnnotationHub" version))
        (sha256
         (base32
-         "12i8lafy1z97gs4knqi7r5l1hd7dr6j8a23qj4fkdpqsdpyz21z7"))))
+         "0ks8yzvvs2r66pb9687mkskf0n3wgvp7h92k83b0a1q32sca5wng"))))
     (properties `((upstream-name . "AnnotationHub")))
     (build-system r-build-system)
     (propagated-inputs
@@ -2155,14 +2155,14 @@ by the user, helping with quick and reproducible access.")
 (define-public r-aroma-light
   (package
     (name "r-aroma-light")
-    (version "3.22.0")
+    (version "3.24.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "aroma.light" version))
        (sha256
         (base32
-         "1yvq6l1p8cpijvlib4fn9y88ihn0gaalrmgx82jgrfmnszkqn3y5"))))
+         "12qa85hsp8d1xhgn27iymknbhpnp9bd7hsgqxwvp1i8kki06z5hp"))))
     (properties `((upstream-name . "aroma.light")))
     (build-system r-build-system)
     (propagated-inputs
@@ -2182,14 +2182,14 @@ classes.")
 (define-public r-bamsignals
   (package
     (name "r-bamsignals")
-    (version "1.24.0")
+    (version "1.26.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "bamsignals" version))
        (sha256
         (base32
-         "1ljrip0jlxjcljqac7vzvwqbcqil5v4f4s4bhpq4akvdkshas6mn"))))
+         "03m3yaagplh7j4q5hp3cfcdqwsnh1pwrlla9cv3ajnfd83s8ncqv"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biocgenerics" ,r-biocgenerics)
@@ -2212,13 +2212,13 @@ paired-end data.")
 (define-public r-biobase
   (package
     (name "r-biobase")
-    (version "2.52.0")
+    (version "2.54.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "Biobase" version))
               (sha256
                (base32
-                "1sg8w8860zhlz9s1pf75xa8asd2hyqsj13fh5xc37hf5yqdfkavr"))))
+                "0kar2kgaayp5l7xv9zcxj61l01m8jlwnppql6qf01wsz36dacgww"))))
     (properties
      `((upstream-name . "Biobase")))
     (build-system r-build-system)
@@ -2234,13 +2234,13 @@ on Bioconductor or which replace R functions.")
 (define-public r-biomart
   (package
     (name "r-biomart")
-    (version "2.48.3")
+    (version "2.50.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "biomaRt" version))
               (sha256
                (base32
-                "096s243yzbhhz3wsm7azml5sznqczmcpi5g0gnb02mah1przczfx"))))
+                "069wqihm8pj3r41dizvdbj4jnw9bsc5jrz8czfrak5v69bgk5v5q"))))
     (properties
      `((upstream-name . "biomaRt")))
     (build-system r-build-system)
@@ -2272,13 +2272,13 @@ powerful online queries from gene annotation to database mining.")
 (define-public r-biocparallel
   (package
     (name "r-biocparallel")
-    (version "1.26.2")
+    (version "1.28.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "BiocParallel" version))
               (sha256
                (base32
-                "1y459cygq21f3igsdlxz1zlyad8qbl2qlr5h2d2dpnvblykvf48i"))))
+                "0jqgbpjppwinzw100qhc42kc95znq6xanl26bi8m9cq7yggbpra6"))))
     (properties
      `((upstream-name . "BiocParallel")))
     (build-system r-build-system)
@@ -2306,7 +2306,7 @@ powerful online queries from gene annotation to database mining.")
                (("\\today") "later"))
 
              ;; Initialize the random number generator seed when building.
-             (substitute* "R/internal_rng_stream.R"
+             (substitute* "R/rng.R"
                (("\"L'Ecuyer-CMRG\"\\)" m)
                 (string-append
                  m "; if (!is.na(Sys.getenv(\"SOURCE_DATE_EPOCH\"))) {set.seed(100)}\n"))))))))
@@ -2327,13 +2327,13 @@ objects.")
 (define-public r-biostrings
   (package
     (name "r-biostrings")
-    (version "2.60.2")
+    (version "2.62.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "Biostrings" version))
               (sha256
                (base32
-                "0ai0fg0w4l0a7avbafdbqjgjpg91myxalwrg2i3ixm1l2lyyfyah"))))
+                "11qkw863mkfz3mc55v2gmfr4w3xziqfb5pq3hmjqpn8vpw8ax3xq"))))
     (properties
      `((upstream-name . "Biostrings")))
     (build-system r-build-system)
@@ -2355,14 +2355,14 @@ biological sequences or sets of sequences.")
 (define-public r-biovizbase
   (package
     (name "r-biovizbase")
-    (version "1.40.0")
+    (version "1.42.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "biovizBase" version))
        (sha256
         (base32
-         "14jyyg3ggdhaqhp0j4qf6dapykh76fygbaa4lr7czqbc5mr0iw23"))))
+         "0kg71p7sqfvxal0c19zrws1ffaqgyi8p605l3z6mkq5ldi26pajz"))))
     (properties `((upstream-name . "biovizBase")))
     (build-system r-build-system)
     (propagated-inputs
@@ -2397,13 +2397,13 @@ effort and encourages consistency.")
 (define-public r-bsgenome
   (package
     (name "r-bsgenome")
-    (version "1.60.0")
+    (version "1.62.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "BSgenome" version))
               (sha256
                (base32
-                "1jhissp9ad1rn2p0bzr3yslbn84yqbaqgnn5p9hyacwr7mr091cn"))))
+                "1b023dpy8ygq0kd6qy0mk97c66gzpf39y2s0n89kmv61z5sg0jyi"))))
     (properties
      `((upstream-name . "BSgenome")))
     (build-system r-build-system)
@@ -2428,14 +2428,14 @@ genome data packages and support for efficient SNP representation.")
 (define-public r-category
   (package
     (name "r-category")
-    (version "2.58.0")
+    (version "2.60.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "Category" version))
        (sha256
         (base32
-         "0f76pb7h8qc51mca5pq00m9p02sbkcj6ywfzli20qai2ykpfr71x"))))
+         "164zp4la9rqnp5vpn2y2p6plc5yxyk2kmn0z3d2flla54zc1b427"))))
     (properties `((upstream-name . "Category")))
     (build-system r-build-system)
     (propagated-inputs
@@ -2459,13 +2459,13 @@ analysis.")
 (define-public r-chipseeker
   (package
     (name "r-chipseeker")
-    (version "1.28.3")
+    (version "1.30.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "ChIPseeker" version))
               (sha256
                (base32
-                "18hdgml80770c0xgd06zrl8px1ql9fa65rirfkq07z7rzpnd23rw"))))
+                "1x8px8ylc231g87rd48kmy9y36h26rldbmqjkcj4mgaldvbsj0rp"))))
     (build-system r-build-system)
     (native-inputs
      `(("r-knitr" ,r-knitr)))
@@ -2506,14 +2506,14 @@ annotation, distance to TSS, and overlap of peaks or genes.")
 (define-public r-chipseq
   (package
     (name "r-chipseq")
-    (version "1.42.0")
+    (version "1.44.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "chipseq" version))
        (sha256
         (base32
-         "078p9h0zghlhpd6cr54nww1mk7q97imx8yqfayw5m2yq4097ivbi"))))
+         "1jw209bfh1c22mqs9z44qx3pmca9m68rhxp0p9bvbmqsnqwrndi6"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biocgenerics" ,r-biocgenerics)
@@ -2532,20 +2532,19 @@ experiments.")
 (define-public r-complexheatmap
   (package
     (name "r-complexheatmap")
-    (version "2.8.0")
+    (version "2.10.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ComplexHeatmap" version))
        (sha256
         (base32
-         "0jl96msj1njdrvngg68s50vmphvhi2lfwlv34x07pcdzgkjjs41f"))))
+         "124w74mk0zk035wyr7cimblzx5blags4n5c8f83mp7iimxcb4gcn"))))
     (properties
      `((upstream-name . "ComplexHeatmap")))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-cairo" ,r-cairo)
-       ("r-circlize" ,r-circlize)
+     `(("r-circlize" ,r-circlize)
        ("r-clue" ,r-clue)
        ("r-colorspace" ,r-colorspace)
        ("r-digest" ,r-digest)
@@ -2572,14 +2571,14 @@ self-defined annotation graphics.")
 (define-public r-copywriter
   (package
     (name "r-copywriter")
-    (version "2.24.0")
+    (version "2.26.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "CopywriteR" version))
        (sha256
         (base32
-         "0pacs714d9b1fdz68pp9ca0x77d376s19lxb82np4l9fgx0rgkxp"))))
+         "0xm5gjzi4r1xzyn7r669blqxhyhmbk9rh9k2gn696j14hbhc1hcy"))))
     (properties `((upstream-name . "CopywriteR")))
     (build-system r-build-system)
     (propagated-inputs
@@ -2643,14 +2642,14 @@ distribution.")
 (define-public r-deseq2
   (package
     (name "r-deseq2")
-    (version "1.32.0")
+    (version "1.34.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "DESeq2" version))
        (sha256
         (base32
-         "0r1brwmj7av0bj72jajn27vx3zs1bgg8qfbhf02fln6kf7im4kaz"))))
+         "0whk29zrmv9mrlc4w5ghy0fd29v8hfr8jccwgrn59mf3mkmfb2b9"))))
     (properties `((upstream-name . "DESeq2")))
     (build-system r-build-system)
     (propagated-inputs
@@ -2681,14 +2680,14 @@ distribution.")
 (define-public r-dexseq
   (package
     (name "r-dexseq")
-    (version "1.38.0")
+    (version "1.40.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "DEXSeq" version))
        (sha256
         (base32
-         "1zywh30f4j4rj0f9w6yk5xr9mvdbg8gicy3wsb8yxdnamadyr7x4"))))
+         "1wd4bjd0a53s689yvb2lxzdiy0synh6ncfcly3cfw37kpdj8lds1"))))
     (properties `((upstream-name . "DEXSeq")))
     (build-system r-build-system)
     (propagated-inputs
@@ -2726,14 +2725,14 @@ exploration of the results.")
 (define-public r-dirichletmultinomial
   (package
     (name "r-dirichletmultinomial")
-    (version "1.34.0")
+    (version "1.36.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "DirichletMultinomial" version))
        (sha256
         (base32
-         "0ikmj0300lfzj6q1vyahfyx5kwi5h59mds7ym4f2j1bbxqzy6ssl"))))
+         "06nallp9jj2vmaa7d18g6hiymjc109szdv8sp51r87n7s38bvyq6"))))
     (properties
      `((upstream-name . "DirichletMultinomial")))
     (build-system r-build-system)
@@ -2755,14 +2754,14 @@ originally made available by Holmes, Harris, and Quince, 2012, PLoS ONE 7(2):
 (define-public r-edaseq
   (package
     (name "r-edaseq")
-    (version "2.26.1")
+    (version "2.28.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "EDASeq" version))
        (sha256
         (base32
-         "0pakcbkalhhqz3d9lpfx3hscf53k24mlmrywxxzfg43yq57srkql"))))
+         "1vygfdxbjcww7sqzc3j7sp7w13dx10vlzy9z31flf7345qp6blj7"))))
     (properties `((upstream-name . "EDASeq")))
     (build-system r-build-system)
     (propagated-inputs
@@ -2795,13 +2794,13 @@ global-scaling and full-quantile normalization.")
 (define-public r-edger
   (package
     (name "r-edger")
-    (version "3.34.1")
+    (version "3.36.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "edgeR" version))
               (sha256
                (base32
-                "0f6apsjq6cn794840ls9y2n0hix1gyhvkdgxch1v22qr4sq0c86k"))))
+                "1d18kdfi9vjhhw5kwfy5airrd3c16fh4wbwppbhwgawm038mwavk"))))
     (properties `((upstream-name . "edgeR")))
     (build-system r-build-system)
     (propagated-inputs
@@ -2823,14 +2822,14 @@ CAGE.")
 (define-public r-ensembldb
   (package
     (name "r-ensembldb")
-    (version "2.16.4")
+    (version "2.18.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ensembldb" version))
        (sha256
         (base32
-         "15yllkxr6sj5pfvkvv285nk3q5374nzq1iz8ywmnrq910k3xagd8"))))
+         "02rdbqp33g488w1df1rgp0dg63qrr6w2kmgigxzc8l9wmrvj0y1j"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-annotationdbi" ,r-annotationdbi)
@@ -2868,14 +2867,14 @@ chromosome region or transcript models of lincRNA genes.")
 (define-public r-fastseg
   (package
     (name "r-fastseg")
-    (version "1.38.0")
+    (version "1.40.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "fastseg" version))
        (sha256
         (base32
-         "006v7qs707xmnr35b7rw135pyvacrmhv55a3c53birkpsrjgkps0"))))
+         "1ds0hhc41nhfj3lmvld8nk2p547wd80b3yq7fjlf3dl3wfaxzy80"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biobase" ,r-biobase)
@@ -2898,14 +2897,14 @@ microarrays or GRanges for sequencing data.")
 (define-public r-gage
   (package
     (name "r-gage")
-    (version "2.42.0")
+    (version "2.44.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "gage" version))
        (sha256
         (base32
-         "0z7hrwdm6my6p7z04bcpfhqk72pd0s1bdzvsiiym59qj79fbvb83"))))
+         "1spndmvl8wlz3z3wsvzi0fg9nzk81xi8c220pg2rf81j9181nkar"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-annotationdbi" ,r-annotationdbi)
@@ -2929,14 +2928,14 @@ analysis using other methods.")
 (define-public r-genefilter
   (package
     (name "r-genefilter")
-    (version "1.74.0")
+    (version "1.76.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "genefilter" version))
        (sha256
         (base32
-         "0dy9pmlb0pc9b4ks5fb9zgnmhc9f2mkqmsdlb7f5z88xmj68y4qk"))))
+         "05ba33m99dg414lasn36mjmkd9lvrxgpamy1qj2zvi31i9vkq6y2"))))
     (build-system r-build-system)
     (native-inputs
      `(("gfortran" ,gfortran)
@@ -2957,13 +2956,13 @@ high-throughput sequencing experiments.")
 (define-public r-geneoverlap
   (package
     (name "r-geneoverlap")
-    (version "1.28.0")
+    (version "1.30.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "GeneOverlap" version))
               (sha256
                (base32
-                "1kfw3h68rvbafhklds6sfmviwv91nms8wk0ywzkjg5h3mmgxbsv9"))))
+                "18l5dc4xcy1xa2h3sfw92w9rq9v0mnclamjxmzs5fqi469y5mwmm"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-rcolorbrewer" ,r-rcolorbrewer)
@@ -2977,13 +2976,13 @@ and visualize the results.")
 (define-public r-genomation
   (package
     (name "r-genomation")
-    (version "1.24.0")
+    (version "1.26.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "genomation" version))
               (sha256
                (base32
-                "0qa3b4mfd7l1sy4pw64zr2d90y5apah900krxjl4x39acygg0i2r"))))
+                "0ynwsrlnp98iyz4bl2s7plin0k9iy9zix4jy4v38lcqg6n4iz00j"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biostrings" ,r-biostrings)
@@ -3024,13 +3023,13 @@ genomic intervals.  In addition, it can use BAM or BigWig files as input.")
 (define-public r-genomeinfodb
   (package
     (name "r-genomeinfodb")
-    (version "1.28.4")
+    (version "1.30.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "GenomeInfoDb" version))
               (sha256
                (base32
-                "0fjpgvpvyvl8cqgh2annib6h0c5li3aqz1ajfh5z5k5d0avdm4w0"))))
+                "1r0wblz9w4hqxm15wdssz0invx7hxhg3bnblkia6w3aazh30s6ns"))))
     (properties
      `((upstream-name . "GenomeInfoDb")))
     (build-system r-build-system)
@@ -3054,13 +3053,13 @@ names in their natural, rather than lexicographic, order.")
 (define-public r-genomicalignments
   (package
     (name "r-genomicalignments")
-    (version "1.28.0")
+    (version "1.30.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "GenomicAlignments" version))
               (sha256
                (base32
-                "00rq110jkh89nxgk05zh8kssxk8mb4dq0wjg3n7ivfmmm9wdwhp2"))))
+                "1jwksis94mk8bmdggk0w3kvxqwp4di6x78xgsjk6ij54710adyq9"))))
     (properties
      `((upstream-name . "GenomicAlignments")))
     (build-system r-build-system)
@@ -3087,13 +3086,13 @@ alignments.")
 (define-public r-genomicfeatures
   (package
     (name "r-genomicfeatures")
-    (version "1.44.2")
+    (version "1.46.1")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "GenomicFeatures" version))
               (sha256
                (base32
-                "091p8xnf2xkqhind81vyv1rmy2fz2b3qalcbrsw4qnp24vgdv2am"))))
+                "1dm049r7k41m8zzp5b332fw3ah3jpzzgpcb21icxwhlg483ipjyv"))))
     (properties
      `((upstream-name . "GenomicFeatures")))
     (build-system r-build-system)
@@ -3131,14 +3130,14 @@ extracting the desired features in a convenient format.")
 (define-public r-genomicfiles
   (package
     (name "r-genomicfiles")
-    (version "1.28.0")
+    (version "1.30.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "GenomicFiles" version))
        (sha256
         (base32
-         "1plh14m7w6calw5yxcxp7g4bg8q00ax85m517wap78bni975k13y"))))
+         "0i5y6dk6z18yqj5k4zy756c6l57z9jq2w5a5dksh2di4qgdgjx3x"))))
     (properties `((upstream-name . "GenomicFiles")))
     (build-system r-build-system)
     (propagated-inputs
@@ -3165,13 +3164,13 @@ provide added flexibility for data combination and manipulation.")
 (define-public r-genomicranges
   (package
     (name "r-genomicranges")
-    (version "1.44.0")
+    (version "1.46.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "GenomicRanges" version))
               (sha256
                (base32
-                "1qxc6dcwdlkan3hg0j9yfhz7gyi9qg671yj6zizsk6mzl7qqva0x"))))
+                "03fdmzcf8h17ksa3byc3k5mxc65pqrbcnw00myz1q53l01p3cnf2"))))
     (properties
      `((upstream-name . "GenomicRanges")))
     (build-system r-build-system)
@@ -3196,14 +3195,14 @@ manipulating genomic intervals and variables defined along a genome.")
 (define-public r-gostats
   (package
     (name "r-gostats")
-    (version "2.58.0")
+    (version "2.60.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "GOstats" version))
        (sha256
         (base32
-         "0jjswy6qmfgr2f6vk3y9pdvs9x91gn31h55qllgh0qb2cb26g9wa"))))
+         "1f8wqdl0swnvs59i6ljjcaglfqv314n8zxy4crpx806gbjzpn76z"))))
     (properties `((upstream-name . "GOstats")))
     (build-system r-build-system)
     (propagated-inputs
@@ -3227,14 +3226,14 @@ testing and other simple calculations.")
 (define-public r-gseabase
   (package
     (name "r-gseabase")
-    (version "1.54.0")
+    (version "1.56.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "GSEABase" version))
        (sha256
         (base32
-         "0946kkykms79mqnx262q20xzrrhv7cv723xh378335ff41qyf63n"))))
+         "1i8rryvagxk2pd8nl4a6yldwv82yx869nvv95jf8v00bna08f4d6"))))
     (properties `((upstream-name . "GSEABase")))
     (build-system r-build-system)
     (propagated-inputs
@@ -3256,14 +3255,14 @@ Enrichment Analysis} (GSEA).")
 (define-public r-hpar
   (package
     (name "r-hpar")
-    (version "1.34.0")
+    (version "1.36.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "hpar" version))
        (sha256
         (base32
-         "0q5pp04rq2gsh1kibvp8bvjkqc1kb46qpnj6agqp2vyqhrrfrm99"))))
+         "1inajapdhjxg0vwhsdnhfq22h3fv7ad7m1lv58y5v41p59av1w76"))))
     (build-system r-build-system)
     (native-inputs
      `(("r-knitr" ,r-knitr)))
@@ -3276,14 +3275,14 @@ the Human Protein Atlas project.")
 (define-public r-rhtslib
   (package
     (name "r-rhtslib")
-    (version "1.24.0")
+    (version "1.26.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "Rhtslib" version))
        (sha256
         (base32
-         "0acpgv98529ic2i2k03knz05akb6h51wbz7sr5zgi8gk4nmawrlf"))))
+         "0pwmzwjf6agfp3bq6w8s3piwmzwjdd474qd8zmbzrm772qbadfr4"))))
     (properties `((upstream-name . "Rhtslib")))
     (build-system r-build-system)
     ;; Without this a temporary directory ends up in the Rhtslib.so binary,
@@ -3307,13 +3306,13 @@ of other R packages who wish to make use of HTSlib.")
 (define-public r-impute
   (package
     (name "r-impute")
-    (version "1.66.0")
+    (version "1.68.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "impute" version))
               (sha256
                (base32
-                "0pprkv25avxhllddcssvqvy3nibmqkfwaq4xnlhka7858gyiyd1k"))))
+                "0k6dil8ljgp5qr87m7hxli4igb36fbxiwczaqc5pi8mlfh70fqj5"))))
     (native-inputs
      `(("gfortran" ,gfortran)))
     (build-system r-build-system)
@@ -3327,14 +3326,14 @@ microarray data, using nearest neighbor averaging.")
 (define-public r-interactivedisplaybase
   (package
     (name "r-interactivedisplaybase")
-    (version "1.30.0")
+    (version "1.32.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "interactiveDisplayBase" version))
        (sha256
         (base32
-         "00rgrrmglslgb6j7whp0m5dlyl4436r647br05rrpv8cxrmbs2iv"))))
+         "1pi887192k1jifb4k3pf2jn5hcl1xmmy6vwl22r9njsprdyb3kab"))))
     (properties
      `((upstream-name . "interactiveDisplayBase")))
     (build-system r-build-system)
@@ -3354,14 +3353,14 @@ Shiny-based display methods for Bioconductor objects.")
 (define-public r-keggrest
   (package
     (name "r-keggrest")
-    (version "1.32.0")
+    (version "1.34.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "KEGGREST" version))
        (sha256
         (base32
-         "15313d20v3ziyn52fhc6fbzcy1kxjkdx18124bxhdfd14f4aypcd"))))
+         "1np3i1k7rki9akh70156ggmid52yy0is9q5vd3s45ra7an0ap279"))))
     (properties `((upstream-name . "KEGGREST")))
     (build-system r-build-system)
     (propagated-inputs
@@ -3380,13 +3379,13 @@ Shiny-based display methods for Bioconductor objects.")
 (define-public r-limma
   (package
     (name "r-limma")
-    (version "3.48.3")
+    (version "3.50.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "limma" version))
               (sha256
                (base32
-                "0385ac0hvvml99krcgcpp6q7layjhzgp9xcxkcjrpfg5mjg1z4sx"))))
+                "05ypmax1s6y1nz42bxn61wxhzzw6185q633crzpdcbbz3dz4vgvy"))))
     (build-system r-build-system)
     (home-page "http://bioinf.wehi.edu.au/limma")
     (synopsis "Package for linear models for microarray and RNA-seq data")
@@ -3399,13 +3398,13 @@ different technologies, including microarrays, RNA-seq, and quantitative PCR.")
 (define-public r-methylkit
   (package
     (name "r-methylkit")
-    (version "1.18.0")
+    (version "1.20.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "methylKit" version))
               (sha256
                (base32
-                "147nag4rz2xpjkkf8rmhja9k4ixjj1hsb0lq3lw7mw6q67zxsvf3"))))
+                "02px46h2ynprss7kwll3i0jz0clrdg0bys70jacd432xw34nm2sx"))))
     (properties `((upstream-name . "methylKit")))
     (build-system r-build-system)
     (propagated-inputs
@@ -3473,14 +3472,14 @@ throughput genetic sequencing data sets using regression methods.")
 (define-public r-mutationalpatterns
   (package
     (name "r-mutationalpatterns")
-    (version "3.2.0")
+    (version "3.4.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "MutationalPatterns" version))
        (sha256
         (base32
-         "0433i4xbz8hrfaj8fxgzps3x8dqrl5vgwzg7qmp4cy5sb1lw5wvs"))))
+         "1n9rakj57yf17hay1bzvwc2h761yijmlflb3crg1bzwvmn32yhsl"))))
     (build-system r-build-system)
     (native-inputs
      `(("r-knitr" ,r-knitr)))
@@ -3503,6 +3502,7 @@ throughput genetic sequencing data sets using regression methods.")
        ("r-nmf" ,r-nmf)
        ("r-pracma" ,r-pracma)
        ("r-purrr" ,r-purrr)
+       ("r-rcolorbrewer" ,r-rcolorbrewer)
        ("r-s4vectors" ,r-s4vectors)
        ("r-stringr" ,r-stringr)
        ("r-tibble" ,r-tibble)
@@ -3518,14 +3518,14 @@ in SNV base substitution data.")
 (define-public r-msnbase
   (package
     (name "r-msnbase")
-    (version "2.18.0")
+    (version "2.20.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "MSnbase" version))
        (sha256
         (base32
-         "1z7s17j6zgb70m0khyf9icqlnbnzlivca7vw7j0vxyw417ld9lkr"))))
+         "1r5igzb7xb5qcw37ffy0c3j6vlg9zffmksrc57rs1pmfnca773z5"))))
     (properties `((upstream-name . "MSnbase")))
     (build-system r-build-system)
     (propagated-inputs
@@ -3563,14 +3563,14 @@ of mass spectrometry based proteomics data.")
 (define-public r-msnid
   (package
     (name "r-msnid")
-    (version "1.26.0")
+    (version "1.28.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "MSnID" version))
        (sha256
         (base32
-         "0r3vgigf4fk0xzfg8gcvad01jdh0fysh6x22m9qy77x6glyrxcj2"))))
+         "0dks5h3vp9ly8x24px2rl5blqicxybpxjnxvg2p1bwq8zvjkm38p"))))
     (properties `((upstream-name . "MSnID")))
     (build-system r-build-system)
     (arguments
@@ -3620,14 +3620,14 @@ and irregular enzymatic cleavages, mass measurement accuracy, etc.")
 (define-public r-mzid
   (package
     (name "r-mzid")
-    (version "1.30.0")
+    (version "1.32.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "mzID" version))
        (sha256
         (base32
-         "1wsy6frxa5602jqb1nlqv39mzgpid8wfyvb9m2jb6srv7p59rgys"))))
+         "0r001amd4m99cv0ixw38rpz0zv0xqb0qyvs16bz1i4a756391qri"))))
     (properties `((upstream-name . "mzID")))
     (build-system r-build-system)
     (propagated-inputs
@@ -3651,14 +3651,14 @@ specific parser.")
 (define-public r-mzr
   (package
     (name "r-mzr")
-    (version "2.26.1")
+    (version "2.28.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "mzR" version))
        (sha256
         (base32
-         "0z4cz6lir9gwzy0hxwv03wv36fkkfdb97p9wv4af020k0zkp3ipr"))
+         "1azq0wjjy6n5xc721gjz6afm43ajz15b4p34vgsdjzwg9qn1vrs1"))
        (modules '((guix build utils)))
        (snippet
         '(begin
@@ -3681,7 +3681,7 @@ specific parser.")
              #t)))))
     (inputs
      `(;; Our default boost package won't work here, unfortunately, even with
-       ;; mzR version 2.26.1.
+       ;; mzR version 2.28.0.
        ("boost" ,boost-for-mysql) ; use this instead of the bundled boost sources
        ("zlib" ,zlib)))
     (propagated-inputs
@@ -3708,14 +3708,14 @@ previously been used in XCMS.")
 (define-public r-organismdbi
   (package
     (name "r-organismdbi")
-    (version "1.34.0")
+    (version "1.36.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "OrganismDbi" version))
        (sha256
         (base32
-         "0p8ccpdchdwci4kv9y07wdadzgms8nipvg6rm1rll35jcflnnkxi"))))
+         "0zp6x2iqhn9s3xp07yilnr6hn73acvkdai5xip4iiwjdlnfffj83"))))
     (properties `((upstream-name . "OrganismDbi")))
     (build-system r-build-system)
     (propagated-inputs
@@ -3740,14 +3740,14 @@ the fact that each of these packages implements a select methods.")
 (define-public r-pcamethods
   (package
     (name "r-pcamethods")
-    (version "1.84.0")
+    (version "1.86.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "pcaMethods" version))
        (sha256
         (base32
-         "1ccqsxn487dy92c2d1iffh9917z4zq5ia92zv2h6pi00jjc6ymb5"))))
+         "1fj2v6sna4lbw7ar9h93y2g4pzylqqp7760ih425gcai7s19xdrg"))))
     (properties `((upstream-name . "pcaMethods")))
     (build-system r-build-system)
     (propagated-inputs
@@ -3770,14 +3770,14 @@ structure (pcaRes) to provide a common interface to the PCA results.")
 (define-public r-protgenerics
   (package
     (name "r-protgenerics")
-    (version "1.24.0")
+    (version "1.26.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ProtGenerics" version))
        (sha256
         (base32
-         "1c79k8nc28782w5gxi7pkm8jmddq1hdw6khs9kgsp8dyk60ak6fq"))))
+         "0x53pk7h47gjza1q5pz7jb1qqhwa9z2rr5fr61qc92zl3mqk57m0"))))
     (properties `((upstream-name . "ProtGenerics")))
     (build-system r-build-system)
     (home-page "https://github.com/lgatto/ProtGenerics")
@@ -3790,14 +3790,14 @@ proteomics packages.")
 (define-public r-rbgl
   (package
     (name "r-rbgl")
-    (version "1.68.0")
+    (version "1.70.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "RBGL" version))
        (sha256
         (base32
-         "0l40ibf8g5s4ay83s92l198jjqc5l09hcmxqcjrpifvp5pjf9yy5"))))
+         "0k2p1lwdvix4n742a97lv988rx5kg8cvcmzgyzj0538n1nz0lxk0"))))
     (properties `((upstream-name . "RBGL")))
     (build-system r-build-system)
     (propagated-inputs
@@ -3813,13 +3813,13 @@ the graph algorithms contained in the Boost library.")
 (define-public r-rcas
   (package
     (name "r-rcas")
-    (version "1.18.0")
+    (version "1.20.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "RCAS" version))
               (sha256
                (base32
-                "0l92v870ndna8zjqwzf22fb9vyhkh6942v4gaiqr1yc4qr521p5p"))))
+                "02zwz7c8ljmdcfxj54xns0a31sj616x63q63wxhxa1nb4dhgmvk7"))))
     (properties `((upstream-name . "RCAS")))
     (build-system r-build-system)
     (propagated-inputs
@@ -3863,14 +3863,14 @@ library implementing most of the pipeline's features.")
 (define-public r-regioner
   (package
     (name "r-regioner")
-    (version "1.24.0")
+    (version "1.26.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "regioneR" version))
        (sha256
         (base32
-         "0xzzaz3cl6pyxfsg0d931v8k15wbd05s5mnsb7igxldc5qqg3nsl"))))
+         "0y1mawzfvxrympc47q3isk96sl9d1bc8kdsxpm8rnhqg5bmgwya6"))))
     (properties `((upstream-name . "regioneR")))
     (build-system r-build-system)
     (propagated-inputs
@@ -3894,14 +3894,14 @@ region sets and other genomic features.")
 (define-public r-reportingtools
   (package
     (name "r-reportingtools")
-    (version "2.32.1")
+    (version "2.34.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ReportingTools" version))
        (sha256
         (base32
-         "0wq9y649dh1am6djzz0xlz42428xsgw2bdx1dknhdw2xbydmmx47"))))
+         "06kwf87h84xgswkrm7brmgr9aj1nf6cxp24hrfymkzq2pha5y5j7"))))
     (properties
      `((upstream-name . "ReportingTools")))
     (build-system r-build-system)
@@ -3944,13 +3944,13 @@ browser.")
 (define-public r-rhdf5
   (package
     (name "r-rhdf5")
-    (version "2.36.0")
+    (version "2.38.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "rhdf5" version))
               (sha256
                (base32
-                "1a5kw9ry9cr258al0x3q0ss5xn1ymscdypx51vzzgzamhy7dqakz"))))
+                "13zm993l3i9f98gqdpxgsrzf9fgqppx2ajvrl0i3f7cvpifcgxqg"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-rhdf5filters" ,r-rhdf5filters)
@@ -3972,14 +3972,14 @@ the available RAM.")
 (define-public r-rhdf5filters
   (package
     (name "r-rhdf5filters")
-    (version "1.4.0")
+    (version "1.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "rhdf5filters" version))
        (sha256
         (base32
-         "133v0s452acspi4dbf6gsa2xrr0qza86jdjjbpwhdv6zfd1djbgc"))))
+         "05b015pyp3g1crmm2d3ldsa7r5w0khmf87qbl4fv16r6pdggha78"))))
     (properties `((upstream-name . "rhdf5filters")))
     (build-system r-build-system)
     (propagated-inputs
@@ -3998,13 +3998,13 @@ HDF5 datasets.")
 (define-public r-rsamtools
   (package
     (name "r-rsamtools")
-    (version "2.8.0")
+    (version "2.10.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "Rsamtools" version))
               (sha256
                (base32
-                "0arhh5bbx3pmxmkh5sjgczcswqy83d35r7cjhd2knpczdvrixaq5"))))
+                "0v6b3j45ivd9f04fpfs1vjwby5pi30mf5683bjxim01vi2krj9yh"))))
     (properties
      `((upstream-name . "Rsamtools")))
     (build-system r-build-system)
@@ -4067,13 +4067,13 @@ tab-delimited (tabix) files.")
 (define-public r-rtracklayer
   (package
     (name "r-rtracklayer")
-    (version "1.52.1")
+    (version "1.54.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "rtracklayer" version))
               (sha256
                (base32
-                "11w6dx09pb49lin1gr9q88xn7ixh9jd5z6m9z27djchm0nw10lx9"))))
+                "11bh9khra2qdmicppi6ya43kf8f1z13ak92vkl6nr5f20k54cphc"))))
     (build-system r-build-system)
     (arguments
      `(#:phases
@@ -4146,14 +4146,14 @@ differential expression analysis, RNAseq data and related problems.")
 (define-public r-seqlogo
   (package
     (name "r-seqlogo")
-    (version "1.58.0")
+    (version "1.60.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "seqLogo" version))
        (sha256
         (base32
-         "1253sj1hc6bbrff0iv5xa3v9znqvisll0fy6fdjka9c778fn4mcp"))))
+         "013hwj2lp29nqa8mkvm25aliarg0k725crg4cpsbj0iiskyrs6rl"))))
     (properties `((upstream-name . "seqLogo")))
     (build-system r-build-system)
     (native-inputs
@@ -4169,13 +4169,13 @@ Stephens (1990).")
 (define-public r-seqpattern
   (package
     (name "r-seqpattern")
-    (version "1.24.0")
+    (version "1.26.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "seqPattern" version))
               (sha256
                (base32
-                "0h74z84zyvfzclsm0g13b95hirn99185wc6lp53jkzah9yyi59ay"))))
+                "1mik575qaxw9h9qyjn971207pfgbc8p1mx60jrb20jbrrihgg2na"))))
     (properties
      `((upstream-name . "seqPattern")))
     (build-system r-build-system)
@@ -4196,14 +4196,14 @@ reference point and sorted by a user defined feature.")
 (define-public r-shortread
   (package
     (name "r-shortread")
-    (version "1.50.0")
+    (version "1.52.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ShortRead" version))
        (sha256
         (base32
-         "0zqinw3c6h5v1c5nhzkiziirws16nbviccgw8nj2d22r33dbqwp3"))))
+         "1p17v15wd3v6w9ligpjjk28vy8k2ql57y2hhm8y6vnv9y3nagjsx"))))
     (properties `((upstream-name . "ShortRead")))
     (build-system r-build-system)
     (inputs
@@ -4239,14 +4239,14 @@ ungapped alignment formats.")
 (define-public r-simplifyenrichment
   (package
     (name "r-simplifyenrichment")
-    (version "1.2.0")
+    (version "1.4.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "simplifyEnrichment" version))
        (sha256
         (base32
-         "0rqa414kvyjjmj4932zk39rqa14z13b57rkrxdrf16jmq2r437vh"))))
+         "05d9yjd8s7q1q78qmnx5xfrz9ppswc2cpfmjj47d338w783lwk98"))))
     (properties
      `((upstream-name . "simplifyEnrichment")))
     (build-system r-build-system)
@@ -4278,14 +4278,14 @@ and comparing the clusterings.")
 (define-public r-trajectoryutils
   (package
     (name "r-trajectoryutils")
-    (version "1.0.0")
+    (version "1.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "TrajectoryUtils" version))
        (sha256
         (base32
-         "1b7mg3ypp1ay98cav47h9vn692lx0n9b5b0hpansgnkr5prb823b"))))
+         "0pzm1h69bg04a2v09r8c6pb3pix6f3n5dylvbv7wsp574qfaqyd1"))))
     (properties
      `((upstream-name . "TrajectoryUtils")))
     (build-system r-build-system)
@@ -4308,13 +4308,13 @@ structures to hold pseudotime inference results.")
 (define-public r-slingshot
   (package
    (name "r-slingshot")
-   (version "2.0.0")
+   (version "2.2.0")
    (source (origin
             (method url-fetch)
             (uri (bioconductor-uri "slingshot" version))
             (sha256
              (base32
-              "1aqsz2kxwax8d8d5iv3zk5hlyk5aya1wbxs1wky2rgccw4d35whx"))))
+              "081kp9b0lpw2xq9xvd2kykqqrqcj322mp7xa44xc3kf0nzsivqfa"))))
    (build-system r-build-system)
    (propagated-inputs
     `(("r-igraph" ,r-igraph)
@@ -4340,13 +4340,13 @@ graph construction.")
 (define-public r-structuralvariantannotation
   (package
     (name "r-structuralvariantannotation")
-    (version "1.8.2")
+    (version "1.10.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "StructuralVariantAnnotation" version))
        (sha256
-        (base32 "04ac4mjh3pgdlws0aiacqg0vd7bhg890w44r7b90p947c3rk1mfw"))))
+        (base32 "1pw7d39944dwk5gw6q7igcn866zpqwz01ljaha2ih5dfvmhxka8n"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-assertthat" ,r-assertthat)
@@ -4377,13 +4377,13 @@ involving two separate genomic loci encoded as GRanges objects.")
 (define-public r-summarizedexperiment
   (package
     (name "r-summarizedexperiment")
-    (version "1.22.0")
+    (version "1.24.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "SummarizedExperiment" version))
               (sha256
                (base32
-                "16np5ik6jgbi68mhlib6yskywwbaa50mlr7m3sh1hqk889whfn1g"))))
+                "0qpnx2aii9vs7fcp0ax5j77ysbhi4qhjhm35vnygs3isbrjn925a"))))
     (properties
      `((upstream-name . "SummarizedExperiment")))
     (build-system r-build-system)
@@ -4411,14 +4411,14 @@ samples.")
 (define-public r-sva
   (package
     (name "r-sva")
-    (version "3.40.0")
+    (version "3.42.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "sva" version))
        (sha256
         (base32
-         "12jkcybdfspabh7x124d44l9fj1hwwg3gvcqxvz5wpkiflc2vkji"))))
+         "0clzid9di2qfgc5bvnqx312k3inj1lc599ckqkllvr894wxb7mdj"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-edger" ,r-edger)
@@ -4442,44 +4442,30 @@ unmodeled, or latent sources of noise.")
 (define-public r-systempiper
   (package
     (name "r-systempiper")
-    (version "1.26.3")
+    (version "2.0.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "systemPipeR" version))
        (sha256
         (base32
-         "01l35l5zj87qkarrbal9la6kshk3j7k8hy3iimv3gdnnz4axmvs7"))))
+         "0kibr47z7ml13hpl955qcr4wp2z4nq7gjiinyk30wivrwrng5sg1"))))
     (properties `((upstream-name . "systemPipeR")))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-annotate" ,r-annotate)
-       ("r-assertthat" ,r-assertthat)
-       ("r-batchtools" ,r-batchtools)
+     `(("r-biocgenerics" ,r-biocgenerics)
        ("r-biostrings" ,r-biostrings)
        ("r-crayon" ,r-crayon)
-       ("r-deseq2" ,r-deseq2)
-       ("r-dot" ,r-dot)
-       ("r-edger" ,r-edger)
-       ("r-genomicfeatures" ,r-genomicfeatures)
        ("r-genomicranges" ,r-genomicranges)
        ("r-ggplot2" ,r-ggplot2)
-       ("r-go-db" ,r-go-db)
-       ("r-gostats" ,r-gostats)
-       ("r-iranges" ,r-iranges)
-       ("r-limma" ,r-limma)
+       ("r-htmlwidgets" ,r-htmlwidgets)
        ("r-magrittr" ,r-magrittr)
-       ("r-pheatmap" ,r-pheatmap)
-       ("r-rjson" ,r-rjson)
        ("r-rsamtools" ,r-rsamtools)
-       ("r-rsvg" ,r-rsvg)
        ("r-s4vectors" ,r-s4vectors)
        ("r-shortread" ,r-shortread)
        ("r-stringr" ,r-stringr)
        ("r-summarizedexperiment" ,r-summarizedexperiment)
-       ("r-testthat" ,r-testthat)
-       ("r-yaml" ,r-yaml)
-       ("r-variantannotation" ,r-variantannotation)))
+       ("r-yaml" ,r-yaml)))
     (native-inputs
      `(("r-knitr" ,r-knitr)))
     (home-page "https://github.com/tgirke/systemPipeR")
@@ -4499,13 +4485,13 @@ annotation infrastructure.")
 (define-public r-topgo
   (package
     (name "r-topgo")
-    (version "2.44.0")
+    (version "2.46.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "topGO" version))
               (sha256
                (base32
-                "1ggi7yrhkyi85p3sfj3yd95n9mzq1xpff28ixa4dl9yzasks1v5a"))))
+                "01vykf8bzwm2k7cfj09r6il6qaycjy10wpaxbn13f21p66r5nlm2"))))
     (properties
      `((upstream-name . "topGO")))
     (build-system r-build-system)
@@ -4532,13 +4518,13 @@ dependencies between GO terms can be implemented and applied.")
 (define-public r-tximport
   (package
     (name "r-tximport")
-    (version "1.20.0")
+    (version "1.22.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "tximport" version))
               (sha256
                (base32
-                "0ip2yr0zspf2aagskxl4dwncr48dw5qb90an3sswnnh2dqdb82if"))))
+                "0w6pr7s9j8l4fpn3przbfrsyxvzxc3ficgsychvhq3bami9np8g4"))))
     (build-system r-build-system)
     (native-inputs
      `(("r-knitr" ,r-knitr)))
@@ -4556,13 +4542,13 @@ of gene-level counts.")
 (define-public r-variantannotation
   (package
     (name "r-variantannotation")
-    (version "1.38.0")
+    (version "1.40.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "VariantAnnotation" version))
               (sha256
                (base32
-                "0c9r00j8a3bs6n0dv4wi17jc1ljzvr3r2bi4h9axhcsf2ip906rh"))))
+                "1r9kayp0hxcwls08lv2fh0cmf9ks0lqx3k31c1zn4asw4dyqpgva"))))
     (properties
      `((upstream-name . "VariantAnnotation")))
     (propagated-inputs
@@ -4594,14 +4580,14 @@ coding changes and predict coding outcomes.")
 (define-public r-vsn
   (package
     (name "r-vsn")
-    (version "3.60.0")
+    (version "3.62.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "vsn" version))
        (sha256
         (base32
-         "0nppph3kv8z83368snb8s3n4vcqj829yyi1kh4q09qvq18rhvssv"))))
+         "03p2wdjbjnrn1ddyz0fbn04mdxpsmv83qhh3apj6azshl0bs1j2x"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-affy" ,r-affy)
@@ -4630,13 +4616,13 @@ and specific in detecting differential transcription.")
 (define-public r-xvector
   (package
     (name "r-xvector")
-    (version "0.32.0")
+    (version "0.34.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "XVector" version))
               (sha256
                (base32
-                "1cw34gd9iaspl0v737xl7rngq63zrj03a5ngai15ggrnv1sq2aqr"))))
+                "07r4qgmnifw9jk2srjg0cvl310j0f9y35jrg0zqhlvhmyhg6n2c0"))))
     (properties
      `((upstream-name . "XVector")))
     (build-system r-build-system)
@@ -4666,13 +4652,13 @@ and specific in detecting differential transcription.")
 (define-public r-zlibbioc
   (package
     (name "r-zlibbioc")
-    (version "1.38.0")
+    (version "1.40.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "zlibbioc" version))
               (sha256
                (base32
-                "1dv5bf12kzk1yzyfs3g5syim16sbi44kalvzj2i2xcnxnl6x60ip"))))
+                "0a0dl7z58zxdj6938zbxixphgljj1giylk1nd05bb7qsccmp0xhj"))))
     (properties
      `((upstream-name . "zlibbioc")))
     (build-system r-build-system)
@@ -4682,17 +4668,49 @@ and specific in detecting differential transcription.")
 libraries for systems that do not have these available via other means.")
     (license license:artistic2.0)))
 
+(define-public r-zellkonverter
+  (package
+    (name "r-zellkonverter")
+    (version "1.4.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (bioconductor-uri "zellkonverter" version))
+       (sha256
+        (base32 "1ihp2f23lpdfgf3qliy22vrq8czm353hyhqf74r5r712190k6pgg"))))
+    (properties `((upstream-name . "zellkonverter")))
+    (build-system r-build-system)
+    (propagated-inputs
+     `(("r-basilisk" ,r-basilisk)
+       ("r-cli" ,r-cli)
+       ("r-delayedarray" ,r-delayedarray)
+       ("r-matrix" ,r-matrix)
+       ("r-reticulate" ,r-reticulate)
+       ("r-s4vectors" ,r-s4vectors)
+       ("r-singlecellexperiment" ,r-singlecellexperiment)
+       ("r-summarizedexperiment" ,r-summarizedexperiment)))
+    (native-inputs `(("r-knitr" ,r-knitr)))
+    (home-page "https://github.com/theislab/zellkonverter")
+    (synopsis "Conversion between AnnData and single-cell experiments objects")
+    (description
+     "This package provides methods to convert between Python AnnData objects
+and SingleCellExperiment objects.  These are primarily intended for use by
+downstream Bioconductor packages that wrap Python methods for single-cell data
+analysis.  It also includes functions to read and write H5AD files used for
+saving AnnData objects to disk.")
+    (license license:expat)))
+
 (define-public r-geneplotter
   (package
     (name "r-geneplotter")
-    (version "1.70.0")
+    (version "1.72.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "geneplotter" version))
        (sha256
         (base32
-         "1d085lfa3yif5wkys1fb0zzgg0cqwd1y18vasgqqdr6rva075d4z"))))
+         "1b7ngp9l00vrymx3d3nsda546s7p4ifr90idn3x2v4ilf38rfhp8"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-annotate" ,r-annotate)
@@ -4710,14 +4728,14 @@ libraries for systems that do not have these available via other means.")
 (define-public r-oligoclasses
   (package
     (name "r-oligoclasses")
-    (version "1.54.0")
+    (version "1.56.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "oligoClasses" version))
        (sha256
         (base32
-         "1nsfyfpj264h6y322pzz0i001b0m862j3skbq5rjwlrj1p8j2gi7"))))
+         "1ia2f19swiwb0552nfwkai4gl0av07cj75b6jwiviqa1bli09264"))))
     (properties `((upstream-name . "oligoClasses")))
     (build-system r-build-system)
     (propagated-inputs
@@ -4745,14 +4763,14 @@ packages.")
 (define-public r-oligo
   (package
     (name "r-oligo")
-    (version "1.56.0")
+    (version "1.58.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "oligo" version))
        (sha256
         (base32
-         "0fyq77im6s79havjwbchhqhnllxs134jsi98g6msxz66h16lj3al"))))
+         "1cmnnq0d5xsjsx8c8n8wcl6l9d31sbglb8yrsibykcvnhw15fsf6"))))
     (properties `((upstream-name . "oligo")))
     (build-system r-build-system)
     (inputs `(("zlib" ,zlib)))
@@ -4781,14 +4799,14 @@ Affymetrix (CEL files) and NimbleGen arrays (XYS files).")
 (define-public r-qvalue
   (package
     (name "r-qvalue")
-    (version "2.24.0")
+    (version "2.26.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "qvalue" version))
        (sha256
         (base32
-         "0xssanffh1hr7f48mnazcpwi25rdp7mxlyb9nbf4q2mp7m40jnpm"))))
+         "1mn2qmqn89lfsx7rg54d1lwz45bfx0b91q6ahf43a1yzrrhwn138"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-ggplot2" ,r-ggplot2)
@@ -4836,13 +4854,13 @@ integration with @code{Rcpp}.")
 (define-public r-apeglm
   (package
    (name "r-apeglm")
-   (version "1.14.0")
+   (version "1.16.0")
    (source (origin
             (method url-fetch)
             (uri (bioconductor-uri "apeglm" version))
             (sha256
              (base32
-              "1xld6ar440achik4dbd7vhiw6jfj0sb96jm52n7hav5bv4gag3mh"))))
+              "11w4vyc1sllmm5lh42krhidazid78n4s3lhikpy9kk2l57jmifbr"))))
    (properties `((upstream-name . "apeglm")))
    (build-system r-build-system)
    (propagated-inputs
@@ -4863,13 +4881,13 @@ posterior for individual coefficients.")
 (define-public r-greylistchip
   (package
    (name "r-greylistchip")
-   (version "1.24.0")
+   (version "1.26.0")
    (source (origin
             (method url-fetch)
             (uri (bioconductor-uri "GreyListChIP" version))
             (sha256
              (base32
-              "1g9ja8p90czx83ar0l9ran7m6aggvszdbqm714fq7z4rxq9b4hs3"))))
+              "1h7h27q6l9d8j0shklyrh135zrwx56v4zzmm21cj1b7dvmwvpbcv"))))
    (properties `((upstream-name . "GreyListChIP")))
    (build-system r-build-system)
    (propagated-inputs
@@ -4890,14 +4908,14 @@ signal in the input, that lead to spurious peaks during peak calling.")
 (define-public r-diffbind
   (package
     (name "r-diffbind")
-    (version "3.2.7")
+    (version "3.4.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "DiffBind" version))
        (sha256
         (base32
-         "01jfxcj5c0088vvsi3pz8fs0ka6n12l2j8s1d0rpqwa1y0444x7z"))))
+         "15p4jd9k520va6kzizkgsl4a18kh5r8i50qfdkv7xazsfhvxjm3i"))))
     (properties `((upstream-name . "DiffBind")))
     (build-system r-build-system)
     (propagated-inputs
@@ -4968,13 +4986,13 @@ processing to visualization and annotation.")
 (define-public r-mbkmeans
   (package
     (name "r-mbkmeans")
-    (version "1.8.0")
+    (version "1.10.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "mbkmeans" version))
               (sha256
                (base32
-                "1k7ngpx4s50jplrsv19zzjr7izpdl9wwppb218ih5cp0ki1gcc2n"))))
+                "03hpj218s8fynmk1s50s0rinhsljikxdrff06yc8ysbyc6hyfb4k"))))
     (build-system r-build-system)
     (native-inputs
      `(("r-knitr" ,r-knitr)))
@@ -5000,14 +5018,14 @@ large datasets, including support for on-disk data representation.")
 (define-public r-multtest
   (package
     (name "r-multtest")
-    (version "2.48.0")
+    (version "2.50.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "multtest" version))
        (sha256
         (base32
-         "1wi15v4llgv11hpb2j9h4a35nrnawnmvbz5d5dvgy8lhqrlq8w9a"))))
+         "03z71r7g318nwwgiz0k8qwbhghw1hhdhh1an4qnb0nc62c5x9kns"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-survival" ,r-survival)
@@ -5038,13 +5056,13 @@ expressed genes in DNA microarray experiments.")
 (define-public r-graph
   (package
     (name "r-graph")
-    (version "1.70.0")
+    (version "1.72.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "graph" version))
               (sha256
                (base32
-                "1i7s198d5kw4gk6nqqsd3vqaknj4493p822f2za8q95gv6x02rxa"))))
+                "0x31lz3qimxmng6w99xnqazaj943d94b04nbziad4jfv7c1bc2h0"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biocgenerics" ,r-biocgenerics)))
@@ -5136,14 +5154,14 @@ determining dependencies between variables, code improvement suggestions.")
 (define-public r-chippeakanno
   (package
     (name "r-chippeakanno")
-    (version "3.26.4")
+    (version "3.28.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ChIPpeakAnno" version))
        (sha256
         (base32
-         "1iqzm7pifl9zrw3s06i6h85n1p01pd06vh1a93izyfhgybxn262d"))))
+         "05fbq8zvww1nlyykrri0hf4248i1i7w5cr453giagmjq7lgg4v3b"))))
     (properties `((upstream-name . "ChIPpeakAnno")))
     (build-system r-build-system)
     (propagated-inputs
@@ -5190,13 +5208,13 @@ enrichedGO (addGeneIDs).")
 (define-public r-matrixgenerics
   (package
    (name "r-matrixgenerics")
-   (version "1.4.3")
+   (version "1.6.0")
    (source (origin
             (method url-fetch)
             (uri (bioconductor-uri "MatrixGenerics" version))
             (sha256
              (base32
-              "1yir3rwhz5vf0pdn3fpvlc57c75k98gvv8gapajbvymz3lyghijv"))))
+              "1s75p8rrmj24r0vcbaiyw8xg8y84j388mv6iawai7pypfcl8s1z3"))))
    (properties
     `((upstream-name . "MatrixGenerics")))
    (build-system r-build-system)
@@ -5217,12 +5235,12 @@ incompatibilities.")
 (define-public r-marray
   (package
     (name "r-marray")
-    (version "1.70.0")
+    (version "1.72.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "marray" version))
               (sha256
-               (base32 "0wpmrhqpyv27h1hn31hzz21r74r7yqx79ljv8i8gn6ix8lf5ca56"))))
+               (base32 "1la805y8j522vpiazm1z6wpq4ibia9bib5fpiia5mxmpzmqg6gzz"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-limma" ,r-limma)))
@@ -5236,12 +5254,12 @@ normalization and quality checking.")
 (define-public r-cghbase
   (package
    (name "r-cghbase")
-   (version "1.52.0")
+   (version "1.54.0")
    (source (origin
             (method url-fetch)
             (uri (bioconductor-uri "CGHbase" version))
             (sha256
-             (base32 "1p87k4vw981k97d9bckmprrfg55jwd91658rgxzjj8hnschf28a4"))))
+             (base32 "1kfxw126bddfy67cmf8dca9qq4bg7fkxjf8iaikplhvs5hl7bp4d"))))
    (properties `((upstream-name . "CGHbase")))
    (build-system r-build-system)
    (propagated-inputs
@@ -5256,12 +5274,12 @@ the @code{arrayCGH} packages.")
 (define-public r-cghcall
   (package
    (name "r-cghcall")
-   (version "2.54.0")
+   (version "2.56.0")
    (source (origin
             (method url-fetch)
             (uri (bioconductor-uri "CGHcall" version))
             (sha256
-             (base32 "1zik04y2q0anzy85l0b4ryzkxpfx2fnmpwp5s7akyk1jfl2r8gw7"))))
+             (base32 "1r4y8zakgmdbnpwgp14kwh4iwqgqcmjq2yg4nc7j37p09bw1c8zr"))))
    (properties `((upstream-name . "CGHcall")))
    (build-system r-build-system)
    (propagated-inputs
@@ -5279,12 +5297,12 @@ the @code{arrayCGH} packages.")
 (define-public r-qdnaseq
   (package
     (name "r-qdnaseq")
-    (version "1.28.0")
+    (version "1.30.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "QDNAseq" version))
               (sha256
-               (base32 "1p4544xlarkbgs9kybrrawq3v7qr6ix62nrc6l7dcksh2ka69yzf"))))
+               (base32 "1sza9br8agpdz1k9fn5wisir44sj8v0rk4wbx35d2c2kp9q70pqj"))))
     (properties `((upstream-name . "QDNAseq")))
     (build-system r-build-system)
     (propagated-inputs
@@ -5292,7 +5310,6 @@ the @code{arrayCGH} packages.")
        ("r-cghbase" ,r-cghbase)
        ("r-cghcall" ,r-cghcall)
        ("r-dnacopy" ,r-dnacopy)
-       ("r-future" ,r-future)
        ("r-future-apply" ,r-future-apply)
        ("r-genomicranges" ,r-genomicranges)
        ("r-iranges" ,r-iranges)
@@ -5312,14 +5329,14 @@ respectively.")
 (define-public r-bayseq
   (package
     (name "r-bayseq")
-    (version "2.26.0")
+    (version "2.28.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "baySeq" version))
        (sha256
         (base32
-         "0hyc0sl2nf18bz0jxbzim0v41zwh2rnnr7l3p6zkk9wnw5gn7bbc"))))
+         "1zgxwb287ccz4wqsjxmffknnzziv12l4yrw7df912dxz6yccvd8r"))))
     (properties `((upstream-name . "baySeq")))
     (build-system r-build-system)
     (propagated-inputs
@@ -5338,14 +5355,14 @@ more complex hypotheses) via empirical Bayesian methods.")
 (define-public r-chipcomp
   (package
     (name "r-chipcomp")
-    (version "1.22.0")
+    (version "1.24.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ChIPComp" version))
        (sha256
         (base32
-         "1kfxjh1mynrgqsy2q6byf03cbymqc8w7l7672iyd0wj5qzlif4h5"))))
+         "1wdy92y5l3wa3zgg59w69rd7gdwf4z1waa4i2cccniccz463p1xq"))))
     (properties `((upstream-name . "ChIPComp")))
     (build-system r-build-system)
     (propagated-inputs
@@ -5372,14 +5389,14 @@ datasets.")
 (define-public r-riboprofiling
   (package
     (name "r-riboprofiling")
-    (version "1.22.0")
+    (version "1.24.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "RiboProfiling" version))
        (sha256
         (base32
-         "1jmd8yrv7p7hn4gdibg3svmhqxjyrnfp7cgsqg8zv862lgd75zsl"))))
+         "1szlzvm8ggjc40k4z2fxxa2h28g6j9wj2g5aw480v9hgyvvdw5lx"))))
     (properties `((upstream-name . "RiboProfiling")))
     (build-system r-build-system)
     (propagated-inputs
@@ -5413,14 +5430,14 @@ assessment, principal component analysis on codon coverage.")
 (define-public r-riboseqr
   (package
     (name "r-riboseqr")
-    (version "1.26.0")
+    (version "1.28.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "riboSeqR" version))
        (sha256
         (base32
-         "1m5w2j35wr0lzwir4s58z757vrcsj5mglsqrkvs241k0hlmn06qa"))))
+         "0nnhjvjl4c9yyfzjf8kcj4yky5cdimicp7lz008sczy19jq4vjhd"))))
     (properties `((upstream-name . "riboSeqR")))
     (build-system r-build-system)
     (propagated-inputs
@@ -5441,14 +5458,14 @@ parsing of genetic sequencing data from ribosome profiling experiments.")
 (define-public r-interactionset
   (package
     (name "r-interactionset")
-    (version "1.20.0")
+    (version "1.22.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "InteractionSet" version))
        (sha256
         (base32
-         "034xidjmn67n1471fnpdmz7gjm6p05cj8sp9nssc3gxdzn54a6xb"))))
+         "19m2mpby73zanai68rlqvzx9zccli4dz4kix93acrw9755xp3bsw"))))
     (properties
      `((upstream-name . "InteractionSet")))
     (build-system r-build-system)
@@ -5475,14 +5492,14 @@ experiments.")
 (define-public r-genomicinteractions
   (package
     (name "r-genomicinteractions")
-    (version "1.26.0")
+    (version "1.28.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "GenomicInteractions" version))
        (sha256
         (base32
-         "0zjl7rp5fk14kqsx0bkbpq6hqahbkiyvwa9aggp4kfb8hnmz9qal"))))
+         "090kxq5jn1jfr9fgbkvbjr5g4bcxzgsaal3gc9yx1n7pgmhccfmb"))))
     (properties
      `((upstream-name . "GenomicInteractions")))
     (build-system r-build-system)
@@ -5516,14 +5533,14 @@ information and producing various plots and statistics.")
 (define-public r-ctc
   (package
     (name "r-ctc")
-    (version "1.66.0")
+    (version "1.68.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ctc" version))
        (sha256
         (base32
-         "1v8aysvy6a3r1iafc3xvk885c128kb3pb9zpcdhdjcn0by96k8hh"))))
+         "1yq5igwzcwfhxy49qf3pralpikiqq7sqr1cig8mkpjpaj5bbaayx"))))
     (build-system r-build-system)
     (propagated-inputs `(("r-amap" ,r-amap)))
     (home-page "https://bioconductor.org/packages/ctc/")
@@ -5536,14 +5553,14 @@ trees and clusters to other programs.")
 (define-public r-goseq
   (package
     (name "r-goseq")
-    (version "1.44.0")
+    (version "1.46.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "goseq" version))
        (sha256
         (base32
-         "07qrxssx4rb8r958r1smx8xfpzdxpp55hci3201hcmz3mxz77i0s"))))
+         "1psl9mqgx1d21kayaxvrxriw34fq30wnd57q5c1sk3p8iahg73g0"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-annotationdbi" ,r-annotationdbi)
@@ -5562,14 +5579,14 @@ defined categories which are over/under represented in RNA-seq data.")
 (define-public r-glimma
   (package
     (name "r-glimma")
-    (version "2.2.0")
+    (version "2.4.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "Glimma" version))
        (sha256
         (base32
-         "0dsk8qmwimzmd1x4k4jwg9q11jm1ahn8cw0gzd6s2gmigfls4hsa"))))
+         "0qkbx9n2vb7kvb5f00csnbffy5bm7hhbdvkx2isgzi0wv0y59kx9"))))
     (properties `((upstream-name . "Glimma")))
     (build-system r-build-system)
     (propagated-inputs
@@ -5595,14 +5612,14 @@ information.")
 (define-public r-rots
   (package
     (name "r-rots")
-    (version "1.20.0")
+    (version "1.22.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ROTS" version))
        (sha256
         (base32
-         "18wyi73l95df182vg3m014sxwdbpggr61vsbazhyw4vyx2fnzmpl"))))
+         "0qhy984y83a3nf4zw54rasw3vn932q4zb3gljifkw701jnrzqmki"))))
     (properties `((upstream-name . "ROTS")))
     (build-system r-build-system)
     (propagated-inputs
@@ -5619,14 +5636,14 @@ in omics data.")
 (define-public r-plgem
   (package
     (name "r-plgem")
-    (version "1.64.0")
+    (version "1.66.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "plgem" version))
        (sha256
         (base32
-         "1rz5jk5bgpk7gjknx79jyslahjg46q2f4bx6dgd0vwmarc29a45z"))))
+         "06w8xlw4j1fc9ipdgw55dvhp07f04icmhr20lqzwwhqd5pskrra3"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biobase" ,r-biobase)
@@ -5644,14 +5661,14 @@ genes or proteins in these datasets.")
 (define-public r-inspect
   (package
     (name "r-inspect")
-    (version "1.22.0")
+    (version "1.24.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "INSPEcT" version))
        (sha256
         (base32
-         "0jh5db9dv5pb6b50sg22x8q55m3h0h0nkmb9mivvvp22dhyrd82z"))))
+         "072kv5k3giyll1clzrg0anqhyl4qbi7cjnmkqz25zdl5bab9l7jk"))))
     (properties `((upstream-name . "INSPEcT")))
     (build-system r-build-system)
     (propagated-inputs
@@ -5691,14 +5708,14 @@ modeling the rates that determines changes in mature mRNA levels.")
 (define-public r-dnabarcodes
   (package
     (name "r-dnabarcodes")
-    (version "1.22.0")
+    (version "1.24.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "DNABarcodes" version))
        (sha256
         (base32
-         "1wiqmzjcb7flp7ldcgbx91asxxrmm1rg9pcfljniab9xcsldhksp"))))
+         "07yaz98r18mjny1ilmfnjxcra7xpklnd183pw0kasvsri01ccwxg"))))
     (properties `((upstream-name . "DNABarcodes")))
     (build-system r-build-system)
     (propagated-inputs
@@ -5720,14 +5737,14 @@ demultiplexed, i.e. assigned to their original reference barcode.")
 (define-public r-ruvseq
   (package
     (name "r-ruvseq")
-    (version "1.26.0")
+    (version "1.28.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "RUVSeq" version))
        (sha256
         (base32
-         "1fy0k1p0m209lzjpd5jhfnifa22lrn63qq3a3kn5g0xhbbmijzac"))))
+         "1a19klscykdgsd7izcxyr45ml7g0gpdj65gvbaw124mal2p4zi9q"))))
     (properties `((upstream-name . "RUVSeq")))
     (build-system r-build-system)
     (propagated-inputs
@@ -5748,14 +5765,14 @@ samples.")
 (define-public r-biocneighbors
   (package
     (name "r-biocneighbors")
-    (version "1.10.0")
+    (version "1.12.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BiocNeighbors" version))
        (sha256
         (base32
-         "0cjidi18wjip9xzx83890wjk40vvjq06prf1ag4m2kac47w01r7v"))))
+         "04in8l6j7frgm0a5dzphazfhn9cm8w775z5yir712jxa37mh1agr"))))
     (properties `((upstream-name . "BiocNeighbors")))
     (build-system r-build-system)
     (propagated-inputs
@@ -5780,14 +5797,14 @@ achieved for all methods using the BiocParallel framework.")
 (define-public r-scaledmatrix
   (package
     (name "r-scaledmatrix")
-    (version "1.0.0")
+    (version "1.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ScaledMatrix" version))
        (sha256
         (base32
-         "1j96fvw1waqxbv5c8myfmhsidq370z03yz13yqmrs4nn1rpn1a06"))))
+         "0vz8441gl5gycy1ypybwhq97bnyvhhlg6gxpi1dsdy2c9b6d81kc"))))
     (properties `((upstream-name . "ScaledMatrix")))
     (build-system r-build-system)
     (propagated-inputs
@@ -5808,14 +5825,14 @@ multiplication.")
 (define-public r-treeio
   (package
     (name "r-treeio")
-    (version "1.16.2")
+    (version "1.18.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "treeio" version))
        (sha256
         (base32
-         "1y60yvg1rl21cab9xrkns0209pg44mwr90qj099dvk97wsjkx67g"))))
+         "03gz378qrp6b9fcriqanfnphibqv4bxhvz48rigzkidkzz71wfaj"))))
     (properties `((upstream-name . "treeio")))
     (build-system r-build-system)
     (propagated-inputs
@@ -5840,14 +5857,14 @@ platform for merging tree with associated data and converting file formats.")
 (define-public r-ggtree
   (package
     (name "r-ggtree")
-    (version "3.0.4")
+    (version "3.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ggtree" version))
        (sha256
         (base32
-         "0xf4b9vfdyzzivwgw4ymapl5bb4k9p04mmr53822kxgfd5qrs1zx"))))
+         "1c6b7kjh44k096v8mhn53abr181vpbn7s6ab7zk4phnsyfxsclxb"))))
     (properties `((upstream-name . "ggtree")))
     (build-system r-build-system)
     (propagated-inputs
@@ -5877,14 +5894,14 @@ data.")
 (define-public r-metapod
   (package
     (name "r-metapod")
-    (version "1.0.0")
+    (version "1.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "metapod" version))
        (sha256
         (base32
-         "1hbcwr6d8gyrf4azh0gi588xkrg6gz7gsb5hbvzqkhplbsp6shlv"))))
+         "1s8dfzpgbpxbn3jvx891gvw3jyn43nlxb73yv1vjn85brk9zbqpk"))))
     (properties `((upstream-name . "metapod")))
     (build-system r-build-system)
     (propagated-inputs
@@ -5906,14 +5923,14 @@ missing values and weighting where appropriate.")
 (define-public r-biocsingular
   (package
     (name "r-biocsingular")
-    (version "1.8.1")
+    (version "1.10.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BiocSingular" version))
        (sha256
         (base32
-         "16gkwq8fb8jdchpnlzq2hz3i74a6pzbnc1bf93282h11mp7qr58l"))))
+         "0dkh6a23qymjcynppmpp3k1mzpfadv8dqyz410pxkqsxig4ldd4n"))))
     (properties `((upstream-name . "BiocSingular")))
     (build-system r-build-system)
     (propagated-inputs
@@ -5985,14 +6002,14 @@ maps.")
 (define-public r-savr
   (package
     (name "r-savr")
-    (version "1.30.0")
+    (version "1.32.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "savR" version))
        (sha256
         (base32
-         "1ynp334hm76zf05j4f6vha6r16s5f2ncxx9yviq4rxidk9r723jq"))))
+         "0dwl94j5dm5ngn8lyyc4bd9ihd1nqincvq26najjn6lw0x55ciky"))))
     (properties `((upstream-name . "savR")))
     (build-system r-build-system)
     (propagated-inputs
@@ -6011,14 +6028,14 @@ Viewer (SAV) files, access data, and generate QC plots.")
 (define-public r-chipexoqual
   (package
     (name "r-chipexoqual")
-    (version "1.16.0")
+    (version "1.18.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ChIPexoQual" version))
        (sha256
         (base32
-         "0fbrf5s6pz115djm7xw95k1d0p7svi40aacbb3d52wmx5azwj424"))))
+         "1hh3mhfcngyx7cpzns8mjqviy8vfzrvxpv6nyizflpfmsr39mxfk"))))
     (properties `((upstream-name . "ChIPexoQual")))
     (build-system r-build-system)
     (propagated-inputs
@@ -6051,13 +6068,13 @@ sequencing data.")
 (define-public r-copynumber
   (package
     (name "r-copynumber")
-    (version "1.32.0")
+    (version "1.34.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "copynumber" version))
               (sha256
                (base32
-                "03pvjzjrcsbjfw3855s3whfzin45vaipy7cahnj6fywdysvh8hps"))))
+                "143ifvjkjz0392drm82xmpj1f8b5pc2dyyxyc9dkqmay8lf1n534"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-s4vectors" ,r-s4vectors)
@@ -6074,14 +6091,14 @@ penalized least squares regression method.")
 (define-public r-dnacopy
   (package
     (name "r-dnacopy")
-    (version "1.66.0")
+    (version "1.68.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "DNAcopy" version))
        (sha256
         (base32
-         "0mgq814f6c2271d2lxg763bsnv3ma4ari5xa4x1rbksv8yvcjc4d"))))
+         "19ax431i97r49gh1232vf8mgmkvc6k26lnq44j3g10n6q01czswm"))))
     (properties `((upstream-name . "DNAcopy")))
     (build-system r-build-system)
     (native-inputs `(("gfortran" ,gfortran)))
@@ -6174,14 +6191,14 @@ and regression inferences from RNA-sequencing data.")
 (define-public r-ebseq
   (package
     (name "r-ebseq")
-    (version "1.32.0")
+    (version "1.34.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "EBSeq" version))
        (sha256
         (base32
-         "0h5v3vrb90zim80bdnr3aw58g3h7zjqa4l9i0jwx5j19ywf54fdz"))))
+         "1p8i04v5h6mbc8zqbf3rifbwwylzzc1fqrkhh0a0mbcgq2nv7i9m"))))
     (properties `((upstream-name . "EBSeq")))
     (build-system r-build-system)
     (propagated-inputs
@@ -6198,13 +6215,13 @@ gene and isoform level using RNA-seq data")
 (define-public r-karyoploter
   (package
     (name "r-karyoploter")
-    (version "1.18.0")
+    (version "1.20.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "karyoploteR" version))
               (sha256
                (base32
-                "11sgxz2xz685pgm8mf0hzm6aryx4fj5g3dlffjzpqxh3awfqa19p"))))
+                "0x3mld9q55r2fy452wxq5sjzmms10zmpkzs71c3w1fdli5hwszdq"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-annotationdbi" ,r-annotationdbi)
@@ -6236,14 +6253,14 @@ coordinates.")
 (define-public r-lpsymphony
   (package
     (name "r-lpsymphony")
-    (version "1.20.0")
+    (version "1.22.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "lpsymphony" version))
        (sha256
         (base32
-         "0aw4b3p5z8ys7zlwy8s3bsqk03xwx42311yxr7q14w3f7sn3shzn"))))
+         "1bv28b1fgcazv6j0xw4nn6wljs37qnkyahqy7anrwissdpryhjfs"))))
     (build-system r-build-system)
     (inputs
      `(("zlib" ,zlib)))
@@ -6266,14 +6283,14 @@ to install interface to SYMPHONY.")
 (define-public r-ihw
   (package
     (name "r-ihw")
-    (version "1.20.0")
+    (version "1.22.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "IHW" version))
        (sha256
         (base32
-         "0b393a8ayzbnrgkk562w1dj7avacpb3wc7yq7awiki24wi5g2lfw"))))
+         "0vgij5zyaw3fh7arkg4jy1mizsqzbkcsjl05mh3ng2bqh30kyqqx"))))
     (properties `((upstream-name . "IHW")))
     (build-system r-build-system)
     (propagated-inputs
@@ -6298,14 +6315,14 @@ independent of the p-value under the null hypothesis.")
 (define-public r-icobra
   (package
     (name "r-icobra")
-    (version "1.20.0")
+    (version "1.22.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "iCOBRA" version))
        (sha256
         (base32
-         "190rkx3sivj68in36hhin5v535yd6fvlvm7l90w1bl38zpb7p6jn"))))
+         "0qg32g1rfvh6mx8wny1lrva9vc347288hzml7yb4rnrsx1hggkpa"))))
     (properties `((upstream-name . "iCOBRA")))
     (build-system r-build-system)
     (propagated-inputs
@@ -6334,14 +6351,14 @@ interactive exploration of results.")
 (define-public r-residualmatrix
   (package
     (name "r-residualmatrix")
-    (version "1.2.0")
+    (version "1.4.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ResidualMatrix" version))
        (sha256
         (base32
-         "0p7va19aw0j6anx7ck879kbi5cn7dy712h5ia94adr38ssismv1v"))))
+         "0xsn4fm34a7xpkgmx3a1j2xzdaxf2hyla1062wqn04kw0k9y29vg"))))
     (properties
      `((upstream-name . "ResidualMatrix")))
     (build-system r-build-system)
@@ -6365,14 +6382,14 @@ multiplication and calculation of row/column sums or means.")
 (define-public r-batchelor
   (package
     (name "r-batchelor")
-    (version "1.8.1")
+    (version "1.10.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "batchelor" version))
        (sha256
         (base32
-         "1bkk69b5llkmvmpsnhymwjm2szmzypgszfsw8mak1b5ms5zf8lr0"))))
+         "0axkic11bwjbw8apwxx6p51s7jvlwhq7xi1bdknn54k86axq84dr"))))
     (properties `((upstream-name . "batchelor")))
     (build-system r-build-system)
     (propagated-inputs
@@ -6408,14 +6425,14 @@ the numbers of cells across batches.")
 (define-public r-mast
   (package
     (name "r-mast")
-    (version "1.18.0")
+    (version "1.20.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "MAST" version))
        (sha256
         (base32
-         "1gkpagam5rap36viyr3n4psa658x9vckrxap1h67jasiiyrcfz2d"))))
+         "14h6giny9lhzqjsx3h7gdhsm8wfwnvp5zsl4avrflip0jmsn45yy"))))
     (properties `((upstream-name . "MAST")))
     (build-system r-build-system)
     (propagated-inputs
@@ -6443,14 +6460,14 @@ single cell assay data.")
 (define-public r-monocle
   (package
     (name "r-monocle")
-    (version "2.20.0")
+    (version "2.22.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "monocle" version))
        (sha256
         (base32
-         "05j1vc51f39xalggdq27y7218gkr3zq7fh7jhzsb4jj7fpn837ry"))))
+         "0wb2c1jf502lrfx3d0amb09fvhalrwxvpsp99jsab162v4hddg85"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biobase" ,r-biobase)
@@ -6600,14 +6617,14 @@ several functions from the R igraph package.")
 (define-public r-noiseq
   (package
     (name "r-noiseq")
-    (version "2.36.0")
+    (version "2.38.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "NOISeq" version))
        (sha256
         (base32
-         "18d51dv2ygsm7kkwal341f1wrwrazyns0045j00vld367kic8jiz"))))
+         "0mmvzf8y4gm84hgjdpf86b1y37237wp5mc3x1g6sdiz9qi8l356v"))))
     (properties `((upstream-name . "NOISeq")))
     (build-system r-build-system)
     (propagated-inputs
@@ -6627,14 +6644,14 @@ assumptions.")
 (define-public r-scdd
   (package
     (name "r-scdd")
-    (version "1.16.0")
+    (version "1.18.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "scDD" version))
        (sha256
         (base32
-         "1dw9m3m99apmbs32461c6lnmy81n5hxbhz3p8jk419gajkh4v1ji"))))
+         "0gjdjkpkm9zc9hzzb6r2mknl4zyg7s2lgqppmzzhgcnvlmgvm5b5"))))
     (properties `((upstream-name . "scDD")))
     (build-system r-build-system)
     (propagated-inputs
@@ -6665,14 +6682,14 @@ distributions.")
 (define-public r-scone
   (package
     (name "r-scone")
-    (version "1.16.1")
+    (version "1.18.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "scone" version))
        (sha256
         (base32
-         "0zw8g4mql7b02xqwhc1i0bnhm20c1q9xqc7yz84j98pqbi996vi5"))))
+         "1fqlwg195rzpwh35cj941vhmj2plzpn253skig6glr0z2sirr9r1"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-aroma-light" ,r-aroma-light)
@@ -6709,18 +6726,19 @@ high-throughput analyses.")
 (define-public r-geoquery
   (package
     (name "r-geoquery")
-    (version "2.60.0")
+    (version "2.62.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "GEOquery" version))
        (sha256
         (base32
-         "0jhkdbcd03d5n8vn3xkad6f21xjkawyxc9rdwcj8vwc8alx730am"))))
+         "0fkx4jh1s76l015vwikkryarlx6iihb1z935nzpdhah3rpqx3b3z"))))
     (properties `((upstream-name . "GEOquery")))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biobase" ,r-biobase)
+       ("r-data-table" ,r-data-table)
        ("r-dplyr" ,r-dplyr)
        ("r-httr" ,r-httr)
        ("r-limma" ,r-limma)
@@ -6742,14 +6760,14 @@ the bridge between GEO and BioConductor.")
 (define-public r-illuminaio
   (package
     (name "r-illuminaio")
-    (version "0.34.0")
+    (version "0.36.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "illuminaio" version))
        (sha256
         (base32
-         "1sy0i3nbzsw4ymdxaiwpyx1vcg9yp3i8xfjcymqwhv95j3kyglv9"))))
+         "0icsp610am5vrd8x2h9c450phn4vl9c5wnzqmkix5hkqzrykk34m"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-base64" ,r-base64)))
@@ -6763,14 +6781,14 @@ files, including IDAT.")
 (define-public r-siggenes
   (package
     (name "r-siggenes")
-    (version "1.66.0")
+    (version "1.68.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "siggenes" version))
        (sha256
         (base32
-         "0lva0f255fcpy625frvij4n14q7nw4jcx8n2hlkxid4mgkfqwlhf"))))
+         "1fymp5ci1nwkk5yfj7hli464xqvvlvzf2a5j0w3qkxly9hrymix9"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biobase" ,r-biobase)
@@ -6789,14 +6807,14 @@ Bayes Analyses of Microarrays} (EBAM).")
 (define-public r-bumphunter
   (package
     (name "r-bumphunter")
-    (version "1.34.0")
+    (version "1.36.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "bumphunter" version))
        (sha256
         (base32
-         "0wi38vwfi8qr10x4xifhylxx7vfc6fqvqs649iq7lf0y7islwq2v"))))
+         "0d5cz9xy7vhcaj5n3h4cfiv08sn7wn83458525pdwvdzzm449xgv"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-annotationdbi" ,r-annotationdbi)
@@ -6823,14 +6841,14 @@ studies.")
 (define-public r-minfi
   (package
     (name "r-minfi")
-    (version "1.38.0")
+    (version "1.40.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "minfi" version))
        (sha256
         (base32
-         "189lzppvrz6bw2kpppawgsfjyh2ahyy8bi9z8srpas67qf2r8jmj"))))
+         "0d5220nknwgi1020vhvf7408n5p80dmad66n85af5776qn84a6nx"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-beanplot" ,r-beanplot)
@@ -6874,14 +6892,14 @@ methylation arrays.")
 (define-public r-methylumi
   (package
     (name "r-methylumi")
-    (version "2.38.0")
+    (version "2.40.1")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "methylumi" version))
        (sha256
         (base32
-         "1941rc524ssx8gwhmwk40mgfrhddfs6hgldvs7bi22r29gm4y7qj"))))
+         "1lfcsv8k9c4ndfwlbdk3vd7fq58100bfijyxklna41zf8m8kkkka"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-annotate" ,r-annotate)
@@ -6891,6 +6909,7 @@ methylation arrays.")
        ("r-fdb-infiniummethylation-hg19" ,r-fdb-infiniummethylation-hg19)
        ("r-genefilter" ,r-genefilter)
        ("r-genomeinfodb" ,r-genomeinfodb)
+       ("r-genomicfeatures" ,r-genomicfeatures)
        ("r-genomicranges" ,r-genomicranges)
        ("r-ggplot2" ,r-ggplot2)
        ("r-illuminaio" ,r-illuminaio)
@@ -6920,14 +6939,14 @@ and Infinium HD arrays are also included.")
 (define-public r-lumi
   (package
     (name "r-lumi")
-    (version "2.44.0")
+    (version "2.46.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "lumi" version))
        (sha256
         (base32
-         "0qjdxjdzfnnxcm07bf51v38388s5qf1i03l1sdb9jf3gxdh8yh02"))))
+         "0v33p66vn4alhx2il9wwdvc9sqvgasgj0s2gk85gjc76ad0017in"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-affy" ,r-affy)
@@ -6959,14 +6978,14 @@ especially Illumina Infinium methylation microarrays.")
 (define-public r-linnorm
   (package
     (name "r-linnorm")
-    (version "2.16.0")
+    (version "2.18.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "Linnorm" version))
        (sha256
         (base32
-         "035hrniycqadmkwg8rmzw8szv0amhy31390izy91rfrld31v2yy7"))))
+         "1bdnglznsfs1kdscqyjv595wiy09khcv9kxm4fmbnmksisqjz5qj"))))
     (properties `((upstream-name . "Linnorm")))
     (build-system r-build-system)
     (propagated-inputs
@@ -7020,14 +7039,14 @@ evaluation of DEG analysis methods.")
 (define-public r-ioniser
   (package
     (name "r-ioniser")
-    (version "2.16.0")
+    (version "2.18.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "IONiseR" version))
        (sha256
         (base32
-         "0fknlwdfd49v09zspg0337b0zzc8hqza3563yrw51viw3g35d6q3"))))
+         "1hdg446z5s616aaalzz49if1wp9nmzm2mbyva82m1vz8i7ih9m4h"))))
     (properties `((upstream-name . "IONiseR")))
     (build-system r-build-system)
     (propagated-inputs
@@ -7117,13 +7136,13 @@ published results; and a routine for graphical display.")
 (define-public r-tradeseq
   (package
    (name "r-tradeseq")
-   (version "1.6.0")
+   (version "1.8.0")
    (source (origin
             (method url-fetch)
             (uri (bioconductor-uri "tradeSeq" version))
             (sha256
              (base32
-              "0fgmb309pvqf3chdhqgbd4lzhahcj5g71sica33nzn98qhipldx7"))))
+              "1s5anbb38gi5sfkxy19zpvkj8d0ij7m6cd0z4gmx4f5pf7pz0m3j"))))
    (build-system r-build-system)
    (propagated-inputs
     `(("r-biobase" ,r-biobase)
@@ -7132,10 +7151,10 @@ published results; and a routine for graphical display.")
       ("r-ggplot2" ,r-ggplot2)
       ("r-igraph" ,r-igraph)
       ("r-magrittr" ,r-magrittr)
+      ("r-mass" ,r-mass)
       ("r-matrix" ,r-matrix)
       ("r-matrixstats" ,r-matrixstats)
       ("r-mgcv" ,r-mgcv)
-      ("r-monocle" ,r-monocle)
       ("r-pbapply" ,r-pbapply)
       ("r-princurve" ,r-princurve)
       ("r-rcolorbrewer" ,r-rcolorbrewer)
@@ -7144,6 +7163,7 @@ published results; and a routine for graphical display.")
       ("r-slingshot" ,r-slingshot)
       ("r-summarizedexperiment" ,r-summarizedexperiment)
       ("r-tibble" ,r-tibble)
+      ("r-trajectoryutils" ,r-trajectoryutils)
       ("r-viridis" ,r-viridis)))
    (native-inputs
     `(("r-knitr" ,r-knitr)))
@@ -7187,14 +7207,14 @@ peak definition in combination with known profile characteristics.")
 (define-public r-varianttools
   (package
     (name "r-varianttools")
-    (version "1.34.0")
+    (version "1.36.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "VariantTools" version))
        (sha256
         (base32
-         "1gpzrln2clfrja8rzxhsis6bi1xqglh3h2lhvqlnrx4lqxhbkv9c"))))
+         "0079dsgav4q03c4i0dhggc88iifd828n73kjv3sahim9akafdshl"))))
     (properties `((upstream-name . "VariantTools")))
     (build-system r-build-system)
     (propagated-inputs
@@ -7227,14 +7247,14 @@ gmapR.")
 (define-public r-heatplus
   (package
     (name "r-heatplus")
-    (version "3.0.0")
+    (version "3.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "Heatplus" version))
        (sha256
         (base32
-         "0xwg3sxmihg3p6v3nxgrqy0nrqxi6razg3b3rjh2gcb2vv8gcqng"))))
+         "0yrnjrbfn8vjzvp2742lyxdqca4s18h73j44qxw7ib95x3p4lndf"))))
     (properties `((upstream-name . "Heatplus")))
     (build-system r-build-system)
     (propagated-inputs
@@ -7252,14 +7272,14 @@ information about samples and features can be added to the plot.")
 (define-public r-gosemsim
   (package
     (name "r-gosemsim")
-    (version "2.18.1")
+    (version "2.20.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "GOSemSim" version))
        (sha256
         (base32
-         "00dbgkiv9x7g2i0anzcxpycwqqqry0y7jl3ad93lhvi31qnqq1sm"))))
+         "15qi69kkgah7g25bymk9q1xf16hp1rd040fglg0svnydylg2d0ab"))))
     (properties `((upstream-name . "GOSemSim")))
     (build-system r-build-system)
     (propagated-inputs
@@ -7281,14 +7301,14 @@ sets of GO terms, gene products and gene clusters.")
 (define-public r-anota
   (package
     (name "r-anota")
-    (version "1.40.0")
+    (version "1.42.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "anota" version))
        (sha256
         (base32
-         "039bmcv5l44gszb6xapbihp3mfqdaaa8mfc05y702p78i7x93g5y"))))
+         "0agvcpb3lr9v55h53ywf662gpxayivxacv8dcm526cc8i8hdqa9f"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-multtest" ,r-multtest)
@@ -7312,14 +7332,14 @@ the data set is suitable for such analysis.")
 (define-public r-sigpathway
   (package
     (name "r-sigpathway")
-    (version "1.60.0")
+    (version "1.62.0")
     (source
       (origin
         (method url-fetch)
         (uri (bioconductor-uri "sigPathway" version))
         (sha256
           (base32
-            "1xz5nbw5dzyah8az7mpwj8m27fsvpi2jjhfg3n27dsv8rvdncqi8"))))
+            "1c46m1gbgiygcj8m65h8iwzk3fkp6nynd6rk1f5qdh7kw5ap28f9"))))
     (properties `((upstream-name . "sigPathway")))
     (build-system r-build-system)
     (home-page "https://www.pnas.org/cgi/doi/10.1073/pnas.0506577102")
@@ -7334,17 +7354,19 @@ phenotype of interest.")
 (define-public r-fcscan
   (package
     (name "r-fcscan")
-    (version "1.6.0")
+    (version "1.8.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "fcScan" version))
        (sha256
-        (base32 "10fcz741dr3wbb9f63qywlrays4cnvfnsm6yw4bmkrwk6ccijg8h"))))
+        (base32 "0b161ayq4m9xxfs0lgw632lgygzabz8gjl0n75050pa7qaazknvd"))))
     (properties `((upstream-name . "fcScan")))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-genomicranges" ,r-genomicranges)
+     `(("r-doparallel" ,r-doparallel)
+       ("r-foreach" ,r-foreach)
+       ("r-genomicranges" ,r-genomicranges)
        ("r-iranges" ,r-iranges)
        ("r-plyr" ,r-plyr)
        ("r-rtracklayer" ,r-rtracklayer)
@@ -7365,14 +7387,14 @@ presence of additional sites within the allowed window size.")
 (define-public r-fgsea
   (package
     (name "r-fgsea")
-    (version "1.18.0")
+    (version "1.20.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "fgsea" version))
        (sha256
         (base32
-         "1mhdgy46nxgv7v54bk9bqfy0vgjzl1law7zy718swdd762xn6g9d"))))
+         "10flcdm4b1kxnsvhl4k6mwkzb1vbai33k291j8nsrhj2cl5l8gm9"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-bh" ,r-bh)
@@ -7397,14 +7419,14 @@ to multiple hypothesis correction.")
 (define-public r-dose
   (package
     (name "r-dose")
-    (version "3.18.2")
+    (version "3.20.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "DOSE" version))
        (sha256
         (base32
-         "0kp6j42mpxrpd02cjrzqmrx3rvvpi90xiy4gc5km6ny3vxbhlaqw"))))
+         "0hj5hn54g8a3gj4q9200bffcy9m1mvkiwbg60ysv1hxxbpi57kmv"))))
     (properties `((upstream-name . "DOSE")))
     (build-system r-build-system)
     (propagated-inputs
@@ -7432,17 +7454,17 @@ data.")
 (define-public r-enrichplot
   (package
     (name "r-enrichplot")
-    (version "1.12.2")
+    (version "1.14.1")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "enrichplot" version))
        (sha256
         (base32
-         "194sfmcnjfi3fvvfpljg1f80f44vvvxiij336b8z1dgzki6bqa3r"))))
+         "0nsx96mkcg0hhg3x8jndzq3xvq9bq7m4yf1b3ry73b17ladx81ch"))))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-cowplot" ,r-cowplot)
+     `(("r-aplot" ,r-aplot)
        ("r-dose" ,r-dose)
        ("r-ggplot2" ,r-ggplot2)
        ("r-ggraph" ,r-ggraph)
@@ -7455,7 +7477,8 @@ data.")
        ("r-rcolorbrewer" ,r-rcolorbrewer)
        ("r-reshape2" ,r-reshape2)
        ("r-scatterpie" ,r-scatterpie)
-       ("r-shadowtext" ,r-shadowtext)))
+       ("r-shadowtext" ,r-shadowtext)
+       ("r-yulab-utils" ,r-yulab-utils)))
     (native-inputs
      `(("r-knitr" ,r-knitr)))
     (home-page "https://github.com/GuangchuangYu/enrichplot")
@@ -7469,14 +7492,14 @@ All the visualization methods are developed based on ggplot2 graphics.")
 (define-public r-clusterprofiler
   (package
     (name "r-clusterprofiler")
-    (version "4.0.5")
+    (version "4.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "clusterProfiler" version))
        (sha256
         (base32
-         "1dccrl2ffhgmv3iqlmpln7z86ahpf0j9ma194fnknsgi3cd9rhrl"))))
+         "18y7482sw0awlhazikq13r2r0zid9ksk942rma87m448y1cq2fi5"))))
     (properties
      `((upstream-name . "clusterProfiler")))
     (build-system r-build-system)
@@ -7506,13 +7529,13 @@ profiles (GO and KEGG) of gene and gene clusters.")
 (define-public r-clusterexperiment
   (package
     (name "r-clusterexperiment")
-    (version "2.12.0")
+    (version "2.14.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "clusterExperiment" version))
               (sha256
                (base32
-                "1fhmayciwn1m124b4dcs3gzbghgk9f7a7qmjnvvxc958cywcwkx5"))))
+                "0riray1f841d5fx6mbcki5xmqz21kg5q5l0qz4pkgg9c1d9f7mbc"))))
     (build-system r-build-system)
     (native-inputs
      `(("r-knitr" ,r-knitr)))
@@ -7552,14 +7575,14 @@ expression data sets.")
 (define-public r-mlinterfaces
   (package
     (name "r-mlinterfaces")
-    (version "1.72.0")
+    (version "1.74.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "MLInterfaces" version))
        (sha256
         (base32
-         "0ipzv7wdvfqhdyjiak956qq201igsdxm6dr6rh3dj6cssgsrnrpb"))))
+         "1nzy04fqwzb0ywiafgx3m3i2n1b0g4pcg8mlgh8yz5d3mmna4kag"))))
     (properties `((upstream-name . "MLInterfaces")))
     (build-system r-build-system)
     (propagated-inputs
@@ -7594,14 +7617,14 @@ data in R and Bioconductor containers.")
 (define-public r-annaffy
   (package
     (name "r-annaffy")
-    (version "1.64.2")
+    (version "1.66.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "annaffy" version))
        (sha256
         (base32
-         "03y633vgxprd2abhanj4sanmb4ymz7az5aiasxn6wjzawiqjdcb1"))))
+         "0crj37v571005brdd0ypfx2a7d1f829xxj2hahp2gy8aj9xm4s8l"))))
     (build-system r-build-system)
     (arguments
      `(#:phases
@@ -7630,14 +7653,14 @@ It allows searching of biological metadata using various criteria.")
 (define-public r-a4core
   (package
     (name "r-a4core")
-    (version "1.40.0")
+    (version "1.42.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "a4Core" version))
        (sha256
         (base32
-         "00fi753nsayv0xspavw8r9ni1sim8ng33hp3d3kj2b8ihygd1s10"))))
+         "074aa52y6c70417lxwrclk613gbs7zv3326g9ndbbzzs5pmnh1y0"))))
     (properties `((upstream-name . "a4Core")))
     (build-system r-build-system)
     (propagated-inputs
@@ -7655,14 +7678,14 @@ arrays.")
 (define-public r-a4classif
   (package
     (name "r-a4classif")
-    (version "1.40.0")
+    (version "1.42.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "a4Classif" version))
        (sha256
         (base32
-         "1lz85bys5dp5d1ir9c9c4wy85wkk62s14niyzzxaqrxpsji2p2iw"))))
+         "0q50d41n7drj5c9x6njyvzr6bj7glmkp1vpyz6cpj97j2v9nikwb"))))
     (properties `((upstream-name . "a4Classif")))
     (build-system r-build-system)
     (propagated-inputs
@@ -7685,14 +7708,14 @@ Affymetrix arrays.")
 (define-public r-a4preproc
   (package
     (name "r-a4preproc")
-    (version "1.40.0")
+    (version "1.42.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "a4Preproc" version))
        (sha256
         (base32
-         "1jibm2f5glzsrvl64hxc5sf59d4w6ry0f663p619hfr44mi1mpri"))))
+         "1qzr54w1qys1ppd71i5b57503dijfnnbn516a2mfk5l9l7wr728d"))))
     (properties `((upstream-name . "a4Preproc")))
     (build-system r-build-system)
     (propagated-inputs
@@ -7710,14 +7733,14 @@ is used for preprocessing the arrays.")
 (define-public r-a4reporting
   (package
     (name "r-a4reporting")
-    (version "1.40.0")
+    (version "1.42.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "a4Reporting" version))
        (sha256
         (base32
-         "09jjfby5znmg2fdkhpbinx2v21zrfa44qq7cylcn9ipffqx3pk86"))))
+         "1vyah71gm4ngsgy0y10cdxa9b1g810gqa5pbvb3krh5i6h35smwr"))))
     (properties `((upstream-name . "a4Reporting")))
     (build-system r-build-system)
     (propagated-inputs
@@ -7734,14 +7757,14 @@ provides reporting features.")
 (define-public r-a4base
   (package
     (name "r-a4base")
-    (version "1.40.0")
+    (version "1.42.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "a4Base" version))
        (sha256
         (base32
-         "101w4i0w8n7qhki22qr8l8wk8w6zalzmcywqm2g4238qv7xbnr8p"))))
+         "0rddxnflvbc6z4sj2h8js8yfh0zhrrwj8fk00wicaqp4rkr5yaxy"))))
     (properties `((upstream-name . "a4Base")))
     (build-system r-build-system)
     (propagated-inputs
@@ -7765,14 +7788,14 @@ Affymetrix arrays.")
 (define-public r-a4
   (package
     (name "r-a4")
-    (version "1.40.0")
+    (version "1.42.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "a4" version))
        (sha256
         (base32
-         "0bwn185admy5k99fkd2dhhvy7x1f75r0mqn5k24dbbg0paw6nnr8"))))
+         "0mkgim93441zxhn4wmbin9ydl94srsawis0xwx479l0byj88n07m"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-a4base" ,r-a4base)
@@ -7790,14 +7813,14 @@ Affymetrix arrays.")
 (define-public r-abseqr
   (package
     (name "r-abseqr")
-    (version "1.10.0")
+    (version "1.12.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "abseqR" version))
        (sha256
         (base32
-         "1xvk84gd1lfq1icrfwwd6y79zywrisfnc3knprigzzax31aks32c"))))
+         "1v9g71x689ly107c0qmc5iv8qk63nn6lp7yd03jf7hlcafmvqsvz"))))
     (properties `((upstream-name . "abseqR")))
     (build-system r-build-system)
     (inputs
@@ -7838,14 +7861,14 @@ further downstream analysis on its output.")
 (define-public r-bacon
   (package
     (name "r-bacon")
-    (version "1.20.0")
+    (version "1.22.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "bacon" version))
        (sha256
         (base32
-         "1yp0675n1g8rxdjdd7w8al5c9jq96h0kfm8218mc50z0p2fasgbj"))))
+         "13dhma34j9ggryainn4x6qvd3hphpxks5gf0mysia00r9hhpwwlc"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biocparallel" ,r-biocparallel)
@@ -7865,14 +7888,14 @@ fitting a three-component normal mixture on z-scores.")
 (define-public r-rgadem
   (package
     (name "r-rgadem")
-    (version "2.40.0")
+    (version "2.42.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "rGADEM" version))
        (sha256
         (base32
-         "05drbhjqn5kik6k4h03vr3d2b6pv5rm65lsnkyx4caxxcdii4jzm"))))
+         "1v8xgqqv7m2kyc38x9ppwsv87ivll5ppd6z76zcxj5yspkkrqw3v"))))
     (properties `((upstream-name . "rGADEM")))
     (build-system r-build-system)
     (propagated-inputs
@@ -7923,12 +7946,12 @@ distributions, modules and filter motifs.")
 (define-public r-motifdb
   (package
    (name "r-motifdb")
-   (version "1.34.0")
+   (version "1.36.0")
    (source (origin
             (method url-fetch)
             (uri (bioconductor-uri "MotifDb" version))
             (sha256
-             (base32 "04cmgg5mw1cqbg95zyfc2imykmdxyff16w26rq97xghcxwiq2b3z"))))
+             (base32 "0a2zg26zzk7bj5c33mbwl8dx9lh1hns8q8kwp09rbfjdichv7425"))))
    (properties `((upstream-name . "MotifDb")))
    (build-system r-build-system)
    (propagated-inputs
@@ -7950,12 +7973,12 @@ frequency matrices from nine public sources, for multiple organisms.")
 (define-public r-motifbreakr
   (package
    (name "r-motifbreakr")
-   (version "2.6.1")
+   (version "2.8.0")
    (source (origin
             (method url-fetch)
             (uri (bioconductor-uri "motifbreakR" version))
             (sha256
-             (base32 "1n6v8a7c27aswmbrlcwcpghf27aplkc6nn923imglc3c0sh2lkrz"))))
+             (base32 "0lrgy64sv2ma6kylp4lsbwkg6ci1kn6qkk0cvzw3m4k3bgia1npj"))))
    (properties `((upstream-name . "motifbreakR")))
    (build-system r-build-system)
    (propagated-inputs
@@ -8001,14 +8024,14 @@ Bioconductor.")
 (define-public r-motifstack
   (package
     (name "r-motifstack")
-    (version "1.36.0")
+    (version "1.38.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "motifStack" version))
        (sha256
         (base32
-         "0yn348kmw7v46iym913ncx4yh5nxzmba8bdys52s12ldgjja53gp"))))
+         "1ck6bbnrab8mbf70alfdsrcv6lq0fkvcy3klhcwyxxir7r9sgbaz"))))
     (properties `((upstream-name . "motifStack")))
     (build-system r-build-system)
     (propagated-inputs
@@ -8032,14 +8055,14 @@ type and symbol colors.")
 (define-public r-genomicscores
   (package
     (name "r-genomicscores")
-    (version "2.4.0")
+    (version "2.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "GenomicScores" version))
        (sha256
         (base32
-         "1b8982fj0r7igj749wljsdfn3c985w8n3d5gbhr5rw73llfb8x6w"))))
+         "18fzi2qi95851ci7qrzwpb7v6fhwp6xi1d1vk11xbygpbvql5mls"))))
     (properties `((upstream-name . "GenomicScores")))
     (build-system r-build-system)
     (propagated-inputs
@@ -8069,14 +8092,14 @@ position-specific scores within R and Bioconductor.")
 (define-public r-atacseqqc
   (package
     (name "r-atacseqqc")
-    (version "1.16.0")
+    (version "1.18.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ATACseqQC" version))
        (sha256
         (base32
-         "168g3xkhjzrfjpa1ynifdyfhsxx3rpyrbybsarlzr9kslw1cdkxl"))))
+         "0i1i3bfkp1xsjdl1nd56mlh66qz3aasd1hp09d4i31njz2f9znwn"))))
     (properties `((upstream-name . "ATACseqQC")))
     (build-system r-build-system)
     (propagated-inputs
@@ -8116,14 +8139,14 @@ footprints.")
 (define-public r-gofuncr
   (package
     (name "r-gofuncr")
-    (version "1.12.0")
+    (version "1.14.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "GOfuncR" version))
        (sha256
         (base32
-         "0lp2gmjlsk1yqxim5pi26i27iijw11lrcxmji7ynlag359yfnynd"))))
+         "08n1d03i4l2dl47axmrziiypi83yffndf0ww1b32skyjm2r0x127"))))
     (properties `((upstream-name . "GOfuncR")))
     (build-system r-build-system)
     (propagated-inputs
@@ -8165,14 +8188,14 @@ annotations and ontologies.")
 (define-public r-abaenrichment
   (package
     (name "r-abaenrichment")
-    (version "1.22.0")
+    (version "1.24.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ABAEnrichment" version))
        (sha256
         (base32
-         "15v5n6d3mnj9d86swkh9agfvrsd065dldaywm1adwmkhhk525wmd"))))
+         "1sp3f72rzlr822dxx42bswynrwwfx6f520hdhfdikqp13p2y4044"))))
     (properties `((upstream-name . "ABAEnrichment")))
     (build-system r-build-system)
     (propagated-inputs
@@ -8222,14 +8245,14 @@ different identifieres using the Biocore Data Team data-packages (e.g.
 (define-public r-annotationtools
   (package
     (name "r-annotationtools")
-    (version "1.66.0")
+    (version "1.68.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "annotationTools" version))
        (sha256
         (base32
-         "18dd8saqx17fplvv5sbfz4p9fy7ksy3n9348rd3qlczihcrh9i3w"))))
+         "0grdswbf8nj0qwl0n5pqsir9242dry85j6m688j81gwwjgmzidvh"))))
     (properties
      `((upstream-name . "annotationTools")))
     (build-system r-build-system)
@@ -8247,14 +8270,14 @@ text files).")
 (define-public r-allelicimbalance
   (package
     (name "r-allelicimbalance")
-    (version "1.30.0")
+    (version "1.32.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "AllelicImbalance" version))
        (sha256
         (base32
-         "1mn6975npncmfjlpjs3s2pgsrm32xgvnyl2vh1922l6vra97dkrc"))))
+         "1s6arjd0nxgxyqy7vhqcb78k0ss7vwrhv41pm346hs1nyr5dkzaq"))))
     (properties
      `((upstream-name . "AllelicImbalance")))
     (build-system r-build-system)
@@ -8290,14 +8313,14 @@ investigation using RNA-seq data.")
 (define-public r-aucell
   (package
     (name "r-aucell")
-    (version "1.14.0")
+    (version "1.16.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "AUCell" version))
        (sha256
         (base32
-         "0qdac3qalcki20r90k40cc8d0lfywzn9pffg9d719yvs7nrsfdjr"))))
+         "1lclf8hkhrm6g5fp8yhvjxnwgf8p0j9ffxsmcybz4rjvmwkiz5dp"))))
     (properties `((upstream-name . "AUCell")))
     (build-system r-build-system)
     (propagated-inputs
@@ -8329,14 +8352,14 @@ needed.")
 (define-public r-ebimage
   (package
     (name "r-ebimage")
-    (version "4.34.0")
+    (version "4.36.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "EBImage" version))
        (sha256
         (base32
-         "1z3cxxg593d66nczz5hh2hdj1d87wc0lxrzc5sn6bp43n351q8h3"))))
+         "030vpn55ppfqq4408c4db4w40d17x1yq6zajb11p2glikvm1q619"))))
     (properties `((upstream-name . "EBImage")))
     (build-system r-build-system)
     (propagated-inputs
@@ -8368,14 +8391,14 @@ visualization with image data.")
 (define-public r-yamss
   (package
     (name "r-yamss")
-    (version "1.18.0")
+    (version "1.20.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "yamss" version))
        (sha256
         (base32
-         "1al615x778h17jqiyhiyf6djaq9iygs1hlbrna6y4xc0f2kvgxld"))))
+         "141hbryifm6na5shjyrbjwwksqnl75kqp1m2zl03l9sjqm0kapab"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biocgenerics" ,r-biocgenerics)
@@ -8402,14 +8425,14 @@ analysis.")
 (define-public r-gtrellis
   (package
     (name "r-gtrellis")
-    (version "1.24.0")
+    (version "1.26.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "gtrellis" version))
        (sha256
         (base32
-         "0l5271cpzjlm4m0v6xcdg2vxlbhn53x1fd59ynb9jwll93av5h1f"))))
+         "0q2lyb8p1xhqqhw4q1br4r8mwq06mjws8iwbbilkngvs3brbmrzl"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-circlize" ,r-circlize)
@@ -8431,14 +8454,14 @@ genomic categories and to add self-defined graphics in the plot.")
 (define-public r-somaticsignatures
   (package
     (name "r-somaticsignatures")
-    (version "2.28.0")
+    (version "2.30.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "SomaticSignatures" version))
        (sha256
         (base32
-         "0jr11c9hz7m49xc8pi6xrr5fhbv68vafvqpzhr0pmm51vvr1vfs9"))))
+         "1dxzfkvljnydv7kfybfa52dwcbkkci2r8gjspjf90k2bxf10phql"))))
     (properties
      `((upstream-name . "SomaticSignatures")))
     (build-system r-build-system)
@@ -8470,14 +8493,14 @@ decomposition algorithms.")
 (define-public r-yapsa
   (package
     (name "r-yapsa")
-    (version "1.18.0")
+    (version "1.19.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "YAPSA" version))
        (sha256
         (base32
-         "1xfkgjlm0rxz82qcaqzx95cwirxifd9dsswjg3zcqmz03v7a0gz2"))))
+         "0fgcbskz96p5815nywsnqv2gzn7g93m438hpd5rpg85srg4wrpdj"))))
     (properties `((upstream-name . "YAPSA")))
     (build-system r-build-system)
     (propagated-inputs
@@ -8519,14 +8542,14 @@ provided.")
 (define-public r-gcrma
   (package
     (name "r-gcrma")
-    (version "2.64.0")
+    (version "2.66.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "gcrma" version))
        (sha256
         (base32
-         "1z4abw9s2hs3csnx25nli7fpvb3rh3l0swzl0wfqp087fcs78pxi"))))
+         "0h7dl4if6skbcqdjdzqyghyswhwpx7xvb54lffz4wdaxpabp3001"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-affy" ,r-affy)
@@ -8605,14 +8628,14 @@ chips with the MAQC reference datasets.")
 (define-public r-quantro
   (package
     (name "r-quantro")
-    (version "1.26.0")
+    (version "1.28.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "quantro" version))
        (sha256
         (base32
-         "1fkma2ic448h2lrlza8ipg65gpfsz4fhlxcnjpmzhhmzp2xi2p4a"))))
+         "1r2wbsndc0ji22ap27gbr1wy8icj3cjxwqlz1x0gvxkaj69mwsfq"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biobase" ,r-biobase)
@@ -8638,14 +8661,14 @@ groups.")
 (define-public r-yarn
   (package
     (name "r-yarn")
-    (version "1.18.0")
+    (version "1.20.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "yarn" version))
        (sha256
         (base32
-         "1x07l255x52z6cgdc2j8285shqszhr034xm5686rp6d35vah55ji"))))
+         "0nk4qzrwjiv8q39lgil9x25bm3gpzrnhd37d7754kpxhs2fsmw9d"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biobase" ,r-biobase)
@@ -8675,14 +8698,14 @@ large RNA-seq experiments.")
 (define-public r-roar
   (package
     (name "r-roar")
-    (version "1.28.0")
+    (version "1.30.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "roar" version))
        (sha256
         (base32
-         "0vp0n90rvjm8rzwkbrxa3fasb9val56bz2srz72xwsl3jzb5yk6w"))))
+         "0hqh4vsnxl2sn1bf6s6wxl2nskb40rhvrysdvb6dr60zkih3g347"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biocgenerics" ,r-biocgenerics)
@@ -8743,14 +8766,14 @@ genes.")
 (define-public r-massspecwavelet
   (package
     (name "r-massspecwavelet")
-    (version "1.58.0")
+    (version "1.60.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "MassSpecWavelet" version))
        (sha256
         (base32
-         "1cs32sig1yvqn9xs0cvhfpmkh2lbllx7aab80sz58x03wnx8v60z"))))
+         "1icqyxkx5a9y3wahkxpxngw85c7l4hih1ym9nwwn9qy93pnw1zi4"))))
     (properties
      `((upstream-name . "MassSpecWavelet")))
     (build-system r-build-system)
@@ -8767,14 +8790,14 @@ based on @dfn{Continuous Wavelet Transform} (CWT).")
 (define-public r-xcms
   (package
     (name "r-xcms")
-    (version "3.14.1")
+    (version "3.16.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "xcms" version))
        (sha256
         (base32
-         "1g8k90p0sbcb3rdrbldj5bcjp2piy5ldni4jplyr78vjpmrmvqk7"))))
+         "0m6w68ndf2a4k148pbb0bbbgq57akzqgi9nf7k6ngkk22j3m7m95"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biobase" ,r-biobase)
@@ -8784,6 +8807,7 @@ based on @dfn{Continuous Wavelet Transform} (CWT).")
        ("r-lattice" ,r-lattice)
        ("r-massspecwavelet" ,r-massspecwavelet)
        ("r-mscoreutils" ,r-mscoreutils)
+       ("r-msfeatures" ,r-msfeatures)
        ("r-msnbase" ,r-msnbase)
        ("r-mzr" ,r-mzr)
        ("r-plyr" ,r-plyr)
@@ -8807,14 +8831,14 @@ data for high-throughput, untargeted analyte profiling.")
 (define-public r-wrench
   (package
     (name "r-wrench")
-    (version "1.10.0")
+    (version "1.12.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "Wrench" version))
        (sha256
         (base32
-         "0yssmqayaryrc0asjjqxdipqdfg309llrzldx38jrfgdsza6bvs0"))))
+         "1vzv7sswijgb8nq58yrc19wlw2nnpjvans86fqqzs4p8wvq8j06n"))))
     (properties `((upstream-name . "Wrench")))
     (build-system r-build-system)
     (propagated-inputs
@@ -8833,14 +8857,14 @@ that arising from 16s metagenomic surveys.")
 (define-public r-wiggleplotr
   (package
     (name "r-wiggleplotr")
-    (version "1.16.0")
+    (version "1.18.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "wiggleplotr" version))
        (sha256
         (base32
-         "13f3g6fcc29k0g21mhnypm3nc6qqjw867vamvfkdzynspsfb32ga"))))
+         "01y1rbmxjza7qx3q33k0r241if69hzkx9plgmj59wyji22lm7syi"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-assertthat" ,r-assertthat)
@@ -8867,14 +8891,14 @@ visualization of exonic read coverage.")
 (define-public r-widgettools
   (package
     (name "r-widgettools")
-    (version "1.70.0")
+    (version "1.72.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "widgetTools" version))
        (sha256
         (base32
-         "186xgpgyfyi4angxhz6558lfpzvvszzlpyfr8xnbccs3gshk3db2"))))
+         "0jajfh78116wjfwbmzfvcbxswai4jj9ypzmfhs5j5iypaf8zff8j"))))
     (properties `((upstream-name . "widgetTools")))
     (build-system r-build-system)
     (home-page "https://bioconductor.org/packages/widgetTools/")
@@ -8888,14 +8912,14 @@ widgets in R.")
 (define-public r-webbioc
   (package
     (name "r-webbioc")
-    (version "1.64.0")
+    (version "1.66.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "webbioc" version))
        (sha256
         (base32
-         "1mpdw477j78s2nvlf2lzm6mdjcpamyyazjn060h9q3apawn6zajx"))))
+         "1r3rjvfhqbbzdhlslnc86kr2iip3xgvr81zpvcr8xv9mysgrln17"))))
     (build-system r-build-system)
     (inputs
      `(("netpbm" ,netpbm)
@@ -8921,14 +8945,14 @@ Currently only Affymetrix oligonucleotide analysis is supported.")
 (define-public r-zinbwave
   (package
     (name "r-zinbwave")
-    (version "1.14.2")
+    (version "1.16.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "zinbwave" version))
        (sha256
         (base32
-         "1y8krazz2qdn0wn8ijjs2gn5dl5l960v6bijbkvh0r8066l7viky"))))
+         "05w95bnq63a339d8x4932k81ycqf825s3qwn98vr52v5g2hv46fq"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biocparallel" ,r-biocparallel)
@@ -8954,14 +8978,14 @@ the data.")
 (define-public r-zfpkm
   (package
     (name "r-zfpkm")
-    (version "1.14.0")
+    (version "1.16.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "zFPKM" version))
        (sha256
         (base32
-         "1k7xaxr2gn26y8bps5l32g2axfhdn07nbk4q3qcx32d5jm75qkx2"))))
+         "0fk05vrmyyrhmkwi06lsi553mlpqj3fgwhk1kygz83iqv5z2vfw9"))))
     (properties `((upstream-name . "zFPKM")))
     (build-system r-build-system)
     (propagated-inputs
@@ -8983,18 +9007,22 @@ This algorithm is based on the publication by Hart et al., 2013 (Pubmed ID
 (define-public r-rbowtie2
   (package
     (name "r-rbowtie2")
-    (version "1.14.0")
+    (version "2.0.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "Rbowtie2" version))
        (sha256
         (base32
-         "0r5yqjal48xlcv5cidi7p3zwygvsllmv2zzkwkc9kfq083l2i4ih"))))
+         "0xpvrx2ak9x913sym4l46ycwbnmpcdwb3bf3dfd2gsp0krv8vh1x"))))
     (properties `((upstream-name . "Rbowtie2")))
     (build-system r-build-system)
+    (propagated-inputs
+     `(("r-magrittr" ,r-magrittr)
+       ("r-rsamtools" ,r-rsamtools)))
     (inputs
-     `(("zlib" ,zlib)))
+     `(("samtools" ,samtools)
+       ("zlib" ,zlib)))
     (native-inputs
      `(("r-knitr" ,r-knitr)))
     (home-page "https://bioconductor.org/packages/Rbowtie2/")
@@ -9008,14 +9036,14 @@ rapid adapter trimming, identification, and read merging.")
 (define-public r-progeny
   (package
     (name "r-progeny")
-    (version "1.14.0")
+    (version "1.16.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "progeny" version))
        (sha256
         (base32
-         "10vpjvl4wps857xiy8rpzr82jzdfbc5rgwh3ir3my26lfws4hfz8"))))
+         "0zhr5i5v87akzqjb6wid67nhg2icrw6w0awdy87x848c6c1i6j9y"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biobase" ,r-biobase)
@@ -9038,14 +9066,14 @@ expression\".")
 (define-public r-arrmnormalization
   (package
     (name "r-arrmnormalization")
-    (version "1.32.0")
+    (version "1.34.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ARRmNormalization" version))
        (sha256
         (base32
-         "0ni3vblcadhwxaq1pf1n9jn66cp3bqch68ww4c8zh19zagil2y7r"))))
+         "1ryqr3mpakjml0jhbk28k2z511sdl87wxdczxq1rwx98s0pc9mnh"))))
     (properties
      `((upstream-name . "ARRmNormalization")))
     (build-system r-build-system)
@@ -9061,14 +9089,14 @@ Infinium HumanMethylation 450k assay.")
 (define-public r-biocfilecache
   (package
     (name "r-biocfilecache")
-    (version "2.0.0")
+    (version "2.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BiocFileCache" version))
        (sha256
         (base32
-         "0ymg4hmabk233qgassld62achjylm12rnidxbakfkx4dvvlbhxxv"))))
+         "11qayqmgv274hc4h1v222sma07wkxjm8002fl6w3yvi225zq1qc1"))))
     (properties `((upstream-name . "BiocFileCache")))
     (build-system r-build-system)
     (propagated-inputs
@@ -9094,14 +9122,14 @@ and data files used across sessions.")
 (define-public r-iclusterplus
   (package
     (name "r-iclusterplus")
-    (version "1.28.0")
+    (version "1.30.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "iClusterPlus" version))
        (sha256
         (base32
-         "1haj25c4cmmjjvh181b41a9pvkh92f7k2w4ljn17iqg31vm45za1"))))
+         "0w6r2clk8wdnnnjmq3cspmxiq1c8vwprd66xmdrhcqzbjkpkdw2b"))))
     (properties `((upstream-name . "iClusterPlus")))
     (build-system r-build-system)
     (native-inputs `(("gfortran" ,gfortran)))
@@ -9124,18 +9152,16 @@ Gaussian distributions.")
 (define-public r-rbowtie
   (package
     (name "r-rbowtie")
-    (version "1.32.0")
+    (version "1.34.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "Rbowtie" version))
        (sha256
         (base32
-         "0mfikbrs28q7r3lnsq0jma5x6nkrnm3q46242jh35w9c969jk5yy"))))
+         "0ardmryx6ac7v6n900a1klrrldvbmh7bxvy8ldz8rwid19h29ikr"))))
     (properties `((upstream-name . "Rbowtie")))
     (build-system r-build-system)
-    (inputs
-     `(("zlib" ,zlib)))
     (native-inputs
      `(("r-knitr" ,r-knitr)))
     (home-page "https://bioconductor.org/packages/Rbowtie/")
@@ -9149,14 +9175,14 @@ alignment tool.")
 (define-public r-sgseq
   (package
     (name "r-sgseq")
-    (version "1.26.0")
+    (version "1.28.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "SGSeq" version))
        (sha256
         (base32
-         "0i1yaw8h8gibakvaf1xd6nnjx2bsb2s9c0q74rbq9lm7haihivp6"))))
+         "15l0r6svs27k82dd472is26shwayz6rs5ylg5gpf3mldr7sa5kja"))))
     (properties `((upstream-name . "SGSeq")))
     (build-system r-build-system)
     (propagated-inputs
@@ -9192,14 +9218,14 @@ interpretation.")
 (define-public r-rhisat2
   (package
     (name "r-rhisat2")
-    (version "1.8.0")
+    (version "1.10.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "Rhisat2" version))
        (sha256
         (base32
-         "1hqahh5h22mj2crqp6r9xnm111xmfgk39c100rcaziqrpdy5npk8"))))
+         "092rws9vjxgm2jpkbp6ign47zmillyyidnc7ylcbn4zr9j5lwv0y"))))
     (properties `((upstream-name . "Rhisat2")))
     (build-system r-build-system)
     (arguments
@@ -9232,21 +9258,20 @@ index.")
 (define-public r-quasr
   (package
     (name "r-quasr")
-    (version "1.32.0")
+    (version "1.34.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "QuasR" version))
        (sha256
         (base32
-         "1635ff11ahzjrh3cdcxrq5bgd100n444k7mc0maz0jx21vj8qqb1"))))
+         "0d292xgaq8d3cdpa9anabda03lis46xc29iw9c5k5i3sj7dcr4g5"))))
     (properties `((upstream-name . "QuasR")))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-annotationdbi" ,r-annotationdbi)
        ("r-biobase" ,r-biobase)
        ("r-biocgenerics" ,r-biocgenerics)
-       ("r-biocmanager" ,r-biocmanager)
        ("r-biocparallel" ,r-biocparallel)
        ("r-biostrings" ,r-biostrings)
        ("r-bsgenome" ,r-bsgenome)
@@ -9275,14 +9300,14 @@ quantification of genomic regions of interest.")
 (define-public r-rqc
   (package
     (name "r-rqc")
-    (version "1.26.0")
+    (version "1.28.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "Rqc" version))
        (sha256
         (base32
-         "02hwj2vd003x0zf273ndnwh7kxy6wc3sz14d3kryp2w2aqjj826f"))))
+         "0hcxkrfja0gmd8r2llijdvaw2xiiplk037305inimz0qna6w2071"))))
     (properties `((upstream-name . "Rqc")))
     (build-system r-build-system)
     (propagated-inputs
@@ -9318,14 +9343,14 @@ graphics.")
 (define-public r-birewire
   (package
     (name "r-birewire")
-    (version "3.24.0")
+    (version "3.26.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BiRewire" version))
        (sha256
         (base32
-         "0p6mr67mkw54490sv4dvkyh8l0xkpjfbqy532vi8l41i40qg3gry"))))
+         "0ki4rcwjgbixzy5q9s30ajx5zhpl18q50znrb60fchvl4hj9h93w"))))
     (properties `((upstream-name . "BiRewire")))
     (build-system r-build-system)
     (propagated-inputs
@@ -9376,14 +9401,14 @@ Markov-Chain-Monte-Carlo is applied to sample the activity states.")
 (define-public r-multidataset
   (package
     (name "r-multidataset")
-    (version "1.20.0")
+    (version "1.22.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "MultiDataSet" version))
        (sha256
         (base32
-         "1hyk40xgmy50rqxwdvc64d3pgz5vsg8vmlj5cp5m0n5m0adxcdfj"))))
+         "17asldnxqvp3sijx7nbi2lbbgnq4iq8z72qlg9080sm5lga1yy1s"))))
     (properties `((upstream-name . "MultiDataSet")))
     (build-system r-build-system)
     (propagated-inputs
@@ -9413,14 +9438,14 @@ packages.")
 (define-public r-ropls
   (package
     (name "r-ropls")
-    (version "1.24.0")
+    (version "1.26.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ropls" version))
        (sha256
         (base32
-         "1j99kdywyljqzdcns5ysh590w4w8iiwzpddpfk5c8d4whax7vk5b"))))
+         "0mz5lrdsihx66sgx9klnvpxvw1mjjcbijcsdbgxwaimzl9k1kr05"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biobase" ,r-biobase)
@@ -9451,14 +9476,14 @@ coefficients).")
 (define-public r-biosigner
   (package
     (name "r-biosigner")
-    (version "1.20.0")
+    (version "1.22.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "biosigner" version))
        (sha256
         (base32
-         "159fbkymn92li7dinsm56nsacjp8wnhsljv7airgs9m82p8wd5sl"))))
+         "189018qahyw33dmg73wa7k4rp8nzrx6ai8f2dr6vhbpcdc1gnm0z"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biobase" ,r-biobase)
@@ -9484,14 +9509,14 @@ datasets.")
 (define-public r-annotatr
   (package
     (name "r-annotatr")
-    (version "1.18.1")
+    (version "1.20.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "annotatr" version))
        (sha256
         (base32
-         "1ls1qdfppcxysggi3bghrnspb5a3s40pm2mj4x0whc7c40cf90mg"))))
+         "1ha2wn56cdab4p3wdwv4xlqjsgl7sd8phbx71qbclrbdwpq2mi7i"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-annotationdbi" ,r-annotationdbi)
@@ -9525,14 +9550,14 @@ annotations.")
 (define-public r-rsubread
   (package
     (name "r-rsubread")
-    (version "2.6.4")
+    (version "2.8.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "Rsubread" version))
        (sha256
         (base32
-         "043m4512q73x6q529hqfgrap0fq5anvny4va085nafia06b805pi"))))
+         "09kd7vl2z9k82ppfzy679hs7d00c60z3w3n6a8wq4z3k3f4glc3s"))))
     (properties `((upstream-name . "Rsubread")))
     (build-system r-build-system)
     (inputs `(("zlib" ,zlib)))
@@ -9551,14 +9576,14 @@ and to both short and long sequence reads.")
 (define-public r-flowutils
   (package
     (name "r-flowutils")
-    (version "1.56.0")
+    (version "1.58.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "flowUtils" version))
        (sha256
         (base32
-         "1sdwgyvrsz0pp60zdfrcgb7bs8s87j7257p8ck813ydizc324x9w"))))
+         "0rgybkzbn8c3kpbz0ddghp1np0gka0cgiqvkk5jbnhlgf4s07161"))))
     (properties `((upstream-name . "flowUtils")))
     (build-system r-build-system)
     (propagated-inputs
@@ -9577,14 +9602,14 @@ and to both short and long sequence reads.")
 (define-public r-consensusclusterplus
   (package
     (name "r-consensusclusterplus")
-    (version "1.56.0")
+    (version "1.58.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ConsensusClusterPlus" version))
        (sha256
         (base32
-         "163nr50nyvwrsajmm0cgxp70pqk61mgw0k7ams694hcb42162j8b"))))
+         "13z43qbk9z7mvy8v8k185m6n020i6ahb18pm4q88rs75qlklzdkr"))))
     (properties
      `((upstream-name . "ConsensusClusterPlus")))
     (build-system r-build-system)
@@ -9602,14 +9627,14 @@ cluster count and membership by stability evidence in unsupervised analysis.")
 (define-public r-cytolib
   (package
     (name "r-cytolib")
-    (version "2.4.0")
+    (version "2.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "cytolib" version))
        (sha256
         (base32
-         "0wl7zqwv0i38dfzqfsz40n3mcbxi38ffn1rbd5pm9s7hq16zr4nv"))))
+         "01r5dfjil1i526kb5gj9c8x9agi90x0bh7lzykbpn0g6s2hznbzi"))))
     (properties `((upstream-name . "cytolib")))
     (build-system r-build-system)
     (native-inputs
@@ -9631,14 +9656,14 @@ interact with gated cytometry data.")
 (define-public r-flowcore
   (package
     (name "r-flowcore")
-    (version "2.4.0")
+    (version "2.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "flowCore" version))
        (sha256
         (base32
-         "13xpbkxi53rxmhvpdiy6bydmhicmxd2gi96d9c1qx4lkss2f14nc"))))
+         "0zbd2hrdbb6r0np6nd3ab8nlcf9l57vcwnnhbqkbas8y0c2i2mwp"))))
     (properties `((upstream-name . "flowCore")))
     (build-system r-build-system)
     (propagated-inputs
@@ -9663,14 +9688,14 @@ with flow cytometry data.")
 (define-public r-flowmeans
   (package
     (name "r-flowmeans")
-    (version "1.52.0")
+    (version "1.54.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "flowMeans" version))
        (sha256
         (base32
-         "1awskkq48qhv4v9glxgfqi0kgwqd62fbj641k4vvxfcwsf2c7bfg"))))
+         "0iy8hvi0inj1ylhdx6q4mya9k55iazprz6fdrnq1mxb2iyndzsl6"))))
     (properties `((upstream-name . "flowMeans")))
     (build-system r-build-system)
     (propagated-inputs
@@ -9689,14 +9714,14 @@ change point detection.")
 (define-public r-ncdfflow
   (package
     (name "r-ncdfflow")
-    (version "2.38.0")
+    (version "2.40.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ncdfFlow" version))
        (sha256
         (base32
-         "1lm88qnfv6rnnr7wmgbvwyj272imjjjn7h3agxqqzsbmn8vyrnf0"))))
+         "1c6wb2x24ydqp5nxrx6bhj6f13x9djfy9awkc7zn63xkag7mvvar"))))
     (properties `((upstream-name . "ncdfFlow")))
     (build-system r-build-system)
     (propagated-inputs
@@ -9720,14 +9745,14 @@ manipulation of flow cytometry data.")
 (define-public r-ggcyto
   (package
     (name "r-ggcyto")
-    (version "1.20.0")
+    (version "1.22.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ggcyto" version))
        (sha256
         (base32
-         "0jd6m84m4znnpix4bcgdby7mnflsn206f5x2vw9n8rxnwzx77wpg"))))
+         "17dnmsa92gc2za36c3klgd7rklqlxrhkzs5ksnrc1am6a4knc0p1"))))
     (properties `((upstream-name . "ggcyto")))
     (build-system r-build-system)
     (propagated-inputs
@@ -9757,14 +9782,14 @@ statistics to the plot.")
 (define-public r-flowviz
   (package
     (name "r-flowviz")
-    (version "1.56.0")
+    (version "1.58.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "flowViz" version))
        (sha256
         (base32
-         "17x04xwyw2pp5zkhgvrmxkb8cbrv9wql6xhjsfpq0n6yd9dxqc1v"))))
+         "039sh7qn25gp2b34khs8dyrdpxyapsjlprrvxlz8f7dl8gmggl04"))))
     (properties `((upstream-name . "flowViz")))
     (build-system r-build-system)
     (propagated-inputs
@@ -9788,14 +9813,14 @@ statistics to the plot.")
 (define-public r-flowclust
   (package
     (name "r-flowclust")
-    (version "3.30.0")
+    (version "3.32.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "flowClust" version))
        (sha256
         (base32
-         "03xsmprrkxwkaksjlaxwp54mqfb3zlg6dbqhp87w78fwscisv76b"))))
+         "0ch7mkq40qcnxwgzy51vjdlwyzx4bvp03vpdm6dwjc6qy8a6qfzi"))))
     (properties `((upstream-name . "flowClust")))
     (build-system r-build-system)
     (arguments
@@ -9811,6 +9836,7 @@ statistics to the plot.")
        ("r-flowviz" ,r-flowviz)
        ("r-graph" ,r-graph)
        ("r-mnormt" ,r-mnormt)))
+    #;
     (inputs
      `(("gsl" ,gsl)))
     (native-inputs
@@ -9828,14 +9854,14 @@ model with Box-Cox transformation.")
 (define-public r-rprotobuflib
   (package
     (name "r-rprotobuflib")
-    (version "2.4.0")
+    (version "2.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "RProtoBufLib" version))
        (sha256
         (base32
-         "1hyds97ay4mn7nl830yh9v8mlasgsljsx5wsrhz2zsmbbyx6wbnb"))))
+         "04qlhbhdchpr35rdc6jc3y8fy6znnfrdlsb8am04agbrvpjgrx10"))))
     (properties `((upstream-name . "RProtoBufLib")))
     (build-system r-build-system)
     (arguments
@@ -9857,14 +9883,14 @@ for other R packages to compile and link against.")
 (define-public r-flowworkspace
   (package
     (name "r-flowworkspace")
-    (version "4.4.0")
+    (version "4.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "flowWorkspace" version))
        (sha256
         (base32
-         "1a9qb2dcvwgb3z0vdbbzn1rzy77d3da72kirs272344hdx9b2cx9"))))
+         "11ni7kgk9s1fz3lvg85s6r7x2fhk4m7cdpilji05ya12jsyr3fig"))))
     (properties `((upstream-name . "flowWorkspace")))
     (build-system r-build-system)
     (propagated-inputs
@@ -9911,14 +9937,14 @@ matches the flowJo analysis.")
 (define-public r-flowstats
   (package
     (name "r-flowstats")
-    (version "4.4.0")
+    (version "4.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "flowStats" version))
        (sha256
         (base32
-         "1yr5m7qmhmm52c70z3d0zy4zgf0hja7r2ig9yljv5w86bzm962x6"))))
+         "0jjfq66m4lbpkynwxaparkd05znhp3jl9ccj37gyghly294x3rm9"))))
     (properties `((upstream-name . "flowStats")))
     (build-system r-build-system)
     (propagated-inputs
@@ -9947,14 +9973,14 @@ package.")
 (define-public r-opencyto
   (package
     (name "r-opencyto")
-    (version "2.4.0")
+    (version "2.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "openCyto" version))
        (sha256
         (base32
-         "1par1d5pk1rjg15q7i5z5wqma7xg6fycb826a823wk8wr52a885x"))))
+         "11svr1lk383pkm4npwrnf3h37b3drjsmcwcgdbb45x8k2k95z2fm"))))
     (properties `((upstream-name . "openCyto")))
     (build-system r-build-system)
     (propagated-inputs
@@ -9991,14 +10017,14 @@ sequential way to mimic the manual gating strategy.")
 (define-public r-cytoml
   (package
     (name "r-cytoml")
-    (version "2.4.0")
+    (version "2.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "CytoML" version))
        (sha256
         (base32
-         "0ixy7mmnipk8wy61wz6qy7jfbc5zhs6p5iqaii8hdprjnb841ri7"))))
+         "16rgsc2dz5b8lm3ma8nh9wiknrdnvfjcsij7809rmcfs0gn1arcz"))))
     (properties `((upstream-name . "CytoML")))
     (build-system r-build-system)
     (inputs
@@ -10044,14 +10070,14 @@ standard to exchange gated cytometry data with other software platforms.")
 (define-public r-flowsom
   (package
     (name "r-flowsom")
-    (version "2.0.0")
+    (version "2.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "FlowSOM" version))
        (sha256
         (base32
-         "18h7p7g3w9imyd1c93jllgp4kd74z96cs85wcqfhmd26nx18hl82"))))
+         "062xrv8li2z849qa8mv5dhafqli6ziz099ikjfvi7v2fr7174p8f"))))
     (properties `((upstream-name . "FlowSOM")))
     (build-system r-build-system)
     (propagated-inputs
@@ -10087,14 +10113,14 @@ self-organizing map clustering and minimal spanning trees.")
 (define-public r-mixomics
   (package
     (name "r-mixomics")
-    (version "6.16.3")
+    (version "6.17.26")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "mixOmics" version))
        (sha256
         (base32
-         "1x6dbw4q6p9vngm256fr96r9fjxk5nik5ivkhbl5a9zqyq8wagpa"))))
+         "10ir4876sjmw2mw0cjvshwy3qyhsyz6g1ihyr3dycgzya0jcxw1x"))))
     (properties `((upstream-name . "mixOmics")))
     (build-system r-build-system)
     (propagated-inputs
@@ -10133,14 +10159,14 @@ delete entire rows with missing data.")
 (define-public r-depecher
   (package                              ;Source/Weave error
     (name "r-depecher")
-    (version "1.8.0")
+    (version "1.10.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "DepecheR" version))
        (sha256
         (base32
-         "04vxc43p3kpsx0vksk2nwmy9p56h35z2mc8j9p2wm29zaz1y8j3p"))))
+         "1500jivij7zdycdd0i0b7mgp44w4z0hqnpzqbq8nhvzzdigic8x9"))))
     (properties `((upstream-name . "DepecheR")))
     (build-system r-build-system)
     (propagated-inputs
@@ -10179,14 +10205,14 @@ data, to only emphasize the data that actually matters.")
 (define-public r-rcistarget
   (package
     (name "r-rcistarget")
-    (version "1.12.0")
+    (version "1.14.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "RcisTarget" version))
        (sha256
         (base32
-         "1yh0l11vnslgr6zsbpgc8mc4aa32zy34f5yrz98hkcdl53iw5y7f"))))
+         "1qarr7xd71kz1haccj65x7sc7pc4v6xpqcfa3rkyp2bk240gigi7"))))
     (properties `((upstream-name . "RcisTarget")))
     (build-system r-build-system)
     (propagated-inputs
@@ -10221,14 +10247,14 @@ genes in the gene-set that are ranked above the leading edge).")
 (define-public r-chicago
   (package
     (name "r-chicago")
-    (version "1.20.0")
+    (version "1.22.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "Chicago" version))
        (sha256
         (base32
-         "0dkwy6pfvzd7g4qmhjl24ypn92l78w1zy0ajhcxgg39f7zsq883x"))))
+         "0nz9v37p7zl8yw3ykdbsb3izcwgx349wvrhwfyyn9h3jxjfafngn"))))
     (properties `((upstream-name . "Chicago")))
     (build-system r-build-system)
     (propagated-inputs
@@ -10247,14 +10273,14 @@ genes in the gene-set that are ranked above the leading edge).")
 (define-public r-cicero
   (package
     (name "r-cicero")
-    (version "1.10.1")
+    (version "1.12.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "cicero" version))
        (sha256
         (base32
-         "1y34cm52bv1v2hr7sz8zjzxwd4wng7v75avz5wx45l0ld54z9l10"))))
+         "1fc69nkm2cwpr6gkfmra2ph0lrmw486chswp4pn8i70ia43fzdm7"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-assertthat" ,r-assertthat)
@@ -10314,14 +10340,14 @@ accessibility data.")
 (define-public r-circrnaprofiler
   (package
     (name "r-circrnaprofiler")
-    (version "1.6.0")
+    (version "1.8.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "circRNAprofiler" version))
        (sha256
         (base32
-         "1hif40vfg2lkbyf6abbkxbdm3b1biw6gxnh6ca2sydvi3y5l2ys2"))))
+         "0l83r9idhrha1m21vpnw917m5dlldji49zvx4d25m5g3ia1pkhpf"))))
     (properties
      `((upstream-name . "circRNAprofiler")))
     (build-system r-build-system)
@@ -10449,14 +10475,14 @@ cisTopics and explore the nature and regulatory proteins driving them.")
 (define-public r-genie3
   (package
     (name "r-genie3")
-    (version "1.14.0")
+    (version "1.16.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "GENIE3" version))
        (sha256
         (base32
-         "1v54dzcz654wfm3npbp8gb55v49im0fm547cz3hvsidq4zhi3l1b"))))
+         "0ms769267pimrx3xwwkgjy03qilkxxs7xwhzfca01f65i4n3l6fw"))))
     (properties `((upstream-name . "GENIE3")))
     (build-system r-build-system)
     (propagated-inputs
@@ -10474,17 +10500,17 @@ regulatory networks from expression data.")
 (define-public r-roc
   (package
     (name "r-roc")
-    (version "1.68.1")
+    (version "1.70.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ROC" version))
        (sha256
         (base32
-         "1rmsrvn6hrg9ay7xfb05mfkxknnig78p3kbk9ghsd11lhx2fjm3s"))))
+         "1mgxpv5p6gnv04wzkcryrg5as5xrxvlqlkkcbv0k1bx9y6ykijy9"))))
     (properties `((upstream-name . "ROC")))
     (build-system r-build-system)
-    (propagated-inputs
+    (native-inputs
      `(("r-knitr" ,r-knitr)))
     (home-page "https://www.bioconductor.org/packages/ROC/")
     (synopsis "Utilities for ROC curves")
@@ -10522,14 +10548,14 @@ data.")
 (define-public r-watermelon
   (package
     (name "r-watermelon")
-    (version "1.36.0")
+    (version "2.0.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "wateRmelon" version))
        (sha256
         (base32
-         "1qar8z0nf33bqr488swig0bfq8lnvcdjcxvw3q3b0hkkvybn27zw"))))
+         "1kzkg3cnm5pcs6blpw1qn7na6z3kar93v67680wsxa6qxxdiggk3"))))
     (properties `((upstream-name . "wateRmelon")))
     (build-system r-build-system)
     (propagated-inputs
@@ -10542,6 +10568,8 @@ data.")
        ("r-matrixstats" ,r-matrixstats)
        ("r-methylumi" ,r-methylumi)
        ("r-roc" ,r-roc)))
+    (native-inputs
+     `(("r-knitr" ,r-knitr)))
     (home-page "https://bioconductor.org/packages/wateRmelon/")
     (synopsis "Illumina 450 methylation array normalization and metrics")
     (description
@@ -10559,14 +10587,14 @@ metrics, with methods for objects produced by the @code{methylumi} and
 (define-public r-gdsfmt
   (package
     (name "r-gdsfmt")
-    (version "1.28.1")
+    (version "1.30.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "gdsfmt" version))
        (sha256
         (base32
-         "1w3z718q3bhh8bp71va9pbcd62pwbvgjw33ffg960jya40xssvc7"))
+         "147i33sb65n3cl3ibmjzgfm7i4ljy640k18mzknvc18v1906j9vp"))
        (modules '((guix build utils)))
        ;; Remove bundled sources of zlib, lz4, and xz.  Don't attempt to build
        ;; them and link with system libraries instead.
@@ -10617,14 +10645,14 @@ with multiple R processes supported by the package @code{parallel}.")
 (define-public r-bigmelon
   (package
     (name "r-bigmelon")
-    (version "1.18.0")
+    (version "1.20.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "bigmelon" version))
        (sha256
         (base32
-         "061f0hc4m4nvdr6298pg3inpx1z2bpsm9nlxqs3v7n58q15xyzri"))))
+         "0ksbmybi8wsg515b4k9ij1xqqk9i90pyap2wq5w3c49qgc0pqali"))))
     (properties `((upstream-name . "bigmelon")))
     (build-system r-build-system)
     (propagated-inputs
@@ -10632,6 +10660,7 @@ with multiple R processes supported by the package @code{parallel}.")
        ("r-biocgenerics" ,r-biocgenerics)
        ("r-gdsfmt" ,r-gdsfmt)
        ("r-geoquery" ,r-geoquery)
+       ("r-illuminaio" ,r-illuminaio)
        ("r-methylumi" ,r-methylumi)
        ("r-minfi" ,r-minfi)
        ("r-watermelon" ,r-watermelon)))
@@ -10645,14 +10674,14 @@ with multiple R processes supported by the package @code{parallel}.")
 (define-public r-seqbias
   (package
     (name "r-seqbias")
-    (version "1.40.0")
+    (version "1.42.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "seqbias" version))
        (sha256
         (base32
-         "06w43plv4x1pafybq633n7adqp9yj3bvaaamq7vylmkfbcx3nl8k"))))
+         "1q608c1madij8l52ljl3w52vi3cssr6ikny84yj6n8s7yvpx5jpr"))))
     (properties `((upstream-name . "seqbias")))
     (build-system r-build-system)
     (propagated-inputs
@@ -10709,14 +10738,14 @@ injected in that sequence).")
 (define-public r-reqon
   (package
     (name "r-reqon")
-    (version "1.38.0")
+    (version "1.40.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ReQON" version))
        (sha256
         (base32
-         "1z13avbxwvvhh03arjfnaipznynifsi8k2hzw4kappz24f7lwmza"))))
+         "14v79vg3pmpkbzgn8xqd020jdwcs8g57d46bzl23yi3w1rsfbrb1"))))
     (properties `((upstream-name . "ReQON")))
     (build-system r-build-system)
     (propagated-inputs
@@ -10734,14 +10763,14 @@ format.")
 (define-public r-wavcluster
   (package
     (name "r-wavcluster")
-    (version "2.26.0")
+    (version "2.28.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "wavClusteR" version))
        (sha256
         (base32
-         "1sydzrqydfv1ik2h08xkxlx6xrv866bf0if6v5wch9l3krh0sych"))))
+         "1a1zhckrgq5yl51acj5piyh2hq70q6hhpym4cawzdssxhcbq70bk"))))
     (properties `((upstream-name . "wavClusteR")))
     (build-system r-build-system)
     (propagated-inputs
@@ -10781,14 +10810,14 @@ procedures that induce nucleotide substitutions (e.g. BisSeq).")
 (define-public r-timeseriesexperiment
   (package
     (name "r-timeseriesexperiment")
-    (version "1.10.1")
+    (version "1.12.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "TimeSeriesExperiment" version))
        (sha256
         (base32
-         "1095a2ynxcf9xiac5cjzslcbmjnjpbby0vy7d84qagdiq1w6mrhn"))))
+         "0fphnkkd3i7zf33a9lhw95n80vzv1z7fmn7mhrfb949yz4jdvk7d"))))
     (properties
      `((upstream-name . "TimeSeriesExperiment")))
     (build-system r-build-system)
@@ -10822,14 +10851,14 @@ provides methods for retrieving enriched pathways.")
 (define-public r-variantfiltering
   (package
     (name "r-variantfiltering")
-    (version "1.28.0")
+    (version "1.30.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "VariantFiltering" version))
        (sha256
         (base32
-         "0abhrk53csd9jz9sv4q1qr74jax9mbj2icbz1iilf1123nvnjypd"))))
+         "15js8xzi9rsgkjkqcshzk3r3g85kdnxn5v2hi6l5s4yxj9lnq12p"))))
     (properties
      `((upstream-name . "VariantFiltering")))
     (build-system r-build-system)
@@ -10928,21 +10957,20 @@ arrays based on fast wavelet-based functional models.")
 (define-public r-variancepartition
   (package
     (name "r-variancepartition")
-    (version "1.22.0")
+    (version "1.24.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "variancePartition" version))
        (sha256
         (base32
-         "1pqy2g9pg8pswmkrs2fzlkwwliw2r7f33h05bci5bz41b8ribpzj"))))
+         "0f5y61dpzwmr8v7npim18zvxa8n49rbzclb9j72haba0px6ibhvw"))))
     (properties
      `((upstream-name . "variancePartition")))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biobase" ,r-biobase)
        ("r-biocparallel" ,r-biocparallel)
-       ("r-colorramps" ,r-colorramps)
        ("r-doparallel" ,r-doparallel)
        ("r-foreach" ,r-foreach)
        ("r-ggplot2" ,r-ggplot2)
@@ -10952,9 +10980,11 @@ arrays based on fast wavelet-based functional models.")
        ("r-lme4" ,r-lme4)
        ("r-lmertest" ,r-lmertest)
        ("r-mass" ,r-mass)
+       ("r-matrix" ,r-matrix)
        ("r-pbkrtest" ,r-pbkrtest)
        ("r-progress" ,r-progress)
        ("r-reshape2" ,r-reshape2)
+       ("r-rlang" ,r-rlang)
        ("r-scales" ,r-scales)))
     (native-inputs
      `(("r-knitr" ,r-knitr)))
@@ -10972,14 +11002,14 @@ measures.")
 (define-public r-htqpcr
   (package
     (name "r-htqpcr")
-    (version "1.46.0")
+    (version "1.48.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "HTqPCR" version))
        (sha256
         (base32
-         "1y3ik5a9w66jby6682jfm8mn2883s8yfv4xw8a8v1f6q2d1j938l"))))
+         "1d7qj5yv6kzqmdrnp5pd8qv1yr4bg8cs39p8ib0i0k8b4wr97kq3"))))
     (properties `((upstream-name . "HTqPCR")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11006,14 +11036,14 @@ features (e.g.  genes, microRNAs).")
 (define-public r-unifiedwmwqpcr
   (package
     (name "r-unifiedwmwqpcr")
-    (version "1.28.0")
+    (version "1.30.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "unifiedWMWqPCR" version))
        (sha256
         (base32
-         "1clcz610sl3s0mjf84j21xgrmjhkxcc4h292ljwq5yzbkk68g896"))))
+         "0kw26bm2yyna38q5r4zb2alpa3j4gx7v970419mnjlif4g0hmggk"))))
     (properties
      `((upstream-name . "unifiedWMWqPCR")))
     (build-system r-build-system)
@@ -11031,14 +11061,14 @@ data.")
 (define-public r-universalmotif
   (package
     (name "r-universalmotif")
-    (version "1.10.2")
+    (version "1.12.1")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "universalmotif" version))
        (sha256
         (base32
-         "0hv2v2zgif5ihr5hxmdz32rln43jc1j0rslp44kd3rijjl45zysn"))))
+         "0d6zrwbc4i2npl29idm1icwa62wdx47z9s8yx7k662v3qagwpj16"))))
     (properties
      `((upstream-name . "universalmotif")))
     (build-system r-build-system)
@@ -11145,14 +11175,14 @@ cellular organization in health and disease.")
 (define-public r-bgmix
   (package
     (name "r-bgmix")
-    (version "1.52.0")
+    (version "1.54.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BGmix" version))
        (sha256
         (base32
-         "1gp40ddspblpszzm4k4r7ysgx883iwdfqc5ds23p2q1ml9idwgvv"))))
+         "0x1sx319yfxgkscr9r62msq00ddvmzryzn42wy4dh5pvjmgifkkn"))))
     (properties `((upstream-name . "BGmix")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11167,14 +11197,14 @@ gene expression.")
 (define-public r-bgx
   (package
     (name "r-bgx")
-    (version "1.58.0")
+    (version "1.60.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "bgx" version))
        (sha256
         (base32
-         "18n6j2ihv85rhai5sf5k3mwf9nkc2nl2sinx3rrs6sbl529g4mw4"))))
+         "0z3isnpyf9s11807dprxmd105lb0k4l7r1sygad30ncjvpldifzm"))))
     (properties `((upstream-name . "bgx")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11192,14 +11222,14 @@ Affymetrix GeneChips.")
 (define-public r-bhc
   (package
     (name "r-bhc")
-    (version "1.44.0")
+    (version "1.46.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BHC" version))
        (sha256
         (base32
-         "0aaawm7h3ppyyhd7hi14rpynagnxx4730f5vxizj5bpzwbclp6h9"))))
+         "09nw4ljc9sn7iw09ha0m614hmdjj193xhhav5x5p07l501kks6h2"))))
     (properties `((upstream-name . "BHC")))
     (build-system r-build-system)
     (home-page "https://bioconductor.org/packages/BHC/")
@@ -11218,14 +11248,14 @@ algorithm which is more efficient for larger data sets.")
 (define-public r-bicare
   (package
     (name "r-bicare")
-    (version "1.50.0")
+    (version "1.52.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BicARE" version))
        (sha256
         (base32
-         "0j3gs4xcdgaca2c62jf2h86skbbxm1c9g2khs5bsa8fmkskr6vl9"))))
+         "1g8vrsc05cysb36gsw8sfmr6dgbh4aji37vcq9qwkmkv3jgvnlf6"))))
     (properties `((upstream-name . "BicARE")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11242,14 +11272,14 @@ results.")
 (define-public r-bifet
   (package
     (name "r-bifet")
-    (version "1.12.0")
+    (version "1.14.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BiFET" version))
        (sha256
         (base32
-         "1fwy7ws0bn67557s0kcw8pbln2jg834n6kfbs8297ps07nxr0lpj"))))
+         "0vidypvphnj76g4ra5ijrgqx2dnzw0fmvdvz35gsqswrr3k20jkk"))))
     (properties `((upstream-name . "BiFET")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11272,14 +11302,14 @@ the read count and GC content bias.")
 (define-public r-rsbml
   (package
     (name "r-rsbml")
-    (version "2.50.0")
+    (version "2.52.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "rsbml" version))
        (sha256
         (base32
-         "017xwra6ms7kx6sg3ksw1vr9zn23imc2qjgpmjikx7mgbak125xh"))))
+         "0mdyr637sgasc156cv8i2s2mpl1hdvilfwwkhvw7l95pl90gnsh2"))))
     (properties `((upstream-name . "rsbml")))
     (build-system r-build-system)
     (inputs
@@ -11299,14 +11329,14 @@ validating output, provides an S4 SBML DOM, converts SBML to R graph objects.")
 (define-public r-hypergraph
   (package
     (name "r-hypergraph")
-    (version "1.64.0")
+    (version "1.66.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "hypergraph" version))
        (sha256
         (base32
-         "01knpd964m2g9vwd7c72qnc8g2p2pzhvk7lin4mhvcmb3pvsdlh7"))))
+         "0xnyl9qh5p32ifvzkcl5g4a38zbnwykqzrp8gwz076a0ksiqqdxf"))))
     (properties `((upstream-name . "hypergraph")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11321,14 +11351,14 @@ manipulating hypergraphs.")
 (define-public r-hyperdraw
   (package
     (name "r-hyperdraw")
-    (version "1.44.0")
+    (version "1.46.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "hyperdraw" version))
        (sha256
         (base32
-         "1qkxixkgvvfha0ii8rwwcbrbjmbbxsy8afv5ymcq01k3hbykx44r"))))
+         "1lkiqrk01hshms9ghsfynxwj69zr3463r3rg8rn7hkwn3bj8xyzj"))))
     (properties `((upstream-name . "hyperdraw")))
     (build-system r-build-system)
     (inputs `(("graphviz" ,graphviz)))
@@ -11345,14 +11375,14 @@ manipulating hypergraphs.")
 (define-public r-biggr
   (package
     (name "r-biggr")
-    (version "1.28.0")
+    (version "1.30.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BiGGR" version))
        (sha256
         (base32
-         "1y9659pxm65w51zvrz36girb3qvfc64zijjkxmg6xn4pbc8vv1wf"))))
+         "1g01666wwznk148776s4vr1hfi3dfl448dhgk4d1qy2wv6sxh9kr"))))
     (properties `((upstream-name . "BiGGR")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11409,14 +11439,14 @@ a file-backed matrix with factor properties.")
 (define-public r-bigpint
   (package
     (name "r-bigpint")
-    (version "1.8.0")
+    (version "1.10.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "bigPint" version))
        (sha256
         (base32
-         "0yrg9x1a92zmz7j5hk77cph1jg82mkpr7k7qi9fdr6z5nqq6fgz6"))))
+         "0b0l0v9p7a5da3x18d0pqn41ilgxfyzapjaawgsshcfm5mjq5d7q"))))
     (properties `((upstream-name . "bigPint")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11452,14 +11482,14 @@ visualizing RNA-sequencing datasets and differentially expressed genes.")
 (define-public r-chemminer
   (package
     (name "r-chemminer")
-    (version "3.44.0")
+    (version "3.46.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ChemmineR" version))
        (sha256
         (base32
-         "1z59npqk7hnqzhjdnry6lfqlyxfzwqprp7bmbdzs4rp22pzcv1v8"))))
+         "069xd7if7fs69afmamgl6wrkzpnk97ic6z5ix4vvlzkb078dm0p8"))))
     (properties `((upstream-name . "ChemmineR")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11471,11 +11501,13 @@ visualizing RNA-sequencing datasets and differentially expressed genes.")
        ("r-dt" ,r-dt)
        ("r-ggplot2" ,r-ggplot2)
        ("r-gridextra" ,r-gridextra)
+       ("r-jsonlite" ,r-jsonlite)
        ("r-png" ,r-png)
        ("r-rcpp" ,r-rcpp)
        ("r-rcurl" ,r-rcurl)
        ("r-rjson" ,r-rjson)
-       ("r-rsvg" ,r-rsvg)))
+       ("r-rsvg" ,r-rsvg)
+       ("r-stringi" ,r-stringi)))
     (native-inputs
      `(("r-knitr" ,r-knitr)))
     (home-page "https://github.com/girke-lab/ChemmineR")
@@ -11493,14 +11525,14 @@ structures.")
 (define-public r-bioassayr
   (package
     (name "r-bioassayr")
-    (version "1.30.0")
+    (version "1.32.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "bioassayR" version))
        (sha256
         (base32
-         "1mlv80w8a7l8cii3dfqvanvh0qdqvcg8c1iiq4xlyvkjxfs64ka1"))))
+         "1nfp1alva6qim5rbhg9j9w97p2n4z21ghr4j489lqklkcs4d030f"))))
     (properties `((upstream-name . "bioassayR")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11528,14 +11560,14 @@ available bioactivity data.")
 (define-public r-biobroom
   (package
     (name "r-biobroom")
-    (version "1.24.0")
+    (version "1.26.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "biobroom" version))
        (sha256
         (base32
-         "1ybyhmrcvj6k1laxw9bc8jbn533frkzh9k8kl1ibd5pi368rfqzn"))))
+         "034gbywrscv23kk1qnk7sc7dxdckmf60wh29fz65v1n28mkf180r"))))
     (properties `((upstream-name . "biobroom")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11560,14 +11592,14 @@ visualize bioinformatics analyses.")
 (define-public r-graphite
   (package
     (name "r-graphite")
-    (version "1.38.0")
+    (version "1.40.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "graphite" version))
        (sha256
         (base32
-         "11bgz6951nfygxp3fm0190gf2bb5zplis1bc0am4757liw4qybhf"))))
+         "0wmdv4j6dinszxwpz2jddshkh1ahbhm2fxh6vhjsk4grw38i1lfr"))))
     (properties `((upstream-name . "graphite")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11576,8 +11608,6 @@ visualize bioinformatics analyses.")
        ("r-graph" ,r-graph)
        ("r-httr" ,r-httr)
        ("r-rappdirs" ,r-rappdirs)))
-    (native-inputs
-     `(("r-knitr" ,r-knitr)))
     (home-page "https://bioconductor.org/packages/graphite/")
     (synopsis "Networks from pathway databases")
     (description
@@ -11589,14 +11619,14 @@ symbols).")
 (define-public r-reactomepa
   (package
     (name "r-reactomepa")
-    (version "1.36.0")
+    (version "1.38.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ReactomePA" version))
        (sha256
         (base32
-         "1293z89ai766c559axgr7mz5x4564gyl9xqzf6s8s0aj1xb35gqf"))))
+         "1f4kd5cql7knnqaq3ba48kkypw8p60lkfdsnpqxcabdj30gqp55b"))))
     (properties `((upstream-name . "ReactomePA")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11621,14 +11651,14 @@ enrichment analysis and several functions for visualization.")
 (define-public r-ebarrays
   (package
     (name "r-ebarrays")
-    (version "2.56.0")
+    (version "2.58.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "EBarrays" version))
        (sha256
         (base32
-         "1k1kl0m7wzaqpv7i20pfav2a6jf93bhri4w7qdikmvkf011n9422"))))
+         "10dw6c93rmpknzf4cnhw3y7lb27q4xq7x7wirl2a7qywdj0yj2g6"))))
     (properties `((upstream-name . "EBarrays")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11667,13 +11697,13 @@ monograph.")
 (define-public r-bioccheck
   (package
     (name "r-bioccheck")
-    (version "1.28.0")
+    (version "1.30.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "BiocCheck" version))
               (sha256
                (base32
-                "1h0l5w33c9jpc20pynq634qmx8jbfa802d7jslmf4haljmrxm4a1"))))
+                "0w9ddicyp9i8rxf92n9pghd9s6bb8jdjikaylrmkydhb7jbhan0y"))))
     (properties
      `((upstream-name . "BiocCheck")))
     (build-system r-build-system)
@@ -11697,14 +11727,14 @@ checks on R packages that are to be submitted to the Bioconductor repository.")
 (define-public r-biocgraph
   (package
     (name "r-biocgraph")
-    (version "1.54.0")
+    (version "1.56.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "biocGraph" version))
        (sha256
         (base32
-         "12bmj9kdlylp02cfwviak7y323ndccl2694rvi4cdg4vsx7v3ya3"))))
+         "0c7r0c1kx22dlwi6d1ldbkkbf53yi0p3vmgbwzrbkn3cina7bcxq"))))
     (properties `((upstream-name . "biocGraph")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11722,13 +11752,13 @@ different graph related packages produced by Bioconductor.")
 (define-public r-biocstyle
   (package
     (name "r-biocstyle")
-    (version "2.20.2")
+    (version "2.22.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "BiocStyle" version))
               (sha256
                (base32
-                "0p2wdq5vrx63ndghl9ww428z2lwnv5y88xmcr51by2g6vcj3brcf"))))
+                "0xx6xr01sb5wig94515zxgw24r9fv0g962ajy87741civhq32lbd"))))
     (properties
      `((upstream-name . "BiocStyle")))
     (build-system r-build-system)
@@ -11750,13 +11780,13 @@ functionality.")
 (define-public r-biocviews
   (package
     (name "r-biocviews")
-    (version "1.60.0")
+    (version "1.62.1")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "biocViews" version))
               (sha256
                (base32
-                "0pc5ll59vm8a9s1nrdc7p9wk11a52rrz669fsrrqd8qapa8p6wfd"))))
+                "1v6himzp546dpb990vv0nlya21w8x2x30137rsmahjzg942nzs9r"))))
     (properties
      `((upstream-name . "biocViews")))
     (build-system r-build-system)
@@ -11778,14 +11808,14 @@ also known as views, in a controlled vocabulary.")
 (define-public r-experimenthub
   (package
     (name "r-experimenthub")
-    (version "2.0.0")
+    (version "2.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ExperimentHub" version))
        (sha256
         (base32
-         "1mzmw3100lf33yhz27nbxncrjk5bprlackrjcwf8xdhcaidg40p4"))))
+         "15las4qmqvrn81hczxa3ylikqh54kp1lg9r8rcyfvrx5l0kgwlfq"))))
     (properties `((upstream-name . "ExperimentHub")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11812,14 +11842,14 @@ access.")
 (define-public r-grohmm
   (package
     (name "r-grohmm")
-    (version "1.26.0")
+    (version "1.28.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "groHMM" version))
        (sha256
         (base32
-         "1h63vg1iskw79ijg5h1b9097ams8pp3kvnlawlfci6xfli07xpkj"))))
+         "1jcj29df4prknqwbydca1jb9w6njacjhwwk9jp0r5mvb88xrm60s"))))
     (properties `((upstream-name . "groHMM")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11839,14 +11869,14 @@ access.")
 (define-public r-multiassayexperiment
   (package
     (name "r-multiassayexperiment")
-    (version "1.18.0")
+    (version "1.20.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "MultiAssayExperiment" version))
        (sha256
         (base32
-         "0l0arf3q1f6zy6pdgsy3h5n523sg1hlilv7lj7snr5814idgdj51"))))
+         "1h3b8vqlbd04amjprxd1814zksdrbi01a0xn3906vkbqi43hfyn9"))))
     (properties
      `((upstream-name . "MultiAssayExperiment")))
     (build-system r-build-system)
@@ -11874,14 +11904,14 @@ rownames.")
 (define-public r-bioconcotk
   (package
     (name "r-bioconcotk")
-    (version "1.12.1")
+    (version "1.14.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BiocOncoTK" version))
        (sha256
         (base32
-         "1ix09a39z7y2cj0y8qsd66ka8a8y8q79w08l4jv1yhhn9h4va89s"))))
+         "1h5s6wbc5n5x5d28rynxpcmaklxdhf72g9gg9fy8cg77niipvxd9"))))
     (properties `((upstream-name . "BiocOncoTK")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11919,14 +11949,14 @@ tools for genome-scale analysis of cancer studies.")
 (define-public r-biocor
   (package
     (name "r-biocor")
-    (version "1.16.0")
+    (version "1.18.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BioCor" version))
        (sha256
         (base32
-         "135rga7mwpzy8ypvriqpbmlh9l5yf61s9s1sa9615qfab14jh06b"))))
+         "0ii4g7438lb34ykidkbxw3v3k289k662rgbgayf9gak5avpkb2cq"))))
     (properties `((upstream-name . "BioCor")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11948,14 +11978,14 @@ gene selection, testing relationships, and so on.")
 (define-public r-biocpkgtools
   (package
     (name "r-biocpkgtools")
-    (version "1.10.2")
+    (version "1.12.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BiocPkgTools" version))
        (sha256
         (base32
-         "1sfp1nxlwbbbpx2iwvyk9p10jdy2vxhgn2b5fy5blayzjjlb3d80"))))
+         "13m6h35938407ajj7fakl50g4p2wsvinkg0r2mwl1zwq88735arg"))))
     (properties `((upstream-name . "BiocPkgTools")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11996,14 +12026,14 @@ analytics on packages.")
 (define-public r-biocset
   (package
     (name "r-biocset")
-    (version "1.6.1")
+    (version "1.8.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BiocSet" version))
        (sha256
         (base32
-         "0nmrg9cgq8l9w467y364jghnvym05abpj8pyj90grmrib2xc5sj2"))))
+         "0ysm68gcalg3d91jx6vmdzra01vc6kvzqnvz557g3rnm0wkx12q6"))))
     (properties `((upstream-name . "BiocSet")))
     (build-system r-build-system)
     (propagated-inputs
@@ -12034,14 +12064,14 @@ accessing web references for elements/sets are also available in BiocSet.")
 (define-public r-biocworkflowtools
   (package
     (name "r-biocworkflowtools")
-    (version "1.18.0")
+    (version "1.20.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BiocWorkflowTools" version))
        (sha256
         (base32
-         "1a32bwgnxaw0gv2gij2p4rm0a6l06jjhidvfz2v4k900pz1w79av"))))
+         "1j9s8w5y8savcmh70npkanxacq1kipxnwk1wsiw5hwnp1p13ldaa"))))
     (properties
      `((upstream-name . "BiocWorkflowTools")))
     (build-system r-build-system)
@@ -12067,14 +12097,14 @@ Rmarkdown and LaTeX documents when authoring a Bioconductor Workflow.")
 (define-public r-biodist
   (package
     (name "r-biodist")
-    (version "1.64.0")
+    (version "1.66.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "bioDist" version))
        (sha256
         (base32
-         "1y1x9q9aa76gbhsyfn638rxp5icjvq30fv3a4205xh7g5jwlf6yw"))))
+         "0y35c9sdq5x4q64ip0wgqz59mh01l71k1pp6n8vqbr667nwg0gdp"))))
     (properties `((upstream-name . "bioDist")))
     (build-system r-build-system)
     (propagated-inputs
@@ -12090,14 +12120,14 @@ distance measures.")
 (define-public r-pcatools
   (package
     (name "r-pcatools")
-    (version "2.4.0")
+    (version "2.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "PCAtools" version))
        (sha256
         (base32
-         "11idi9fwvyhkakbm63qxcdhkany8gbskis04z0p5a39lppq8ks31"))))
+         "10kfhsxhsjpzal3yvcqg769h5fz99cqqjq217cj9jip3jfh2m2h4"))))
     (properties `((upstream-name . "PCAtools")))
     (build-system r-build-system)
     (propagated-inputs
@@ -12136,14 +12166,14 @@ dimensional mass cytometry data.")
 (define-public r-rgreat
   (package
     (name "r-rgreat")
-    (version "1.24.0")
+    (version "1.26.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "rGREAT" version))
        (sha256
         (base32
-         "0ads9c9i8b39wvjih057zlyivj8zpsqjxf6r97yflz4sbi1jmcji"))))
+         "0kr61mhxp9phn1136fci450zwfhsipchmlm8d5rgib4lh0zbxrhl"))))
     (properties `((upstream-name . "rGREAT")))
     (build-system r-build-system)
     (propagated-inputs
@@ -12164,14 +12194,14 @@ user's input and automatically retrieving results from GREAT web server.")
 (define-public r-m3c
   (package
     (name "r-m3c")
-    (version "1.14.0")
+    (version "1.16.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "M3C" version))
        (sha256
         (base32
-         "17gj4haa4ywc6bmppm342jzppl3inqa94235yspikij6c098vrmc"))))
+         "0jsql5wd58hs5mnn9wq5b4kl3z57y6amykirfb3k047zpyi8ijnh"))))
     (properties `((upstream-name . "M3C")))
     (build-system r-build-system)
     (propagated-inputs
@@ -12197,14 +12227,14 @@ hypothesis @code{K=1}.")
 (define-public r-icens
   (package
     (name "r-icens")
-    (version "1.64.0")
+    (version "1.66.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "Icens" version))
        (sha256
         (base32
-         "1rzgwxx4w2bqsaz0xmkhi4w9zsxgms80xf59zg1xp1camyhaihlz"))))
+         "08jd7g28mazvwd3qbq8y26czmkz45avp4vy8l7i5d6qajwzqzgzs"))))
     (properties `((upstream-name . "Icens")))
     (build-system r-build-system)
     (propagated-inputs
@@ -12222,14 +12252,14 @@ truncated data.")
 (define-public r-interval
   (package
     (name "r-interval")
-    (version "1.1-0.7")
+    (version "1.1-0.8")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "interval" version))
        (sha256
         (base32
-         "1b31lh0sv7lzy76230djipahxa10lblbr37kdiigr6hp3dd1xmz9"))))
+         "0g0k9nri19p3y3s70ic1w3i3sxq8fbsxaikd7c4d6afqzr8hk2nl"))))
     (properties `((upstream-name . "interval")))
     (build-system r-build-system)
     (propagated-inputs
@@ -12327,14 +12357,14 @@ generated.")
 (define-public r-preprocesscore
   (package
     (name "r-preprocesscore")
-    (version "1.54.0")
+    (version "1.56.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "preprocessCore" version))
        (sha256
         (base32
-         "17a00blz4kvhmsk92bp5alj9kdpy7h1id7nk4vqxakhkb2jabr20"))))
+         "1i93vdqa6pwzamiryp3lv6cyvhx9shs01is0q6vbmdvcbii2vf3x"))))
     (properties
      `((upstream-name . "preprocessCore")))
     (build-system r-build-system)
@@ -12348,13 +12378,13 @@ routines.")
 (define-public r-s4vectors
   (package
     (name "r-s4vectors")
-    (version "0.30.1")
+    (version "0.32.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "S4Vectors" version))
               (sha256
                (base32
-                "103sw0fmmm4f3hprrsn7dwg0kmmr9mcmb46dcwwb6p5np0al2sfx"))))
+                "1zm1xlqrq1f9xa81j3ij2p78g3aywq7izsk3h40z94fjggahvc09"))))
     (properties
      `((upstream-name . "S4Vectors")))
     (build-system r-build-system)
@@ -12415,14 +12445,14 @@ data manipulation and visualization.")
 (define-public r-rgraphviz
   (package
     (name "r-rgraphviz")
-    (version "2.36.0")
+    (version "2.38.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "Rgraphviz" version))
        (sha256
         (base32
-         "0d0xq1vgr4b165cn4wg7zmfjyc1d9ir4amgs196j4cgrhpmrnl8s"))))
+         "0fyv1ybpahkwz3fawzxgxfnshi8y7c18262rgdmqwdl5662vv1p7"))))
     (properties `((upstream-name . "Rgraphviz")))
     (build-system r-build-system)
     (arguments
@@ -12453,13 +12483,13 @@ objects from the @code{graph} package.")
 (define-public r-fithic
   (package
     (name "r-fithic")
-    (version "1.18.0")
+    (version "1.20.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "FitHiC" version))
               (sha256
                (base32
-                "1p8a6lis5yswaj647bjw89harlarnsxmvjzz63fn1l6gxrwhh8bx"))))
+                "0a3d2bxp98lmbf3i864zgfwxwvxyqfcrh75z9yz7ra7y44pkjr4y"))))
     (properties `((upstream-name . "FitHiC")))
     (build-system r-build-system)
     (propagated-inputs
@@ -12479,13 +12509,13 @@ assays such as Hi-C.")
 (define-public r-hitc
   (package
     (name "r-hitc")
-    (version "1.36.0")
+    (version "1.38.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "HiTC" version))
               (sha256
                (base32
-                "0s3kfqs3zlmq61hxdmxpmi9gfs9w3byckw7xzp1hrhdbsl46yvgq"))))
+                "1ckiwqfq86k8p3y36iwr7k3y6g4z80n8hb047c0i2491lrn23rhx"))))
     (properties `((upstream-name . "HiTC")))
     (build-system r-build-system)
     (propagated-inputs
@@ -12508,14 +12538,14 @@ provided.")
 (define-public r-hdf5array
   (package
     (name "r-hdf5array")
-    (version "1.20.0")
+    (version "1.22.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "HDF5Array" version))
        (sha256
         (base32
-         "1718hplz5qlbwxwb87509bl7lir9kilvn1s7p2haz551pg48zvrc"))))
+         "13h6qr4zkynir0ck2aiasjvlid7hrk3m2lzkjyhpvbg1a15r8zi9"))))
     (properties `((upstream-name . "HDF5Array")))
     (build-system r-build-system)
     (inputs
@@ -12539,14 +12569,14 @@ block processing.")
 (define-public r-rhdf5lib
   (package
     (name "r-rhdf5lib")
-    (version "1.14.2")
+    (version "1.16.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "Rhdf5lib" version))
        (sha256
         (base32
-         "1cwynbcaaxmbh45fc0d264liqdj0wbjlj7k2bsq3qfjbnh6kkam5"))
+         "0yly9s3wdnhd9ci2jxfkql38ibv35yzs38a6g6ashbg1m5kgwd9p"))
        (modules '((guix build utils)))
        (snippet
         '(begin
@@ -12622,14 +12652,14 @@ packages.")
 (define-public r-beachmat
   (package
     (name "r-beachmat")
-    (version "2.8.1")
+    (version "2.10.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "beachmat" version))
        (sha256
         (base32
-         "06bpfpddsl49csxrs8hlx5pv0absc2wdcparchf8qqaqydazwci2"))))
+         "1l8c9q35mf90ckb366bcfqa0v2gw7ahs2h362j7cwv8fp39h4mpb"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biocgenerics" ,r-biocgenerics)
@@ -12651,13 +12681,13 @@ matrices.")
 (define-public r-cner
   (package
     (name "r-cner")
-    (version "1.28.0")
+    (version "1.30.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "CNEr" version))
        (sha256
-        (base32 "13w0gsfm7k29dp5nb0c9sb2ix506ph6dixsjis6xxcz6acq7lg2k"))))
+        (base32 "0w4iqmyyhsb6l9bi8c6qwdh4j6z2i1i5fi85ia9069fpl9d0hpl2"))))
     (properties `((upstream-name . "CNEr")))
     (build-system r-build-system)
     (inputs `(("zlib" ,zlib)))
@@ -12699,14 +12729,14 @@ advanced visualization of sets of conserved noncoding elements.")
 (define-public r-tfbstools
   (package
     (name "r-tfbstools")
-    (version "1.30.0")
+    (version "1.32.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "TFBSTools" version))
        (sha256
         (base32
-         "1avgjv2nyr28cla0z9dvh3v0hr1f561sz2as1k53a42irbjk0var"))))
+         "0j5gv145fczzdspwhbywlg47y05pgnkra9jg7bn4wa1k0cf5pr9g"))))
     (properties `((upstream-name . "TFBSTools")))
     (build-system r-build-system)
     (propagated-inputs
@@ -12745,14 +12775,14 @@ provides a wrapper of de novo motif discovery software.")
 (define-public r-motifmatchr
   (package
     (name "r-motifmatchr")
-    (version "1.14.0")
+    (version "1.16.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "motifmatchr" version))
        (sha256
         (base32
-         "1vif3dp4lv4jz1pxsq0ig791ir8q65jmrlqmkyfxpfxfj5alqnbm"))))
+         "0f7j54zdn51h1gcn81vqs8avmschjwqprjcfpvsi00q4fna3fg7z"))))
     (properties `((upstream-name . "motifmatchr")))
     (build-system r-build-system)
     (propagated-inputs
@@ -12779,13 +12809,13 @@ This package wraps C++ code from the MOODS motif calling library.")
 (define-public r-chromvar
   (package
     (name "r-chromvar")
-    (version "1.14.0")
+    (version "1.16.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "chromVAR" version))
        (sha256
-        (base32 "1birmwvcvl2hb5ygbsb3wvbdfayqqs53j1bks46cbkq7ybigfyar"))))
+        (base32 "0ylsfr540l763bh010irbcavlskahyb1769pppimdgn22gyr3spk"))))
     (properties `((upstream-name . "chromVAR")))
     (build-system r-build-system)
     (propagated-inputs
@@ -12826,14 +12856,14 @@ sequence (@code{DNAse-seq}) experiments.")
 (define-public r-singlecellexperiment
   (package
     (name "r-singlecellexperiment")
-    (version "1.14.1")
+    (version "1.16.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "SingleCellExperiment" version))
        (sha256
         (base32
-         "1bwdhx0ss0s8f4xdgwd7x48apn849x4dyb5hbyglcz31r5vh1qgz"))))
+         "01075vbs8hy399pxalav9rbkz4djvl84ip559jkz51fypd0m4i39"))))
     (properties
      `((upstream-name . "SingleCellExperiment")))
     (build-system r-build-system)
@@ -12857,14 +12887,14 @@ libraries.")
 (define-public r-scuttle
   (package
     (name "r-scuttle")
-    (version "1.2.1")
+    (version "1.4.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "scuttle" version))
        (sha256
         (base32
-         "015k879gg2r39lp6mz26jwmysa56k0ial6v74zzmbi8hnz9zic3i"))))
+         "1dbdb6yc6wk01dljy1vy6f0lf44crc5rxxnc4bhjk8i4iljz8467"))))
     (properties `((upstream-name . "scuttle")))
     (build-system r-build-system)
     (propagated-inputs
@@ -12892,13 +12922,13 @@ of other packages.")
 (define-public r-scater
   (package
     (name "r-scater")
-    (version "1.20.1")
+    (version "1.22.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "scater" version))
               (sha256
                (base32
-                "1046fgf93dda3y2z5ilrjdczz7klj67ag63p4p1h03965wpj9vfn"))))
+                "0k4i9pwmwxcr5a40ljl27wriccwn5vc52xy48yjjh8ppl5dbggdg"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-beachmat" ,r-beachmat)
@@ -12910,6 +12940,7 @@ of other packages.")
        ("r-delayedmatrixstats" ,r-delayedmatrixstats)
        ("r-ggbeeswarm" ,r-ggbeeswarm)
        ("r-ggplot2" ,r-ggplot2)
+       ("r-ggrepel" ,r-ggrepel)
        ("r-gridextra" ,r-gridextra)
        ("r-matrix" ,r-matrix)
        ("r-rcolorbrewer" ,r-rcolorbrewer)
@@ -12932,14 +12963,14 @@ quality control.")
 (define-public r-scran
   (package
     (name "r-scran")
-    (version "1.20.1")
+    (version "1.22.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "scran" version))
        (sha256
         (base32
-         "0ilzp6ngw9pq88gk79iic2zxfh5jaic6lnq3xfwc9a269bjylff0"))))
+         "1nyvbss4914giwzp5wiw9g4z5b6lr5iprbjrqlg4vpgnf1hz8k7l"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-beachmat" ,r-beachmat)
@@ -12975,14 +13006,14 @@ variable and significantly correlated genes.")
 (define-public r-sparsematrixstats
   (package
     (name "r-sparsematrixstats")
-    (version "1.4.2")
+    (version "1.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "sparseMatrixStats" version))
        (sha256
         (base32
-         "0b22kzg751zlkcbs8pi0bcqrsj3imsg35qfvxfrqb7gav7qznc8v"))))
+         "0ifqj4a6mn4749sr62gq3dwd6mmbbzdx5mh5b5663vcgl1kw96x1"))))
     (properties
      `((upstream-name . "sparseMatrixStats")))
     (build-system r-build-system)
@@ -13003,14 +13034,14 @@ data in the column sparse format.")
 (define-public r-delayedmatrixstats
   (package
     (name "r-delayedmatrixstats")
-    (version "1.14.3")
+    (version "1.16.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "DelayedMatrixStats" version))
        (sha256
         (base32
-         "1zxs2wjnsq9w1cl4andsd7y9xsdnl1an55khw9viaq758m7hhbcn"))))
+         "1pqwkk39rfhcnhmgchk0gfmm4jgasl19yq0nhhwsfj45y2vk6kjk"))))
     (properties
      `((upstream-name . "DelayedMatrixStats")))
     (build-system r-build-system)
@@ -13039,14 +13070,14 @@ memory usage and processing time is minimized.")
 (define-public r-mscoreutils
   (package
     (name "r-mscoreutils")
-    (version "1.4.0")
+    (version "1.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "MsCoreUtils" version))
        (sha256
         (base32
-         "13g8a726vsyjs6m1kd42vf8avdnmhykxhl6z3j2njzkp2jg17pd8"))))
+         "1w8d1v2r3plwwcz23zhbpvklhapf2a6x3xmglyh4sh6sy9ynkgrv"))))
     (properties `((upstream-name . "MsCoreUtils")))
     (build-system r-build-system)
     (propagated-inputs
@@ -13068,17 +13099,49 @@ well as misc helper functions, that are used across high-level data structure
 within the R for Mass Spectrometry packages.")
     (license license:artistic2.0)))
 
+(define-public r-msfeatures
+  (package
+    (name "r-msfeatures")
+    (version "1.2.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (bioconductor-uri "MsFeatures" version))
+       (sha256
+        (base32 "020ifrijlzdd3qk4bhd9z4knj5d87ildrkl3wcmxvwkvs9rbh8rq"))))
+    (properties `((upstream-name . "MsFeatures")))
+    (build-system r-build-system)
+    (propagated-inputs
+     `(("r-mscoreutils" ,r-mscoreutils)
+       ("r-protgenerics" ,r-protgenerics)
+       ("r-summarizedexperiment" ,r-summarizedexperiment)))
+    (native-inputs
+     `(("r-knitr" ,r-knitr)))
+    (home-page "https://github.com/RforMassSpectrometry/MsFeatures")
+    (synopsis "Functionality for mass spectrometry features")
+    (description
+     "The MsFeature package defines functionality for Mass Spectrometry
+features.  This includes functions to group (LC-MS) features based on some of
+their properties, such as retention time (coeluting features), or correlation
+of signals across samples.  This packge hence allows to group features, and
+its results can be used as an input for the @code{QFeatures} package which
+allows to aggregate abundance levels of features within each group.  This
+package defines concepts and functions for base and common data types,
+implementations for more specific data types are expected to be implemented in
+the respective packages (such as e.g. @code{xcms}).")
+    (license license:artistic2.0)))
+
 (define-public r-biocio
   (package
     (name "r-biocio")
-    (version "1.2.0")
+    (version "1.4.0")
     (source
       (origin
         (method url-fetch)
         (uri (bioconductor-uri "BiocIO" version))
         (sha256
           (base32
-            "0skwnpxl6fkqihidpqrfzzh7b05x11j6jwkiinmhggmv0ggjb5ph"))))
+            "1qg6v961sbj7qwyjx4z720f6h0kq693p7gc8q99my7gqkbbcxrfr"))))
     (properties `((upstream-name . "BiocIO")))
     (build-system r-build-system)
     (propagated-inputs
@@ -13105,14 +13168,14 @@ as well as local access.  Developers can register a file extension, e.g.,
 (define-public r-msmseda
   (package
     (name "r-msmseda")
-    (version "1.30.0")
+    (version "1.32.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "msmsEDA" version))
        (sha256
         (base32
-         "0555a3riyp781mlffmnf93igfq8vl8wjk51pa9qb48qkdn6y8pfc"))))
+         "1jammjkjjkcqad2ki02l2pdf4jybyh71hv463aya2ylmzsin5vi9"))))
     (properties `((upstream-name . "msmsEDA")))
     (build-system r-build-system)
     (propagated-inputs
@@ -13131,14 +13194,14 @@ experiments, and visualize de influence of the involved factors.")
 (define-public r-msmstests
   (package
     (name "r-msmstests")
-    (version "1.30.0")
+    (version "1.32.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "msmsTests" version))
        (sha256
         (base32
-         "11vhy1l6za73dpdj85q4ksaghgd8vb2h8v9iirmsn2vpajqrvgjh"))))
+         "0xmjgd8rqpb8i7d46pvnj7da2di8bwfdncr48b8hgylkc98ghznb"))))
     (properties `((upstream-name . "msmsTests")))
     (build-system r-build-system)
     (propagated-inputs
@@ -13163,14 +13226,14 @@ relevant, and the minimum expression of the most abundant condition.")
 (define-public r-catalyst
   (package
     (name "r-catalyst")
-    (version "1.16.2")
+    (version "1.18.0")
     (source
       (origin
         (method url-fetch)
         (uri (bioconductor-uri "CATALYST" version))
         (sha256
           (base32
-            "1vw8x54hwgcyn29k81zcvawawy2iy2qgp49gjpb830q04gx6yc6h"))))
+            "15lah45lf16zh1ankbpjvz8zp38lldvq074nmvb99rhhqys2gbgi"))))
     (properties `((upstream-name . "CATALYST")))
     (build-system r-build-system)
     (propagated-inputs
@@ -13221,14 +13284,14 @@ standards, ii) single-cell deconvolution, and iii) bead-based compensation.")
 (define-public r-erma
   (package
     (name "r-erma")
-    (version "1.8.0")
+    (version "1.10.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "erma" version))
        (sha256
         (base32
-         "02a9702sasgighwb0f9ii8n30ngfx1hjnppaay1f5zsigr8vqalz"))))
+         "0pb9ar1wy613vg6sfdmn8n4cfv1328m8bagnigsjdb3hc3hbir4z"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-annotationdbi" ,r-annotationdbi)
@@ -13261,14 +13324,14 @@ by Ernst and Kellis.")
 (define-public r-ggbio
   (package
     (name "r-ggbio")
-    (version "1.40.0")
+    (version "1.42.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ggbio" version))
        (sha256
         (base32
-         "0k3dxacrwgyrkvm7ggc2s1s1pbfs6c0a7ngykkj7jnc73czvnilx"))))
+         "1svmjaa3gisi39sl52337drvd54havcy5pjmwrykgykz5flid2m7"))))
     (build-system r-build-system)
     (arguments
      `(#:phases
@@ -13429,14 +13492,14 @@ family of feature/genome hypotheses.")
 (define-public r-gviz
   (package
     (name "r-gviz")
-    (version "1.36.2")
+    (version "1.38.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "Gviz" version))
        (sha256
         (base32
-         "0lp0k8jd4dfsfn10706124graaqnzcyv1siblvm8dn2ykw2rc6vl"))))
+         "0nqa7m300d7gpsayb6c6rv64d3y8c390wvwgz7v29zs9c025s9a8"))))
     (properties `((upstream-name . "Gviz")))
     (build-system r-build-system)
     (propagated-inputs
@@ -13478,14 +13541,14 @@ with your data.")
 (define-public r-gwascat
   (package
     (name "r-gwascat")
-    (version "2.24.0")
+    (version "2.26.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "gwascat" version))
        (sha256
         (base32
-         "0109cxsviq1sk5hfwkjzd0y1kpm934287asjjd0j8jhh4b0ah2b2"))))
+         "0s67jgk3gnfiyfjwhq4r5xlfnip29blis4fg75kn4qmvjv5j2pxx"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-annotationdbi" ,r-annotationdbi)
@@ -13512,13 +13575,13 @@ EMBL-EBI GWAS catalog.")
 (define-public r-kegggraph
   (package
     (name "r-kegggraph")
-    (version "1.52.0")
+    (version "1.54.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "KEGGgraph" version))
        (sha256
-        (base32 "0zxdph5hzr3kzj2g1mjqpiviwa189a5sq4bw7wiry6r79fdnklqs"))))
+        (base32 "1qqvbv1sq9j570syb2802ya2ffg1k8f1w986wr6ksqkwxb9qbbm4"))))
     (properties `((upstream-name . "KEGGgraph")))
     (build-system r-build-system)
     (propagated-inputs
@@ -13539,14 +13602,14 @@ functionalities including parsing, graph operation, visualization and etc.")
 (define-public r-ldblock
   (package
     (name "r-ldblock")
-    (version "1.22.1")
+    (version "1.24.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ldblock" version))
        (sha256
         (base32
-         "16vp5psmigxdkkd6fbivb6s8mvd7rsnm771wsbjvayl2y7ig7kq4"))))
+         "1v9b372d5hpwwik6956mfwc9b3bibygz042i4nydsklnbwm5vcmg"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biocgenerics" ,r-biocgenerics)
@@ -13665,13 +13728,13 @@ other functional sequencing data.")
 (define-public r-pathview
   (package
     (name "r-pathview")
-    (version "1.32.0")
+    (version "1.34.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "pathview" version))
        (sha256
-        (base32 "1fank0qavv9ikmzxvms8mky2wbzny02rfqkvsqzma26r3vl4r1g1"))))
+        (base32 "1jdl81lvrsz03b1nws90nssf2clipipzaqvwm1pq57mvshnlnkjr"))))
     (properties `((upstream-name . "pathview")))
     (build-system r-build-system)
     (propagated-inputs
@@ -13699,14 +13762,14 @@ large-scale and fully automated analysis.")
 (define-public r-snpstats
   (package
     (name "r-snpstats")
-    (version "1.42.0")
+    (version "1.44.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "snpStats" version))
        (sha256
         (base32
-         "11vvih5y9kvyjfp2navkfpp4xiyfgwlv4r0x3p52hkj92pc2pg3g"))))
+         "0ha34b5cg26940xihgky45adns1nflrgq2qjq77w4bncxpaacsqq"))))
     (properties `((upstream-name . "snpStats")))
     (build-system r-build-system)
     (inputs `(("zlib" ,zlib)))
@@ -13726,14 +13789,14 @@ the earlier snpMatrix package, allowing for uncertainty in genotypes.")
 (define-public r-chromstar
   (package
     (name "r-chromstar")
-    (version "1.18.0")
+    (version "1.19.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "chromstaR" version))
        (sha256
         (base32
-         "09cqzylci4x4i7wn4ckcqhdlljbzfrp08wdvkkc5vrdldnj9pq5h"))))
+         "0z511l26fhz00qn8h2yybylk8c3ws8hj1hp8hq9qj9mfczwiqy3j"))))
     (properties `((upstream-name . "chromstaR")))
     (build-system r-build-system)
     (propagated-inputs
@@ -13764,14 +13827,14 @@ analyses.")
 (define-public r-guitar
   (package
     (name "r-guitar")
-    (version "2.8.0")
+    (version "2.10.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "Guitar" version))
        (sha256
         (base32
-         "1q4m6c5181dw12lvdp324jlk78c9jgcsg6b9hk87zjadp6j0gfr6"))))
+         "082yja4mmsq77sllv3c88agxjbb6jxwil2krb8fkfsijvyyx11c9"))))
     (properties `((upstream-name . "Guitar")))
     (build-system r-build-system)
     (propagated-inputs
@@ -13796,13 +13859,13 @@ starting site, start codon, stop codon and transcription ending site.")
 (define-public r-sushi
   (package
     (name "r-sushi")
-    (version "1.30.0")
+    (version "1.31.0")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "Sushi" version))
               (sha256
                (base32
-                "1m5l0nflhcynb3gz7b8qzvknb0s6xhds8z1yl3mbv8ic9qn2knv4"))))
+                "1cj4palsq99vnwihp6z9mw0f8w9qj2vq8zwnabf3bgg0l1wpsc7c"))))
     (properties `((upstream-name . "Sushi")))
     (build-system r-build-system)
     (propagated-inputs
@@ -13818,14 +13881,14 @@ visualizations for publication-quality multi-panel figures.")
 (define-public r-ballgown
   (package
     (name "r-ballgown")
-    (version "2.24.0")
+    (version "2.26.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "ballgown" version))
        (sha256
         (base32
-         "0ff8z4pfgzai2q4aafclg36bhsi9jwl9xhh1p9fqhmikisscq7i1"))))
+         "0fiky82arvgzgxrm4bqn74m5kngqpdaqf6ks4cr89nlnhfq0v6rf"))))
     (properties `((upstream-name . "ballgown")))
     (build-system r-build-system)
     (propagated-inputs
@@ -13852,14 +13915,14 @@ to annotation.")
 (define-public r-megadepth
   (package
     (name "r-megadepth")
-    (version "1.2.3")
+    (version "1.4.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "megadepth" version))
        (sha256
         (base32
-         "0grgj7bzyqnxby0sx5ic1h9bzmx19xwl0a5b3v6wbnwqcla2i3kg"))))
+         "0mg7n3990qv65rg624473ssccka0yjpgc20glrdc5saci891j44r"))))
     (properties `((upstream-name . "megadepth")))
     (build-system r-build-system)
     (inputs `(("megadepth" ,megadepth)))
@@ -13885,14 +13948,14 @@ regions or annotations of your choice from BigWig files.")
 (define-public r-beclear
   (package
     (name "r-beclear")
-    (version "2.8.0")
+    (version "2.10.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BEclear" version))
        (sha256
         (base32
-         "0w18livng2gcmjgvws7pix3gsnj237rs34sgwxsfmn8p5vfx8b30"))))
+         "1njb1lfd4wmsrfw06jc8z8vdk14nmcw9lwyvbxr7z1zg4h8v6c29"))))
     (properties `((upstream-name . "BEclear")))
     (build-system r-build-system)
     (propagated-inputs
@@ -13918,14 +13981,14 @@ real numbers.")
 (define-public r-bgeecall
   (package
     (name "r-bgeecall")
-    (version "1.8.0")
+    (version "1.10.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BgeeCall" version))
        (sha256
         (base32
-         "1byciy7vzbdkdgaim10s9qb7zlxsywbhcsrka31gm0rm9ljqc665"))))
+         "0rbbl8m48qcvl26lnf27jq108p7pi84m9ac3qcpjc0ax5wywbv16"))))
     (properties `((upstream-name . "BgeeCall")))
     (build-system r-build-system)
     (propagated-inputs
@@ -13954,14 +14017,14 @@ all RNA-Seq libraries of each species integrated in Bgee.")
 (define-public r-bgeedb
   (package
     (name "r-bgeedb")
-    (version "2.18.1")
+    (version "2.20.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BgeeDB" version))
        (sha256
         (base32
-         "1ziq180yfpdqwhjdzkwjjhwzn3kb0gkj6q0a26c7a30mcfb50w11"))))
+         "0pjymal01sjl5dc37g66wykgxnksarlbvwnbvhg7w0i7y92zavqk"))))
     (properties `((upstream-name . "BgeeDB")))
     (build-system r-build-system)
     (propagated-inputs
@@ -13988,14 +14051,14 @@ anatomical terms, mapped to genes by expression patterns.")
 (define-public r-biobtreer
   (package
     (name "r-biobtreer")
-    (version "1.4.0")
+    (version "1.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "biobtreeR" version))
        (sha256
         (base32
-         "0pynx4ps1qxsn13ba6zyg6h5dqlp2y7qish67m7sdjns079zh061"))))
+         "0m9gx2g5ishbbh7aqp09mpknhr7q1v5ap0s6xp6ccj01pz2gkk8s"))))
     (properties `((upstream-name . "biobtreeR")))
     (build-system r-build-system)
     (propagated-inputs
@@ -14015,14 +14078,14 @@ mappings functionalities.")
 (define-public r-minet
   (package
     (name "r-minet")
-    (version "3.50.0")
+    (version "3.52.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "minet" version))
        (sha256
         (base32
-         "0bir2zr4r2wawkdvdhrk2hcyxmgkrkfvx36jj85fcm24axlqrzzb"))))
+         "0nhgvgci4r9pjfsnvxyj2q8im1wvig4zmfx2kidw8f63x2ip2rbd"))))
     (properties `((upstream-name . "minet")))
     (build-system r-build-system)
     (propagated-inputs
@@ -14037,14 +14100,14 @@ information networks from data.")
 (define-public r-genetclassifier
   (package
     (name "r-genetclassifier")
-    (version "1.32.0")
+    (version "1.34.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "geNetClassifier" version))
        (sha256
         (base32
-         "1i1cavbbvxzqgqxfmikghnls18jrq12hb953mjrwa95lkhzdxm2d"))))
+         "1phyphdc1i55ab1a05633b0p41q8n7w0byp1plgcav2s3h8mk1km"))))
     (properties
      `((upstream-name . "geNetClassifier")))
     (build-system r-build-system)
@@ -14065,14 +14128,14 @@ interface to query the classifier.")
 (define-public r-dir-expiry
   (package
     (name "r-dir-expiry")
-    (version "1.0.0")
+    (version "1.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "dir.expiry" version))
        (sha256
         (base32
-         "05mk7iwzay1xrgvssbz7nyl5d1n03syalbk18lmjmbx05dy0cjik"))))
+         "1bwmlxmizhmim2l0mk406hxfr5mnmsg5zbqkjyygaipa971m9s00"))))
     (properties `((upstream-name . "dir.expiry")))
     (build-system r-build-system)
     (propagated-inputs `(("r-filelock" ,r-filelock)))
@@ -14089,14 +14152,14 @@ eliminating obsolete caches generated by old versions of packages.")
 (define-public r-basilisk-utils
   (package
     (name "r-basilisk-utils")
-    (version "1.4.0")
+    (version "1.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "basilisk.utils" version))
        (sha256
         (base32
-         "0qbm6rj6h059hakflbwz4j4f59311jhbk5dnpx11kyixh5pgjk7v"))))
+         "0578rq2yz24sv7anb7vp0a0y35944ag1l8ca6haanb03wl97wm99"))))
     (properties
      `((upstream-name . "basilisk.utils")))
     (build-system r-build-system)
@@ -14113,14 +14176,14 @@ package, primarily for creation of the underlying Conda instance.")
 (define-public r-basilisk
   (package
     (name "r-basilisk")
-    (version "1.4.0")
+    (version "1.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "basilisk" version))
        (sha256
         (base32
-         "1nzbn3f2jzvg3a3m6wgksi4cvamqas2q7csdk4ir7fcirasf536v"))))
+         "1cdkpngv9qybd9yxc3i2201p433vkkahs71v28x6lgs5l2wz3m1a"))))
     (properties `((upstream-name . "basilisk")))
     (build-system r-build-system)
     (propagated-inputs
@@ -14141,16 +14204,21 @@ Python environments in a single R session.")
 (define-public r-biocthis
   (package
     (name "r-biocthis")
-    (version "1.2.0")
+    (version "1.4.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "biocthis" version))
        (sha256
         (base32
-         "08awghsg7q22csb0j9dr8dpb1vkn9gcs9qnhhljxifkw2ahbqia4"))))
+         "0kh5lmv992v4r5r58x29403cll0zxr9fx4ar81nrzvnch5668v39"))))
     (properties `((upstream-name . "biocthis")))
     (build-system r-build-system)
+    (arguments
+     `(#:phases
+       (modify-phases %standard-phases
+         (add-after 'unpack 'set-HOME
+           (lambda _ (setenv "HOME" "/tmp"))))))
     (propagated-inputs
      `(("r-biocmanager" ,r-biocmanager)
        ("r-fs" ,r-fs)
@@ -14170,14 +14238,14 @@ Bioconductor-friendly.")
 (define-public r-biocdockermanager
   (package
     (name "r-biocdockermanager")
-    (version "1.4.0")
+    (version "1.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BiocDockerManager" version))
        (sha256
         (base32
-         "0dh1flm5chsdcihljrg6znjskqkp0qyjh39hsv4zq0frf1rm97j7"))))
+         "1kpdmpcngnl667bfffp9bkf8c31ipmhsncq0h9bf3a4k8b83pi0w"))))
     (properties
      `((upstream-name . "BiocDockerManager")))
     (build-system r-build-system)
@@ -14200,18 +14268,19 @@ the Bioconductor project.")
 (define-public r-biodb
   (package
     (name "r-biodb")
-    (version "1.0.4")
+    (version "1.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "biodb" version))
        (sha256
         (base32
-         "1apnbr5p619nsrhd2drm6arj69sw0wijv8ap7dfrndqkffrpbfmx"))))
+         "0q343zbx341xdy634p50k7bj6byv8v2rqzy50nw75a79206pajl4"))))
     (properties `((upstream-name . "biodb")))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-chk" ,r-chk)
+     `(("r-biocfilecache" ,r-biocfilecache)
+       ("r-chk" ,r-chk)
        ("r-jsonlite" ,r-jsonlite)
        ("r-lgr" ,r-lgr)
        ("r-lifecycle" ,r-lifecycle)
@@ -14244,14 +14313,14 @@ separate published packages.")
 (define-public r-biomformat
   (package
     (name "r-biomformat")
-    (version "1.20.0")
+    (version "1.22.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "biomformat" version))
        (sha256
         (base32
-         "1wgshkddxbmpsihpkm0dp7vqp59ns6iqbx574y80n2pxb8dx8sy9"))))
+         "0xf99j4lhf8kh9h1317hrbzxdv6rljs1fn68r8s40x6y4db3l817"))))
     (properties `((upstream-name . "biomformat")))
     (build-system r-build-system)
     (propagated-inputs
@@ -14276,14 +14345,14 @@ as extensions of common core functions/methods.")
 (define-public r-mvcclass
   (package
     (name "r-mvcclass")
-    (version "1.66.0")
+    (version "1.68.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "MVCClass" version))
        (sha256
         (base32
-         "1di7y10mr7caacd6igwxnr62cm4v1x877yi4a2i5jqz1058jqni7"))))
+         "088gzh33vjkjf78xczqfs89pyg0k7c3533yfvijqxl84ni2ky78z"))))
     (properties `((upstream-name . "MVCClass")))
     (build-system r-build-system)
     (home-page "https://bioconductor.org/packages/MVCClass")
@@ -14296,14 +14365,14 @@ design.")
 (define-public r-biomvcclass
   (package
     (name "r-biomvcclass")
-    (version "1.60.0")
+    (version "1.62.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BioMVCClass" version))
        (sha256
         (base32
-         "04pld93nffbci47dnf0awmcmhlfzv599ggcd7hvq78w41ac60qv8"))))
+         "0jqgazwz35gz11a7vzanyy2yalzalx0z0rw6y18nmk8dbv01nv2j"))))
     (properties `((upstream-name . "BioMVCClass")))
     (build-system r-build-system)
     (propagated-inputs
@@ -14321,14 +14390,14 @@ design.")
 (define-public r-biomvrcns
   (package
     (name "r-biomvrcns")
-    (version "1.32.0")
+    (version "1.34.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "biomvRCNS" version))
        (sha256
         (base32
-         "0wyzj422smr4m9mswzn9inc1sn86pnia7jmd6k28nd2a7fjyrm16"))))
+         "01nhjhfyzs67p97bk9bjqdxk239ckl8sgfj55azk1zmw92aw2hfy"))))
     (properties `((upstream-name . "biomvRCNS")))
     (build-system r-build-system)
     (propagated-inputs
@@ -14349,14 +14418,14 @@ using aCGH or sequencing.")
 (define-public r-bionero
   (package
     (name "r-bionero")
-    (version "1.0.4")
+    (version "1.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BioNERO" version))
        (sha256
         (base32
-         "1yj0pavyfrj2gsvaj1dkgmznibm2appxjx9rk5qjslhslmm5b05b"))))
+         "0ddrzv1g46hvm52dzrcj5nbyyw9a16cqk8zg20wnkrh3qw1h4d9p"))))
     (properties `((upstream-name . "BioNERO")))
     (build-system r-build-system)
     (propagated-inputs
@@ -14405,14 +14474,14 @@ networks.")
 (define-public r-bionet
   (package
     (name "r-bionet")
-    (version "1.52.0")
+    (version "1.54.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BioNet" version))
        (sha256
         (base32
-         "15rk1jfv4h1mxvr5bs0qmq6fdnza7zcmksigqxb46fs7f6znr3yi"))))
+         "05rj14jn4gn0hfn57amf19b8fqwkd3y2ji3mg7m1yg1w7n4qxqsg"))))
     (properties `((upstream-name . "BioNet")))
     (build-system r-build-system)
     (propagated-inputs
@@ -14438,14 +14507,14 @@ scoring subnetwork.")
 (define-public r-bionetstat
   (package
     (name "r-bionetstat")
-    (version "1.12.0")
+    (version "1.14.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BioNetStat" version))
        (sha256
         (base32
-         "16xlfng9m8xvm831c2x6zmjc0gavlfiy9pnza55hdv86888fcnbg"))))
+         "13br8x4809hrr4ibz6iy5qjza9j6cazmkpvfikvw6bs588csxwf8"))))
     (properties `((upstream-name . "BioNetStat")))
     (build-system r-build-system)
     (propagated-inputs
@@ -14480,14 +14549,14 @@ network and metabolic pathways view.")
 (define-public r-bioqc
   (package
     (name "r-bioqc")
-    (version "1.20.0")
+    (version "1.22.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BioQC" version))
        (sha256
         (base32
-         "04akp94p0d0zid55m1b1k3qlw7iq914pcg57lihgj3pa92n1sc5l"))))
+         "190336qk0plg79gzvfn6wfplsi8nq0nj8508g7m0w3z6bdgwy407"))))
     (properties `((upstream-name . "BioQC")))
     (build-system r-build-system)
     (propagated-inputs
@@ -14508,14 +14577,14 @@ optimised for high performance.")
 (define-public r-biotip
   (package
     (name "r-biotip")
-    (version "1.6.0")
+    (version "1.8.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "BioTIP" version))
        (sha256
         (base32
-         "1i6r8px0fmdjx8frpljppwql74mhx08ibvhs9y3qk91ck5h3f0js"))))
+         "0xmy5c4i9gf6d04gara6lbnnldqmzjaascb2pd2ih60jw2mvl4ys"))))
     (properties `((upstream-name . "BioTIP")))
     (build-system r-build-system)
     (propagated-inputs
@@ -14538,24 +14607,22 @@ help unravel disease regulatory trajectory.")
 (define-public r-biotmle
   (package
     (name "r-biotmle")
-    (version "1.16.0")
+    (version "1.18.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "biotmle" version))
        (sha256
         (base32
-         "01smkmbv40yprgrgi2gjnmi8ncqyrlkfdxsh33ki20amcx32nc7f"))))
+         "0p3iavf9059qa8qvfvqzskfc5gki3z0ivkkqdwg5anvf0wv2k47g"))))
     (properties `((upstream-name . "biotmle")))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-assertthat" ,r-assertthat)
        ("r-biocgenerics" ,r-biocgenerics)
        ("r-biocparallel" ,r-biocparallel)
-       ("r-dofuture" ,r-dofuture)
        ("r-dplyr" ,r-dplyr)
        ("r-drtmle" ,r-drtmle)
-       ("r-future" ,r-future)
        ("r-ggplot2" ,r-ggplot2)
        ("r-ggsci" ,r-ggsci)
        ("r-limma" ,r-limma)
@@ -14582,14 +14649,14 @@ ensemble machine learning for the estimation of nuisance functions.")
 (define-public r-bsseq
   (package
     (name "r-bsseq")
-    (version "1.28.0")
+    (version "1.30.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "bsseq" version))
        (sha256
         (base32
-         "1xpv85hr681kkkilsnasndkszwmzbzq11y0lff4na2ilsm7sqmmi"))))
+         "1i30zf6457a0qd64s89x9l544y1h0hj9rfgf1m8l4krd487a9b9d"))))
     (properties `((upstream-name . "bsseq")))
     (build-system r-build-system)
     (propagated-inputs
@@ -14628,14 +14695,14 @@ visualizing bisulfite sequencing data.")
 (define-public r-dmrseq
   (package
     (name "r-dmrseq")
-    (version "1.12.0")
+    (version "1.14.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "dmrseq" version))
        (sha256
         (base32
-         "1jbbjifjsnk9261wqmdwkbzj1w52g6vaanpk4w816ri0fap587m4"))))
+         "1d6y6rbvcgprmzqkdzxg5csf0yv845d9vw10pcd1pzyndrama1vd"))))
     (properties `((upstream-name . "dmrseq")))
     (build-system r-build-system)
     (propagated-inputs
@@ -14674,13 +14741,13 @@ interest on transformed methylation proportions.")
 (define-public r-omnipathr
   (package
     (name "r-omnipathr")
-    (version "3.0.4")
+    (version "3.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "OmnipathR" version))
        (sha256
-        (base32 "0rbq3h3cp5dgpy5ifmbnfm6z8w4jv45wjzyl1f4qacgrbyf2l30a"))))
+        (base32 "1q89mxnp8cig9r1499g7fb9p9x9ryz1dmc3w6ps5ww9n6rl8jqk8"))))
     (properties `((upstream-name . "OmnipathR")))
     (build-system r-build-system)
     (arguments
@@ -14690,6 +14757,7 @@ interest on transformed methylation proportions.")
            (lambda _ (setenv "HOME" "/tmp"))))))
     (propagated-inputs
      `(("r-checkmate" ,r-checkmate)
+       ("r-crayon" ,r-crayon)
        ("r-curl" ,r-curl)
        ("r-digest" ,r-digest)
        ("r-dplyr" ,r-dplyr)
@@ -14725,14 +14793,14 @@ for ligand activity prediction from transcriptomics data.")
 (define-public r-biscuiteer
   (package
     (name "r-biscuiteer")
-    (version "1.6.0")
+    (version "1.8.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "biscuiteer" version))
        (sha256
         (base32
-         "0f4kk4v2c5diq0fbvyvgwjd1kjk9izr6n9wfrlrr7wbx4pz3c3h6"))))
+         "16ds322b21g8ys5c3lkrvi70i82f9rxvnknbiqx4sp6f2l01j5yj"))))
     (properties `((upstream-name . "biscuiteer")))
     (build-system r-build-system)
     (propagated-inputs
@@ -14776,14 +14844,14 @@ estimates, etc.")
 (define-public r-tximeta
   (package
     (name "r-tximeta")
-    (version "1.10.0")
+    (version "1.12.0")
     (source
      (origin
        (method url-fetch)
        (uri (bioconductor-uri "tximeta" version))
        (sha256
         (base32
-         "0ipgpcl93cac4qff6lp9x2l3gav5kb1x1d56g32h09hlm797rvvh"))))
+         "03fbz6pka7bcbhd0bblgckyxsqhzp4n8qp2dcpdb3sr01lyw4bc5"))))
     (properties `((upstream-name . "tximeta")))
     (build-system r-build-system)
     (propagated-inputs
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 3ddb91714a..12533c9efa 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -528,14 +528,26 @@ BED, GFF/GTF, VCF.")
      '(#:test-target "test"
        #:phases
        (modify-phases %standard-phases
+         (add-after 'unpack 'compatibility
+           (lambda _
+             (substitute* "src/utils/fileType/FileRecordTypeChecker.h"
+               (("static const float PERCENTAGE")
+                "static constexpr float PERCENTAGE"))
+             (substitute* "src/utils/general/DualQueue.h"
+               (("template <class T, template<class T> class CompareFunc>")
+                "template <class T, template<class U> class CompareFunc>"))))
          (delete 'configure)
          (replace 'install
            (lambda* (#:key outputs #:allow-other-keys)
              (let ((bin (string-append (assoc-ref outputs "out") "/bin/")))
                (for-each (lambda (file)
                            (install-file file bin))
-                         (find-files "bin" ".*")))
-             #t)))))))
+                         (find-files "bin" ".*"))))))))
+    (native-inputs
+     `(("python" ,python-wrapper)))
+    (inputs
+     `(("samtools" ,samtools)
+       ("zlib" ,zlib)))))
 
 (define-public pbbam
   (package
diff --git a/gnu/packages/cdrom.scm b/gnu/packages/cdrom.scm
index 8faeedcfe9..76f713385b 100644
--- a/gnu/packages/cdrom.scm
+++ b/gnu/packages/cdrom.scm
@@ -419,16 +419,14 @@ or @command{xorrisofs} to create ISO 9660 images.")
 (define-public dvdisaster
   (package
     (name "dvdisaster")
-    (version "0.79.5")
+    (version "0.79.9")
     (source
      (origin
        (method url-fetch)
-       ;; Update this (and update HOME-PAGE) when/if one reappears.
-       (uri (string-append "https://web.archive.org/web/20180428070843/"
-                           "http://dvdisaster.net/downloads/dvdisaster-"
+       (uri (string-append "https://dvdisaster.jcea.es/downloads/dvdisaster-"
                            version ".tar.bz2"))
        (sha256
-        (base32 "0f8gjnia2fxcbmhl8b3qkr5b7idl8m855dw7xw2fnmbqwvcm6k4w"))))
+        (base32 "1hz3fvqfdrwb7dn6ggqkpcgyjag37ivm1layw27ncjz9glklxjbr"))))
     (build-system gnu-build-system)
     (inputs
      `(("gtk+" ,gtk+-2)))
@@ -447,8 +445,7 @@ or @command{xorrisofs} to create ISO 9660 images.")
              (with-directory-excursion "regtest"
                (substitute* "common.bash"
                  (("ISODIR=/var/tmp/regtest") "ISODIR=/tmp"))
-               (for-each invoke (find-files "." "rs.*\\.bash")))
-             #t))
+               (for-each invoke (find-files "." "rs.*\\.bash")))))
          (add-after 'install 'install-desktop
            (lambda* (#:key outputs #:allow-other-keys)
              (let* ((datadir (string-append (assoc-ref outputs "out") "/share")))
@@ -468,10 +465,13 @@ or @command{xorrisofs} to create ISO 9660 images.")
                 (find-files "contrib" "dvdisaster[0-9]*\\.png"))
                (mkdir-p (string-append datadir "/pixmaps"))
                (copy-file "contrib/dvdisaster48.xpm"
-                          (string-append datadir "/pixmaps/dvdisaster.xpm"))
-               #t))))))
-    (home-page (string-append "https://web.archive.org/web/20180428070843/"
-                              "http://dvdisaster.net/en/index.html"))
+                          (string-append datadir "/pixmaps/dvdisaster.xpm")))))
+         (add-after 'install 'remove-uninstall-script
+           (lambda* (#:key outputs #:allow-other-keys)
+             (let* ((out (assoc-ref outputs "out")))
+               (delete-file
+                (string-append out "/bin/dvdisaster-uninstall.sh"))))))))
+    (home-page "https://dvdisaster.jcea.es/")
     (synopsis "Error correcting codes for optical media images")
     (description "Optical media (CD,DVD,BD) keep their data only for a
 finite time (typically for many years).  After that time, data loss develops
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 0280a51be5..4c4530deb9 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -188,14 +188,14 @@ etc.")
 (define-public r-datawizard
   (package
     (name "r-datawizard")
-    (version "0.2.0.1")
+    (version "0.2.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "datawizard" version))
        (sha256
         (base32
-         "15q491qix4a9b10wkb5bm9jnnr62smjw4qdrw4bd51i1kgvd6kl5"))))
+         "062phzfcvn79npn4s58gz1m5ignyvr4q2zlqnyxla4p7l760djl9"))))
     (properties `((upstream-name . "datawizard")))
     (build-system r-build-system)
     (propagated-inputs
@@ -213,14 +213,14 @@ wrangling backend for the packages in the @code{easystats} ecosystem.")
 (define-public r-diffobj
   (package
     (name "r-diffobj")
-    (version "0.3.4")
+    (version "0.3.5")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "diffobj" version))
        (sha256
         (base32
-         "1z4yhfasjpi9rxl1lh9bny7yvs947a6hhc768azc1wwad748mk9q"))))
+         "0q6gwd9pqh41f6j5p9jl92aji4p8kx9inffpha93d7jc3ndsfq6q"))))
     (properties `((upstream-name . "diffobj")))
     (build-system r-build-system)
     (propagated-inputs `(("r-crayon" ,r-crayon)))
@@ -1233,13 +1233,13 @@ single step.")
 (define-public r-rvest
   (package
     (name "r-rvest")
-    (version "1.0.1")
+    (version "1.0.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "rvest" version))
        (sha256
-        (base32 "1v99bpp2077s4y5phvkzpgjyr8cs9axifm1c3npw6jmh8x9j91h8"))))
+        (base32 "1905vxgnj3q09l1wf6rwxpbpydznp06nbkrclnc05j2415z4gfw9"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-httr" ,r-httr)
@@ -1686,13 +1686,13 @@ applications.")
 (define-public r-htmltable
   (package
     (name "r-htmltable")
-    (version "2.2.1")
+    (version "2.3.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "htmlTable" version))
        (sha256
-        (base32 "05zy9acx4s80dr880q69i4rcjqgmbz18gn7pyazda9gsnm981j96"))))
+        (base32 "0xx5fza40six81mkfjsja6a8j6cg1mlzg0cxfgv084riyq79l387"))))
     (properties `((upstream-name . "htmlTable")))
     (build-system r-build-system)
     (propagated-inputs
@@ -1973,14 +1973,14 @@ language, which is stable, powerful, and CSS compatible.")
 (define-public r-bslib
   (package
     (name "r-bslib")
-    (version "0.3.0")
+    (version "0.3.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "bslib" version))
        (sha256
         (base32
-         "0zfjavz5jw4lfbrmc3rgsivcrxq2ia9jwmfbcrdxnxlmyri8qinr"))
+         "0jcqklry1nkibz0sydsz5xdsnb4wnrrhvmyr9ji3k45bbipbap2z"))
        (snippet
         '(for-each delete-file
                    '("inst/lib/bs-a11y-p/plugins/js/bootstrap-accessibility.min.js"
@@ -2263,36 +2263,35 @@ supports interactive trees, to enable rich, editable trees in Shiny.")
 (define-public r-shinydashboard
   (package
     (name "r-shinydashboard")
-    (version "0.7.1")
+    (version "0.7.2")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "shinydashboard" version))
               (sha256
                (base32
-                "0khac8b27q3swdw07kl609hm0fjfjsjv591b388q99mqqr2rk92i"))))
+                "0hrqkwlpb8rnmp5j74p134g4c4cl16icmwc2ip6k1634fa2y8vm5"))))
     (build-system r-build-system)
     ;; The directory inst/AdminLTE/ contains a minified JavaScript file.
     ;; Regenerate it from the included sources.
     (arguments
-     `(#:modules ((guix build utils)
-                  (guix build r-build-system)
-                  (ice-9 popen))
-       #:phases
+     `(#:phases
        (modify-phases %standard-phases
          (add-after 'unpack 'generate-minified-javascript
            (lambda _
              (with-directory-excursion "inst/AdminLTE"
-               (delete-file "app.min.js")
-               (let ((minified (open-pipe* OPEN_READ "uglifyjs" "app.js")))
-                 (call-with-output-file "app.min.js"
-                   (lambda (port)
-                     (dump-port minified port))))))))))
+               (let ((target "app.min.js")
+                     (source "app.js"))
+                 (format #t "Processing ~a --> ~a~%"
+                         source target)
+                 (delete-file target)
+                 (invoke "esbuild" source "--minify"
+                         (string-append "--outfile=" target)))))))))
     (propagated-inputs
      `(("r-htmltools" ,r-htmltools)
        ("r-promises" ,r-promises)
        ("r-shiny" ,r-shiny)))
     (native-inputs
-     `(("uglifyjs" ,node-uglify-js)))
+     `(("esbuild" ,esbuild)))
     (home-page "https://rstudio.github.io/shinydashboard/")
     (synopsis "Create dashboards with shiny")
     (description "This package provides an extension to the Shiny web
@@ -2798,14 +2797,14 @@ coordinates.")
 (define-public r-geosphere
   (package
     (name "r-geosphere")
-    (version "1.5-10")
+    (version "1.5-14")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "geosphere" version))
        (sha256
         (base32
-         "15xlgsmn0vwky1l13n6acdz6jn2b2na3gf6x367y3qh1f5w4zkan"))))
+         "0bg4vfmrw140j2ax0p6bflvb77w03ir39wa87l96rj473jpa9hzj"))))
     (build-system r-build-system)
     (propagated-inputs `(("r-sp" ,r-sp)))
     (home-page "https://cran.r-project.org/web/packages/geosphere")
@@ -3213,14 +3212,14 @@ is configured appropriately so R can use them.")
 (define-public r-pkgload
   (package
     (name "r-pkgload")
-    (version "1.2.2")
+    (version "1.2.3")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "pkgload" version))
        (sha256
         (base32
-         "0yxvik8kij0mqlki46hf6xnbfvmxwk0r2a3zwjpg0fwcd2s835a8"))))
+         "0jdkaj5cl0viy0i0hkcm4n2wlg1mfv3camr7f385njfararfanhh"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-cli" ,r-cli)
@@ -4249,14 +4248,14 @@ functions from LINPACK.")
 (define-public r-fitdistrplus
   (package
     (name "r-fitdistrplus")
-    (version "1.1-5")
+    (version "1.1-6")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "fitdistrplus" version))
        (sha256
         (base32
-         "1p9rvvh05zqb9vzhcyzdh7i8lbmb53nj8nyn0gqcmp7wafg9cd1f"))))
+         "1glnbcm1gghzgvzpxcfsmn7dp2f9jqyx39n3ydwp9fx38409khhp"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-mass" ,r-mass)
@@ -4611,14 +4610,14 @@ the RMariaDB package.")
 (define-public r-rpostgresql
   (package
     (name "r-rpostgresql")
-    (version "0.7")
+    (version "0.7-3")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "RPostgreSQL" version))
        (sha256
         (base32
-         "1bqfdbs09f65ssc6bx4z3kkmia8ja6qbnijxizw63p0fbcakq2q4"))))
+         "1fbixmnjp1kh6yiv8zhg8zi5ryvdf5j2jxv4agq5gcxf541s3g5x"))))
     (properties `((upstream-name . "RPostgreSQL")))
     (build-system r-build-system)
     (inputs
@@ -4890,14 +4889,14 @@ provides a one-row summary of model-level statistics.")
 (define-public r-recipes
   (package
     (name "r-recipes")
-    (version "0.1.16")
+    (version "0.1.17")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "recipes" version))
        (sha256
         (base32
-         "1mayfdbn6q775d4gbdjrrhdbmpsxga57kwh0h7bwv8rk0vmvik23"))))
+         "0gbdc5kvbn14s5zrf4vrdjvkfajs00p7vvb433ii0lqnl07bl87d"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-dplyr" ,r-dplyr)
@@ -4916,6 +4915,7 @@ provides a one-row summary of model-level statistics.")
        ("r-tidyr" ,r-tidyr)
        ("r-tidyselect" ,r-tidyselect)
        ("r-timedate" ,r-timedate)
+       ("r-vctrs" ,r-vctrs)
        ("r-withr" ,r-withr)))
     (native-inputs
      `(("r-knitr" ,r-knitr)))
@@ -5160,14 +5160,14 @@ clustered data.")
 (define-public r-mitml
   (package
     (name "r-mitml")
-    (version "0.4-2")
+    (version "0.4-3")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "mitml" version))
        (sha256
         (base32
-         "0zrmchsk012linw3m5rda6hj8xpxpwzbf4alq0nc1pzvl99aa558"))))
+         "00i18nnvrdrg91crgcp2a431xs71cawaip3xkqk2myv0iav3xga9"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-haven" ,r-haven)
@@ -5446,14 +5446,14 @@ where possible.")
 (define-public r-laeken
   (package
     (name "r-laeken")
-    (version "0.5.1")
+    (version "0.5.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "laeken" version))
        (sha256
         (base32
-         "199rjkhjjygpr6cjzab87as46acb5npi44m4yycvk7lnd0blma8s"))))
+         "1p3ccbaydlr52p8qmgmm2l6kryvq6jjjx7mqn2vv0gpjaxqhyy92"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-boot" ,r-boot)
@@ -5468,14 +5468,14 @@ modeling for empirical income distributions.")
 (define-public r-vcd
   (package
     (name "r-vcd")
-    (version "1.4-8")
+    (version "1.4-9")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "vcd" version))
        (sha256
         (base32
-         "030yyhpzsj4ivwrla7p9kgvmyjh6b8fr7czf678ykxjj64ccnvr3"))))
+         "13sn77qdcyll9lz7nab0bxzfvpgj8f5rl2cq5ylpz8pibynj1d55"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-colorspace" ,r-colorspace)
@@ -5754,14 +5754,14 @@ timeout.  It can also poll several processes at once.")
 (define-public r-tsp
   (package
     (name "r-tsp")
-    (version "1.1-10")
+    (version "1.1-11")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "TSP" version))
        (sha256
         (base32
-         "0z1v6m0vqjzxc4az3zyjaayygx0jr3mdmc56jjd421iqh0b9z5s4"))))
+         "0gdwxbj2gria7jhsswmfvc32r43sdd63z3lyy21gbvmfcakvb8j9"))))
     (properties `((upstream-name . "TSP")))
     (build-system r-build-system)
     (propagated-inputs `(("r-foreach" ,r-foreach)))
@@ -5841,14 +5841,14 @@ Markdown documents.")
 (define-public r-seriation
   (package
     (name "r-seriation")
-    (version "1.3.0")
+    (version "1.3.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "seriation" version))
        (sha256
         (base32
-         "1vl0zfdvxdccvda8lwkjhg5rivj2q5gjm4qvkqwny6asm06x80ny"))))
+         "08c37n3xxc4n4vbkw38k3l3hdlmck8drqpl6z274vkgi2sqv8qyf"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-cluster" ,r-cluster)
@@ -5873,13 +5873,13 @@ iVAT).")
 (define-public r-xfun
   (package
     (name "r-xfun")
-    (version "0.26")
+    (version "0.27")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "xfun" version))
        (sha256
-        (base32 "1997s00dzkyj15xk9w1r2h6i49srpgqzvhhyvd5pk1kwkd4809ly"))))
+        (base32 "11alh3kasiizfar0f667m5sj3s5443fggjv0541ghmxwlqrvyxf7"))))
     (build-system r-build-system)
     ;; knitr itself depends on xfun
     #;
@@ -5977,14 +5977,14 @@ to variables on the left-hand side of the assignment.")
 (define-public r-pillar
   (package
     (name "r-pillar")
-    (version "1.6.3")
+    (version "1.6.4")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "pillar" version))
        (sha256
         (base32
-         "1ica4zjr3kmcpqh2668nmsv5dbvm4yri5952vcxja4djsgfnry3j"))))
+         "17m13rzgwdddwa0n3gpmax6wmfaphbg71l13ffhw5vnxf6i94fh3"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-cli" ,r-cli)
@@ -6046,14 +6046,14 @@ packages that work with genomic data.")
 (define-public r-tinytex
   (package
     (name "r-tinytex")
-    (version "0.33")
+    (version "0.34")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "tinytex" version))
        (sha256
         (base32
-         "10lqn704dqv5k5v6y964l8c77rwy4ilrc1hcb99j4vxpx3p4nd43"))))
+         "16z6v06pmvg02rbxkqyiidasg1dryy759zabnqjw6y85nybr618x"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-xfun" ,r-xfun)))
@@ -6340,14 +6340,14 @@ provides some missing S-PLUS functionality in R.")
 (define-public r-ifultools
   (package
     (name "r-ifultools")
-    (version "2.0-22")
+    (version "2.0-23")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "ifultools" version))
        (sha256
         (base32
-         "0f95vqc47dgssqngznk0rclr72ndbyxc7gdq2cmbksvq7qpn3gg1"))))
+         "16a7rbvlym3bnfm93ikr5kl0l86ppk0s41fva6idvcx765g3fqkk"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-mass" ,r-mass)
@@ -6796,14 +6796,14 @@ powerful and convenient features.")
 (define-public r-heatmaply
   (package
     (name "r-heatmaply")
-    (version "1.2.1")
+    (version "1.3.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "heatmaply" version))
        (sha256
         (base32
-         "0hspfkninwy62sf8gkdcsvwnvl66bbnjs2dpah9rr95a3rsgdp9d"))))
+         "1w8yyzb68laxd4zxycvgmpqj5wnyidjgv1vbzbxndp9p92f2cp8a"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-assertthat" ,r-assertthat)
@@ -7920,14 +7920,14 @@ Python's @url{https://github.com/ActiveState/appdirs,Appdirs} to R.")
 (define-public r-rastervis
   (package
     (name "r-rastervis")
-    (version "0.50.3")
+    (version "0.51.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "rasterVis" version))
        (sha256
         (base32
-         "10njks2kwyh5rp2b6sf2hffxzzwwhskb8m98l73p8yrvsdri1gyj"))))
+         "1gkn5na7cspnh3qpmi4k5n65crmp8c2s106g8hh51lsdvm5369aj"))))
     (properties `((upstream-name . "rasterVis")))
     (build-system r-build-system)
     (propagated-inputs
@@ -8549,14 +8549,14 @@ functions.")
 (define-public r-rjags
   (package
     (name "r-rjags")
-    (version "4-11")
+    (version "4-12")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "rjags" version))
        (sha256
         (base32
-         "0vs86jji4h26y8aczy8r08jiq7ax0idlrm87mmvaa5sxlqmqa705"))))
+         "041y4zfr50y96g0kl857jcba0a3gpdpk8qfn9fj8zxzbz71k87xr"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-coda" ,r-coda)))
@@ -8575,14 +8575,14 @@ hierarchical models using Markov Chain Monte Carlo (MCMC) simulation.")
 (define-public r-rbibutils
   (package
     (name "r-rbibutils")
-    (version "2.2.3")
+    (version "2.2.4")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "rbibutils" version))
        (sha256
         (base32
-         "1rzc2icik26qlnrbq58c24lc9m0grl83p0hyr70whallqfipa174"))))
+         "15yyihk0dgz3yyqz28r5nc6m99zcywpabnabf18phbs7rb87p7mv"))))
     (properties `((upstream-name . "rbibutils")))
     (build-system r-build-system)
     (home-page "https://geobosh.github.io/rbibutils/")
@@ -8709,14 +8709,14 @@ reduced-bias estimates.")
 (define-public r-entropy
   (package
     (name "r-entropy")
-    (version "1.3.0")
+    (version "1.3.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "entropy" version))
        (sha256
         (base32
-         "0fhhsy8ci9c73xwr2b167dfix0b7kqsk6kf46qqv1lmvbv11vxqa"))))
+         "1f0j8jsn6pzf4gi5g0akixx6x5vc69ci5f4m2vnwp40frvsqjnkg"))))
     (properties `((upstream-name . "entropy")))
     (build-system r-build-system)
     (home-page "https://www.strimmerlab.org/software/entropy/")
@@ -8849,14 +8849,14 @@ other add-on packages.")
 (define-public r-insight
   (package
     (name "r-insight")
-    (version "0.14.4")
+    (version "0.14.5")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "insight" version))
        (sha256
         (base32
-         "0h63nr337zbczbj9izyb7g5dlzwail5w70hbbn45paq6vybkqks3"))))
+         "10kc72g2hfsiipba4kalda1wxsb01nq2ax2yim386bkk0vjszwfx"))))
     (build-system r-build-system)
     (native-inputs
      `(("r-knitr" ,r-knitr)))
@@ -8985,14 +8985,14 @@ functions.")
 (define-public r-flextable
   (package
     (name "r-flextable")
-    (version "0.6.8")
+    (version "0.6.9")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "flextable" version))
        (sha256
         (base32
-         "1b4hyrarxbk4d1ma5gy162b13nm5r5ysi049bxgcfim50rh40igs"))))
+         "15lba98wnci2nsndj86gx3k94q9lfxhp5nr5xlhgcnycyj1c9zjx"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-base64enc" ,r-base64enc)
@@ -9137,14 +9137,14 @@ matches version and feature constraints.")
 (define-public r-argparse
   (package
     (name "r-argparse")
-    (version "2.1.1")
+    (version "2.1.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "argparse" version))
        (sha256
         (base32
-         "1k6v35g3bppcr896h4v39zh1sxxia1bxxh29xv0mhad1nvmv25j9"))))
+         "1cz5qlxw3v8smd5vb00wlzy02mx5i0infm5hnq55hnakffd3b5wr"))))
     (build-system r-build-system)
     (inputs `(("python" ,python)))
     (propagated-inputs
@@ -9370,14 +9370,14 @@ bootstrap.  Confidence intervals can be computed for (p)AUC or ROC curves.")
 (define-public r-rootsolve
   (package
     (name "r-rootsolve")
-    (version "1.8.2.2")
+    (version "1.8.2.3")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "rootSolve" version))
        (sha256
         (base32
-         "1p7nh09g2815vqpvi6c5vvjshkwjn00nx5d3gdyjs304q5312q0a"))))
+         "182bb727sgqi5f3pzmw8jnn328wdjrgj9lfvg49gv8s22rjd3cxm"))))
     (properties `((upstream-name . "rootSolve")))
     (build-system r-build-system)
     (native-inputs `(("gfortran" ,gfortran)))
@@ -9446,13 +9446,13 @@ based on index arrays and simple triplet representations, respectively.")
 (define-public r-manipulatewidget
   (package
     (name "r-manipulatewidget")
-    (version "0.11.0")
+    (version "0.11.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "manipulateWidget" version))
        (sha256
-        (base32 "0iysgl6ab8fvg1xxdx6hr3swqwbkfqzjkk4x5sbvmawbl2a395gj"))))
+        (base32 "1dpgzmiv08afm57yxr017b014lfn9h3pa4w65prk5k3dgn6p4wsv"))))
     (properties
      `((upstream-name . "manipulateWidget")))
     (build-system r-build-system)
@@ -9549,14 +9549,14 @@ from the @code{stats} package (plus some extra parameters).")
 (define-public r-cmplot
   (package
     (name "r-cmplot")
-    (version "3.6.2")
+    (version "3.7.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "CMplot" version))
        (sha256
         (base32
-         "13y05j5gsdc712fn7yvcz5nx2pbcdvl201hfb6jzpvl86qx2l0j1"))))
+         "0d6ww8pdrawdg5acbhiyi2jpmapf2ghixy9mi4kmsq8yg36pksfh"))))
     (properties `((upstream-name . "CMplot")))
     (build-system r-build-system)
     (home-page "https://github.com/YinLiLin/CMplot")
@@ -9981,14 +9981,14 @@ data with multiple data types.")
 (define-public r-qualv
   (package
     (name "r-qualv")
-    (version "0.3-3")
+    (version "0.3-4")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "qualV" version))
        (sha256
         (base32
-         "1yyqk223ydcc0125gsn33a4mcdp8bd76fpn8kj9bfz9g78b8dqmx"))))
+         "0rkjzva2h158d5c631jmjjh7qjibbyisl0503san80rk9fgxl45b"))))
     (properties `((upstream-name . "qualV")))
     (build-system r-build-system)
     (propagated-inputs
@@ -10121,18 +10121,19 @@ used to teach mathematics, statistics, computation and modeling.")
 (define-public r-raster
   (package
     (name "r-raster")
-    (version "3.4-13")
+    (version "3.5-2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "raster" version))
        (sha256
         (base32
-         "120k4bkgwddrx8ijgdhsgjz8g8dxcwp9bx3kfzrhw00q1b289hir"))))
+         "0wixw1ixnmcmkwczpj8m90c76727zira2rl4ighashggydkm2mlr"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-rcpp" ,r-rcpp)
-       ("r-sp" ,r-sp)))
+       ("r-sp" ,r-sp)
+       ("r-terra" ,r-terra)))
     (home-page "https://www.rspatial.org/")
     (synopsis "Geographic data analysis and modeling")
     (description
@@ -11013,13 +11014,13 @@ series.")
 (define-public r-acceptancesampling
   (package
     (name "r-acceptancesampling")
-    (version "1.0-6")
+    (version "1.0-7")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "AcceptanceSampling" version))
        (sha256
-        (base32 "1z3rmln63ki2kik9kinbwr9qhr32ggbmh4mm3xqy6di119n47ca9"))))
+        (base32 "13k3zczjycw24n5yp0qmrm233id5j8h6fvra57f1n6js7ljxiiq2"))))
     (properties
      `((upstream-name . "AcceptanceSampling")))
     (build-system r-build-system)
@@ -11111,19 +11112,21 @@ cross-sectional, time series, clustered, panel, and longitudinal data.")
 (define-public r-th-data
   (package
     (name "r-th-data")
-    (version "1.0-10")
+    (version "1.1-0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "TH.data" version))
        (sha256
         (base32
-         "0mgz7aj2d9abbmdr65zgmg1ddp3fdbs3mfj83r5xadh5ldkir2k1"))))
+         "0ghihfpk5d8gsdlzf6phw7dwwz3adx64pxk82vlmlqx53ljpxcr1"))))
     (properties `((upstream-name . "TH.data")))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-mass" ,r-mass)
        ("r-survival" ,r-survival)))
+    (native-inputs
+     `(("r-knitr" ,r-knitr)))
     (home-page "https://cran.r-project.org/web/packages/TH.data/")
     (synopsis "Shared data sets")
     (description
@@ -11162,20 +11165,19 @@ Hothorn, Westfall, 2010, CRC Press).")
 (define-public r-emmeans
   (package
     (name "r-emmeans")
-    (version "1.6.3")
+    (version "1.7.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "emmeans" version))
        (sha256
         (base32
-         "1mwcq3hvpx04qnn5k0bv1mikjgm9mk6m83i8hj350s1c1a0mi40n"))))
+         "1ig94mjifhhygznv2xv1gl8hdvk618w5fcmkaj1xmpwpc64m9dnl"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-estimability" ,r-estimability)
        ("r-mvtnorm" ,r-mvtnorm)
        ("r-numderiv" ,r-numderiv)
-       ("r-plyr" ,r-plyr)
        ("r-xtable" ,r-xtable)))
     (native-inputs
      `(("r-knitr" ,r-knitr)))
@@ -11213,13 +11215,13 @@ Cohen (1988).")
 (define-public r-libcoin
   (package
     (name "r-libcoin")
-    (version "1.0-8")
+    (version "1.0-9")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "libcoin" version))
        (sha256
-        (base32 "0izgnr4zdrbz3a05b0s28xfly4izp2zslgh282l9ads4skrmj3hl"))))
+        (base32 "1syrcdj5qg5m3zd3dlxgpfklswbalfg42w058dr09hnzqsvx0z9d"))))
     (build-system r-build-system)
     (propagated-inputs `(("r-mvtnorm" ,r-mvtnorm)))
     (home-page "https://cran.r-project.org/web/packages/libcoin")
@@ -11232,14 +11234,14 @@ and permutation inference in the framework of Strasser and Weber (1999).")
 (define-public r-coin
   (package
     (name "r-coin")
-    (version "1.4-1")
+    (version "1.4-2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "coin" version))
        (sha256
         (base32
-         "15xvhnbyg34aacn6jfz4bsa1f7wq2ci0hslj8mgymql90k50x1qi"))))
+         "1cpv7jx840inzg98bkhrb5yscx0gpag6br237r5qpnc2gbrd2ikm"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-libcoin" ,r-libcoin)
@@ -11294,14 +11296,14 @@ Bayesian modeling.")
 (define-public r-tmb
   (package
     (name "r-tmb")
-    (version "1.7.21")
+    (version "1.7.22")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "TMB" version))
        (sha256
         (base32
-         "1lf9vf28l48xhw2irxfxl4vsqzj7skzblydw32p18zddzpapl0z9"))))
+         "116k7ffgadhkqq4lckfd4403qvybcls1hcs1ap1b7lkylghjahf2"))))
     (properties `((upstream-name . "TMB")))
     (build-system r-build-system)
     (propagated-inputs
@@ -11426,14 +11428,14 @@ ROPE percentage and pd).")
 (define-public r-performance
   (package
     (name "r-performance")
-    (version "0.7.3")
+    (version "0.8.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "performance" version))
        (sha256
         (base32
-         "03qdsdl4x3hwqlbs7hlqb73xypd13p5zj519y0zcydqkf25391sp"))))
+         "1xjjnhqmwfflm5yfgjhycjn0fj0manvsvkk2ppifn0373bajp5n2"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-bayestestr" ,r-bayestestr)
@@ -11484,20 +11486,22 @@ results using @code{ggplot2}.")
 (define-public r-effectsize
   (package
     (name "r-effectsize")
-    (version "0.4.5")
+    (version "0.5")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "effectsize" version))
        (sha256
         (base32
-         "0rp0r75p8q467lmrsr1gl9wjpib9jz7ksx5rm6c7q2lfg9b9zrjf"))))
+         "0w7m3hzmwral9cycpvknrkbdvgk230b3vg5sxbm84x72mw534hnh"))))
     (properties `((upstream-name . "effectsize")))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-bayestestr" ,r-bayestestr)
+       ("r-datawizard" ,r-datawizard)
        ("r-insight" ,r-insight)
-       ("r-parameters" ,r-parameters)))
+       ("r-parameters" ,r-parameters)
+       ("r-performance" ,r-performance)))
     (native-inputs
      `(("r-knitr" ,r-knitr)))
     (home-page "https://github.com/easystats/effectsize")
@@ -11749,14 +11753,14 @@ User credentials are shared with command line git through the
 (define-public r-usethis
   (package
     (name "r-usethis")
-    (version "2.0.1")
+    (version "2.1.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "usethis" version))
        (sha256
         (base32
-         "1j6nzzrm2m6vi1gq0d5kxnnr9d8cy88wpmgigz3inych65x9w9pg"))))
+         "1s40rbr2z9bilsldp8pv5abrr7n0ixyxi2qqbf4hfhs14rhigncy"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-cli" ,r-cli)
@@ -11764,6 +11768,7 @@ User credentials are shared with command line git through the
        ("r-crayon" ,r-crayon)
        ("r-curl" ,r-curl)
        ("r-desc" ,r-desc)
+       ("r-ellipsis" ,r-ellipsis)
        ("r-fs" ,r-fs)
        ("r-gert" ,r-gert)
        ("r-gh" ,r-gh)
@@ -11813,14 +11818,14 @@ more information about packages, and where they were installed from.")
 (define-public r-remotes
   (package
     (name "r-remotes")
-    (version "2.4.0")
+    (version "2.4.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "remotes" version))
        (sha256
         (base32
-         "048lihmwksl72fg4fdmhihblj9ipxl22x9wfpgwsbsv79zjc7rfd"))))
+         "0xij8x4ga0r7rp2lxx9hw1zlzv48mfg56v8nf03gsw0dw6r7gmym"))))
     (build-system r-build-system)
     (native-inputs
      `(("r-knitr" ,r-knitr)))
@@ -11857,19 +11862,19 @@ directories or URLs with their associated programs.")
 (define-public r-rcmdcheck
   (package
     (name "r-rcmdcheck")
-    (version "1.3.3")
+    (version "1.4.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "rcmdcheck" version))
        (sha256
         (base32
-         "1d4kzgfqy72r6b7bn1j4znyksrycgypx1jjvpv9lrmvn37mpkdhs"))))
+         "1l696byn3kjq2xvz4wxybzaj6ink85h4lz3a35v2132ba5yyzm5v"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-callr" ,r-callr)
        ("r-cli" ,r-cli)
-       ("r-crayon" ,r-crayon)
+       ("r-curl" ,r-curl)
        ("r-desc" ,r-desc)
        ("r-digest" ,r-digest)
        ("r-pkgbuild" ,r-pkgbuild)
@@ -12066,13 +12071,13 @@ and related methods.")
 (define-public r-rcppgsl
   (package
     (name "r-rcppgsl")
-    (version "0.3.9")
+    (version "0.3.10")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "RcppGSL" version))
        (sha256
-        (base32 "0zhfkn3w5q2k2ggizrikz9an8hm90g6mr60paq0z8xgp5hpkrlk6"))))
+        (base32 "0lalz51q31qqy0cr227vc3msi0h47p111lzy4zs93drgl1yhh4l6"))))
     (properties `((upstream-name . "RcppGSL")))
     (build-system r-build-system)
     (propagated-inputs
@@ -12497,14 +12502,14 @@ to colexicographical order.")
 (define-public r-misc3d
   (package
     (name "r-misc3d")
-    (version "0.9-0")
+    (version "0.9-1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "misc3d" version))
        (sha256
         (base32
-         "10jf5r1x588vi54bzaqgi9mgcqlkiga2c3jvmqmk3lavc8fjksd1"))))
+         "0r9x57s63kx9f6dgam2nhbziq8nrs9wd8pk7g76hds2kw46vnyx0"))))
     (build-system r-build-system)
     (home-page "https://cran.r-project.org/web/packages/misc3d/")
     (synopsis "Miscellaneous 3D Plots")
@@ -12576,19 +12581,18 @@ features (e.g. local modes).")
 (define-public r-arm
   (package
     (name "r-arm")
-    (version "1.11-2")
+    (version "1.12-2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "arm" version))
        (sha256
         (base32
-         "1grb27vayr2vhyalzfqbhx6p278r7c3l4pzi5nrz3dmnyqrbx1c3"))))
+         "0pagrc1vkaz460d0lvrgb4xj6gcd920f4mrc8zpzw07c3v1s2sw1"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-abind" ,r-abind)
        ("r-coda" ,r-coda)
-       ("r-hmisc" ,r-hmisc)
        ("r-lme4" ,r-lme4)
        ("r-mass" ,r-mass)
        ("r-matrix" ,r-matrix)
@@ -12759,14 +12763,14 @@ Anderson-Darling Distribution\".")
 (define-public r-sodium
   (package
     (name "r-sodium")
-    (version "1.1")
+    (version "1.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "sodium" version))
        (sha256
         (base32
-         "1zxzi8xvxnhgcd5qrylf08nz1cdq3aslrswjas440qg63ypmbf6w"))))
+         "0x4jb3cf1nv1spz1jc9xp8hly2b4a7nj48xr4s33jnfcpdjkmn5q"))))
     (properties `((upstream-name . "sodium")))
     (build-system r-build-system)
     (inputs
@@ -13015,13 +13019,13 @@ manipulate tree data.")
 (define-public r-rvcheck
   (package
     (name "r-rvcheck")
-    (version "0.2.0")
+    (version "0.2.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "rvcheck" version))
        (sha256
-        (base32 "09gx29q882vh4q1qbb8z8lc3pgmpn7bk8skzcm85mrf3x3vgvkpa"))))
+        (base32 "09khjklvzbafd7r55496by01a9g3y291d87hpy43w44dmz9fzn9a"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-biocmanager" ,r-biocmanager)
@@ -13502,13 +13506,13 @@ creating color scales and calculating color distances.")
 (define-public r-ore
   (package
     (name "r-ore")
-    (version "1.6.3")
+    (version "1.7.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "ore" version))
        (sha256
-        (base32 "1vh6w3arrhgkfjjjw7ci91xmz4wpfr3cmwd5zkqch89dgn07skkv"))))
+        (base32 "0qhbv7bynisr0prv7h0yxsxff7qdxfqza7i06xi4vn360kxx6w9g"))))
     (build-system r-build-system)
     (home-page "https://github.com/jonclayden/ore")
     (synopsis "R interface to the Onigmo regular expression library")
@@ -13573,14 +13577,14 @@ handling.")
 (define-public r-grimport
   (package
     (name "r-grimport")
-    (version "0.9-3")
+    (version "0.9-4")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "grImport" version))
        (sha256
         (base32
-         "109mrdvq06xq3zgn9ngz0c7zzgqkv5zbpvsb2i636vmlk6y4dpkd"))))
+         "0y9lsvfp1350das5v5d5pkv10z0n1crc7k4zn9inr94f9s4kjjr5"))))
     (properties `((upstream-name . "grImport")))
     (build-system r-build-system)
     (inputs
@@ -13935,14 +13939,14 @@ limitations\" using the GNU Multiple Precision library.")
 (define-public r-rmpfr
   (package
     (name "r-rmpfr")
-    (version "0.8-4")
+    (version "0.8-5")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "Rmpfr" version))
        (sha256
         (base32
-         "0xaqbgkpnjg53zcp56c59cz5dh3jvvwqnzvyxqzy77c6yvkwy3hx"))))
+         "1a37zaahcyccb5kgad98z4dh9n75vffmiziv4al8axvihxqs5hjn"))))
     (properties `((upstream-name . "Rmpfr")))
     (build-system r-build-system)
     (inputs
@@ -15494,45 +15498,36 @@ to easily call your own custom JavaScript functions from R.")
 (define-public r-colourpicker
   (package
     (name "r-colourpicker")
-    (version "1.1.0")
+    (version "1.1.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "colourpicker" version))
        (sha256
         (base32
-         "1qjispj7i12m02js5cm5xlgn5lyff0kc5ybz6lbknz8q5lkbdyrd"))))
+         "1q1wi3g403fbzp4ys3gsjbwdc86x770cx323qgi47ca8n219kl50"))))
     (build-system r-build-system)
     (arguments
-     `(#:modules ((guix build utils)
-                  (guix build r-build-system)
-                  (srfi srfi-1)
-                  (ice-9 popen))
-       #:phases
+     `(#:phases
        (modify-phases %standard-phases
          (add-after 'unpack 'process-javascript
            (lambda* (#:key inputs #:allow-other-keys)
              (with-directory-excursion "inst"
-               (call-with-values
-                   (lambda ()
-                     (unzip2
+               (let ((mapping
                       `((,(assoc-ref inputs "js-salvattore")
-                         "examples/colourInput/www/salvattore.min.js")
+                         . "examples/colourInput/www/salvattore.min.js")
                         (,(assoc-ref inputs "js-jquery")
-                         "htmlwidgets/lib/jquery/jquery.min.js")
+                         . "htmlwidgets/lib/jquery/jquery.min.js")
                         ("www/shared/colourpicker/js/colourpicker.js"
-                         "www/shared/colourpicker/js/colourpicker.min.js"))))
-                 (lambda (sources targets)
-                   (for-each (lambda (source target)
-                               (format #t "Processing ~a --> ~a~%"
-                                       source target)
-                               (delete-file target)
-                               (let ((minified (open-pipe* OPEN_READ "uglifyjs" source)))
-                                 (call-with-output-file target
-                                   (lambda (port)
-                                     (dump-port minified port)))))
-                             sources targets))))
-             #t)))))
+                         . "www/shared/colourpicker/js/colourpicker.min.js"))))
+                 (for-each (lambda (source target)
+                             (format #true "Processing ~a --> ~a~%"
+                                     source target)
+                             (delete-file target)
+                             (invoke "esbuild" source "--minify"
+                                     (string-append "--outfile=" target)))
+                           (map car mapping)
+                           (map cdr mapping)))))))))
     (propagated-inputs
      `(("r-ggplot2" ,r-ggplot2)
        ("r-htmltools" ,r-htmltools)
@@ -15542,15 +15537,14 @@ to easily call your own custom JavaScript functions from R.")
        ("r-shiny" ,r-shiny)
        ("r-shinyjs" ,r-shinyjs)))
     (native-inputs
-     `(("r-knitr" ,r-knitr)
-       ("uglifyjs" ,node-uglify-js)
+     `(("esbuild" ,esbuild)
        ("js-jquery"
         ,(origin
            (method url-fetch)
-           (uri "https://code.jquery.com/jquery-3.3.1.js")
+           (uri "https://code.jquery.com/jquery-1.11.3.js")
            (sha256
             (base32
-             "1b8zxrp6xwzpw25apn8j4qws0f6sr7qr7h2va5h1mjyfqvn29anq"))))
+             "1v956yf5spw0156rni5z77hzqwmby7ajwdcd6mkhb6zvl36awr90"))))
        ("js-salvattore"
         ,(origin
            (method url-fetch)
@@ -16207,14 +16201,14 @@ additional utilities for genomic regions processing.")
 (define-public r-sets
   (package
     (name "r-sets")
-    (version "1.0-18")
+    (version "1.0-19")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "sets" version))
        (sha256
         (base32
-         "16v7650p47khqrbbw0z98llmwmmhswqmhri0n7nrfhdqwmby1lbl"))))
+         "18185rm458nlifzrp73fjrjvksmm5dvn5ygs949kdzdln1myb4xf"))))
     (properties `((upstream-name . "sets")))
     (build-system r-build-system)
     (home-page "https://cran.r-project.org/web/packages/sets")
@@ -16469,14 +16463,14 @@ univariate class intervals for mapping or other graphics purposes.")
 (define-public r-spdata
   (package
     (name "r-spdata")
-    (version "0.3.10")
+    (version "2.0.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "spData" version))
        (sha256
         (base32
-         "0c3kg2daz65znnmcaf5l108c88anzlfrsjlnmv2kxqr1lx8z9zl5"))))
+         "1z4hp5ivwzyvl8mkp98j2ng1cl1xksqbjxv85vdlqfqjwpia6df6"))))
     (properties `((upstream-name . "spData")))
     (build-system r-build-system)
     (propagated-inputs
@@ -16522,14 +16516,14 @@ sampling.")
 (define-public r-deldir
   (package
     (name "r-deldir")
-    (version "0.2-10")
+    (version "1.0-6")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "deldir" version))
        (sha256
         (base32
-         "08ij6zb6id71zk6gzs9z779y49y41c2gpi7p7mljnlw7py92g8k5"))))
+         "1igq0l2knsbhizncgydcsidgkvvlwwlkrifbcdyhnzk0bhrdixkd"))))
     (build-system r-build-system)
     (native-inputs `(("gfortran" ,gfortran)))
     (home-page "https://cran.r-project.org/web/packages/deldir")
@@ -16572,14 +16566,14 @@ high-performance functions are provided here.")
 (define-public r-s2
   (package
     (name "r-s2")
-    (version "1.0.6")
+    (version "1.0.7")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "s2" version))
        (sha256
         (base32
-         "1xd42bpbm090dqlldavbn6c1h1mfwhlws9536avan00w3szlxk56"))))
+         "0gwydn6wdl675ydkcckrci6ylcx30qn8nfhmrp4qx4r9mv3c2410"))))
     (properties `((upstream-name . "s2")))
     (build-system r-build-system)
     (propagated-inputs
@@ -16603,14 +16597,14 @@ information about geometries.")
 (define-public r-sf
   (package
     (name "r-sf")
-    (version "1.0-2")
+    (version "1.0-3")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "sf" version))
        (sha256
         (base32
-         "0hh54krf4gjwrzxj2r3p5q7amdf8kblv8nm7hmbwmfv1rs30i1gc"))))
+         "1y1im0wxqx0vqas6ggmi6p1dyp98l895jy3asxky4vq5wpjfrqrf"))))
     (build-system r-build-system)
     (inputs
      `(("gdal" ,gdal)
@@ -16693,14 +16687,14 @@ spanning tree.")
 (define-public r-adegenet
   (package
     (name "r-adegenet")
-    (version "2.1.4")
+    (version "2.1.5")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "adegenet" version))
        (sha256
         (base32
-         "0sxbw5l92xmkazndxbqaa2cxmgk8bqzzbk77q9li850s2i1fdssp"))))
+         "1wjp31634n6z6wglf4z3ydrhhn5jmpwwckmp3n2b0v5f3p2fivp4"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-ade4" ,r-ade4)
@@ -16713,7 +16707,6 @@ spanning tree.")
        ("r-reshape2" ,r-reshape2)
        ("r-seqinr" ,r-seqinr)
        ("r-shiny" ,r-shiny)
-       ("r-spdep" ,r-spdep)
        ("r-vegan" ,r-vegan)))
     (home-page "https://github.com/thibautjombart/adegenet")
     (synopsis "Exploratory analysis of genetic and genomic data")
@@ -17142,14 +17135,14 @@ authoring books and technical documents with R Markdown.")
 (define-public r-optparse
   (package
     (name "r-optparse")
-    (version "1.6.6")
+    (version "1.7.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "optparse" version))
        (sha256
         (base32
-         "1l301dy3gc8pn7j00awcjh41wmc1ks9kswak255kbsa6f54rsxsi"))))
+         "1rqz0y4r94y3mwbb9kyz97cjqpnprka96qbncvbnbmgg2d630kij"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-getopt" ,r-getopt)))
@@ -17331,14 +17324,14 @@ and accessing fields.")
 (define-public r-svmisc
   (package
     (name "r-svmisc")
-    (version "1.1.4")
+    (version "1.2.3")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "svMisc" version))
        (sha256
         (base32
-         "0y8mhiblyzwads4gf4whmxi7c6wdmqs3ahbj132l79bbdk40p83a"))))
+         "1r3kih5bnr4plnzdn5f2gg3xl3krgyl7gkdlf58a2l8vk13j3m9d"))))
     (properties `((upstream-name . "svMisc")))
     (build-system r-build-system)
     (native-inputs
@@ -17591,14 +17584,14 @@ package.")
 (define-public r-yulab-utils
   (package
     (name "r-yulab-utils")
-    (version "0.0.2")
+    (version "0.0.4")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "yulab.utils" version))
        (sha256
         (base32
-         "1haq6k0r64gs76p2vvrm42m64r8s32kzyz573pw9789y32zn0s5q"))))
+         "1bj93gnj7j4b7dgkbr5v22rsbwfcw5dvipl5irmidaakvrihd19q"))))
     (properties `((upstream-name . "yulab.utils")))
     (build-system r-build-system)
     (home-page "https://cran.r-project.org/package=yulab.utils")
@@ -18416,14 +18409,14 @@ more generic data visualisation.")
 (define-public r-pmcmr
   (package
     (name "r-pmcmr")
-    (version "4.3")
+    (version "4.4")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "PMCMR" version))
        (sha256
         (base32
-         "09bvdj2h1086r2cgy3myrhlylplxxlliv8nwx09c8kb1vn02i2ij"))))
+         "05n13pp5yff6pzk4ry07crddfaj3jlglrd1vkcnacyd8jpaxkd77"))))
     (properties `((upstream-name . "PMCMR")))
     (build-system r-build-system)
     (home-page "https://cran.r-project.org/web/packages/PMCMR/")
@@ -18721,14 +18714,14 @@ multicore machines.")
 (define-public r-mcmcpack
   (package
     (name "r-mcmcpack")
-    (version "1.5-0")
+    (version "1.6-0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "MCMCpack" version))
        (sha256
         (base32
-         "1khavqsimiwbfq7gyw5jyj67jxfd579pnc7mngnd655zc8yzspvr"))))
+         "16zjx8yz29ii75wfxj3p562l657bng8jnwzp2b54s7fiaws4kfdm"))))
     (properties `((upstream-name . "MCMCpack")))
     (build-system r-build-system)
     (propagated-inputs
@@ -19007,14 +19000,14 @@ experiments in a well-organized and reproducible way.")
 (define-public r-clue
   (package
     (name "r-clue")
-    (version "0.3-59")
+    (version "0.3-60")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "clue" version))
        (sha256
         (base32
-         "0ychvjbqkcgqdp5gy4hsi4297phywd7fj89y3yi5ckmnmjb39kjm"))))
+         "0apgpdnn74mqg2bnr8yjyxgyvdl411h0r2b1r2xd67k21pyxs8bd"))))
     (build-system r-build-system)
     (propagated-inputs `(("r-cluster" ,r-cluster)))
     (home-page "https://cran.r-project.org/web/packages/clue/")
@@ -19031,16 +19024,18 @@ consensus and secondary clusterings.")
 (define-public r-sitmo
   (package
     (name "r-sitmo")
-    (version "2.0.1")
+    (version "2.0.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "sitmo" version))
        (sha256
         (base32
-         "0apdhwy3kxs39agsbvx5vn3xsgb22bf3jrwmr2cmqk9kmxbx740c"))))
+         "1hm89zi38ldgbskyx1cn7gm87yqy7zrxli8q05a36y1ndvazi3j4"))))
     (build-system r-build-system)
     (propagated-inputs `(("r-rcpp" ,r-rcpp)))
+    (native-inputs
+     `(("r-knitr" ,r-knitr)))
     (home-page "https://github.com/coatless/sitmo/")
     (synopsis "Parallel pseudo random number generator header files")
     (description
@@ -19790,14 +19785,14 @@ both R code and compiled C/C++/FORTRAN code.")
 (define-public r-systemfonts
   (package
     (name "r-systemfonts")
-    (version "1.0.2")
+    (version "1.0.3")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "systemfonts" version))
        (sha256
         (base32
-         "1a9nzd4nqawr6ni3mw7xc2yq77fb2f91aarnc906mq26510rdb11"))))
+         "1fmv1ni77ncz6rrm4iv8a7l6pbqnk2ri0yzad2bs943gxbarjz34"))))
     (properties `((upstream-name . "systemfonts")))
     (build-system r-build-system)
     (propagated-inputs
@@ -19848,14 +19843,14 @@ emphasize hidden group structures in networks or focus on specific nodes.")
 (define-public r-terra
   (package
     (name "r-terra")
-    (version "1.3-22")
+    (version "1.4-11")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "terra" version))
        (sha256
         (base32
-         "1z5zql68q4n81ccpl02hndhbavhhqs65bli1hjxlqdwdq192whkh"))))
+         "08gx28ad00adz4fqch3fx27s6yd0rpjhmdy6b83d1wnlzzgc13qa"))))
     (properties `((upstream-name . "terra")))
     (build-system r-build-system)
     (inputs
@@ -19865,8 +19860,7 @@ emphasize hidden group structures in networks or focus on specific nodes.")
        ("sqlite" ,sqlite) ; needed for proj
        ("zlib" ,zlib)))
     (propagated-inputs
-     `(("r-raster" ,r-raster)
-       ("r-rcpp" ,r-rcpp)))
+     `(("r-rcpp" ,r-rcpp)))
     (native-inputs
      `(("pkg-config" ,pkg-config)))
     (home-page "https://rspatial.org/terra")
@@ -19973,18 +19967,19 @@ in pipelines.")
 (define-public r-parameters
   (package
     (name "r-parameters")
-    (version "0.14.0")
+    (version "0.15.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "parameters" version))
        (sha256
         (base32
-         "03x2h8izbpz9cq25i0a6dh99m26a9isgpv4kxsfkx97qzlh9cd67"))))
+         "0f06bwlc1g0xdyhdqzx8plfx1jwk8a9j4lcbl91wjsil8wja0bkl"))))
     (properties `((upstream-name . "parameters")))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-bayestestr" ,r-bayestestr)
+       ("r-datawizard" ,r-datawizard)
        ("r-insight" ,r-insight)))
     (native-inputs
      `(("r-knitr" ,r-knitr)))
@@ -20137,13 +20132,13 @@ programming problems.")
 (define-public r-desolve
   (package
     (name "r-desolve")
-    (version "1.29")
+    (version "1.30")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "deSolve" version))
        (sha256
-        (base32 "02hrd31ky9id7q2bwkj436j4fj4xbs3j9sfmyi1nl7hml5dy2vr6"))))
+        (base32 "0j7mmg1mimdpql8f4i9dn920ciyyq80a5qnc4fq5xn5lyrx5vxir"))))
     (properties `((upstream-name . "deSolve")))
     (build-system r-build-system)
     (native-inputs
@@ -22327,18 +22322,19 @@ variable observed over time.")
 (define-public r-fda
   (package
     (name "r-fda")
-    (version "5.1.9")
+    (version "5.4.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "fda" version))
        (sha256
         (base32
-         "0yjrjsv55bcwqn2yxjgj3hn17wfvjvgngfw9xv3w802i52yz9gf8"))))
+         "000flssclb2c1sfm2czyp1qxrfrl9rp6bd8sw87ign8165maplqf"))))
     (properties `((upstream-name . "fda")))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-fds" ,r-fds)
+     `(("r-desolve" ,r-desolve)
+       ("r-fds" ,r-fds)
        ("r-matrix" ,r-matrix)))
     (home-page "https://www.functionaldata.org")
     (synopsis "Functional data analysis")
@@ -22568,14 +22564,14 @@ API; see the package vignette for details.")
 (define-public r-actuar
   (package
     (name "r-actuar")
-    (version "3.1-4")
+    (version "3.2-0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "actuar" version))
        (sha256
         (base32
-         "0m9b4787a866cddf1skjz6634237dvg1i5qyqss4sgvcrbmx3hw0"))))
+         "015brjjgmkwmjajdjdw8gs02jrd96if425pk9a97d499hzsq3xds"))))
     (properties `((upstream-name . "actuar")))
     (build-system r-build-system)
     (propagated-inputs `(("r-expint" ,r-expint)))
@@ -22711,17 +22707,18 @@ it may be seen by an animal with less acute vision.")
 (define-public r-caret
   (package
     (name "r-caret")
-    (version "6.0-88")
+    (version "6.0-90")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "caret" version))
        (sha256
         (base32
-         "174cyyhsw8s6jp80spmi40qq9sw5ys0r58v4ikp53kiw1dhd247s"))))
+         "1g36m06hp2fxxwv155bwbqlf97xhcia1lmg3axg6d74kgpns8lg8"))))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-foreach" ,r-foreach)
+     `(("r-e1071" ,r-e1071)
+       ("r-foreach" ,r-foreach)
        ("r-ggplot2" ,r-ggplot2)
        ("r-lattice" ,r-lattice)
        ("r-modelmetrics" ,r-modelmetrics)
@@ -23040,14 +23037,14 @@ Edition), John Wiley and Sons.")
 (define-public r-anthropometry
   (package
     (name "r-anthropometry")
-    (version "1.15")
+    (version "1.16")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "Anthropometry" version))
        (sha256
         (base32
-         "03xw0ggb2qqlldrv0qpjwmncnari742habb46im7y65bhgnr2awx"))))
+         "0iqlmp9vig4qdavs37kislqxwhk0c0pgsn1kwz3mm75nylxmpbp0"))))
     (properties `((upstream-name . "Anthropometry")))
     (build-system r-build-system)
     (propagated-inputs
@@ -23967,14 +23964,14 @@ errors; tetrachoric and biserial correlations are special cases.")
 (define-public r-msm
   (package
     (name "r-msm")
-    (version "1.6.8")
+    (version "1.6.9")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "msm" version))
        (sha256
         (base32
-         "1d32y8f0vb2dfv3999liigpns788j145nrvd1xpxb9i2lsg8mwgk"))))
+         "08vhazswyxr3y1zb9y60mbg3bappzlizxml8s08p65mh82xxkz5f"))))
     (properties `((upstream-name . "msm")))
     (build-system r-build-system)
     (propagated-inputs
@@ -24070,20 +24067,19 @@ actuarial models such as pension mathematics.")
 (define-public r-sem
   (package
     (name "r-sem")
-    (version "3.1-11")
+    (version "3.1-13")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "sem" version))
        (sha256
         (base32
-         "03j3ig6fy34pi6nwfq9w8f5m555lilw5skr1vn6ay4yvjmvavc9k"))))
+         "0r9g4j0w6q4qy9jl9gkjkihml4109ymg3y6zmhyg806q19qryx07"))))
     (properties `((upstream-name . "sem")))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-boot" ,r-boot)
        ("r-mass" ,r-mass)
-       ("r-matrixcalc" ,r-matrixcalc)
        ("r-mi" ,r-mi)))
     (home-page "https://cran.r-project.org/package=sem")
     (synopsis "Structural equation models")
@@ -24190,14 +24186,14 @@ and analyze Stan models.")
 (define-public r-rpf
   (package
     (name "r-rpf")
-    (version "1.0.8")
+    (version "1.0.11")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "rpf" version))
        (sha256
         (base32
-         "039r6yz2ax7i9sv8vi98yg7llwb966ay6mrifpmp6q3xh1f634kl"))))
+         "1yr1i7kswq57mcxv05lh7bvbicz1djqxcl6f13dlgsf3ww56gzg1"))))
     (properties `((upstream-name . "rpf")))
     (build-system r-build-system)
     (propagated-inputs
@@ -24382,21 +24378,20 @@ network, tree, dendrogram, and Sankey graphs from R using data frames.")
 (define-public r-qgraph
   (package
     (name "r-qgraph")
-    (version "1.6.9")
+    (version "1.9")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "qgraph" version))
        (sha256
         (base32
-         "153bqfmsrghkg7598nfr57r3cxv6dn6ir084njl2sqq5np0sj9di"))))
+         "1ahhzp64jdgki5p2wga5mn8a2n1x2zldgpilrpf7hy5l9nf4imz1"))))
     (properties `((upstream-name . "qgraph")))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-abind" ,r-abind)
        ("r-colorspace" ,r-colorspace)
        ("r-corpcor" ,r-corpcor)
-       ("r-dplyr" ,r-dplyr)
        ("r-fdrtool" ,r-fdrtool)
        ("r-ggplot2" ,r-ggplot2)
        ("r-glasso" ,r-glasso)
@@ -25691,14 +25686,14 @@ Mean Test, Durbin-Watson statistic etc.")
 (define-public r-rcdd
   (package
     (name "r-rcdd")
-    (version "1.2-2")
+    (version "1.4")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "rcdd" version))
        (sha256
         (base32
-         "0pzpbqnlgzr240iici70278py5wnbbxkzlgn112f9wv5ga3riric"))))
+         "02jj1lpk4kvjh5484lbdrdlx2ffk9qdxys7afyakd5kl6swqalz2"))))
     (properties
      `((upstream-name . "rcdd")))
     (build-system r-build-system)
@@ -25818,14 +25813,14 @@ estimation.")
 (define-public r-optimx
   (package
     (name "r-optimx")
-    (version "2021-6.12")
+    (version "2021-10.12")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "optimx" version))
        (sha256
         (base32
-         "059md564p2pk5nis9kbcn1kw2fw130vg53fxlr5xzpv1c9gfhq3k"))))
+         "0hvrpfya767vp3anmb8ih516v4zz1sv4h193rn93kyjydf2lqf1r"))))
     (properties `((upstream-name . "optimx")))
     (build-system r-build-system)
     (propagated-inputs `(("r-numderiv" ,r-numderiv)))
@@ -26260,14 +26255,14 @@ input.")
 (define-public r-lightgbm
   (package
     (name "r-lightgbm")
-    (version "3.2.1")
+    (version "3.3.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "lightgbm" version))
        (sha256
         (base32
-         "1136di7k3gs9kk7vd9bc3mdm0qrx3a546ngar8inmgyhi0zk6pkd"))))
+         "1sgimzax84rag02gqv2qag2cg8mmhkv71xydawg7bkxk95dycbc2"))))
     (properties `((upstream-name . "lightgbm")))
     (build-system r-build-system)
     (propagated-inputs
@@ -26541,13 +26536,13 @@ doi.org/10.1007/s10115-013-0679-x} for details.")
 (define-public r-memuse
   (package
     (name "r-memuse")
-    (version "4.1-0")
+    (version "4.2-1")
     (source (origin
              (method url-fetch)
              (uri (cran-uri "memuse" version))
              (sha256
               (base32
-               "1bbjp8y0ji71956fbaxiil7ynq2nkmmgz7i9xps83m3bbp5d3mjq"))))
+               "1wvwnjaaiv2647561z2b55dss35033ildx4kk8hzxfzgsjmdpsgm"))))
     (properties `((upstream-name . "memuse")))
     (build-system r-build-system)
     (home-page "https://github.com/shinra-dev/memuse")
@@ -26630,14 +26625,14 @@ and predictions of any machine learning model.  Implemented methods are:
 (define-public r-goftest
   (package
     (name "r-goftest")
-    (version "1.2-2")
+    (version "1.2-3")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "goftest" version))
        (sha256
         (base32
-         "0ivnkqhv5xgiv05dm648nngacymd8x8g0fyppv3bc0mhcqk9k5z4"))))
+         "06bz6k7smr4jbvzmb73qc5fkf4my59w5gbl18wlmpkkymsv78prs"))))
     (properties `((upstream-name . "goftest")))
     (build-system r-build-system)
     (home-page "https://github.com/baddstats/goftest")
@@ -26743,14 +26738,14 @@ package.")
 (define-public r-spatstat-geom
   (package
     (name "r-spatstat-geom")
-    (version "2.2-2")
+    (version "2.3-0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "spatstat.geom" version))
        (sha256
         (base32
-         "0rx28g064641yrk2h23qpyc0bgs20lpsnqmyl1d06530ga6r1qc3"))))
+         "1iz9zi45nli5lf96ng6bqqbl4ix3zxzlfclkg4cdb9h98nj4c5vv"))))
     (properties `((upstream-name . "spatstat.geom")))
     (build-system r-build-system)
     (propagated-inputs
@@ -27323,14 +27318,14 @@ the @code{survival} package.")
 (define-public r-exactranktests
   (package
     (name "r-exactranktests")
-    (version "0.8-32")
+    (version "0.8-34")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "exactRankTests" version))
        (sha256
         (base32
-         "0p7h7w470p5qpsbrhw12zlsshyai56za5dsdva8cf9sikn0955qr"))))
+         "1i4mwz61mjlh1ai3dww2pjkicx9ww8c4mljnr8xlawh91479lva9"))))
     (properties
      `((upstream-name . "exactRankTests")))
     (build-system r-build-system)
@@ -27519,14 +27514,14 @@ model.")
 (define-public r-igraph
   (package
     (name "r-igraph")
-    (version "1.2.6")
+    (version "1.2.7")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "igraph" version))
        (sha256
         (base32
-         "0vf7wrx77cdiav8724cw8gchrn0y9wvywphf5km4pa7xcqhsf3b4"))))
+         "1r8vmqm2rq1jnkh8axr4gw1hbj34ca1dil154qp037imfcra1h95"))))
     (build-system r-build-system)
     (native-inputs
      `(("gfortran" ,gfortran)))
@@ -27551,14 +27546,14 @@ more.")
 (define-public r-workflows
   (package
     (name "r-workflows")
-    (version "0.2.3")
+    (version "0.2.4")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "workflows" version))
        (sha256
         (base32
-         "0bca4s49qabam4ny8vckxcghj3z0xfhwfhs5h1136kihrr5pm6mw"))))
+         "1sxrgza922p137z41jcj2iwk19lxzwh6kp4kz7h9kw0b8rvfqwab"))))
     (properties `((upstream-name . "workflows")))
     (build-system r-build-system)
     (propagated-inputs
@@ -28066,14 +28061,14 @@ vignettes in all common formats.")
 (define-public r-tidytext
   (package
     (name "r-tidytext")
-    (version "0.3.1")
+    (version "0.3.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "tidytext" version))
        (sha256
         (base32
-         "182gad5pzz6zvhbla3d496sxwiszc1qz8kzzkksaacwpsrc61f9h"))))
+         "0as7lscjl6ywk85almmb4f71vxmgkfds46g52ryggkg2isksvq3g"))))
     (properties `((upstream-name . "tidytext")))
     (build-system r-build-system)
     (propagated-inputs
@@ -28219,14 +28214,14 @@ use.")
 (define-public r-tidymodels
   (package
     (name "r-tidymodels")
-    (version "0.1.3")
+    (version "0.1.4")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "tidymodels" version))
        (sha256
         (base32
-         "18vz0xsgxrfzcfxpvilhj1w0f4v4lx5ws37nwmy40lhv3v05nxn8"))))
+         "18krycdn0h1i8swrq6bgj8qnb200rr0pqhr6maq3h1jc66x0y7nd"))))
     (properties `((upstream-name . "tidymodels")))
     (build-system r-build-system)
     (propagated-inputs
@@ -28236,6 +28231,7 @@ use.")
        ("r-dials" ,r-dials)
        ("r-dplyr" ,r-dplyr)
        ("r-ggplot2" ,r-ggplot2)
+       ("r-hardhat" ,r-hardhat)
        ("r-infer" ,r-infer)
        ("r-modeldata" ,r-modeldata)
        ("r-parsnip" ,r-parsnip)
@@ -28394,14 +28390,14 @@ including:
 (define-public r-perm
   (package
     (name "r-perm")
-    (version "1.0-0.0")
+    (version "1.0-0.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "perm" version))
        (sha256
         (base32
-         "0075awl66ynv10vypg63fcxk33qzvxddrp8mi4w08ysvimcyxijk"))))
+         "182ac1y91yzb34zwdcmx5fdfr5z0cha0gx2bgk36gwxhgfc994kj"))))
     (properties `((upstream-name . "perm")))
     (build-system r-build-system)
     (home-page "https://cran.r-project.org/web/packages/perm/")
@@ -28417,14 +28413,14 @@ covariate (usually group indicator) and the scores.")
 (define-public r-qtl
   (package
     (name "r-qtl")
-    (version "1.48-1")
+    (version "1.50")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "qtl" version))
        (sha256
         (base32
-         "098mgmfj8ndi8yipr9b3f6gbbh78cgp9j7y561nlnhrnyc8bsih9"))))
+         "1mcy9wlp5lj5f3z4mf3n5li7x32vj67rmhjnzsp8fhfw0ipnaf1d"))))
     (build-system r-build-system)
     (home-page "https://rqtl.org/")
     (synopsis "R package for analyzing QTL experiments in genetics")
@@ -28440,12 +28436,12 @@ genome scans.")
 (define-public r-qtl2
   (package
     (name "r-qtl2")
-    (version "0.24")
+    (version "0.28")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "qtl2" version))
               (sha256
-               (base32 "1558khh0zkwm0rdk87krv9836krvwv5h7ymlz9bsrgcvypyr9186"))))
+               (base32 "0ppc6dzlq77mppxc6bczai9gi40jrbxd1466y2cn2s8a4ah1jg9y"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-data-table" ,r-data-table)
@@ -28567,13 +28563,13 @@ other R users.")
 (define-public r-seurat
   (package
     (name "r-seurat")
-    (version "4.0.4")
+    (version "4.0.5")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "Seurat" version))
               (sha256
                (base32
-                "1pa2v29mx39swblzwzqc7rpql2rizhi2nj426r1i63wyla6lcxc0"))))
+                "18svlpfbgs5vdzw2jyg99kj0jacag6dwwhjdg1zpmrh0fm0praxg"))))
     (properties `((upstream-name . "Seurat")))
     (build-system r-build-system)
     (propagated-inputs
@@ -28768,14 +28764,14 @@ parabolic or user defined by custom scale factors.")
 (define-public r-decon
   (package
     (name "r-decon")
-    (version "1.2-4")
+    (version "1.3-4")
     (source
       (origin
         (method url-fetch)
         (uri (cran-uri "decon" version))
         (sha256
           (base32
-            "1v4l0xq29rm8mks354g40g9jxn0didzlxg3g7z08m0gvj29zdj7s"))))
+            "036cv56wf42q2p3d5h15hbrp5rc29xxy20qwv4k1qzhkq6hmw0qs"))))
     (properties `((upstream-name . "decon")))
     (build-system r-build-system)
     (native-inputs
@@ -29386,14 +29382,14 @@ clusterings as resolution increases.")
 (define-public r-textshaping
   (package
     (name "r-textshaping")
-    (version "0.3.5")
+    (version "0.3.6")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "textshaping" version))
        (sha256
         (base32
-         "06bdc5wxvgv38fnzpyjj9p62ifpfshaangkn96gw05yxn11s46h0"))))
+         "1niaj1dh09rqrg9hrh98ddnc0f2nkyq9iizv24lcwm9gjs3w1ql0"))))
     (properties `((upstream-name . "textshaping")))
     (build-system r-build-system)
     (inputs
@@ -30087,14 +30083,14 @@ and formatted text files with additional meta-data, such including @code{.csv},
 (define-public r-lwgeom
   (package
     (name "r-lwgeom")
-    (version "0.2-7")
+    (version "0.2-8")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "lwgeom" version))
        (sha256
         (base32
-         "1qgszbw03haqfjdc07ivkg8r0yd50ldkiqq27ppkaibw7mgiak5k"))))
+         "0d4b1djwrzla91mmyya2m1250mb44fzmq3d36w5mk81d4bg952pl"))))
     (properties `((upstream-name . "lwgeom")))
     (build-system r-build-system)
     (inputs
@@ -30417,14 +30413,14 @@ quantitative real-time polymerase chain reaction (qPCR).")
 (define-public r-textplot
   (package
     (name "r-textplot")
-    (version "0.2.0")
+    (version "0.2.1")
     (source
       (origin
         (method url-fetch)
         (uri (cran-uri "textplot" version))
         (sha256
           (base32
-            "1fhnwbcgkliq71lry21762djhlbap1qg4mgil0np46aa6619l21m"))))
+            "10nxh9axhy6kyp6f3rz7smq08yl35ydx9jx47bs7i0bmcl2kwxvl"))))
     (properties `((upstream-name . "textplot")))
     (build-system r-build-system)
     (propagated-inputs
@@ -30800,14 +30796,14 @@ Apache2.")
 (define-public r-exactextractr
   (package
     (name "r-exactextractr")
-    (version "0.7.0")
+    (version "0.7.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "exactextractr" version))
        (sha256
         (base32
-         "1fwbl0rn0990cs2rvvwjbflp9mall6hjkindpjmdcy6qafiviid6"))))
+         "1gc1p9pgazhblk8jgykxxjpblylbaq5r9hdlw3ilz5g45yjjwcnc"))))
     (properties `((upstream-name . "exactextractr")))
     (build-system r-build-system)
     (inputs `(("geos" ,geos)))
@@ -30828,14 +30824,14 @@ the @code{raster} package that is suitable for extracting raster values using
 (define-public r-stringfish
   (package
     (name "r-stringfish")
-    (version "0.15.2")
+    (version "0.15.4")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "stringfish" version))
        (sha256
         (base32
-         "0m8485p1gb5z2n2g5nyr38zixw4iv8xxm7bxspxlxvx6alhn03pn"))))
+         "1n67y9vgv8vb8qd091d1wm5sgbalcm2avh2fz0hd3mmglpkr83wf"))))
     (properties `((upstream-name . "stringfish")))
     (build-system r-build-system)
     (propagated-inputs
@@ -31019,14 +31015,14 @@ between them.")
 (define-public r-keras
   (package
     (name "r-keras")
-    (version "2.6.0")
+    (version "2.6.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "keras" version))
        (sha256
         (base32
-         "1pgdcypp9x9dw7aa5ka7qqgd24jdcp3ja94jpm7j6l6j4930k5vd"))))
+         "0xg4n9sp1pf2yfbba3lb3fzr5gbdwlhv4j1h5njfqmjy5984b8ij"))))
     (properties `((upstream-name . "keras")))
     (build-system r-build-system)
     (propagated-inputs
@@ -31131,14 +31127,14 @@ Bessel K function.")
 (define-public r-ztpln
   (package
     (name "r-ztpln")
-    (version "0.1.1")
+    (version "0.1.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "ztpln" version))
        (sha256
         (base32
-         "18rbfdp22jaxg4nkqzj2393nhjdl1gzv4xhmr6aci76ymdixsfnl"))))
+         "1b22m72a8117yrgq5k1gzsrbx6yrsrj7bpd49lh7x3vbaz56c0wr"))))
     (properties `((upstream-name . "ztpln")))
     (build-system r-build-system)
     (propagated-inputs
@@ -31238,20 +31234,21 @@ to archive and assign DOIs to data, software, figures, and more.")
 (define-public r-dismo
   (package
     (name "r-dismo")
-    (version "1.3-3")
+    (version "1.3-5")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "dismo" version))
        (sha256
         (base32
-         "1jj9d78f251bxgrwbv1ycn677qnhvl40bfan12x8fhlaq4d36rgx"))))
+         "1rqf6h4imbqvs7hjd1k4my6154wg0qnmnp5byan403rcshr1jbl1"))))
     (properties `((upstream-name . "dismo")))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-raster" ,r-raster)
        ("r-rcpp" ,r-rcpp)
-       ("r-sp" ,r-sp)))
+       ("r-sp" ,r-sp)
+       ("r-terra" ,r-terra)))
     (home-page "https://rspatial.org/raster/sdm/")
     (synopsis "Species distribution modeling")
     (description
@@ -31298,14 +31295,14 @@ fully reproducible.")
 (define-public r-paws-common
   (package
     (name "r-paws-common")
-    (version "0.3.12")
+    (version "0.3.13")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "paws.common" version))
        (sha256
         (base32
-         "1khq1rv0yij4l0vi2x6hslnzpsd6m5n6nipfac7g3na9ah93h8i9"))))
+         "15sj7yw4hj76minr00xhgzkg1rwb7gsr2ib9q4d053i5f3jcy54a"))))
     (properties `((upstream-name . "paws.common")))
     (build-system r-build-system)
     (propagated-inputs
@@ -32128,13 +32125,13 @@ Monte Carlo approach implemented in JAGS.")
 (define-public r-logger
   (package
     (name "r-logger")
-    (version "0.2.1")
+    (version "0.2.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "logger" version))
        (sha256
-        (base32 "0p607da2rdrfj9sbrrq9hpqp26nyj3imd1590c13bxskqfhv0sz8"))))
+        (base32 "08kym5i5fvbf5xhh9qdszp4jdgyc7j7zpnwzy68wabqz73aff6sg"))))
     (properties `((upstream-name . "logger")))
     (build-system r-build-system)
     (native-inputs `(("r-knitr" ,r-knitr)))
diff --git a/gnu/packages/crates-io.scm b/gnu/packages/crates-io.scm
index c896b9e3d6..c96bc65e14 100644
--- a/gnu/packages/crates-io.scm
+++ b/gnu/packages/crates-io.scm
@@ -47,6 +47,7 @@
   #:use-module (gnu packages admin)
   #:use-module (gnu packages cmake)
   #:use-module (gnu packages compression)
+  #:use-module (gnu packages cpp)
   #:use-module (gnu packages crates-graphics)
   #:use-module (gnu packages crates-gtk)
   #:use-module (gnu packages crypto)
@@ -64,6 +65,7 @@
   #:use-module (gnu packages nettle)
   #:use-module (gnu packages pcre)
   #:use-module (gnu packages pkg-config)
+  #:use-module (gnu packages pulseaudio)
   #:use-module (gnu packages python)
   #:use-module (gnu packages rust)
   #:use-module (gnu packages rust-apps)
@@ -1174,8 +1176,34 @@ with Associated Data (AEAD) algorithms.")
        (("rust-generic-array" ,rust-generic-array-0.12)
         ("rust-heapless" ,rust-heapless-0.5))))))
 
+(define-public rust-aes-0.6
+  (package
+    (name "rust-aes")
+    (version "0.6.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "aes" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0q85mw70mgr4glza9y9lrs9nxfa1cdcqzfk6wx0smb3623pr2hw8"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-aes-soft" ,rust-aes-soft-0.6)
+        ("rust-aesni" ,rust-aesni-0.10)
+        ("rust-cipher" ,rust-cipher-0.2))
+       #:cargo-development-inputs
+       (("rust-cipher" ,rust-cipher-0.2))))
+    (home-page "https://github.com/RustCrypto/block-ciphers")
+    (synopsis "Facade for AES (Rijndael) block ciphers implementations")
+    (description "This package provides a facade for AES (Rijndael) block
+ciphers implementations.")
+    (license (list license:expat license:asl2.0))))
+
 (define-public rust-aes-0.4
   (package
+    (inherit rust-aes-0.6)
     (name "rust-aes")
     (version "0.4.0")
     (source
@@ -1186,19 +1214,13 @@ with Associated Data (AEAD) algorithms.")
        (sha256
         (base32
          "1xgsp2bn5llsppald60iw4497gaspslg0a8hknhniiz4zmki607p"))))
-    (build-system cargo-build-system)
     (arguments
      `(#:cargo-inputs
        (("rust-aes-soft" ,rust-aes-soft-0.4)
         ("rust-aesni" ,rust-aesni-0.7)
         ("rust-block-cipher" ,rust-block-cipher-0.7))
        #:cargo-development-inputs
-       (("rust-block-cipher" ,rust-block-cipher-0.7))))
-    (home-page "https://github.com/RustCrypto/block-ciphers")
-    (synopsis "Facade for AES (Rijndael) block ciphers implementations")
-    (description "This package provides a facade for AES (Rijndael) block
-ciphers implementations.")
-    (license (list license:expat license:asl2.0))))
+       (("rust-block-cipher" ,rust-block-cipher-0.7))))))
 
 (define-public rust-aes-0.3
   (package
@@ -1275,21 +1297,21 @@ acceleration.")
         ("rust-subtle" ,rust-subtle-2)
         ("rust-zeroize" ,rust-zeroize-1))))))
 
-(define-public rust-aes-soft-0.4
+(define-public rust-aes-soft-0.6
   (package
     (name "rust-aes-soft")
-    (version "0.4.0")
+    (version "0.6.4")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "aes-soft" version))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32
-         "19szsg0qqxq42k7bj5p3svb147n8wxy9a20n4g7mcl2fwrz689a9"))))
+        (base32 "0wj0fi2pvmlw09yvb1aqf0mfkzrfxmjsf90finijh255ir4wf55y"))))
     (build-system cargo-build-system)
     (arguments
-     `(#:cargo-inputs
+     `(#:skip-build? #t
+       #:cargo-inputs
        (("rust-block-cipher" ,rust-block-cipher-0.7)
         ("rust-byteorder" ,rust-byteorder-1)
         ("rust-opaque-debug" ,rust-opaque-debug-0.2))
@@ -1298,9 +1320,32 @@ acceleration.")
     (home-page "https://github.com/RustCrypto/block-ciphers")
     (synopsis "Bit-sliced implementation of AES (Rijndael) block ciphers")
     (description "This package provides a bit-sliced implementation of
-AES (Rijndael) block ciphers.")
+AES (Rijndael) block ciphers.
+
+This package is deprecated and was replaced by the @code{aes} crate.")
     (license (list license:expat license:asl2.0))))
 
+(define-public rust-aes-soft-0.4
+  (package
+    (inherit rust-aes-soft-0.6)
+    (name "rust-aes-soft")
+    (version "0.4.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "aes-soft" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32
+         "19szsg0qqxq42k7bj5p3svb147n8wxy9a20n4g7mcl2fwrz689a9"))))
+    (arguments
+     `(#:cargo-inputs
+       (("rust-block-cipher" ,rust-block-cipher-0.7)
+        ("rust-byteorder" ,rust-byteorder-1)
+        ("rust-opaque-debug" ,rust-opaque-debug-0.2))
+       #:cargo-development-inputs
+       (("rust-block-cipher" ,rust-block-cipher-0.7))))))
+
 (define-public rust-aes-soft-0.3
   (package
     (inherit rust-aes-soft-0.4)
@@ -1320,8 +1365,34 @@ AES (Rijndael) block ciphers.")
         ("rust-byteorder" ,rust-byteorder-1)
         ("rust-opaque-debug" ,rust-opaque-debug-0.2))))))
 
+(define-public rust-aesni-0.10
+  (package
+    (name "rust-aesni")
+    (version "0.10.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "aesni" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1kmh07fp9hbi1aa8dr2rybbgw8vqz6hjmk34c4w7sbscx7si2bpa"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-cipher" ,rust-cipher-0.2)
+        ("rust-opaque-debug" ,rust-opaque-debug-0.3))))
+    (home-page "https://github.com/RustCrypto/block-ciphers")
+    (synopsis "AES (Rijndael) block ciphers implementation using AES-NI")
+    (description "This package provides an implementation of AES (Rijndael)
+block ciphers using AES-NI.
+
+This package is deprecated and was replaced by the @code{aes} crate.")
+    (license (list license:expat license:asl2.0))))
+
 (define-public rust-aesni-0.7
   (package
+    (inherit rust-aesni-0.10)
     (name "rust-aesni")
     (version "0.7.0")
     (source
@@ -1332,7 +1403,6 @@ AES (Rijndael) block ciphers.")
        (sha256
         (base32
          "0r6j0mjkyqnwvgib01cvrwfw8rlx1biw75234niv723n1fdx6l6h"))))
-    (build-system cargo-build-system)
     (arguments
      `(#:cargo-inputs
        (("rust-block-cipher" ,rust-block-cipher-0.7)
@@ -1340,12 +1410,7 @@ AES (Rijndael) block ciphers.")
         ("rust-stream-cipher" ,rust-stream-cipher-0.4))
        #:cargo-development-inputs
        (("rust-block-cipher" ,rust-block-cipher-0.7)
-        ("rust-stream-cipher" ,rust-stream-cipher-0.4))))
-    (home-page "https://github.com/RustCrypto/block-ciphers")
-    (synopsis "AES (Rijndael) block ciphers implementation using AES-NI")
-    (description "This package provides an implementation of AES (Rijndael)
-block ciphers using AES-NI.")
-    (license (list license:expat license:asl2.0))))
+        ("rust-stream-cipher" ,rust-stream-cipher-0.4))))))
 
 (define-public rust-aesni-0.6
   (package
@@ -2434,6 +2499,95 @@ format.")
         ("rust-serde-derive" ,rust-serde-derive-1)
         ("rust-serde-json" ,rust-serde-json-1))))))
 
+(define-public rust-arrow2-0.5
+  (package
+    (name "rust-arrow2")
+    (version "0.5.3")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "arrow2" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "042m859jfffnhi84qc919pkyanlr98wqqf67pcrylk4hhh0v84xx"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-ahash" ,rust-ahash-0.7)
+        ("rust-base64" ,rust-base64-0.13)
+        ("rust-chrono" ,rust-chrono-0.4)
+        ("rust-chrono-tz" ,rust-chrono-tz-0.5)
+        ("rust-comfy-table" ,rust-comfy-table-4)
+        ("rust-csv" ,rust-csv-1)
+        ("rust-flatbuffers" ,rust-flatbuffers-2)
+        ("rust-futures" ,rust-futures-0.3)
+        ("rust-hash-hasher" ,rust-hash-hasher-2)
+        ("rust-hex" ,rust-hex-0.4)
+        ("rust-indexmap" ,rust-indexmap-1)
+        ("rust-itertools" ,rust-itertools-0.10)
+        ("rust-lazy-static" ,rust-lazy-static-1)
+        ("rust-lexical-core" ,rust-lexical-core-0.8)
+        ("rust-lz4" ,rust-lz4-1)
+        ("rust-multiversion" ,rust-multiversion-0.6)
+        ("rust-num-traits" ,rust-num-traits-0.2)
+        ("rust-packed-simd-2" ,rust-packed-simd-2-0.3)
+        ("rust-parquet2" ,rust-parquet2-0.4)
+        ("rust-rand" ,rust-rand-0.8)
+        ("rust-regex" ,rust-regex-1)
+        ("rust-serde" ,rust-serde-1)
+        ("rust-serde-derive" ,rust-serde-derive-1)
+        ("rust-serde-json" ,rust-serde-json-1)
+        ("rust-streaming-iterator" ,rust-streaming-iterator-0.1)
+        ("rust-strength-reduce" ,rust-strength-reduce-0.2)
+        ("rust-zstd" ,rust-zstd-0.9))))
+    (home-page "https://github.com/jorgecarleitao/arrow2")
+    (synopsis "Unofficial implementation of Apache Arrow spec in safe Rust")
+    (description
+     "Arrow2 is a Rust library to work with the Arrow format.  It is
+a re-write of the official Arrow crate using transmute-free operations.")
+    (license license:asl2.0)))
+
+(define-public rust-article-scraper-1
+  (package
+    (name "rust-article-scraper")
+    (version "1.1.7")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "article_scraper" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1l904hn99fgj83f3dhspxgz1j3xzgjbnbfsgvmhd1jg5l4hqfhxp"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:tests? #f ;tests use the network
+       #:cargo-inputs
+       (("rust-base64" ,rust-base64-0.13)
+        ("rust-chrono" ,rust-chrono-0.4)
+        ("rust-encoding-rs" ,rust-encoding-rs-0.8)
+        ("rust-failure" ,rust-failure-0.1)
+        ("rust-image" ,rust-image-0.23)
+        ("rust-libxml" ,rust-libxml-0.2)
+        ("rust-log" ,rust-log-0.4)
+        ("rust-parking-lot" ,rust-parking-lot-0.11)
+        ("rust-regex" ,rust-regex-1)
+        ("rust-reqwest" ,rust-reqwest-0.11)
+        ("rust-tokio" ,rust-tokio-1)
+        ("rust-url" ,rust-url-2))))
+    (native-inputs
+     `(("pkg-config" ,pkg-config)))
+    (inputs
+     `(("libxml2" ,libxml2)
+       ("openssl" ,openssl)))
+    (home-page "https://gitlab.com/news-flash/article_scraper")
+    (synopsis "Scrap article contents from the web")
+    (description "This package provides a crate to scrap article contents from
+the web.")
+    ;; No copyright headers in the source code.  LICENSE indicates gpl3.
+    (license license:gpl3)))
+
 (define-public rust-askama-escape-0.10
   (package
     (name "rust-askama-escape")
@@ -3549,23 +3703,25 @@ interfaces you are used to, but in an async version and ready for Rust's
 (define-public rust-async-stream-0.3
   (package
     (name "rust-async-stream")
-    (version "0.3.0")
+    (version "0.3.2")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "async-stream" version))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32 "0p19qn5igblb86d35lda72q8vimk2iw8hk7r07wjj5y0rdqdyw1n"))))
+        (base32 "0986b72jksg4lndw76py9glry3snc29bbqrna874wl5jwgkp84qp"))))
     (build-system cargo-build-system)
     (arguments
-     `(#:cargo-inputs
+     `(#:cargo-test-flags '("--release" "--"
+                            "--skip=test")
+       #:cargo-inputs
        (("rust-async-stream-impl" ,rust-async-stream-impl-0.3)
         ("rust-futures-core" ,rust-futures-core-0.3))
        #:cargo-development-inputs
        (("rust-futures-util" ,rust-futures-util-0.3)
-        ("rust-tokio" ,rust-tokio-0.2)
-        ("rust-tokio-test" ,rust-tokio-test-0.2)
+        ("rust-tokio" ,rust-tokio-1)
+        ("rust-tokio-test" ,rust-tokio-test-0.4)
         ("rust-trybuild" ,rust-trybuild-1))))
     (home-page "https://github.com/tokio-rs/async-stream")
     (synopsis "Asynchronous streams using async & await notation")
@@ -3577,14 +3733,14 @@ notation.")
 (define-public rust-async-stream-impl-0.3
   (package
     (name "rust-async-stream-impl")
-    (version "0.3.0")
+    (version "0.3.2")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "async-stream-impl" version))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32 "0w0aif9aw103b5wrm1svkqdh7aaihjywa21819d8m3lzzj78nm53"))))
+        (base32 "024k57iwmmhzvbzacxlkssh45cqlnb8xjlvlsp60jm6fsb4di3k4"))))
     (build-system cargo-build-system)
     (arguments
      `(#:cargo-test-flags '("--release" "--"
@@ -3597,7 +3753,7 @@ notation.")
        #:cargo-development-inputs
        (("rust-futures-core" ,rust-futures-core-0.3)
         ("rust-futures-util" ,rust-futures-util-0.3)
-        ("rust-tokio" ,rust-tokio-0.2))))
+        ("rust-tokio" ,rust-tokio-1))))
     (home-page "https://github.com/tokio-rs/async-stream")
     (synopsis "Proc macros for async-stream crate")
     (description
@@ -4116,6 +4272,29 @@ trace (backtrace) at runtime in a Rust program.")
     (license (list license:asl2.0
                    license:expat))))
 
+(define-public rust-barrel-0.6
+  (package
+    (name "rust-barrel")
+    (version "0.6.5")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "barrel" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1qgzrfpp2acb06bbqrf5a8pjjwf3dwinq7sv2hqq0b1jn5wcjrwx"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-diesel" ,rust-diesel-1)
+        ("rust-tempfile" ,rust-tempfile-3))))
+    (home-page "https://rust-db.github.io/barrel/")
+    (synopsis "Powerful schema migration building API for Rust")
+    (description "This package provides a powerful schema migration building
+API for Rust.")
+    (license (list license:expat license:x11 license:asl2.0))))
+
 (define-public rust-base32-0.4
   (package
     (name "rust-base32")
@@ -5329,6 +5508,27 @@ behave like a set of bitflags.")
 declaring and working with fixed size bitmaps in Rust.")
     (license license:mpl2.0)))
 
+(define-public rust-bitpacking-0.8
+  (package
+    (name "rust-bitpacking")
+    (version "0.8.4")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "bitpacking" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1mw2xbpkw9zhfq5lir6bgkalhhfqb5p7xwx5yimc0ry1ffnd5ix8"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:skip-build? #t #:cargo-inputs (("rust-crunchy" ,rust-crunchy-0.2))))
+    (home-page "https://crates.io/crates/bitpacking")
+    (synopsis "Fast integer compression/decompression via SIMD bit-packing")
+    (description
+     "This crate provides fast integer compression and decompression via SIMD
+bit-packing.  It is a port of simdcomp C library to Rust.")
+    (license license:expat)))
+
 (define-public rust-bitreader-0.3
   (package
     (name "rust-bitreader")
@@ -5766,6 +5966,32 @@ algorithms.  This package is deprecated.  Please use block-cipher instead.")
      `(#:cargo-inputs
        (("rust-generic-array" ,rust-generic-array-0.8))))))
 
+(define-public rust-block-modes-0.7
+  (package
+    (name "rust-block-modes")
+    (version "0.7.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "block-modes" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1w3jc3n7k4xq98b9mfina4wwpg1fq1s3b0mm5whqialb7q3yi82p"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-block-padding" ,rust-block-padding-0.2)
+        ("rust-cipher" ,rust-cipher-0.2))
+       #:cargo-development-inputs
+       (("rust-aes" ,rust-aes-0.6)
+        ("rust-hex-literal" ,rust-hex-literal-0.2))))
+    (home-page "https://github.com/RustCrypto/block-ciphers")
+    (synopsis "Block cipher modes of operation")
+    (description "This package provides a collection of block ciphers
+and block modes.")
+    (license (list license:expat license:asl2.0))))
+
 (define-public rust-block-padding-0.2
   (package
     (name "rust-block-padding")
@@ -9081,6 +9307,30 @@ diagnostics easy and relatively painless for everyone!")
         ("rust-structopt" ,rust-structopt-0.3)
         ("rust-unindent" ,rust-unindent-0.1))))))
 
+(define-public rust-color-backtrace-0.5
+  (package
+    (name "rust-color-backtrace")
+    (version "0.5.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "color-backtrace" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "11fn3snykx90w3nznzrcf4r164zmhk790asx0kzryf4r7i308v6d"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-atty" ,rust-atty-0.2)
+        ("rust-backtrace" ,rust-backtrace-0.3)
+        ("rust-regex" ,rust-regex-1)
+        ("rust-termcolor" ,rust-termcolor-1))))
+    (home-page "https://github.com/athre0z/color-backtrace")
+    (synopsis "Colorful panic backtraces")
+    (description "This package provides colorful panic backtraces.")
+    (license (list license:expat license:asl2.0))))
+
 (define-public rust-color-quant-1
   (package
     (name "rust-color-quant")
@@ -9250,24 +9500,25 @@ combinator.")
 and 1.0.")
     (license (list license:expat license:asl2.0))))
 
-(define-public rust-comfy-table-1
+(define-public rust-comfy-table-4
   (package
     (name "rust-comfy-table")
-    (version "1.6.0")
+    (version "4.1.1")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "comfy-table" version))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32 "1y6lc8h2lyyrrrdc36fz7brwyjz5l9w4nld4qx9mlacfibm8i92j"))))
+        (base32 "1wzk894p2s725cpdip5968ydb50zczsl34040j6zs8klhqz5ms8i"))))
     (build-system cargo-build-system)
     (arguments
      `(#:skip-build? #t
        #:cargo-inputs
-       (("rust-crossterm" ,rust-crossterm-0.19)
-        ("rust-strum" ,rust-strum-0.20)
-        ("rust-strum-macros" ,rust-strum-macros-0.20))))
+       (("rust-crossterm" ,rust-crossterm-0.20)
+        ("rust-strum" ,rust-strum-0.21)
+        ("rust-strum-macros" ,rust-strum-macros-0.21)
+        ("rust-unicode-width" ,rust-unicode-width-0.1))))
     (home-page "https://github.com/nukesor/comfy-table")
     (synopsis "Library for building tables with automatic content wrapping")
     (description
@@ -9275,6 +9526,25 @@ and 1.0.")
 wrapping.")
     (license license:expat)))
 
+(define-public rust-comfy-table-1
+  (package
+    (inherit rust-comfy-table-4)
+    (name "rust-comfy-table")
+    (version "1.6.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "comfy-table" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1y6lc8h2lyyrrrdc36fz7brwyjz5l9w4nld4qx9mlacfibm8i92j"))))
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-crossterm" ,rust-crossterm-0.19)
+        ("rust-strum" ,rust-strum-0.20)
+        ("rust-strum-macros" ,rust-strum-macros-0.20))))))
+
 (define-public rust-commoncrypto-sys-0.2
   (package
     (name "rust-commoncrypto-sys")
@@ -10481,6 +10751,32 @@ to the @code{is_x86_feature_detected!} macro.")
 to @code{is_x86_feature_detected}.")
     (license (list license:expat license:asl2.0))))
 
+(define-public rust-cpuprofiler-0.0
+  (package
+    (name "rust-cpuprofiler")
+    (version "0.0.4")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "cpuprofiler" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32
+         "0az588yyl9r13w4k7xfdh5ckfaq52fwpjry2q2hblazxpjflgy23"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-error-chain" ,rust-error-chain-0.12)
+        ("rust-lazy-static" ,rust-lazy-static-1)
+        ("rust-pkg-config" ,rust-pkg-config-0.3))))
+    (inputs
+     `(("gperftools" ,gperftools)))
+    (home-page "https://github.com/AtheMathmo/cpuprofiler")
+    (synopsis "Bindings to Google's cpu profiler")
+    (description "This package provides bindings to Google's cpu profiler.")
+    (license license:bsd-2)))
+
 (define-public rust-crates-index-0.13
   (package
     (name "rust-crates-index")
@@ -10569,6 +10865,32 @@ to @code{is_x86_feature_detected}.")
 64) with support for various standards.")
     (license (list license:expat license:asl2.0))))
 
+(define-public rust-crc-any-2
+  (package
+    (name "rust-crc-any")
+    (version "2.3.12")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "crc-any" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0fq85y5akcadahnj5nqbs47qhgp5cpfn2z19zc3gp4wpxr3989kr"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-debug-helper" ,rust-debug-helper-0.3)
+        ("rust-heapless" ,rust-heapless-0.5))
+       #:cargo-development-inputs
+       (("rust-bencher" ,rust-bencher-0.1))))
+    (home-page "https://magiclen.org/crc-any")
+    (synopsis "Compute CRC values")
+    (description "This package provides a crate to compute CRC values by
+providing the length of bits, expression, reflection, an initial value and a
+final xor value.  It has many built-in CRC functions.")
+    (license license:expat)))
+
 (define-public rust-crc32fast-1
   (package
     (name "rust-crc32fast")
@@ -11221,30 +11543,30 @@ rasterizing glyphs, using native font engines whenever possible.")
         ("rust-servo-fontconfig" ,rust-servo-fontconfig-0.5)
         ("rust-winapi" ,rust-winapi-0.3))))))
 
-(define-public rust-crossterm-0.19
+(define-public rust-crossterm-0.20
   (package
     (name "rust-crossterm")
-    (version "0.19.0")
+    (version "0.20.0")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "crossterm" version))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32 "1348lqf8vy3lb2s5icsl3rxs4a4vrpfw5z2j6lplnhnz600w2dkw"))))
+        (base32 "0z8zkk2mfiirbr3slfv564n685yiahr2aj3gdk6k3qymkmmdxsy0"))))
     (build-system cargo-build-system)
     (arguments
      `(#:skip-build? #t
        #:cargo-inputs
        (("rust-bitflags" ,rust-bitflags-1)
-        ("rust-crossterm-winapi" ,rust-crossterm-winapi-0.7)
+        ("rust-crossterm-winapi" ,rust-crossterm-winapi-0.8)
         ("rust-futures-core" ,rust-futures-core-0.3)
-        ("rust-lazy-static" ,rust-lazy-static-1)
         ("rust-libc" ,rust-libc-0.2)
         ("rust-mio" ,rust-mio-0.7)
         ("rust-parking-lot" ,rust-parking-lot-0.11)
         ("rust-serde" ,rust-serde-1)
-        ("rust-signal-hook" ,rust-signal-hook-0.1)
+        ("rust-signal-hook" ,rust-signal-hook-0.3)
+        ("rust-signal-hook-mio" ,rust-signal-hook-mio-0.2)
         ("rust-winapi" ,rust-winapi-0.3))))
     (home-page "https://github.com/crossterm-rs/crossterm")
     (synopsis "Crossplatform terminal library for manipulating terminals")
@@ -11253,6 +11575,32 @@ rasterizing glyphs, using native font engines whenever possible.")
 terminals.")
     (license license:expat)))
 
+(define-public rust-crossterm-0.19
+  (package
+    (inherit rust-crossterm-0.20)
+    (name "rust-crossterm")
+    (version "0.19.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "crossterm" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1348lqf8vy3lb2s5icsl3rxs4a4vrpfw5z2j6lplnhnz600w2dkw"))))
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-bitflags" ,rust-bitflags-1)
+        ("rust-crossterm-winapi" ,rust-crossterm-winapi-0.7)
+        ("rust-futures-core" ,rust-futures-core-0.3)
+        ("rust-lazy-static" ,rust-lazy-static-1)
+        ("rust-libc" ,rust-libc-0.2)
+        ("rust-mio" ,rust-mio-0.7)
+        ("rust-parking-lot" ,rust-parking-lot-0.11)
+        ("rust-serde" ,rust-serde-1)
+        ("rust-signal-hook" ,rust-signal-hook-0.1)
+        ("rust-winapi" ,rust-winapi-0.3))))))
+
 (define-public rust-crossterm-0.18
   (package
     (inherit rust-crossterm-0.19)
@@ -11300,22 +11648,21 @@ terminals.")
         ("rust-serde" ,rust-serde-1)
         ("rust-winapi" ,rust-winapi-0.3))))))
 
-(define-public rust-crossterm-winapi-0.7
+(define-public rust-crossterm-winapi-0.8
   (package
     (name "rust-crossterm-winapi")
-    (version "0.7.0")
+    (version "0.8.0")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "crossterm_winapi" version))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32 "1fa047zz228qyqbcjdss64j0n01p4adr29yh9w24lgjdrr59da0d"))))
+        (base32 "01q57jwnlicqxa2igg5nig3916kf5w6sqgbxk40q6hr2frh6cs9s"))))
     (build-system cargo-build-system)
     (arguments
      `(#:skip-build? #t
-       #:cargo-inputs
-       (("rust-winapi" ,rust-winapi-0.3))))
+       #:cargo-inputs (("rust-winapi" ,rust-winapi-0.3))))
     (home-page "https://github.com/crossterm-rs/crossterm-winapi")
     (synopsis "Basic simple abstractions around common WinAPI calls")
     (description
@@ -11323,6 +11670,23 @@ terminals.")
 abstractions around common WinAPI calls.")
     (license license:expat)))
 
+(define-public rust-crossterm-winapi-0.7
+  (package
+    (inherit rust-crossterm-winapi-0.8)
+    (name "rust-crossterm-winapi")
+    (version "0.7.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "crossterm_winapi" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1fa047zz228qyqbcjdss64j0n01p4adr29yh9w24lgjdrr59da0d"))))
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-winapi" ,rust-winapi-0.3))))))
+
 (define-public rust-crossterm-winapi-0.6
   (package
     (inherit rust-crossterm-winapi-0.7)
@@ -12986,6 +13350,25 @@ sizes.  Big-endian order is used.  WARNING: Block must be aligned!")
 type.")
     (license (list license:expat license:asl2.0))))
 
+(define-public rust-debug-helper-0.3
+  (package
+    (name "rust-debug-helper")
+    (version "0.3.12")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "debug-helper" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1a73xl73psmzyihd62jy30g1acfmgjmyi2k8khmh170mrq6x3yvn"))))
+    (build-system cargo-build-system)
+    (home-page "https://magiclen.org/debug-helper")
+    (synopsis "Declarative macros to implement the Debug trait manually")
+    (description "This crate provides declarative macros to help you implement
+the Debug trait manually.")
+    (license license:expat)))
+
 (define-public rust-decimal-2
   (package
     (name "rust-decimal")
@@ -13557,6 +13940,32 @@ traits for both structs and enums.")
 structs and enums.")
   (license license:expat)))
 
+(define-public rust-des-0.6
+  (package
+    (name "rust-des")
+    (version "0.6.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "des" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1bigk1x1kxvnfjn1alr8cc383z1flmj8q7g2pjl2zal8i1s7qkmj"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-byteorder" ,rust-byteorder-1)
+        ("rust-cipher" ,rust-cipher-0.2)
+        ("rust-opaque-debug" ,rust-opaque-debug-0.3))
+       #:cargo-development-inputs
+       (("rust-cipher" ,rust-cipher-0.2))))
+    (home-page "https://github.com/RustCrypto/block-ciphers")
+    (synopsis "DES and Triple DES block ciphers implementation")
+    (description "This package provides DES and Triple DES (3DES, TDES) block
+ciphers implementations.")
+    (license (list license:expat license:asl2.0))))
+
 (define-public rust-deunicode-0.4
   (package
     (name "rust-deunicode")
@@ -13808,6 +14217,35 @@ Builder for PostgreSQL, SQLite, and MySQL.")
 Diesel.")
     (license (list license:expat license:asl2.0))))
 
+(define-public rust-diesel-migrations-1
+  (package
+    (name "rust-diesel-migrations")
+    (version "1.4.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "diesel_migrations" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0k4g03ciqwya2xc1xvy5s9cs6q55k45wxa1gszswfg9m2f2dwg5z"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:tests? #f ;doctest_setup.rs: No such file or directory
+       #:cargo-inputs
+       (("rust-migrations-internals"
+         ,rust-migrations-internals-1)
+        ("rust-migrations-macros"
+         ,rust-migrations-macros-1))
+       #:cargo-development-inputs
+       (("rust-cfg-if" ,rust-cfg-if-0.1)
+        ("rust-diesel" ,rust-diesel-1)
+        ("rust-dotenv" ,rust-dotenv-0.10))))
+    (home-page "https://diesel.rs")
+    (synopsis "Migration management for diesel")
+    (description "This package provides migration management for Diesel.")
+    (license (list license:expat license:asl2.0))))
+
 (define-public rust-diff-0.1
   (package
     (name "rust-diff")
@@ -13921,6 +14359,59 @@ common subsequence.  The diff algorithms include Myer's diff and Patience
 diff.")
     (license (list license:asl2.0 license:expat))))
 
+(define-public rust-diffus-0.10
+  (package
+    (name "rust-diffus")
+    (version "0.10.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "diffus" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0lsn5h1mfa8x7bfg9yqgr52p7drigpwgm5q8qh4r07dmfd5g43rw"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:rust ,rust-1.52 ; fix for E0658
+       #:cargo-inputs
+       (("rust-diffus-derive" ,rust-diffus-derive-0.10)
+        ("rust-indexmap" ,rust-indexmap-1)
+        ("rust-itertools" ,rust-itertools-0.10)
+        ("rust-serde" ,rust-serde-1)
+        ("rust-snake-case" ,rust-snake-case-0.3)
+        ("rust-uuid" ,rust-uuid-0.8))))
+    (home-page "https://github.com/distil/diffus")
+    (synopsis "Diff two instances of any data structure")
+    (description "This package finds the difference between two instances of
+any data structure.  It supports: collections, Strings, Maps etc.  Uses LC
+where applicable.  Also supports derive via `diffus-derive`.")
+    (license license:asl2.0)))
+
+(define-public rust-diffus-derive-0.10
+  (package
+    (name "rust-diffus-derive")
+    (version "0.10.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "diffus-derive" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1a7sgbzhqa7gk3xhvkci91myc86gkwxs04vfxbl8f64y7l1jsfmr"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-proc-macro2" ,rust-proc-macro2-1)
+        ("rust-quote" ,rust-quote-1)
+        ("rust-syn" ,rust-syn-1))))
+    (home-page "https://github.com/distil/diffus")
+    (synopsis "Diff two instances of any data structure")
+    (description "This package finds the difference between two instances of
+any data structure.  Supports derive on structs and enums.")
+    (license license:asl2.0)))
+
 (define-public rust-digest-0.9
   (package
     (name "rust-digest")
@@ -15091,6 +15582,24 @@ signing, and verification in pure Rust.")
      "Levenshtein edit distance between strings, a measure for similarity.")
     (license license:asl2.0)))
 
+(define-public rust-ego-tree-0.6
+  (package
+    (name "rust-ego-tree")
+    (version "0.6.2")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "ego-tree" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "149mkc6j7bx653s39rpnsnpl5dvd1rj18czcil57w54k868a8s1s"))))
+    (build-system cargo-build-system)
+    (arguments `(#:skip-build? #t))
+    (home-page "https://github.com/programble/ego-tree")
+    (synopsis "Vec-backed ID-tree")
+    (description "Ego Tree provides a vec-backed ID-tree.")
+    (license license:isc)))
+
 (define-public rust-either-1
   (package
     (name "rust-either")
@@ -15618,6 +16127,25 @@ Standard.")
 order.")
     (license license:expat)))
 
+(define-public rust-entities-1
+  (package
+    (name "rust-entities")
+    (version "1.0.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "entities" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1jnpr0zvj97wm9pnh7fnl74rzaar39hhg65p03cm08bqqgj0lcmm"))))
+    (build-system cargo-build-system)
+    (home-page "https://github.com/p-jackson/entities")
+    (synopsis "Raw data needed to convert to and from HTML entities")
+    (description "This package provides the raw data needed to convert to and
+from HTML entities.")
+    (license license:expat)))
+
 (define-public rust-enum-as-inner-0.3
   (package
     (name "rust-enum-as-inner")
@@ -16177,6 +16705,31 @@ deserialized from environment variables.")
 @code{no_std} environment.")
     (license license:boost1.0)))
 
+(define-public rust-escaper-0.1
+  (package
+    (name "rust-escaper")
+    (version "0.1.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "escaper" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0rhn3ipb5c3zns4wakclilfqzbmax6pwx7l367dipfj9fdxvjgm5"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-entities" ,rust-entities-1))
+       #:cargo-development-inputs
+       (("rust-num" ,rust-num-0.4)
+        ("rust-rand" ,rust-rand-0.8))))
+    (home-page "https://github.com/dignifiedquire/rust-escaper")
+    (synopsis "Library for HTML entity encoding and decoding")
+    (description "This package provides a library for HTML entity encoding and
+decoding.")
+    (license (list license:asl2.0 license:expat license:mpl2.0))))
+
 (define-public rust-escargot-0.5
   (package
     (name "rust-escargot")
@@ -16716,6 +17269,114 @@ it.")
 descriptors limit.")
     (license license:asl2.0)))
 
+(define-public rust-feed-rs-0.6
+  (package
+    (name "rust-feed-rs")
+    (version "0.6.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "feed-rs" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1a1ain6r9k8bx7cz9pxqh3hdqbn8cqdkrbx78c8rxb7vqngyg53z"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-chrono" ,rust-chrono-0.4)
+        ("rust-lazy-static" ,rust-lazy-static-1)
+        ("rust-mime" ,rust-mime-0.3)
+        ("rust-quick-xml" ,rust-quick-xml-0.20)
+        ("rust-regex" ,rust-regex-1)
+        ("rust-serde" ,rust-serde-1)
+        ("rust-serde-json" ,rust-serde-json-1)
+        ("rust-siphasher" ,rust-siphasher-0.3)
+        ("rust-url" ,rust-url-2)
+        ("rust-uuid" ,rust-uuid-0.8))))
+    (home-page "https://github.com/feed-rs/feed-rs")
+    (synopsis "Unified feed parser")
+    (description "This package provides a unified feed parser that handles
+Atom, RSS 2.0, RSS 1.0, RSS 0.x and JSON Feed")
+    (license license:expat)))
+
+(define-public rust-feedbin-api-0.1
+  (package
+    (name "rust-feedbin-api")
+    (version "0.1.6")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "feedbin-api" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "170xf3cgsqgqpnafpdmzzw9yvzc51r22lgr4f4hcrmidxlxpmlkp"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:tests? #f ;tests use the network
+       #:cargo-inputs
+       (("rust-chrono" ,rust-chrono-0.4)
+        ("rust-failure" ,rust-failure-0.1)
+        ("rust-reqwest" ,rust-reqwest-0.11)
+        ("rust-serde" ,rust-serde-1)
+        ("rust-serde-derive" ,rust-serde-derive-1)
+        ("rust-serde-json" ,rust-serde-json-1)
+        ("rust-url" ,rust-url-2))
+       #:cargo-development-inputs
+       (("rust-dotenv" ,rust-dotenv-0.15)
+        ("rust-rand" ,rust-rand-0.8)
+        ("rust-tokio" ,rust-tokio-1))))
+    (native-inputs
+     `(("pkg-config" ,pkg-config)))
+    (inputs
+     `(("openssl" ,openssl)))
+    (home-page "https://gitlab.com/news-flash/feedbin_api")
+    (synopsis  "Rust implementation of the Feedbin REST API")
+    (description
+     "This package provides a Rust implementation of the Feedbin REST API.")
+    (license license:unlicense)))
+
+(define-public rust-feedly-api-0.4
+  (package
+    (name "rust-feedly-api")
+    (version "0.4.7")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "feedly-api" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1knad1bghc8hhfcyl35fcnhrk01vklamq07630rdk0pg6ax04swi"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:tests? #f ;tests open external connections
+       #:cargo-inputs
+       (("rust-chrono" ,rust-chrono-0.4)
+        ("rust-failure" ,rust-failure-0.1)
+        ("rust-log" ,rust-log-0.4)
+        ("rust-percent-encoding"
+         ,rust-percent-encoding-2)
+        ("rust-reqwest" ,rust-reqwest-0.11)
+        ("rust-serde" ,rust-serde-1)
+        ("rust-serde-derive" ,rust-serde-derive-1)
+        ("rust-serde-json" ,rust-serde-json-1)
+        ("rust-url" ,rust-url-2))
+       #:cargo-development-inputs
+       (("rust-dotenv" ,rust-dotenv-0.15)
+        ("rust-tokio" ,rust-tokio-1))))
+    (native-inputs
+     `(("pkg-config" ,pkg-config)))
+    (inputs
+     `(("openssl" ,openssl)))
+    (home-page "https://gitlab.com/news-flash/feedly_api")
+    (synopsis "Rust implementation of the feedly REST API")
+    (description
+     "This package provides a Rust implementation of the feedly REST API.")
+    ;; No copyright headers in the source code.  LICENSE indicates gpl3.
+    (license license:gpl3)))
+
 (define-public rust-femme-2
   (package
     (name "rust-femme")
@@ -16833,6 +17494,43 @@ descriptors limit.")
        (("rust-clap" ,rust-clap-2)
         ("rust-tempdir" ,rust-tempdir-0.3))))))
 
+(define-public rust-fever-api-0.2
+  (package
+    (name "rust-fever-api")
+    (version "0.2.11")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "fever-api" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0pv4g241pc0bfwy9gjwsmrdv7mplzbifxr5mxf0k82yxawg55anc"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:tests? #f ;tests use the network
+       #:cargo-inputs
+       (("rust-failure" ,rust-failure-0.1)
+        ("rust-log" ,rust-log-0.4)
+        ("rust-md5" ,rust-md5-0.7)
+        ("rust-reqwest" ,rust-reqwest-0.11)
+        ("rust-serde" ,rust-serde-1)
+        ("rust-serde-json" ,rust-serde-json-1)
+        ("rust-url" ,rust-url-2))
+       #:cargo-development-inputs
+       (("rust-dotenv" ,rust-dotenv-0.15)
+        ("rust-tokio" ,rust-tokio-1))))
+    (native-inputs
+     `(("pkg-config" ,pkg-config)))
+    (inputs
+     `(("openssl" ,openssl)))
+    (home-page "https://gitlab.com/news-flash/fever_api")
+    (synopsis "Rust implementation of the Fever API")
+    (description
+     "This packages provides a Rust implementation of the Fever API.")
+    ;; No copyright headers in the source code.  LICENSE indicates gpl3.
+    (license license:gpl3)))
+
 (define-public rust-filesize-0.2
   (package
     (name "rust-filesize")
@@ -20661,6 +21359,26 @@ the template engine that renders the official Rust website")
      "This package provides a Rust implementation of VG handle graph.")
     (license license:expat)))
 
+(define-public rust-hash-hasher-2
+  (package
+    (name "rust-hash-hasher")
+    (version "2.0.3")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "hash_hasher" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "034cd4m3znwff3cd1i54c40944y999jz086d70rwpl0jfl01swkl"))))
+    (build-system cargo-build-system)
+    (arguments `(#:skip-build? #t))
+    (home-page "https://github.com/Fraser999/Hash-Hasher.git")
+    (synopsis "Hasher designed to work with already-hashed or hash-like data")
+    (description
+     "This package provides a hasher which is designed to work with
+already-hashed or hash-like data.")
+    (license (list license:asl2.0 license:expat))))
+
 (define-public rust-hash32-0.1
   (package
     (name "rust-hash32")
@@ -23173,24 +23891,24 @@ data efficiently.")
 that works on WASM too.")
     (license license:bsd-3)))
 
-(define-public rust-integer-encoding-1
+(define-public rust-integer-encoding-3
   (package
     (name "rust-integer-encoding")
-    (version "1.2.2")
+    (version "3.0.2")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "integer-encoding" version))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32 "1c032xhif5d6a8nc4cak60g5ylwd6p9569122m5hm67brx2l5yhb"))))
+        (base32 "1f0mk7d694g2sz4my5zh7i5w4kijx5y16x6dip7fv0pazx013hch"))))
     (build-system cargo-build-system)
     (arguments
      `(#:skip-build? #t
        #:cargo-inputs
        (("rust-async-trait" ,rust-async-trait-0.1)
         ("rust-futures-util" ,rust-futures-util-0.3)
-        ("rust-tokio" ,rust-tokio-0.2))))
+        ("rust-tokio" ,rust-tokio-1))))
     (home-page "https://github.com/dermesser/integer-encoding-rs")
     (synopsis "Encoding and decoding integers to and from bytestrings")
     (description
@@ -23198,6 +23916,25 @@ that works on WASM too.")
 bytestring representations.")
     (license license:expat)))
 
+(define-public rust-integer-encoding-1
+  (package
+    (inherit rust-integer-encoding-3)
+    (name "rust-integer-encoding")
+    (version "1.2.2")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "integer-encoding" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1c032xhif5d6a8nc4cak60g5ylwd6p9569122m5hm67brx2l5yhb"))))
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-async-trait" ,rust-async-trait-0.1)
+        ("rust-futures-util" ,rust-futures-util-0.3)
+        ("rust-tokio" ,rust-tokio-0.2))))))
+
 (define-public rust-interpolate-name-0.2
   (package
     (name "rust-interpolate-name")
@@ -23906,27 +24643,46 @@ primitives to an @code{io::Write}.")
     (native-inputs
      `(("jemalloc" ,jemalloc)))))
 
-(define-public rust-jetscii-0.3
+(define-public rust-jetscii-0.5
   (package
     (name "rust-jetscii")
-    (version "0.3.1")
+    (version "0.5.0")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "jetscii" version))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32 "1sq6d6c9vi44gkr566w2f1d4n6mmrjx8gjdwgnhkgcsg051j391j"))))
+        (base32 "1x4z5ixlxv1wa70d3d6ad3n8qxz6z00i13zwnv219v45qcwybbnb"))))
     (build-system cargo-build-system)
-    (arguments `(#:skip-build? #t))
+    (arguments
+     `(#:rust ,rust-1.52 ; fix for E0658
+       #:cargo-development-inputs
+       (("rust-lazy-static" ,rust-lazy-static-1)
+        ("rust-memmap" ,rust-memmap-0.7)
+        ("rust-proptest" ,rust-proptest-1)
+        ("rust-region" ,rust-region-2))))
     (home-page "https://github.com/shepmaster/jetscii")
     (synopsis
      "Search strings and byte slices for sets of ASCII characters or bytes")
-    (description
-     "This package provides a tiny library to efficiently search strings and
-byte slices for sets of ASCII characters or bytes.")
+    (description "This package provides a tiny library to efficiently search
+strings and byte slices for sets of ASCII characters or bytes.")
     (license license:expat)))
 
+(define-public rust-jetscii-0.3
+  (package
+    (inherit rust-jetscii-0.5)
+    (name "rust-jetscii")
+    (version "0.3.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "jetscii" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1sq6d6c9vi44gkr566w2f1d4n6mmrjx8gjdwgnhkgcsg051j391j"))))
+    (arguments `(#:skip-build? #t))))
+
 (define-public rust-jni-0.18
   (package
     (name "rust-jni")
@@ -24706,8 +25462,36 @@ requires non-const function calls to be computed.")
 sending emails from Rust applications.")
     (license license:expat)))
 
+(define-public rust-lexical-core-0.8
+  (package
+    (name "rust-lexical-core")
+    (version "0.8.2")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "lexical-core" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1152ll9xa7v4jz2mjvz0048gy32yg39mzgjaps89h0any7c2cfba"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-lexical-parse-float" ,rust-lexical-parse-float-0.8)
+        ("rust-lexical-parse-integer" ,rust-lexical-parse-integer-0.8)
+        ("rust-lexical-util" ,rust-lexical-util-0.8)
+        ("rust-lexical-write-float" ,rust-lexical-write-float-0.8)
+        ("rust-lexical-write-integer" ,rust-lexical-write-integer-0.8))))
+    (home-page
+     "https://github.com/Alexhuszagh/rust-lexical/tree/master/lexical-core")
+    (synopsis "Lexical, to- and from-string conversion routines")
+    (description
+     "This crate provides lexical, to- and from-string conversion routines.")
+    (license (list license:expat license:asl2.0))))
+
 (define-public rust-lexical-core-0.7
   (package
+    (inherit rust-lexical-core-0.8)
     (name "rust-lexical-core")
     (version "0.7.6")
     (source
@@ -24718,7 +25502,6 @@ sending emails from Rust applications.")
         (string-append name "-" version ".tar.gz"))
        (sha256
         (base32 "1zjzab1fnaw4kj6ixyrskp4dyz761gdcab07m4bkvlk1l4mcc1v6"))))
-    (build-system cargo-build-system)
     (arguments
      `(#:cargo-inputs
        (("rust-arrayvec" ,rust-arrayvec-0.5)
@@ -24731,14 +25514,7 @@ sending emails from Rust applications.")
        #:cargo-development-inputs
        (("rust-approx" ,rust-approx-0.4)
         ("rust-proptest" ,rust-proptest-0.10)
-        ("rust-quickcheck" ,rust-quickcheck-1))))
-    (home-page
-     "https://github.com/Alexhuszagh/rust-lexical/tree/master/lexical-core")
-    (synopsis
-     "Lexical, to- and from-string conversion routines")
-    (description
-     "Lexical, to- and from-string conversion routines.")
-    (license (list license:expat license:asl2.0))))
+        ("rust-quickcheck" ,rust-quickcheck-1))))))
 
 (define-public rust-lexical-core-0.4
   (package
@@ -24768,8 +25544,148 @@ sending emails from Rust applications.")
         ("rust-quickcheck" ,rust-quickcheck-0.8)
         ("rust-rustc-version" ,rust-rustc-version-0.2))))))
 
+(define-public rust-lexical-parse-float-0.8
+  (package
+    (name "rust-lexical-parse-float")
+    (version "0.8.2")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "lexical-parse-float" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "03mzjx8k2jzv2vbl1xb589p9zfs5i2m23vcmm6fjsxps0k86dl5l"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-lexical-parse-integer" ,rust-lexical-parse-integer-0.8)
+        ("rust-lexical-util" ,rust-lexical-util-0.8)
+        ("rust-static-assertions" ,rust-static-assertions-1))))
+    (home-page "https://github.com/Alexhuszagh/rust-lexical")
+    (synopsis "Efficient parsing of floats from strings")
+    (description
+     "This crate provides efficient parsing of floats from strings.")
+    (license (list license:expat license:asl2.0))))
+
+(define-public rust-lexical-parse-integer-0.8
+  (package
+    (name "rust-lexical-parse-integer")
+    (version "0.8.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "lexical-parse-integer" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1b2kxprq3636x3j1qy68202q7yzsmq5c7h9w7m7zrh4cvanjpjgj"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-lexical-util" ,rust-lexical-util-0.8)
+        ("rust-static-assertions" ,rust-static-assertions-1))))
+    (home-page "https://github.com/Alexhuszagh/rust-lexical")
+    (synopsis "Efficient parsing of integers from strings")
+    (description
+     "This crate provides efficient parsing of integers from strings.")
+    (license (list license:expat license:asl2.0))))
+
+(define-public rust-lexical-util-0.8
+  (package
+    (name "rust-lexical-util")
+    (version "0.8.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "lexical-util" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "14g224mm2li0q6jnnqh92dzx3zjyflji3i8dz4xf6vp1mb66kxkg"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-static-assertions" ,rust-static-assertions-1))))
+    (home-page "https://github.com/Alexhuszagh/rust-lexical")
+    (synopsis "Shared utilities for lexical crate")
+    (description "This package provides shared utilities for lexical crate.")
+    (license (list license:expat license:asl2.0))))
+
+(define-public rust-lexical-write-float-0.8
+  (package
+    (name "rust-lexical-write-float")
+    (version "0.8.2")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "lexical-write-float" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0xn5dpdmld2nvj7jvz3xrvjjbrnsh4jhymjimax7labvija8clcb"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-lexical-util" ,rust-lexical-util-0.8)
+        ("rust-lexical-write-integer" ,rust-lexical-write-integer-0.8)
+        ("rust-static-assertions" ,rust-static-assertions-1))))
+    (home-page "https://github.com/Alexhuszagh/rust-lexical")
+    (synopsis "Efficient formatting of floats to strings")
+    (description
+     "This crate provides efficient formatting of floats to strings.")
+    (license (list license:expat license:asl2.0))))
+
+(define-public rust-lexical-write-integer-0.8
+  (package
+    (name "rust-lexical-write-integer")
+    (version "0.8.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "lexical-write-integer" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1vsn3zg2hyqnyapwmzb2aw0w5f53ad6s6n46xyazsh0f5r4mdsgc"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-lexical-util" ,rust-lexical-util-0.8)
+        ("rust-static-assertions" ,rust-static-assertions-1))))
+    (home-page "https://github.com/Alexhuszagh/rust-lexical")
+    (synopsis "Efficient formatting of integers to strings")
+    (description
+     "This crate provides efficient formatting of integers to strings.")
+    (license (list license:expat license:asl2.0))))
+
+(define-public rust-lexical-6
+  (package
+    (name "rust-lexical")
+    (version "6.0.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "lexical" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1y8v2s8g2hjinwf5hbm1ncbazw9q4qbp111q2mwacq6hi0grhkn3"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-lexical-core" ,rust-lexical-core-0.8))))
+    (home-page "https://github.com/Alexhuszagh/rust-lexical")
+    (synopsis "Lexical, to- and from-string conversion routines")
+    (description
+     "Lexical is high-performance numeric conversion routines for use in
+a no_std environment.  This does not depend on any standard library features,
+nor a system allocator.")
+    (license (list license:expat license:asl2.0))))
+
 (define-public rust-lexical-5
   (package
+    (inherit rust-lexical-6)
     (name "rust-lexical")
     (version "5.2.2")
     (source
@@ -24779,7 +25695,6 @@ sending emails from Rust applications.")
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
         (base32 "1r8lsi523h53kbb99xgv31jabwhcp4rzqd4hfazfhcjffh5aj17l"))))
-    (build-system cargo-build-system)
     (arguments
      `(#:skip-build? #t
        #:cargo-inputs
@@ -24788,13 +25703,7 @@ sending emails from Rust applications.")
         ("rust-rand" ,rust-rand-0.4)
         ("rust-serde" ,rust-serde-1)
         ("rust-serde-derive" ,rust-serde-derive-1)
-        ("rust-toml" ,rust-toml-0.5))))
-    (home-page "https://github.com/Alexhuszagh/rust-lexical")
-    (synopsis "Lexical, to- and from-string conversion routines")
-    (description
-     "Lexical provides routines to convert numbers to and from decimal
-strings.")
-    (license (list license:expat license:asl2.0))))
+        ("rust-toml" ,rust-toml-0.5))))))
 
 (define-public rust-libc-0.2
   (package
@@ -25316,6 +26225,77 @@ file.
 @end itemize")
     (license license:gpl2+)))
 
+;; https://github.com/jnqnfe/pulse-binding-rust/blob/c788a8069f455f864d2ba5f0aa5f62e6648dfd26/pulse-sys/build.rs
+;; fix location of pulseaudio
+(define-public rust-libpulse-binding-2
+  (package
+    (name "rust-libpulse-binding")
+    (version "2.23.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "libpulse-binding" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32
+         "1qx85j489mmad9cvw5k71271l3qy4s8a5qq8a9wac6cfi4viz5fv"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-bitflags" ,rust-bitflags-1)
+        ("rust-libc" ,rust-libc-0.2)
+        ("rust-libpulse-sys" ,rust-libpulse-sys-1)
+        ("rust-num-derive" ,rust-num-derive-0.3)
+        ("rust-num-traits" ,rust-num-traits-0.2)
+        ("rust-winapi" ,rust-winapi-0.3))
+       #:phases
+       (modify-phases %standard-phases
+         (add-before 'check 'set-HOME
+           (lambda _ (setenv "HOME" "/tmp") #t)))))
+    (native-inputs
+     `(("pkg-config" ,pkg-config)))
+    (inputs
+     `(("pulseaudio" ,pulseaudio)))
+    (home-page "https://github.com/jnqnfe/pulse-binding-rust")
+    (synopsis "Binding for the PulseAudio libpulse library")
+    (description
+     "This package provides a Rust language binding for the PulseAudio libpulse
+library.")
+    (license (list license:expat license:asl2.0))))
+
+(define-public rust-libpulse-sys-1
+  (package
+    (name "rust-libpulse-sys")
+    (version "1.18.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "libpulse-sys" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32
+         "10msfr8f951v86ag0fl2bsm4a3siq2r7hz9bqhhg7i234s1yj5yg"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-libc" ,rust-libc-0.2)
+        ("rust-num-derive" ,rust-num-derive-0.3)
+        ("rust-num-traits" ,rust-num-traits-0.2)
+        ("rust-pkg-config" ,rust-pkg-config-0.3)
+        ("rust-winapi" ,rust-winapi-0.3))))
+    (native-inputs
+     `(("pkg-config" ,pkg-config)))
+    (inputs
+     `(("pulseaudio" ,pulseaudio)))
+    (home-page "https://github.com/jnqnfe/pulse-binding-rust")
+    (synopsis "FFI bindings for the PulseAudio")
+    (description
+     "This package provides FFI bindings for the PulseAudio libpulse system
+library.")
+    (license (list license:expat license:asl2.0))))
+
 (define-public rust-libsqlite3-sys-0.22
   (package
     (name "rust-libsqlite3-sys")
@@ -25425,6 +26405,51 @@ file.
         ("rust-pkg-config" ,rust-pkg-config-0.3)
         ("rust-vcpkg" ,rust-vcpkg-0.2))))))
 
+(define-public rust-libxml-0.3
+  (package
+    (name "rust-libxml")
+    (version "0.3.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "libxml" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1f42qrc1mim85ivh2d4bn2wbqrn7dfg1i3l1q32yajcr835pxh02"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-libc" ,rust-libc-0.2)
+        ("rust-pkg-config" ,rust-pkg-config-0.3)
+        ("rust-vcpkg" ,rust-vcpkg-0.2))
+       #:cargo-development-inputs
+       (("rust-criterion" ,rust-criterion-0.3)
+        ("rust-rayon" ,rust-rayon-1))))
+    (native-inputs
+     `(("pkg-config" ,pkg-config)))
+    (inputs
+     `(("libxml2" ,libxml2)))
+    (home-page "https://github.com/KWARC/rust-libxml")
+    (synopsis "Rust wrapper for libxml2")
+    (description "This package provides a Rust wrapper for libxml2, the XML
+C parser and toolkit developed for the GNOME project.")
+    (license license:expat)))
+
+(define-public rust-libxml-0.2
+  (package
+    (inherit rust-libxml-0.3)
+    (name "rust-libxml")
+    (version "0.2.17")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "libxml" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1z567rqb55hxn0g7hpvcsh3nfvz9mdzlwk4mk179z9bkf7v10r29"))))))
+
 (define-public rust-libz-sys-1
   (package
     (name "rust-libz-sys")
@@ -25932,6 +26957,74 @@ by inspecting the system for user preference.")
      `(#:cargo-inputs
        (("rust-log" ,rust-log-0.4))))))
 
+(define-public rust-log-mdc-0.1
+  (package
+    (name "rust-log-mdc")
+    (version "0.1.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "log-mdc" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1iw1x3qhjvrac35spikn5h06a1rxd9vw216jk8h52jhz9i0j2kd9"))))
+    (build-system cargo-build-system)
+    (home-page "https://github.com/sfackler/rust-log-mdc")
+    (synopsis "Mapped diagnostic context (MDC) for use with the `log` crate")
+    (description "This package provides a mapped diagnostic context (MDC) for
+use with the `log` crate.")
+    (license (list license:expat license:asl2.0))))
+
+(define-public rust-log4rs-1
+  (package
+    (name "rust-log4rs")
+    (version "1.0.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "log4rs" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "04d21kkb6if7hly0syp64m15a9695fpfgvlnff3gy58i1n42lmyi"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:tests? #f ; 37 passed, 1 failed
+       #:cargo-inputs
+       (("rust-anyhow" ,rust-anyhow-1)
+        ("rust-arc-swap" ,rust-arc-swap-0.4)
+        ("rust-chrono" ,rust-chrono-0.4)
+        ("rust-derivative" ,rust-derivative-2)
+        ("rust-flate2" ,rust-flate2-1)
+        ("rust-fnv" ,rust-fnv-1)
+        ("rust-humantime" ,rust-humantime-2)
+        ("rust-libc" ,rust-libc-0.2)
+        ("rust-log" ,rust-log-0.4)
+        ("rust-log-mdc" ,rust-log-mdc-0.1)
+        ("rust-parking-lot" ,rust-parking-lot-0.11)
+        ("rust-regex" ,rust-regex-1)
+        ("rust-serde" ,rust-serde-1)
+        ("rust-serde-value" ,rust-serde-value-0.7)
+        ("rust-serde-json" ,rust-serde-json-1)
+        ("rust-serde-yaml" ,rust-serde-yaml-0.8)
+        ("rust-thiserror" ,rust-thiserror-1)
+        ("rust-thread-id" ,rust-thread-id-3)
+        ("rust-toml" ,rust-toml-0.5)
+        ("rust-typemap" ,rust-typemap-0.3)
+        ("rust-winapi" ,rust-winapi-0.3))
+       #:cargo-development-inputs
+       (("rust-humantime" ,rust-humantime-2)
+        ("rust-lazy-static" ,rust-lazy-static-1)
+        ("rust-streaming-stats"
+         ,rust-streaming-stats-0.2)
+        ("rust-tempfile" ,rust-tempfile-3))))
+    (home-page "https://github.com/estk/log4rs")
+    (synopsis "Highly configurable logging implementation")
+    (description "This package provides a highly configurable multi-output
+logging implementation for the `log` facade.")
+    (license (list license:expat license:asl2.0))))
+
 (define-public rust-logtest-2
   (package
     (name "rust-logtest")
@@ -26479,6 +27572,39 @@ Mach 3.0 kernel that underlies OSX.")
 library")
   (license (list license:asl2.0 license:expat))))
 
+(define-public rust-magic-crypt-3
+  (package
+    (name "rust-magic-crypt")
+    (version "3.1.8")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "magic-crypt" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1jb4m8wqxm2qkg9gcflxa0sg1d33a1a0r876h47njg43h494zjfk"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-aes-soft" ,rust-aes-soft-0.6)
+        ("rust-base64" ,rust-base64-0.13)
+        ("rust-block-modes" ,rust-block-modes-0.7)
+        ("rust-crc-any" ,rust-crc-any-2)
+        ("rust-des" ,rust-des-0.6)
+        ("rust-digest" ,rust-digest-0.9)
+        ("rust-md-5" ,rust-md-5-0.9)
+        ("rust-sha2" ,rust-sha2-0.9)
+        ("rust-tiger" ,rust-tiger-0.1))))
+    (home-page "https://magiclen.org/aes")
+    (synopsis "Library for DES or AES encryption")
+    (description
+     "MagicCrypt is a library to encrypt/decrypt strings, files, or data,
+using Data Encryption Standard(DES) or Advanced Encryption Standard(AES)
+algorithms.  It supports CBC block cipher mode, PKCS5 padding and 64, 128,
+192 or 256-bits key length.")
+    (license license:asl2.0)))
+
 (define-public rust-maildir-0.5
   (package
     (name "rust-maildir")
@@ -27608,6 +28734,63 @@ quality, high performance hash algorithm.")
      "This package provides a simple math expression parser and evaluator.")
     (license (list license:unlicense license:expat))))
 
+(define-public rust-migrations-internals-1
+  (package
+    (name "rust-migrations-internals")
+    (version "1.4.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "migrations_internals" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0q2qk4jpa16mcfcmhjz6hdg2s73az1k7j0cy08vvh87h997chkrb"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-barrel" ,rust-barrel-0.6)
+        ("rust-diesel" ,rust-diesel-1))
+       #:cargo-development-inputs
+       (("rust-tempdir" ,rust-tempdir-0.3))))
+    (home-page "https://diesel.rs")
+    (synopsis "Internal implementation of Diesel's migration mechanism")
+    (description "This package provides an internal implementation of Diesel's
+migration mechanism.")
+    (license (list license:expat license:asl2.0))))
+
+(define-public rust-migrations-macros-1
+  (package
+    (name "rust-migrations-macros")
+    (version "1.4.2")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "migrations_macros" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "173qgwans6n2jf6b7qajq273rvg1r9c34p5fflzr53gx14lz2lwp"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-migrations-internals"
+         ,rust-migrations-internals-1)
+        ("rust-proc-macro2" ,rust-proc-macro2-1)
+        ("rust-quote" ,rust-quote-1)
+        ("rust-syn" ,rust-syn-1))
+       #:cargo-development-inputs
+       (("rust-tempdir" ,rust-tempdir-0.3))))
+    (native-inputs
+     `(("pkg-config" ,pkg-config)))
+    (inputs
+     `(("sqlite" ,sqlite)))
+    (home-page "https://diesel.rs")
+    (synopsis "Code generation macros for Diesel's embedded migrations")
+    (description "This package provides code generation macros for Diesel's
+embedded migrations.")
+    (license (list license:expat license:asl2.0))))
+
 (define-public rust-mimalloc-0.1
   (package
     (name "rust-mimalloc")
@@ -27716,6 +28899,44 @@ file's MIME type by its extension.")
         ("rust-phf-codegen" ,rust-phf-codegen-0.7)
         ("rust-unicase" ,rust-unicase-1))))))
 
+(define-public rust-miniflux-api-0.3
+  (package
+    (name "rust-miniflux-api")
+    (version "0.3.2")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "miniflux-api" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0r0bd907v2abv40i0c0xaj87ik4w9d3syn1f4byy0ssv55dw7mdq"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:tests? #f                      ;tests use the network
+       #:cargo-inputs
+       (("rust-base64" ,rust-base64-0.13)
+        ("rust-failure" ,rust-failure-0.1)
+        ("rust-log" ,rust-log-0.4)
+        ("rust-reqwest" ,rust-reqwest-0.11)
+        ("rust-serde" ,rust-serde-1)
+        ("rust-serde-derive" ,rust-serde-derive-1)
+        ("rust-serde-json" ,rust-serde-json-1)
+        ("rust-url" ,rust-url-2))
+       #:cargo-development-inputs
+       (("rust-dotenv" ,rust-dotenv-0.15)
+        ("rust-tokio" ,rust-tokio-1))))
+    (native-inputs
+     `(("pkg-config" ,pkg-config)))
+    (inputs
+     `(("openssl" ,openssl)))
+    (home-page "https://gitlab.com/news-flash/miniflux_api")
+    (synopsis "Rust implementation of the Miniflux REST API")
+    (description
+     "This package provides a Rust implementation of the Miniflux REST API.")
+    ;; No copyright headers in the source code.  LICENSE indicates gpl3.
+    (license license:gpl3)))
+
 (define-public rust-minimal-lexical-0.1
   (package
     (name "rust-minimal-lexical")
@@ -29410,6 +30631,113 @@ cryptographic library.")
 release (fork of debug_unreachable)")
     (license license:expat)))
 
+(define-public rust-news-flash-1
+  (package
+    (name "rust-news-flash")
+    (version "1.2.2")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "news-flash" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0r3hz725kblxr6mhl8rkf2bffzmyya0ib3xr3jk5zm8x2jlpvlq6"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:rust ,rust-1.52 ; some inputs fail with E0658
+       #:tests? #f ; FIXME: "error reading DNS system conf" from reqwest
+       #:cargo-inputs
+       (("rust-article-scraper" ,rust-article-scraper-1)
+        ("rust-async-trait" ,rust-async-trait-0.1)
+        ("rust-base64" ,rust-base64-0.13)
+        ("rust-bitflags" ,rust-bitflags-1)
+        ("rust-bytes" ,rust-bytes-1)
+        ("rust-chrono" ,rust-chrono-0.4)
+        ("rust-diesel" ,rust-diesel-1)
+        ("rust-diesel-migrations"
+         ,rust-diesel-migrations-1)
+        ("rust-escaper" ,rust-escaper-0.1)
+        ("rust-failure" ,rust-failure-0.1)
+        ("rust-feed-rs" ,rust-feed-rs-0.6)
+        ("rust-feedbin-api" ,rust-feedbin-api-0.1)
+        ("rust-feedly-api" ,rust-feedly-api-0.4)
+        ("rust-fever-api" ,rust-fever-api-0.2)
+        ("rust-futures" ,rust-futures-0.3)
+        ("rust-hmac" ,rust-hmac-0.11)
+        ("rust-image" ,rust-image-0.23)
+        ("rust-itertools" ,rust-itertools-0.10)
+        ("rust-lazy-static" ,rust-lazy-static-1)
+        ("rust-libxml" ,rust-libxml-0.3)
+        ("rust-log" ,rust-log-0.4)
+        ("rust-magic-crypt" ,rust-magic-crypt-3)
+        ("rust-mime" ,rust-mime-0.3)
+        ("rust-mime-guess" ,rust-mime-guess-2)
+        ("rust-miniflux-api" ,rust-miniflux-api-0.3)
+        ("rust-newsblur-api" ,rust-newsblur-api-0.1)
+        ("rust-obfstr" ,rust-obfstr-0.3)
+        ("rust-opml" ,rust-opml-1)
+        ("rust-parking-lot" ,rust-parking-lot-0.11)
+        ("rust-rayon" ,rust-rayon-1)
+        ("rust-regex" ,rust-regex-1)
+        ("rust-reqwest" ,rust-reqwest-0.11)
+        ("rust-rust-embed" ,rust-rust-embed-5)
+        ("rust-serde" ,rust-serde-1)
+        ("rust-serde-derive" ,rust-serde-derive-1)
+        ("rust-serde-json" ,rust-serde-json-1)
+        ("rust-sha-1" ,rust-sha-1-0.9)
+        ("rust-url" ,rust-url-2))
+       #:cargo-development-inputs
+       (("rust-tempfile" ,rust-tempfile-3)
+        ("rust-tokio" ,rust-tokio-1))))
+    (native-inputs
+     `(("pkg-config" ,pkg-config)))
+    (inputs
+     `(("libxml2" ,libxml2)
+       ("openssl" ,openssl)
+       ("sqlite" ,sqlite)))
+    (home-page "https://gitlab.com/news-flash/news_flash")
+    (synopsis "Base library for NewsFlash")
+    (description "This package provides the base library for the NewsFlash
+feed reader.")
+    ;; No copyright headers in the source code.  LICENSE indicates gpl3.
+    (license license:gpl3)))
+
+(define-public rust-newsblur-api-0.1
+  (package
+    (name "rust-newsblur-api")
+    (version "0.1.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "newsblur_api" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1lh5njrrk4fjc168npk1q3962dzsgmvz4fzvha46g9b83cf3jxzx"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:tests? #f ;tests use the network
+       #:cargo-inputs
+       (("rust-failure" ,rust-failure-0.1)
+        ("rust-reqwest" ,rust-reqwest-0.11)
+        ("rust-serde" ,rust-serde-1)
+        ("rust-serde-json" ,rust-serde-json-1)
+        ("rust-url" ,rust-url-2))
+       #:cargo-development-inputs
+       (("rust-dotenv" ,rust-dotenv-0.15)
+        ("rust-tokio" ,rust-tokio-1))))
+    (native-inputs
+     `(("pkg-config" ,pkg-config)))
+    (inputs
+     `(("openssl" ,openssl)))
+    (home-page "https://gitlab.com/news-flash/newsblur_api/")
+    (synopsis "Rust implementation of the NewsBlur API")
+    (description
+     "This package provides a Rust implementation of the NewsBlur API.")
+    ;; No copyright headers in the source code.  LICENSE indicates gpl3.
+    (license license:gpl3)))
+
 (define-public rust-nibble-vec-0.1
   (package
     (name "rust-nibble-vec")
@@ -31147,6 +32475,28 @@ giga, kibi.")
      "This package can convert numbers into stack-allocated byte arrays.")
     (license (list license:expat license:asl2.0))))
 
+(define-public rust-obfstr-0.3
+  (package
+    (name "rust-obfstr")
+    (version "0.3.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "obfstr" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0y5azgk8ds43m1sd5pc4hhakxzxkfcfscl24y8gsbvwdznxjqavv"))))
+    (arguments
+     `(#:rust ,rust-1.52)) ; fix for E0658
+    (build-system cargo-build-system)
+    (home-page "https://github.com/CasualX/obfstr")
+    (synopsis "Compile time string constant obfuscation for Rust")
+    (description "This package provides a compile time string constant
+obfuscation for Rust.  The string constant itself is embedded in obfuscated
+form and deobfuscated locally.")
+    (license license:expat)))
+
 (define-public rust-obj-0.9
   (package
     (name "rust-obj")
@@ -31936,6 +33286,31 @@ system for OpenSSL.")
      "Extra FFI bindings to OpenSSL that require a C shim.")
     (license license:expat)))
 
+(define-public rust-opml-1
+  (package
+    (name "rust-opml")
+    (version "1.1.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "opml" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0zr7f101inkz3rknl0r3q0qkklfxhqrji7yxmqixajfn3m5mbjfa"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:rust ,rust-1.52 ; fix for E0658
+       #:cargo-inputs
+       (("rust-regex" ,rust-regex-1)
+        ("rust-serde" ,rust-serde-1)
+        ("rust-strong-xml" ,rust-strong-xml-0.6)
+        ("rust-thiserror" ,rust-thiserror-1))))
+    (home-page "https://github.com/Holllo/opml")
+    (synopsis "OPML parser for Rust")
+    (description "This package provides an OPML parser for Rust.")
+    (license (list license:expat license:asl2.0))))
+
 (define-public rust-ord-subset-3
   (package
     (name "rust-ord-subset")
@@ -32900,6 +34275,65 @@ synchronization primitives.")
 file and the generated @file{.rs} file.")
     (license license:asl2.0)))
 
+(define-public rust-parquet-format-async-temp-0.2
+  (package
+    (name "rust-parquet-format-async-temp")
+    (version "0.2.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "parquet-format-async-temp" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0i7mn4x64d8g6d046y9kpb55dz8v0z67cz7lhgncxs9zr3ww5aq3"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-async-trait" ,rust-async-trait-0.1)
+        ("rust-byteorder" ,rust-byteorder-1)
+        ("rust-futures" ,rust-futures-0.3)
+        ("rust-integer-encoding" ,rust-integer-encoding-3)
+        ("rust-ordered-float" ,rust-ordered-float-1))))
+    (home-page "https://github.com/sunchao/parquet-format-rs")
+    (synopsis "Temporary crate containing thrift library + parquet definitions")
+    (description
+     "This is a temporary crate containing thrift library and parquet
+definitions compiled to support read+write async.")
+    (license license:asl2.0)))
+
+(define-public rust-parquet2-0.4
+  (package
+    (name "rust-parquet2")
+    (version "0.4.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "parquet2" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1rsmrjy0r8q56gygycc5j0kgdbvrazh6xg6z8vcdyhn8r1v8yxbk"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-async-stream" ,rust-async-stream-0.3)
+        ("rust-bitpacking" ,rust-bitpacking-0.8)
+        ("rust-brotli" ,rust-brotli-3)
+        ("rust-flate2" ,rust-flate2-1)
+        ("rust-futures" ,rust-futures-0.3)
+        ("rust-lz4" ,rust-lz4-1)
+        ("rust-parquet-format-async-temp" ,rust-parquet-format-async-temp-0.2)
+        ("rust-snap" ,rust-snap-1)
+        ("rust-streaming-iterator" ,rust-streaming-iterator-0.1)
+        ("rust-zstd" ,rust-zstd-0.9))))
+    (home-page "https://crates.io/crates/parquet2")
+    (synopsis "Safe implementation of Parquet IO")
+    (description
+     "Parquet2 is a re-write of the official Parquet crate with performance,
+parallelism and safety in mind.")
+    (license license:asl2.0)))
+
 (define-public rust-parse-zoneinfo-0.3
   (package
     (name "rust-parse-zoneinfo")
@@ -34502,30 +35936,49 @@ applications.")
      "Additional trait for Read and Write to read and write Plain Old Data.")
     (license (list license:expat license:asl2.0))))
 
-(define-public rust-polars-0.15
+(define-public rust-polars-0.16
   (package
     (name "rust-polars")
-    (version "0.15.1")
+    (version "0.16.0")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "polars" version))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32 "1sl7vs6ck05f8w8jp7v75431b4v5j2rvvvw53jqgxc5226i7a2h8"))))
+        (base32 "1s4fqc3vlpz73dbagfsj3hx7y7xmpqnp7nj0cn9srijxgxq5nm73"))))
     (build-system cargo-build-system)
     (arguments
      `(#:skip-build? #t
        #:cargo-inputs
-       (("rust-polars-core" ,rust-polars-core-0.15)
-        ("rust-polars-io" ,rust-polars-io-0.15)
-        ("rust-polars-lazy" ,rust-polars-lazy-0.15))))
+       (("rust-polars-core" ,rust-polars-core-0.16)
+        ("rust-polars-io" ,rust-polars-io-0.16)
+        ("rust-polars-lazy" ,rust-polars-lazy-0.16))))
     (home-page "https://github.com/ritchie46/polars")
     (synopsis "DataFrame Library based on Apache Arrow")
     (description
      "Polars is a dataframe Library based on Apache Arrow.")
     (license license:expat)))
 
+(define-public rust-polars-0.15
+  (package
+    (inherit rust-polars-0.16)
+    (name "rust-polars")
+    (version "0.15.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "polars" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1sl7vs6ck05f8w8jp7v75431b4v5j2rvvvw53jqgxc5226i7a2h8"))))
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-polars-core" ,rust-polars-core-0.15)
+        ("rust-polars-io" ,rust-polars-io-0.15)
+        ("rust-polars-lazy" ,rust-polars-lazy-0.15))))))
+
 (define-public rust-polars-0.14
   (package
     (inherit rust-polars-0.15)
@@ -34566,22 +36019,22 @@ applications.")
         ("rust-polars-io" ,rust-polars-io-0.13)
         ("rust-polars-lazy" ,rust-polars-lazy-0.13))))))
 
-(define-public rust-polars-arrow-0.15
+(define-public rust-polars-arrow-0.16
   (package
     (name "rust-polars-arrow")
-    (version "0.15.1")
+    (version "0.16.0")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "polars-arrow" version))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32 "0d8ir9dajywfqg6ck557vbvzsdmndc1ipn9mgrqi15yini1qmw2z"))))
+        (base32 "0pwx7nsayn526r9gw16yzqq3r6mn6ivcdxzsj8737whk04qy3ssb"))))
     (build-system cargo-build-system)
     (arguments
      `(#:skip-build? #t
        #:cargo-inputs
-       (("rust-arrow" ,rust-arrow-5)
+       (("rust-arrow2" ,rust-arrow2-0.5)
         ("rust-num" ,rust-num-0.4)
         ("rust-thiserror" ,rust-thiserror-1))))
     (home-page "https://github.com/ritchie46/polars")
@@ -34590,6 +36043,25 @@ applications.")
      "This crate provides Arrow interfaces for Polars DataFrame library.")
     (license license:expat)))
 
+(define-public rust-polars-arrow-0.15
+  (package
+    (inherit rust-polars-arrow-0.16)
+    (name "rust-polars-arrow")
+    (version "0.15.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "polars-arrow" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0d8ir9dajywfqg6ck557vbvzsdmndc1ipn9mgrqi15yini1qmw2z"))))
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-arrow" ,rust-arrow-5)
+        ("rust-num" ,rust-num-0.4)
+        ("rust-thiserror" ,rust-thiserror-1))))))
+
 (define-public rust-polars-arrow-0.14
   (package
     (inherit rust-polars-arrow-0.15)
@@ -34629,24 +36101,24 @@ applications.")
         ("rust-num" ,rust-num-0.4)
         ("rust-thiserror" ,rust-thiserror-1))))))
 
-(define-public rust-polars-core-0.15
+(define-public rust-polars-core-0.16
   (package
     (name "rust-polars-core")
-    (version "0.15.1")
+    (version "0.16.0")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "polars-core" version))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32 "0vzyyqg0s6h3k77z7nkmqrrgnp7nbi7sh5nmlw1ggrlml9ps0aa9"))))
+        (base32 "0knhxc2b0k5jpvm7fxm64b5hjdyqgxjjyi6cnsiy5sya3mj3v9cd"))))
     (build-system cargo-build-system)
     (arguments
      `(#:skip-build? #t
        #:cargo-inputs
        (("rust-ahash" ,rust-ahash-0.7)
         ("rust-anyhow" ,rust-anyhow-1)
-        ("rust-arrow" ,rust-arrow-5)
+        ("rust-arrow2" ,rust-arrow2-0.5)
         ("rust-chrono" ,rust-chrono-0.4)
         ("rust-comfy-table" ,rust-comfy-table-1)
         ("rust-hashbrown" ,rust-hashbrown-0.11)
@@ -34656,8 +36128,7 @@ applications.")
         ("rust-ndarray" ,rust-ndarray-0.15)
         ("rust-num" ,rust-num-0.4)
         ("rust-num-cpus" ,rust-num-cpus-1)
-        ("rust-parquet" ,rust-parquet-5)
-        ("rust-polars-arrow" ,rust-polars-arrow-0.15)
+        ("rust-polars-arrow" ,rust-polars-arrow-0.16)
         ("rust-prettytable-rs" ,rust-prettytable-rs-0.8)
         ("rust-rand" ,rust-rand-0.7)
         ("rust-rand-distr" ,rust-rand-distr-0.3)
@@ -34673,6 +36144,45 @@ applications.")
      "This crate provides the core of the Polars DataFrame library.")
     (license license:expat)))
 
+(define-public rust-polars-core-0.15
+  (package
+    (inherit rust-polars-core-0.16)
+    (name "rust-polars-core")
+    (version "0.15.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "polars-core" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0vzyyqg0s6h3k77z7nkmqrrgnp7nbi7sh5nmlw1ggrlml9ps0aa9"))))
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-ahash" ,rust-ahash-0.7)
+        ("rust-anyhow" ,rust-anyhow-1)
+        ("rust-arrow" ,rust-arrow-5)
+        ("rust-chrono" ,rust-chrono-0.4)
+        ("rust-comfy-table" ,rust-comfy-table-1)
+        ("rust-hashbrown" ,rust-hashbrown-0.11)
+        ("rust-itertools" ,rust-itertools-0.10)
+        ("rust-jsonpath-lib" ,rust-jsonpath-lib-0.3)
+        ("rust-lazy-static" ,rust-lazy-static-1)
+        ("rust-ndarray" ,rust-ndarray-0.15)
+        ("rust-num" ,rust-num-0.4)
+        ("rust-num-cpus" ,rust-num-cpus-1)
+        ("rust-parquet" ,rust-parquet-5)
+        ("rust-polars-arrow" ,rust-polars-arrow-0.15)
+        ("rust-prettytable-rs" ,rust-prettytable-rs-0.8)
+        ("rust-rand" ,rust-rand-0.7)
+        ("rust-rand-distr" ,rust-rand-distr-0.3)
+        ("rust-rayon" ,rust-rayon-1)
+        ("rust-regex" ,rust-regex-1)
+        ("rust-serde" ,rust-serde-1)
+        ("rust-serde-json" ,rust-serde-json-1)
+        ("rust-thiserror" ,rust-thiserror-1)
+        ("rust-unsafe-unwrap" ,rust-unsafe-unwrap-0.1))))))
+
 (define-public rust-polars-core-0.14
   (package
     (inherit rust-polars-core-0.15)
@@ -34748,8 +36258,46 @@ applications.")
         ("rust-thiserror" ,rust-thiserror-1)
         ("rust-unsafe-unwrap" ,rust-unsafe-unwrap-0.1))))))
 
+(define-public rust-polars-io-0.16
+  (package
+    (name "rust-polars-io")
+    (version "0.16.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "polars-io" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0yqpjk0ymqpjq6f0mnm9hhw9xmjradx6vqzg5n54qvl6v3s3p3kh"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-ahash" ,rust-ahash-0.7)
+        ("rust-anyhow" ,rust-anyhow-1)
+        ("rust-arrow2" ,rust-arrow2-0.5)
+        ("rust-csv-core" ,rust-csv-core-0.1)
+        ("rust-dirs" ,rust-dirs-3)
+        ("rust-flate2" ,rust-flate2-1)
+        ("rust-lazy-static" ,rust-lazy-static-1)
+        ("rust-lexical" ,rust-lexical-6)
+        ("rust-memmap2" ,rust-memmap2-0.2)
+        ("rust-num" ,rust-num-0.4)
+        ("rust-num-cpus" ,rust-num-cpus-1)
+        ("rust-polars-arrow" ,rust-polars-arrow-0.16)
+        ("rust-polars-core" ,rust-polars-core-0.16)
+        ("rust-rayon" ,rust-rayon-1)
+        ("rust-regex" ,rust-regex-1)
+        ("rust-simdutf8" ,rust-simdutf8-0.1))))
+    (home-page "https://github.com/ritchie46/polars")
+    (synopsis "IO related logic for the Polars DataFrame library")
+    (description
+     "This crate provides IO related logic for the Polars DataFrame library.")
+    (license license:expat)))
+
 (define-public rust-polars-io-0.15
   (package
+    (inherit rust-polars-io-0.16)
     (name "rust-polars-io")
     (version "0.15.1")
     (source
@@ -34759,7 +36307,6 @@ applications.")
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
         (base32 "19r2l3rxjdk25ir93l85ap4q0w5p7apjw3g57pszxph9nh2j8ba2"))))
-    (build-system cargo-build-system)
     (arguments
      `(#:skip-build? #t
        #:cargo-inputs
@@ -34780,12 +36327,7 @@ applications.")
         ("rust-polars-core" ,rust-polars-core-0.15)
         ("rust-rayon" ,rust-rayon-1)
         ("rust-regex" ,rust-regex-1)
-        ("rust-simdutf8" ,rust-simdutf8-0.1))))
-    (home-page "https://github.com/ritchie46/polars")
-    (synopsis "IO related logic for the Polars DataFrame library")
-    (description
-     "This crate provides IO related logic for the Polars DataFrame library.")
-    (license license:expat)))
+        ("rust-simdutf8" ,rust-simdutf8-0.1))))))
 
 (define-public rust-polars-io-0.14
   (package
@@ -34854,26 +36396,26 @@ applications.")
         ("rust-rayon" ,rust-rayon-1)
         ("rust-regex" ,rust-regex-1))))))
 
-(define-public rust-polars-lazy-0.15
+(define-public rust-polars-lazy-0.16
   (package
     (name "rust-polars-lazy")
-    (version "0.15.1")
+    (version "0.16.0")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "polars-lazy" version))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32 "0xh3a0gjsisx62zwjmawxg9giin7bwmh7z7y4cc2d3ygy8nk19jh"))))
+        (base32 "01bjsk880dvigyqx7aj3f8zvxpk9gl14k3s40w3dv3aanhdzq7wx"))))
     (build-system cargo-build-system)
     (arguments
      `(#:skip-build? #t
        #:cargo-inputs
        (("rust-ahash" ,rust-ahash-0.7)
         ("rust-itertools" ,rust-itertools-0.10)
-        ("rust-polars-arrow" ,rust-polars-arrow-0.15)
-        ("rust-polars-core" ,rust-polars-core-0.15)
-        ("rust-polars-io" ,rust-polars-io-0.15)
+        ("rust-polars-arrow" ,rust-polars-arrow-0.16)
+        ("rust-polars-core" ,rust-polars-core-0.16)
+        ("rust-polars-io" ,rust-polars-io-0.16)
         ("rust-rayon" ,rust-rayon-1)
         ("rust-regex" ,rust-regex-1))))
     (home-page "https://github.com/ritchie46/polars")
@@ -34883,6 +36425,29 @@ applications.")
 library.")
     (license license:expat)))
 
+(define-public rust-polars-lazy-0.15
+  (package
+    (inherit rust-polars-lazy-0.16)
+    (name "rust-polars-lazy")
+    (version "0.15.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "polars-lazy" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0xh3a0gjsisx62zwjmawxg9giin7bwmh7z7y4cc2d3ygy8nk19jh"))))
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-ahash" ,rust-ahash-0.7)
+        ("rust-itertools" ,rust-itertools-0.10)
+        ("rust-polars-arrow" ,rust-polars-arrow-0.15)
+        ("rust-polars-core" ,rust-polars-core-0.15)
+        ("rust-polars-io" ,rust-polars-io-0.15)
+        ("rust-rayon" ,rust-rayon-1)
+        ("rust-regex" ,rust-regex-1))))))
+
 (define-public rust-polars-lazy-0.14
   (package
     (inherit rust-polars-lazy-0.15)
@@ -38263,14 +39828,14 @@ accessors.")
 (define-public rust-rayon-1
   (package
     (name "rust-rayon")
-    (version "1.5.0")
+    (version "1.5.1")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "rayon" version))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32 "0x2n4zkrm6z3avdfh7zgcwx0wq6hx8332dx89v3j1p7s3448w3cb"))))
+        (base32 "143dl2453bazgk7rwjrickmyqd0ks3q69nfz8axcins19n0clsn0"))))
     (build-system cargo-build-system)
     (arguments
      `(#:cargo-inputs
@@ -38342,14 +39907,14 @@ Rust.")
 (define-public rust-rayon-core-1
   (package
     (name "rust-rayon-core")
-    (version "1.9.0")
+    (version "1.9.1")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "rayon-core" version))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32 "0jpsi8zf66xyx4m5f329lpgiql8775vpm6zqm7zn5p11b6n4dcws"))))
+        (base32 "13kdcnqp2p1a5a3amamfjpnm7ay463vq4dfxy4rrh9shr3i210fp"))))
     (build-system cargo-build-system)
     (arguments
      ;; One of the tests attempts to overflow the stack, but the compiler has
@@ -38899,6 +40464,33 @@ uses finite automata and guarantees linear time matching on all inputs.")
        (("rust-quickcheck" ,rust-quickcheck-0.2)
         ("rust-rand" ,rust-rand-0.3))))))
 
+(define-public rust-region-2
+  (package
+    (name "rust-region")
+    (version "2.2.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "region" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1q4szar3ms76552iygmhsvzhvvwkgz4l94qpx600vmyw5bm58zl7"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-bitflags" ,rust-bitflags-1)
+        ("rust-libc" ,rust-libc-0.2)
+        ("rust-mach" ,rust-mach-0.3)
+        ("rust-winapi" ,rust-winapi-0.3))
+       #:cargo-development-inputs
+       (("rust-memmap" ,rust-memmap-0.7))))
+    (home-page "https://github.com/darfink/region-rs")
+    (synopsis "Library for manipulating memory regions")
+    (description
+     "This package provides a library for manipulating memory regions.")
+    (license license:expat)))
+
 (define-public rust-relative-path-1
   (package
     (name "rust-relative-path")
@@ -42557,6 +44149,36 @@ with one of the implemented strategies.")
          (base32
           "09sy9wbqp409pkwmqni40qmwa99ldqpl48pp95m1xw8sc19qy9cl"))))))
 
+(define-public rust-scraper-0.12
+  (package
+    (name "rust-scraper")
+    (version "0.12.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "scraper" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "04icx88wdrlz1qv0dz1zc0inlfq34ajwdpih854jw368j2kjmq28"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-cssparser" ,rust-cssparser-0.27)
+        ("rust-ego-tree" ,rust-ego-tree-0.6)
+        ("rust-getopts" ,rust-getopts-0.2)
+        ("rust-html5ever" ,rust-html5ever-0.25)
+        ("rust-matches" ,rust-matches-0.1)
+        ("rust-selectors" ,rust-selectors-0.22)
+        ("rust-smallvec" ,rust-smallvec-1)
+        ("rust-tendril" ,rust-tendril-0.4))))
+    (home-page "https://github.com/programble/scraper")
+    (synopsis "HTML parsing and querying with CSS selectors")
+    (description
+     "Scraper provides an interface to Servo's html5ever and selectors crates,
+for browser-grade parsing and querying.")
+    (license license:isc)))
+
 (define-public rust-scratch-1
   (package
     (name "rust-scratch")
@@ -45272,14 +46894,14 @@ words, like Python's shlex.")
 (define-public rust-signal-hook-0.3
   (package
     (name "rust-signal-hook")
-    (version "0.3.4")
+    (version "0.3.10")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "signal-hook" version))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32 "0h628smm9y22qi3szpkg3xpj31hyvs4ps29nf8cnfvy6w0zmw3vq"))))
+        (base32 "1lgg8rwyz97pqkpg4ii7iswvs5mx8sgg2pl2ahlil9vyfcfqk64w"))))
     (build-system cargo-build-system)
     (arguments
      `(#:skip-build? #t
@@ -45318,19 +46940,42 @@ words, like Python's shlex.")
        (("rust-tokio" ,rust-tokio-0.1)
         ("rust-version-sync" ,rust-version-sync-0.8))))))
 
+(define-public rust-signal-hook-mio-0.2
+  (package
+    (name "rust-signal-hook-mio")
+    (version "0.2.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "signal-hook-mio" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1m3yc37dxdq4ym0x7i2b9aqfnlhivwm7mvls0yzcbwn4y5kmiz99"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-libc" ,rust-libc-0.2)
+        ("rust-mio" ,rust-mio-0.7)
+        ("rust-mio" ,rust-mio-0.6)
+        ("rust-mio-uds" ,rust-mio-uds-0.6)
+        ("rust-signal-hook" ,rust-signal-hook-0.3))))
+    (home-page "https://github.com/vorner/signal-hook")
+    (synopsis "MIO support for signal-hook")
+    (description "This crate provides MIO support for signal-hook.")
+    (license (list license:asl2.0 license:expat))))
+
 (define-public rust-signal-hook-registry-1
   (package
     (name "rust-signal-hook-registry")
-    (version "1.3.0")
+    (version "1.4.0")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "signal-hook-registry" version))
-       (file-name
-        (string-append name "-" version ".tar.gz"))
+       (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32
-         "19hirq0h33jjyh505s8hf9q5dq0ky80ygivkl3vshjv0y7zd1w8n"))))
+        (base32 "1c2mhijg54y6c1zi4630yki1vpq3z96ljfnsrdy0rb64ilr767p5"))))
     (build-system cargo-build-system)
     (arguments
      `(#:skip-build? #t
@@ -46315,6 +47960,29 @@ More importantly, this library also provides the ability to un-escape a given
 escaped text to recover the original string.")
     (license license:gpl3)))
 
+(define-public rust-snake-case-0.3
+  (package
+    (name "rust-snake-case")
+    (version "0.3.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "snake-case" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1v4f132rk9wxiw8hb3kgnixirzr8kbfhg2lgsf4b85vbg02a0jfn"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:rust ,rust-1.52 ; fix for E0658
+       #:cargo-inputs (("rust-serde" ,rust-serde-1))))
+    (home-page "https://github.com/emilk/snake_case")
+    (synopsis "String-like type that only contains non-empty snake_case")
+    (description
+     "This package provides a String-like type that can only contain valid
+non-empty snake_case.")
+    (license license:expat)))
+
 (define-public rust-snap-1
   (package
     (name "rust-snap")
@@ -47176,6 +48844,29 @@ UTF-8.")
        (("rust-blobby" ,rust-blobby-0.1)
         ("rust-generic-array" ,rust-generic-array-0.13))))))
 
+(define-public rust-streaming-iterator-0.1
+  (package
+    (name "rust-streaming-iterator")
+    (version "0.1.5")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "streaming-iterator" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1xc1gyq137b020m29g85zdhbbdrksdmhf3dq4ri4fjlrfz0kacih"))))
+    (build-system cargo-build-system)
+    (arguments `(#:skip-build? #t))
+    (home-page "https://github.com/sfackler/streaming-iterator")
+    (synopsis "Streaming iterators")
+    (description "The iterator APIs in the Rust standard library do not allow
+elements to be yielded which borrow from the iterator itself.  That means, for
+example, that the @code{std::io::Lines} iterator must allocate a new
+@code{String} for each line rather than reusing an internal buffer.  The
+@code{StreamingIterator} trait instead provides access to elements being
+iterated over only by reference rather than by value.")
+    (license (list license:expat license:asl2.0))))
+
 (define-public rust-streaming-stats-0.2
   (package
     (name "rust-streaming-stats")
@@ -47227,6 +48918,30 @@ UTF-8.")
      "This package provides a streebog (GOST R 34.11-2012) hash function.")
     (license (list license:expat license:asl2.0))))
 
+(define-public rust-strength-reduce-0.2
+  (package
+    (name "rust-strength-reduce")
+    (version "0.2.3")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "strength_reduce" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0m12phq654mfxpmh2h5akqkag5ha6nlhjc2bp9jwarr5r1qjzzx3"))))
+    (build-system cargo-build-system)
+    (arguments `(#:skip-build? #t))
+    (home-page "http://github.com/ejmahler/strength_reduce")
+    (synopsis "Faster integer division and modulus operations")
+    (description "Strength_reduce implements integer division and modulo via
+@dfn{arithmetic strength reduction}.  Modern processors can do multiplication
+and shifts much faster than division, and arithmetic strength reduction is an
+algorithm to transform divisions into multiplications and shifts.  Compilers
+already perform this optimization for divisors that are known at compile time;
+this library enables this optimization for divisors that are only known at
+runtime.")
+    (license (list license:expat license:asl2.0))))
+
 (define-public rust-string-0.2
   (package
     (name "rust-string")
@@ -47398,19 +49113,19 @@ as defined in RFC 3454.")
 (define-public rust-strip-ansi-escapes-0.1
   (package
     (name "rust-strip-ansi-escapes")
-    (version "0.1.0")
+    (version "0.1.1")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "strip-ansi-escapes" version))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32 "1vmc6cwxsvp02b17b6x42mnnnn5vlc1dqbcqc2a71yms59p6fqwx"))))
+        (base32 "1n36ly9vxb1wr5q76i7995xr7c0pb1pc8g7a3a3n47vwrwwvn701"))))
     (build-system cargo-build-system)
     (arguments
      `(#:skip-build? #t
        #:cargo-inputs
-       (("rust-vte" ,rust-vte-0.3))))
+       (("rust-vte" ,rust-vte-0.10))))
     (home-page "https://github.com/luser/strip-ansi-escapes")
     (synopsis "Strip ANSI escape sequences from byte streams")
     (description
@@ -47421,6 +49136,61 @@ and write it somewhere that does not easily support them, such as a log
 file.")
     (license (list license:asl2.0 license:expat))))
 
+(define-public rust-strong-xml-0.6
+  (package
+    (name "rust-strong-xml")
+    (version "0.6.3")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "strong-xml" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1gxy34j42x5a572cfkkhmxamrm764pswj5r3wcwi0bwfc4xgn68x"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:rust ,rust-1.52 ; fix for E0658
+       #:cargo-inputs
+       (("rust-jetscii" ,rust-jetscii-0.5)
+        ("rust-lazy-static" ,rust-lazy-static-1)
+        ("rust-log" ,rust-log-0.4)
+        ("rust-memchr" ,rust-memchr-2)
+        ("rust-strong-xml-derive"
+         ,rust-strong-xml-derive-0.6)
+        ("rust-xmlparser" ,rust-xmlparser-0.13))
+       #:cargo-development-inputs
+       (("rust-env-logger" ,rust-env-logger-0.8))))
+    (home-page "https://github.com/PoiScript/strong-xml")
+    (synopsis "Strong typed xml")
+    (description
+     "This package provides a strong typed XML parser, based on xmlparser.")
+    (license license:expat)))
+
+(define-public rust-strong-xml-derive-0.6
+  (package
+    (name "rust-strong-xml-derive")
+    (version "0.6.3")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "strong-xml-derive" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1qf7smxaaglj7p9fs0csd0cyvwcy30w96pdy2aqi65ijk7s83iwj"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-proc-macro2" ,rust-proc-macro2-1)
+        ("rust-quote" ,rust-quote-1)
+        ("rust-syn" ,rust-syn-1))))
+    (home-page "https://github.com/PoiScript/strong-xml")
+    (synopsis "Strong typed XML")
+    (description
+     "This package provides a strong typed XML parser, based on xmlparser.")
+    (license license:expat)))
+
 (define-public rust-strsim-0.10
   (package
     (name "rust-strsim")
@@ -47619,22 +49389,22 @@ struct.")
      "Parse command line argument by defining a struct, derive crate.")
     (license (list license:asl2.0 license:expat))))
 
-(define-public rust-strum-0.20
+(define-public rust-strum-0.21
   (package
     (name "rust-strum")
-    (version "0.20.0")
+    (version "0.21.0")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "strum" version))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32 "0p5cslmdnz261kiwmm4h7qsmv9bh83r0f9lq6f2z2mxsnl4wa63k"))))
+        (base32 "1qnd2by1zrwgx7li0hmwy7jbzjwz1ky697qjg85nga8zzny6py5a"))))
     (build-system cargo-build-system)
     (arguments
      `(#:skip-build? #t
        #:cargo-inputs
-       (("rust-strum-macros" ,rust-strum-macros-0.20))))
+       (("rust-strum-macros" ,rust-strum-macros-0.21))))
     (home-page "https://github.com/Peternator7/strum")
     (synopsis "Set of traits for working with enums and strings")
     (description
@@ -47642,6 +49412,23 @@ struct.")
 easier in Rust.")
     (license license:expat)))
 
+(define-public rust-strum-0.20
+  (package
+    (inherit rust-strum-0.21)
+    (name "rust-strum")
+    (version "0.20.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "strum" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0p5cslmdnz261kiwmm4h7qsmv9bh83r0f9lq6f2z2mxsnl4wa63k"))))
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-strum-macros" ,rust-strum-macros-0.20))))))
+
 (define-public rust-strum-0.19
   (package
     (inherit rust-strum-0.20)
@@ -47676,17 +49463,17 @@ easier in Rust.")
      `(#:cargo-inputs
        (("rust-strum-macros" ,rust-strum-macros-0.18))))))
 
-(define-public rust-strum-macros-0.20
+(define-public rust-strum-macros-0.21
   (package
     (name "rust-strum-macros")
-    (version "0.20.1")
+    (version "0.21.1")
     (source
      (origin
        (method url-fetch)
        (uri (crate-uri "strum_macros" version))
        (file-name (string-append name "-" version ".tar.gz"))
        (sha256
-        (base32 "0j9ikvxlqzr667ghc045qkpwprjgcfmzgagln7maw4jigawcd2zf"))))
+        (base32 "1v55b1in7dn07s6vxr8dajqpvxkxjbfq6qamnjgcbnq9x3pawsnh"))))
     (build-system cargo-build-system)
     (arguments
      `(#:skip-build? #t
@@ -47701,6 +49488,26 @@ easier in Rust.")
      "This crate provides helpful macros for working with enums and strings.")
     (license license:expat)))
 
+(define-public rust-strum-macros-0.20
+  (package
+    (inherit rust-strum-macros-0.21)
+    (name "rust-strum-macros")
+    (version "0.20.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "strum_macros" version))
+       (file-name (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0j9ikvxlqzr667ghc045qkpwprjgcfmzgagln7maw4jigawcd2zf"))))
+    (arguments
+     `(#:skip-build? #t
+       #:cargo-inputs
+       (("rust-heck" ,rust-heck-0.3)
+        ("rust-proc-macro2" ,rust-proc-macro2-1)
+        ("rust-quote" ,rust-quote-1)
+        ("rust-syn" ,rust-syn-1))))))
+
 (define-public rust-strum-macros-0.19
   (package
     (inherit rust-strum-macros-0.20)
@@ -50689,6 +52496,33 @@ fixed set of worker threads.")
      "You can bind to libsodium from Rust with this crate.")
     (license (list license:asl2.0 license:expat))))
 
+(define-public rust-tiger-0.1
+  (package
+    (name "rust-tiger")
+    (version "0.1.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "tiger" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "01bhc7h8kxc5kjqx9sqrb3g8h4f9av6hpxzyihjq7pprphf56gj4"))))
+    (build-system cargo-build-system)
+    (arguments
+     `(#:cargo-inputs
+       (("rust-block-buffer" ,rust-block-buffer-0.9)
+        ("rust-byteorder" ,rust-byteorder-1)
+        ("rust-digest" ,rust-digest-0.9))
+       #:cargo-development-inputs
+       (("rust-digest" ,rust-digest-0.9)
+        ("rust-hex-literal" ,rust-hex-literal-0.2))))
+    (home-page "https://github.com/RustCrypto/hashes")
+    (synopsis "Tiger hash function")
+    (description
+     "This package provides the Tiger cryptographic hash function.")
+    (license (list license:expat license:asl2.0))))
+
 (define-public rust-tikv-jemalloc-sys-0.4
   (package
     (name "rust-tikv-jemalloc-sys")
@@ -58958,31 +60792,47 @@ formatters with per-field documentation generated for each structure.
 configuration file and/or environment variables.")
     (license (list license:expat license:asl2.0))))
 
-(define-public rust-xmltree-0.8
+(define-public rust-xmltree-0.10
   (package
     (name "rust-xmltree")
-    (version "0.8.0")
+    (version "0.10.3")
     (source
-      (origin
-        (method url-fetch)
-        (uri (crate-uri "xmltree" version))
-        (file-name
-          (string-append name "-" version ".tar.gz"))
-        (sha256
-          (base32
-            "0w0y0jz7lhxg05ca6ngfj0lj8sbrjh4vaqv13q7qaqkhs7lsx3pz"))))
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "xmltree" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "1jqzwhr1a5cknflsshhhjlllmd1xi04qdkjsls2bnmv5mxgagn6p"))))
     (build-system cargo-build-system)
     (arguments
-      `(#:cargo-inputs
-        (("rust-indexmap" ,rust-indexmap-1)
-         ("rust-xml-rs" ,rust-xml-rs-0.7))))
-    (home-page #f)
-    (synopsis
-      "Parse an XML file into a simple tree-like structure")
-    (description
-      "Parse an XML file into a simple tree-like structure")
+     `(#:cargo-inputs
+       (("rust-indexmap" ,rust-indexmap-1)
+        ("rust-xml-rs" ,rust-xml-rs-0.8))))
+    (home-page "https://github.com/eminence/xmltree-rs")
+    (synopsis "Parse an XML file into a simple tree-like structure")
+    (description "This package provides a small library for parsing an XML
+file into an in-memory tree structure.")
     (license license:expat)))
 
+(define-public rust-xmltree-0.8
+  (package
+    (inherit rust-xmltree-0.10)
+    (name "rust-xmltree")
+    (version "0.8.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (crate-uri "xmltree" version))
+       (file-name
+        (string-append name "-" version ".tar.gz"))
+       (sha256
+        (base32 "0w0y0jz7lhxg05ca6ngfj0lj8sbrjh4vaqv13q7qaqkhs7lsx3pz"))))
+    (arguments
+     `(#:cargo-inputs
+       (("rust-indexmap" ,rust-indexmap-1)
+        ("rust-xml-rs" ,rust-xml-rs-0.7))))))
+
 (define-public rust-svd-parser-0.9
   (package
     (name "rust-svd-parser")
diff --git a/gnu/packages/cups.scm b/gnu/packages/cups.scm
index cb9a36b962..bf92905f9c 100644
--- a/gnu/packages/cups.scm
+++ b/gnu/packages/cups.scm
@@ -502,14 +502,14 @@ should only be used as part of the Guix cups-pk-helper service.")
 (define-public hplip
   (package
     (name "hplip")
-    (version "3.21.8")
+    (version "3.21.10")
     (source (origin
               (method url-fetch)
               (uri (string-append "mirror://sourceforge/hplip/hplip/" version
                                   "/hplip-" version ".tar.gz"))
               (sha256
                (base32
-                "076fjzgw86q817c660h1vzwdp00cyjr49b9bfi7qkhphq6am4gpi"))
+                "0q3adcp8iygravp4bq4gw14jk20c5rhnawj1333qyw8yvlghw8yy"))
               (modules '((guix build utils)))
               (snippet
                '(begin
@@ -524,9 +524,13 @@ should only be used as part of the Guix cups-pk-helper service.")
                   (delete-file "prnt/hpcups/ImageProcessor.h")
                   (substitute* "Makefile.in"
                     ((" -lImageProcessor ") " ")
-                    (("(\\@HPLIP_BUILD_TRUE\\@[[:blank:]]*).*libImageProcessor.*"
+                    ;; Turn shell commands inside an if…fi into harmless no-ops.
+                    (("^(\\@HPLIP_BUILD_TRUE\\@[[:blank:]]*).*libImageProcessor.*"
                       _ prefix)
-                     (string-append prefix ":; \\\n")))
+                     (string-append prefix ": ; \\\n"))
+                    ;; Remove the lines adding file targets altogether.
+                    (("^\\@FULL_BUILD_TRUE\\@.*libImageProcessor.*")
+                     ""))
 
                   ;; Install binaries under libexec/hplip instead of
                   ;; share/hplip; that'll at least ensure they get stripped.
diff --git a/gnu/packages/databases.scm b/gnu/packages/databases.scm
index 56dbf6440f..505d5c2753 100644
--- a/gnu/packages/databases.scm
+++ b/gnu/packages/databases.scm
@@ -2198,7 +2198,7 @@ easy, requiring concise and simple code.")
      "UnQLite is an in-process software library which implements a
 self-contained, serverless, zero-configuration, transactional NoSQL
 database engine.  UnQLite is a document store database similar to
-MongoDB, Redis, CouchDB, etc. as well as a standard Key/Value store
+Redis, CouchDB, etc., as well as a standard key/value store
 similar to BerkeleyDB, LevelDB, etc.")
     (license license:bsd-2)))
 
@@ -2961,13 +2961,13 @@ Database API 2.0T.")
 (define-public python-sqlalchemy
   (package
     (name "python-sqlalchemy")
-    (version "1.4.23")
+    (version "1.4.26")
     (source
      (origin
       (method url-fetch)
       (uri (pypi-uri "SQLAlchemy" version))
       (sha256
-       (base32 "10vm8hm8w4yfsab076ak8r4vp5v1jqdi71cky6dhha7mh5l29zvn"))))
+       (base32 "06imr96jirwmkc8mkxrl9bi413yd3638lc5idn65xx8fv7bzkivb"))))
     (build-system python-build-system)
     (native-inputs
      `(("python-cython" ,python-cython) ; for C extensions
@@ -2979,7 +2979,9 @@ Database API 2.0T.")
      `(#:phases
        (modify-phases %standard-phases
          (replace 'check
-           (lambda _ (invoke "py.test"))))))
+           (lambda* (#:key tests? #:allow-other-keys)
+             (when tests?
+               (invoke "py.test")))))))
     (home-page "https://www.sqlalchemy.org")
     (synopsis "Database abstraction library")
     (description
@@ -2990,6 +2992,18 @@ designed for efficient and high-performing database access, adapted into a
 simple and Pythonic domain language.")
     (license license:x11)))
 
+(define-public python-sqlalchemy-1.3
+  (package
+    (inherit python-sqlalchemy)
+    (version "1.3.20")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (pypi-uri "SQLAlchemy" version))
+       (sha256
+        (base32 "18b9am7bsqc4nj3d2h5r93i002apczxfvpfpcqbd6f0385zmrwnj"))))
+    (propagated-inputs '())))
+
 (define-public python2-sqlalchemy
   (package-with-python2 python-sqlalchemy))
 
diff --git a/gnu/packages/diffoscope.scm b/gnu/packages/diffoscope.scm
index 728aa6b8b4..26ae8edcd1 100644
--- a/gnu/packages/diffoscope.scm
+++ b/gnu/packages/diffoscope.scm
@@ -73,7 +73,7 @@
 (define-public diffoscope
   (package
     (name "diffoscope")
-    (version "189")
+    (version "190")
     (source
      (origin
        (method git-fetch)
@@ -82,7 +82,7 @@
              (commit version)))
        (file-name (git-file-name name version))
        (sha256
-        (base32 "0dai9gwsr9xnficjy8myq6xr301y4iy82aidm936qsqjwrp8q1sm"))
+        (base32 "10q93qybwqf2nzj3iakw1pxhccq10ixm9fn7xgdr4p88qb0wchb5"))
        (patches
         (search-patches "diffoscope-fix-llvm-test.patch"))))
     (build-system python-build-system)
diff --git a/gnu/packages/disk.scm b/gnu/packages/disk.scm
index 0ed740202c..e5355f9de8 100644
--- a/gnu/packages/disk.scm
+++ b/gnu/packages/disk.scm
@@ -923,16 +923,15 @@ to create devices with respective mappings for the ATARAID sets discovered.")
 (define-public libblockdev
   (package
     (name "libblockdev")
-    (version "2.25")
+    (version "2.26")
     (source (origin
               (method url-fetch)
               (uri (string-append "https://github.com/storaged-project/"
                                   "libblockdev/releases/download/"
                                   version "-1/libblockdev-" version ".tar.gz"))
-              (patches (search-patches "libblockdev-glib-compat.patch"))
               (sha256
                (base32
-                "0s0nazkpzpn4an00qghjkk9n7gdm5a8dqfr5hfnlk5mk5lma8njm"))))
+                "0sg068jb87ljhn8yazrqxi6ri10ic2sh1lp6ikd2nqxc6l5y3h64"))))
     (build-system gnu-build-system)
     (arguments
      `(#:phases
diff --git a/gnu/packages/dns.scm b/gnu/packages/dns.scm
index 89ebe588fd..b289aa999e 100644
--- a/gnu/packages/dns.scm
+++ b/gnu/packages/dns.scm
@@ -592,14 +592,14 @@ asynchronous fashion.")
 (define-public nsd
   (package
     (name "nsd")
-    (version "4.3.7")
+    (version "4.3.8")
     (source
      (origin
        (method url-fetch)
        (uri (string-append "https://www.nlnetlabs.nl/downloads/nsd/nsd-"
                            version ".tar.gz"))
        (sha256
-        (base32 "1bg87g0i66hw16fm7gbqmzyi2rcn1hadzz0bg9b8s5mx7g2rwfzx"))))
+        (base32 "1qcrrglm3r486r6n26h5fr1xb1k8jf63gm9b43wrhnigywjpx28i"))))
     (build-system gnu-build-system)
     (arguments
      `(#:configure-flags
@@ -635,8 +635,7 @@ asynchronous fashion.")
                  ((".*INSTALL.*\\$\\((config|pid|xfr|db)dir" command)
                   (string-append "#" command))
                  (("\\$\\(nsdconfigfile\\)\\.sample" file-name)
-                  (string-append doc "/examples/" file-name)))
-               #t))))
+                  (string-append doc "/examples/" file-name)))))))
        #:tests? #f))                    ; no tests
     (inputs
      `(("libevent" ,libevent)
@@ -924,7 +923,7 @@ Extensions} (DNSSEC).")
 (define-public knot
   (package
     (name "knot")
-    (version "3.1.2")
+    (version "3.1.4")
     (source
      (origin
        (method git-fetch)
@@ -933,7 +932,7 @@ Extensions} (DNSSEC).")
              (commit (string-append "v" version))))
        (file-name (git-file-name name version))
        (sha256
-        (base32 "1kyjf6d1jx8q0zjzwy06f4d3ar5cbbqxka8cc7ckwmbpf1n6cij5"))
+        (base32 "0wx8ad95adryzp527m4k0lja8y39qqd65f5z9immhfpb9cyax6i7"))
        (modules '((guix build utils)))
        (snippet
         '(begin
diff --git a/gnu/packages/emacs-xyz.scm b/gnu/packages/emacs-xyz.scm
index 935a1f62ca..096ba06edc 100644
--- a/gnu/packages/emacs-xyz.scm
+++ b/gnu/packages/emacs-xyz.scm
@@ -47,6 +47,7 @@
 ;;; Copyright © 2019 mikadoZero <mikadozero@yandex.com>
 ;;; Copyright © 2019 Gabriel Hondet <gabrielhondet@gmail.com>
 ;;; Copyright © 2019, 2020, 2021 Joseph LaFreniere <joseph@lafreniere.xyz>
+;;; Copyright © 2019 Todor Kondić <tk.code@protonmail.com>15669
 ;;; Copyright © 2019 Amar Singh <nly@disroot.org>
 ;;; Copyright © 2019 Baptiste Strazzulla <bstrazzull@hotmail.fr>
 ;;; Copyright © 2019 Giacomo Leidi <goodoldpaul@autistici.org>
@@ -280,7 +281,7 @@ e.g. emacs-geiser-guile for Guile.")
 (define-public emacs-geiser-guile
   (package
     (name "emacs-geiser-guile")
-    (version "0.17")
+    (version "0.18")
     (source
      (origin
        (method git-fetch)
@@ -289,7 +290,7 @@ e.g. emacs-geiser-guile for Guile.")
              (commit version)))
        (file-name (git-file-name name version))
        (sha256
-        (base32 "0iw23nlgqppf6f00ly50m8lq85n9mv244pw3whxv0hynfjxr2ic0"))))
+        (base32 "0gndf0w8dbv54bzc04svp2ck8wypa7i3b8kpixf6rkg91l79xpci"))))
     (build-system emacs-build-system)
     (arguments
      '(#:include (cons "^src/" %default-include)
@@ -304,8 +305,7 @@ e.g. emacs-geiser-guile for Guile.")
                ;; loaded, so let's defer that until it is.
                (("\\(geiser-activate-implementation .*\\)" all)
                 (string-append
-                 "(eval-after-load 'geiser-impl '" all ")")))
-             #t)))))
+                 "(eval-after-load 'geiser-impl '" all ")"))))))))
     (inputs
      `(("guile" ,guile-3.0)))
     (propagated-inputs
@@ -650,22 +650,23 @@ some utility functions, and commands using that infrastructure.")
 (define-public git-modes
   (package
     (name "emacs-git-modes")
-    (version "1.3.0")
-    (source (origin
-              (method git-fetch)
-              (uri (git-reference
-                     (url "https://github.com/magit/git-modes")
-                     (commit version)))
-              (file-name (git-file-name name version))
-              (sha256
-               (base32
-                "0m8qfjj5hzxwyyi34sbk11qz5fix6z80hiki0v0a838sq4f586b6"))))
+    (version "1.4.0")
+    (source
+     (origin
+       (method git-fetch)
+       (uri (git-reference
+             (url "https://github.com/magit/git-modes")
+             (commit version)))
+       (file-name (git-file-name name version))
+       (sha256
+        (base32 "0aqz65pcqc35h5z4s606f48iqn87h5v9nj3cp6n9yjxa2v7w5hfk"))))
     (build-system emacs-build-system)
     (home-page "https://github.com/magit/git-modes")
     (synopsis "Emacs major modes for Git configuration files")
     (description
      "This package provides Emacs major modes for editing various Git
-configuration files, such as .gitattributes, .gitignore, and .git/config.")
+configuration files, such as @file{.gitattributes}, @file{.gitignore}, and
+@file{.git/config}.")
     (license license:gpl3+)))
 
 (define-public emacs-with-editor
@@ -1646,6 +1647,19 @@ boilerplate code from defining new Flymake backend functions.")
          (sha256
           (base32 "04yfb4sy41spjzk9mhm4gy0h8vnjx09p2g6nm1yzgd9a5ph9sqgl"))))
       (build-system emacs-build-system)
+      (arguments
+       '(#:phases
+         (modify-phases %standard-phases
+           (add-after 'unpack 'substitute-shellcheck-path
+             (lambda* (#:key inputs #:allow-other-keys)
+               (make-file-writable "flymake-shellcheck.el")
+               (emacs-substitute-sexps "flymake-shellcheck.el"
+                 ("defcustom flymake-shellcheck-path"
+                  `(or (executable-find "shellcheck")
+                       ,(string-append (assoc-ref inputs "shellcheck")
+                                       "/bin/shellcheck")))))))))
+      (inputs
+       `(("shellcheck" ,shellcheck)))
       (home-page "https://github.com/federicotdn/flymake-shellcheck")
       (synopsis "Flymake backend for Bash/Sh powered by ShellCheck")
       (description
@@ -12645,7 +12659,6 @@ editing nginx config files.")
        (method url-fetch)
        (uri (string-append "https://elpa.gnu.org/packages/"
                            "stream-" version ".tar"))
-       (file-name (git-file-name name version))
        (sha256
         (base32 "00c3n4gyxzv7vczqms0d62kl8zsmjfyxa92mwxn2snyx857a9jfw"))))
     (build-system emacs-build-system)
@@ -13922,14 +13935,14 @@ methods from a given list.")
 (define-public emacs-posframe
   (package
     (name "emacs-posframe")
-    (version "1.0.4")
+    (version "1.1.0")
     (source
      (origin
        (method url-fetch)
        (uri (string-append "https://elpa.gnu.org/packages/"
                            "posframe-" version ".tar"))
        (sha256
-        (base32 "0i2pw90gw9zb22gj8yyvcp3b2k1bxxhbjj0idvr5iz1vd9023bc6"))))
+        (base32 "0ddm149dz71nksbpz7rwa8cax1nisf6wklv5iq4zrcbf5ghpagkg"))))
     (build-system emacs-build-system)
     ;; emacs-minimal does not include the function font-info.
     (arguments
@@ -17677,7 +17690,7 @@ files to be expanded upon opening them.")
 (define-public emacs-ebib
   (package
     (name "emacs-ebib")
-    (version "2.32.2")
+    (version "2.33")
     (source
      (origin
        (method git-fetch)
@@ -17686,10 +17699,11 @@ files to be expanded upon opening them.")
              (commit version)))
        (file-name (git-file-name name version))
        (sha256
-        (base32 "04kw0akp35r2ibrcav4kaf34d1xs8pckjiygv7h1nqpv6dmrgfq7"))))
+        (base32 "18gvmymkpzws8s4zjcm1kijyr55dgfcq201z3w1jzhkhcs01bfsc"))))
     (build-system emacs-build-system)
     (propagated-inputs
      `(("emacs-biblio" ,emacs-biblio)
+       ("emacs-ivy" ,emacs-ivy)
        ("emacs-parsebib" ,emacs-parsebib)))
     (home-page "https://joostkremers.github.io/ebib/")
     (synopsis "BibTeX database manager for Emacs")
@@ -17732,13 +17746,48 @@ and publications from various sources, by keywords or by DOI.  References are
 automatically fetched from well-curated sources, and formatted as BibTeX.")
     (license license:gpl3+)))
 
+(define-public emacs-citar
+  (package
+    (name "emacs-citar")
+    (version "0.8")
+    (source
+     (origin
+       (method git-fetch)
+       (uri (git-reference
+             (url "https://github.com/bdarcus/citar")
+             (commit (string-append "v" version))))
+       (file-name (git-file-name name version))
+       (sha256
+        (base32 "1jrfcfr976c9nb2vpfrh6yhck5gm34wcjzbk0m6gq2xg3qfv2g6p"))))
+    (build-system emacs-build-system)
+    (propagated-inputs
+     `(("emacs-auctex" ,emacs-auctex)
+       ("emacs-helm-bibtex" ,emacs-helm-bibtex)
+       ("emacs-org" ,emacs-org)
+       ("emacs-parsebib" ,emacs-parsebib)
+       ("emacs-s" ,emacs-s)))
+    (home-page "https://github.com/bdarcus/citar")
+    (synopsis "Emacs package to quickly find and act on bibliographic entries")
+    (description
+     "This package provides a completing-read front-end to browse and
+act on BibTeX, BibLaTeX, and CSL JSON bibliographic data, and LaTeX,
+markdown, and Org cite editing support.
+
+When used with Vertico (or Selectrum), Embark, and Marginalia, it
+provides similar functionality to helm-bibtex and ivy-bibtex: quick
+filtering and selecting of bibliographic entries from the minibuffer,
+and the option to run different commands against them.
+
+With Embark, it also makes available at-point actions in Org
+citations.")
+    (license license:gpl3+)))
+
 (define-public emacs-helm-bibtex
-  (let ((commit "d4471232be26793fbf56c0ac3690b5f537c378b9")
-        (revision "2"))
+  (let ((commit "aa775340ba691d2322948bfdc6a88158568a1399")
+        (revision "3"))
     (package
       (name "emacs-helm-bibtex")
-      (version (string-append "2.0.0" "-" revision "."
-                              (string-take commit 7)))
+      (version (git-version "2.0.0" revision commit))
       (source
        (origin
          (method git-fetch)
@@ -17747,8 +17796,7 @@ automatically fetched from well-curated sources, and formatted as BibTeX.")
                (commit commit)))
          (file-name (git-file-name name version))
          (sha256
-          (base32
-           "1bkzhic6qckb267025il1r3xcpz99kisphxiafni1pxvf9jafr0j"))))
+          (base32 "1d3mc17ga09m41i06khghlvixr6gsiacifnhdbrfnp0w5592aprk"))))
       (build-system emacs-build-system)
       (propagated-inputs
        `(("emacs-helm" ,emacs-helm)
@@ -25160,6 +25208,27 @@ Dash docsets.")
 through Dash docsets.")
       (license license:expat))))
 
+(define-public emacs-devdocs
+  (package
+    (name "emacs-devdocs")
+    (version "0.2")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (string-append
+             "https://elpa.gnu.org/packages/"
+             "devdocs-" version ".tar"))
+       (sha256
+        (base32 "1npc7yra7pvf86ahmz1h7hnjxrz15ar1vjcalg4ilizypycpgrwj"))))
+    (build-system emacs-build-system)
+    (home-page "https://github.com/astoff/devdocs.el")
+    (synopsis "Emacs viewer for DevDocs")
+    (description
+     "This package provides a documentation viewer similar to Emacs's
+built-in Info browser, but geared towards documentation obtained from
+@url{https://devdocs.io}.")
+    (license license:gpl3+)))
+
 (define-public emacs-cascading-dir-locals
   (let ((release "0.1")
         (revision "0")
@@ -25636,6 +25705,120 @@ provided.  Those alternative commands are and bound by default to their
 corresponding Evil keys.")
       (license license:expat))))
 
+(define-public emacs-ntlm
+  (package
+    (name "emacs-ntlm")
+    (version "2.1.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (string-append "https://elpa.gnu.org/packages/ntlm-" version ".el"))
+       (sha256
+        (base32 "01d0bcmh8a36qf871w6bc05kjk9bmnh843m9869xw06zyvqwg9mv"))))
+    (build-system emacs-build-system)
+    (home-page "https://elpa.gnu.org/packages/ntlm.html")
+    (synopsis "NTLM (NT LanManager) authentication support")
+    (description
+     "This library is a direct translation of the Samba release 2.2.0
+implementation of Windows NT and LanManager compatible password encryption.")
+    (license license:gpl3+)))
+
+(define-public emacs-nadvice
+  (package
+    (name "emacs-nadvice")
+    (version "0.3")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (string-append "https://elpa.gnu.org/packages/"
+                           "nadvice-" version ".el"))
+       (sha256
+        (base32 "0gi3csnxbs8h7iy0scsl35sic3gv90swa89hhdjwb7qvpirfdcgw"))))
+    (build-system emacs-build-system)
+    (home-page "https://elpa.gnu.org/packages/nadvice.html")
+    (synopsis "Forward compatibility for Emacs-24.4's nadvice")
+    (description
+     "This package tries to re-implement some of nadvice.el's functionality on
+top of the old defadvice system, to help users of defadvice move to the new
+advice system without dropping support for Emacs<24.4.")
+    (license license:gpl3+)))
+
+(define-public emacs-url-http-ntlm
+  (package
+    (name "emacs-url-http-ntlm")
+    (version "2.0.4")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (string-append "https://elpa.gnu.org/packages/"
+                           "url-http-ntlm-" version ".el"))
+       (sha256
+        (base32 "1cakq2ykraci7d1gl8rnpv4f2f5ffyaidhqb1282g7i72adwmb98"))))
+    (build-system emacs-build-system)
+    (propagated-inputs `(("emacs-ntlm" ,emacs-ntlm)))
+    (home-page "https://elpa.gnu.org/packages/url-http-ntlm.html")
+    (synopsis "NTLM authentication for the url library")
+    (description "This package provides a NTLM handler for the URL package.")
+    (license license:gpl3+)))
+
+(define-public emacs-soap-client
+  (package
+    (name "emacs-soap-client")
+    (version "3.2.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (string-append "https://elpa.gnu.org/packages/"
+                           "soap-client-" version ".tar"))
+       (sha256
+        (base32 "1s0bwnip22nj6kgjadd4zlj9j729hiyyjb66sr51i2mddnf9i95s"))))
+    (build-system emacs-build-system)
+    (home-page "httpa://elpa.gnu.org/packages/soap-client.html")
+    (synopsis "Access SOAP web services")
+    (description
+     "This package provides a SOAP client to access web services.")
+    (license license:gpl3+)))
+
+(define-public emacs-fsm
+  (package
+    (name "emacs-fsm")
+    (version "0.2.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (string-append "https://elpa.gnu.org/packages/fsm-" version ".el"))
+       (sha256
+        (base32 "1jyxyqdbfl8nv7c50q0sg3w5p7whp1sqgi7w921k5hfar4d11qqp"))))
+    (build-system emacs-build-system)
+    (home-page "https://elpa.gnu.org/packages/fsm.html")
+    (synopsis "Finite State Machine library")
+    (description
+     "This package provides Finite State Machine library to make asynchronous
+programming in Emacs Lisp easy and fun.")
+    (license license:gpl3+)))
+
+(define-public emacs-excorporate
+  (package
+    (name "emacs-excorporate")
+    (version "1.0.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (string-append "https://elpa.gnu.org/packages/"
+                           "excorporate-" version ".tar"))
+       (sha256
+        (base32 "1g0wc2kp15ra323b4rxvdh58q9c4h7m20grw6a0cs53m7l9xi62f"))))
+    (build-system emacs-build-system)
+    (propagated-inputs
+     `(("emacs-fsm" ,emacs-fsm)
+       ("emacs-nadvice" ,emacs-nadvice)
+       ("emacs-soap-client" ,emacs-soap-client)
+       ("emacs-url-http-ntlm" ,emacs-url-http-ntlm)))
+    (home-page "https://elpa.gnu.org/packages/excorporate.html")
+    (synopsis "Exchange integration")
+    (description "This package provides Exchange integration for Emacs.")
+    (license license:gpl3+)))
+
 (define-public emacs-evil-traces
   (let ((commit "1931e3ea2c64b4aec393a9c25063c330deff55e3")
         (revision "2"))
@@ -26618,19 +26801,18 @@ available.")
 (define-public emacs-eshell-did-you-mean
   (package
     (name "emacs-eshell-did-you-mean")
-    (version "0.1")
-    (home-page "https://github.com/xuchunyang/eshell-did-you-mean")
+    (version "0.2")
     (source
      (origin
        (method git-fetch)
        (uri (git-reference
-             (url home-page)
+             (url "https://github.com/xuchunyang/eshell-did-you-mean")
              (commit (string-append "v" version))))
        (file-name (git-file-name name version))
        (sha256
-        (base32
-         "0v0wshck5n4hspcv1zk1g2nm6xiigcjp16lx0dc8wzkl6ymljvbg"))))
+        (base32 "158g8b4crm0gf5pilfxf89hdsb22gr1wbrjyx9gf45bmcll3i9vf"))))
     (build-system emacs-build-system)
+    (home-page "https://github.com/xuchunyang/eshell-did-you-mean")
     (synopsis "Display suggestions on 'command not found' in Eshell")
     (description "This library adds a list of 'Did you mean...' suggestions
 when the command was not found in Eshell.  The suggestions are found after the
@@ -27225,14 +27407,14 @@ interface.")
 (define-public emacs-ivy-posframe
   (package
     (name "emacs-ivy-posframe")
-    (version "0.6.2")
+    (version "0.6.3")
     (source
      (origin
        (method url-fetch)
        (uri (string-append "https://elpa.gnu.org/packages/"
                            "ivy-posframe-" version ".tar"))
        (sha256
-        (base32 "1x6pm0pry2j7yazhxvq1gydbymwll9yg85m8qi4sh8s0pnm0vjzk"))))
+        (base32 "0b498qzaydjrhplx4d7zcrs883dlrhfiz812sv4m3pmhfwifcchh"))))
     (build-system emacs-build-system)
     (propagated-inputs
      `(("emacs-ivy" ,emacs-ivy)
diff --git a/gnu/packages/file-systems.scm b/gnu/packages/file-systems.scm
index 7f88c34671..e6716e55bc 100644
--- a/gnu/packages/file-systems.scm
+++ b/gnu/packages/file-systems.scm
@@ -1029,8 +1029,8 @@ APFS.")
 
 (define-public xfstests
   ;; The last release (1.1.0) is from 2011.
-  (let ((revision "0")
-        (commit "1c18b9ec2fcc94bd05ecdd136aa51c97bf3fa70d"))
+  (let ((revision "1")
+        (commit "bae1d15f6421cbe99b3e2e134c39d50248e7c261"))
     (package
       (name "xfstests")
       (version (git-version "1.1.0" revision commit))
@@ -1042,7 +1042,7 @@ APFS.")
                (commit commit)))
          (file-name (git-file-name name version))
          (sha256
-          (base32 "0rrv0rs9nhaza0jk5k0bj27w4lcd1s4a1ls8nr679qi02bgx630x"))))
+          (base32 "01y7dx5sx1xg3dycqlp2b6azclz3xcnx7vdy2rr6zmf210501xd9"))))
       (build-system gnu-build-system)
       (arguments
        `(#:phases
diff --git a/gnu/packages/games.scm b/gnu/packages/games.scm
index 521bfcca2c..dd2444e3c9 100644
--- a/gnu/packages/games.scm
+++ b/gnu/packages/games.scm
@@ -65,6 +65,8 @@
 ;;; Copyright © 2021 Solene Rapenne <solene@perso.pw>
 ;;; Copyright © 2021 Noisytoot <noisytoot@disroot.org>
 ;;; Copyright © 2021 Petr Hodina <phodina@protonmail.com>
+;;; Copyright © 2021 Brendan Tildesley <mail@brendan.scot>
+;;; Copyright © 2021 Christopher Baines <mail@cbaines.net>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -151,6 +153,7 @@
   #:use-module (gnu packages less)
   #:use-module (gnu packages libcanberra)
   #:use-module (gnu packages libedit)
+  #:use-module (gnu packages libidn)
   #:use-module (gnu packages libunwind)
   #:use-module (gnu packages linux)
   #:use-module (gnu packages llvm)
@@ -171,6 +174,7 @@
   #:use-module (gnu packages perl-check)
   #:use-module (gnu packages perl-compression)
   #:use-module (gnu packages pkg-config)
+  #:use-module (gnu packages pretty-print)
   #:use-module (gnu packages protobuf)
   #:use-module (gnu packages pulseaudio)
   #:use-module (gnu packages python)
@@ -4276,14 +4280,14 @@ world}, @uref{http://evolonline.org, Evol Online} and
 (define openttd-engine
   (package
     (name "openttd-engine")
-    (version "1.11.2")
+    (version "12.0")
     (source
      (origin (method url-fetch)
              (uri (string-append "https://cdn.openttd.org/openttd-releases/"
                                  version "/openttd-" version "-source.tar.xz"))
              (sha256
               (base32
-               "0v9f93lsdcv3ia28y8iihx9nj9zp6fpf5hkdrpl4ypw159d97fhg"))))
+               "1p1j5cf4ry57dcgm7qx2g2s00z1c6qgjabb4kqjp00yz00wgv85v"))))
     (build-system cmake-build-system)
     (inputs
      `(("allegro" ,allegro)
@@ -4313,7 +4317,7 @@ engine.  When you start it you will be prompted to download a graphics set.")
 (define openttd-opengfx
   (package
     (name "openttd-opengfx")
-    (version "0.6.1")
+    (version "7.1")
     (source
      (origin
        (method url-fetch)
@@ -4321,10 +4325,10 @@ engine.  When you start it you will be prompted to download a graphics set.")
                            version "/opengfx-" version "-source.tar.xz"))
        (sha256
         (base32
-         "0jgy8xv7r72m127qn09vr3rxhnbakl2990f7lldsk0d5d8n993vd"))))
+         "0nhzlk6s73qvznm5fdwcs1b42g2plf26s5ag39fvck45zm7m48jk"))))
     (build-system gnu-build-system)
     (arguments
-     '(#:make-flags (list "CC=gcc"
+     `(#:make-flags (list (string-append "CC=" ,(cc-for-target))
                           (string-append "INSTALL_DIR="
                                          (assoc-ref %outputs "out")
                                          "/share/games/openttd/baseset/opengfx"))
@@ -4352,7 +4356,7 @@ engine.  When you start it you will be prompted to download a graphics set.")
                      ("grfcodec" ,grfcodec)
                      ("nml" ,nml)
                      ("which" ,which)
-                     ("python" ,python-2)))
+                     ("python" ,python)))
     (home-page "http://dev.openttdcoop.org/projects/opengfx")
     (synopsis "Base graphics set for OpenTTD")
     (description
@@ -4372,7 +4376,7 @@ OpenGFX provides you with...
 (define openttd-opensfx
   (package
     (name "openttd-opensfx")
-    (version "1.0.1")
+    (version "1.0.2")
     (source
      (origin
        (method url-fetch)
@@ -4381,11 +4385,11 @@ OpenGFX provides you with...
              version "/opensfx-" version "-source.tar.xz"))
        (sha256
         (base32
-         "06vycppqcxbfdqlxzna5xr303zgcmpcvj6ylw5b2ws0ssph2f1s0"))))
+         "0aym026lg0r7dp3jxxs9c0rj8lwy1fz3v9hmk3mml6sycsg3fv42"))))
     (build-system gnu-build-system)
     (native-inputs
      `(("catcodec" ,catcodec)
-       ("python" ,python-2)
+       ("python" ,python)
        ("tar" ,tar)))
     (arguments
      `(#:make-flags
@@ -4422,7 +4426,7 @@ the original Transport Tycoon Deluxe.")
 (define openttd-openmsx
   (package
     (name "openttd-openmsx")
-    (version "0.4.0")
+    (version "0.4.2")
     (source
      (origin
        (method url-fetch)
@@ -4431,11 +4435,13 @@ the original Transport Tycoon Deluxe.")
              version "/openmsx-" version "-source.tar.xz"))
        (sha256
         (base32
-         "0prjljsdgdxqdhhcriqskqha004ybs575xcjq80zha3pqnmrdk0k"))))
+         "0h583d8fxy78kc3jvpp78r76a48qhxrhm4q7jbnj74aw0kwrcl8g"))))
     (build-system gnu-build-system)
     (native-inputs
      `(("grfcodec" ,grfcodec)
-       ("python" ,python-2)
+       ; Scripts are Python3 compatible, but call the interpreter as
+       ; python instead of python3.
+       ("python" ,python-wrapper)
        ("tar" ,tar)))
     (arguments
      `(#:make-flags
@@ -4484,6 +4490,7 @@ Transport Tycoon Deluxe.")
      `(("opengfx" ,openttd-opengfx)
        ("openmsx" ,openttd-openmsx)
        ("opensfx" ,openttd-opensfx)
+       ("gcc" ,gcc-9)                   ; for #include <charconv>
        ,@(package-native-inputs openttd-engine)))))
 
 (define openrct2-title-sequences
@@ -6647,7 +6654,7 @@ fight against their plot and save his fellow rabbits from slavery.")
 (define-public 0ad-data
   (package
     (name "0ad-data")
-    (version "0.0.23b-alpha")
+    (version "0.0.25b-alpha")
     (source
      (origin
        (method url-fetch)
@@ -6655,21 +6662,10 @@ fight against their plot and save his fellow rabbits from slavery.")
                            version "-unix-data.tar.xz"))
        (file-name (string-append name "-" version ".tar.xz"))
        (sha256
-        (base32
-         "04x7729hk6zw1xj3n4s4lvaviijsnbjf5rhzvjxlr5fygvg4l6z1"))
-       (modules '((guix build utils)))
-       (snippet
-        #~(begin
-            (for-each (lambda (name)
-                        (let* ((dir (string-append "binaries/data/mods/" name))
-                               (file (string-append dir "/" name ".zip"))
-                               (unzip #$(file-append unzip "/bin/unzip")))
-                          (invoke unzip "-d" dir file)
-                          (delete-file file)))
-                      '("mod" "public"))
-            #t))))
+        (base32 "1c9zrddmjxvvacismld6fbwbw9vrdbq6g6d3424p8w5p6xg5wlwy"))))
     (build-system trivial-build-system)
     (native-inputs `(("tar" ,tar)
+                     ("unzip" ,unzip)
                      ("xz" ,xz)))
     (arguments
      `(#:modules ((guix build utils))
@@ -6679,10 +6675,17 @@ fight against their plot and save his fellow rabbits from slavery.")
          (let ((out (assoc-ref %outputs "out"))
                (source (assoc-ref %build-inputs "source"))
                (tar (search-input-file %build-inputs "/bin/tar"))
+               (unzip (search-input-file %build-inputs "/bin/unzip"))
                (xz-path (string-append (assoc-ref %build-inputs "xz") "/bin")))
            (setenv "PATH" xz-path)
            (mkdir out)
-           (invoke tar "xvf" source "-C" out "--strip=3")))))
+           (invoke tar "xvf" source "-C" out "--strip=3")
+           (for-each (lambda (name)
+                       (let* ((dir (string-append out "/mods/" name))
+                              (file (string-append dir "/" name ".zip")))
+                         (invoke unzip "-o" "-d" dir file)
+                         (delete-file file)))
+                     '("mod" "public"))))))
     (synopsis "Data files for 0ad")
     (description "0ad-data provides the data files required by the game 0ad.")
     (home-page "https://play0ad.com")
@@ -6700,7 +6703,7 @@ fight against their plot and save his fellow rabbits from slavery.")
 (define-public 0ad
   (package
     (name "0ad")
-    (version "0.0.23b-alpha")
+    (version "0.0.25b-alpha")
     (source
      (origin
        (method url-fetch)
@@ -6708,23 +6711,24 @@ fight against their plot and save his fellow rabbits from slavery.")
                            version "-unix-build.tar.xz"))
        (file-name (string-append name "-" version ".tar.xz"))
        (sha256
-        (base32
-         "0draa53xg69i5qhqym85658m45xhwkbiimaldj4sr3703rjgggq1"))))
-       ;; A snippet here would cause a build failure because of timestamps
-       ;; reset.  See https://bugs.gnu.org/26734.
+        (base32 "1p9fa8f7sjb9c5wl3mawzyfqvgr614kdkhrj2k4db9vkyisws3fp"))))
+    ;; A snippet here would cause a build failure because of timestamps
+    ;; reset.  See https://bugs.gnu.org/26734.
     (inputs
      `(("0ad-data" ,0ad-data)
        ("curl" ,curl)
        ("enet" ,enet)
+       ("fmt" ,fmt)
        ("gloox" ,gloox)
-       ("icu4c" ,icu4c)
+       ("icu4c" ,icu4c-68)
+       ("libidn" ,libidn)
        ("libpng" ,libpng)
        ("libsodium" ,libsodium)
        ("libvorbis" ,libvorbis)
        ("libxcursor" ,libxcursor)
        ("libxml2" ,libxml2)
        ("miniupnpc" ,miniupnpc)
-       ("mozjs-38" ,mozjs-38)
+       ("mozjs" ,mozjs-78)
        ("openal" ,openal)
        ("sdl2" ,sdl2)
        ("wxwidgets" ,wxwidgets)
@@ -6732,29 +6736,27 @@ fight against their plot and save his fellow rabbits from slavery.")
     (native-inputs
      `(("boost" ,boost)
        ("cmake" ,cmake-minimal)
+       ("cxxtest" ,cxxtest)
        ("mesa" ,mesa)
        ("pkg-config" ,pkg-config)
        ("python-2" ,python-2)))
     (build-system gnu-build-system)
     (arguments
      `(#:make-flags '("config=release" "verbose=1" "-C" "build/workspaces/gcc")
+       #:tests? #f                      ;tests fail currently
        #:phases
        (modify-phases %standard-phases
          (add-after 'unpack 'delete-bundles
-           (lambda _
+           (lambda* (#:key inputs #:allow-other-keys)
              (delete-file-recursively "libraries/source/spidermonkey")
-             #t))
-         (add-after 'unpack 'fix-x11-includes
-           (lambda _
-             (substitute* "source/lib/sysdep/os/unix/x/x.cpp"
-               (("<Xlib.h>") "<X11/Xlib.h>"))
-             (substitute* "source/lib/sysdep/os/unix/x/x.cpp"
-               (("<Xatom.h>") "<X11/Xatom.h>"))
-             (substitute* "source/lib/sysdep/os/unix/x/x.cpp"
-               (("<Xcursor/Xcursor.h>") "<X11/Xcursor/Xcursor.h>"))
-             #t))
+             (delete-file-recursively "libraries/source/cxxtest-4.4")
+             (substitute* "build/premake/premake5.lua"
+               (("rootdir\\.\\.\"\\/libraries\\/source\\/cxxtest-4.4\\/bin\\/cxxtestgen\"")
+                (string-append "\"" (assoc-ref inputs "cxxtest")
+                               "/bin/cxxtestgen"
+                               "\"")))))
          (replace 'configure
-           (lambda* (#:key inputs outputs #:allow-other-keys)
+           (lambda* (#:key inputs outputs tests? #:allow-other-keys)
              (let* ((jobs (number->string (parallel-job-count)))
                     (out (assoc-ref outputs "out"))
                     (lib (string-append out "/lib"))
@@ -6762,11 +6764,13 @@ fight against their plot and save his fellow rabbits from slavery.")
                (setenv "JOBS" (string-append "-j" jobs))
                (setenv "CC" "gcc")
                (with-directory-excursion "build/workspaces"
-                 (invoke "./update-workspaces.sh"
-                         (string-append "--libdir=" lib)
-                         (string-append "--datadir=" data)
-                         ;; TODO: "--with-system-nvtt"
-                         "--with-system-mozjs38")))))
+                 (apply invoke
+                        `("./update-workspaces.sh"
+                          ,(string-append "--libdir=" lib)
+                          ,(string-append "--datadir=" data)
+                          ;; TODO: "--with-system-nvtt"
+                          "--with-system-mozjs"
+                          ,@(if tests? '() '("--without-tests"))))))))
          (delete 'check)
          (replace 'install
            (lambda* (#:key inputs outputs #:allow-other-keys)
@@ -6776,7 +6780,9 @@ fight against their plot and save his fellow rabbits from slavery.")
                     (lib (string-append out "/lib"))
                     (data (string-append out "/share/0ad"))
                     (applications (string-append out "/share/applications"))
-                    (pixmaps (string-append out "/share/pixmaps"))
+                    (hicolor (string-append out "/share/icons/hicolor/128x128/apps"))
+                    (metainfo (string-append out "/share/metainfo"))
+                    (mime (string-append out "/share/mime/application"))
                     (0ad-data (assoc-ref inputs "0ad-data")))
                ;; data
                (copy-recursively "data" data)
@@ -6795,12 +6801,14 @@ fight against their plot and save his fellow rabbits from slavery.")
                ;; resources
                (with-directory-excursion "../build/resources"
                  (install-file "0ad.desktop" applications)
-                 (install-file "0ad.png" pixmaps))
-               #t)))
+                 (install-file "0ad.png" hicolor)
+                 (install-file "0ad.appdata.xml" metainfo)
+                 (install-file "pyrogenesis.xml" mime)))))
          (add-after 'install 'check
-           (lambda _
-             (with-directory-excursion "system"
-               (invoke "./test")))))))
+           (lambda* (#:key tests? #:allow-other-keys)
+             (when tests?
+               (with-directory-excursion "system"
+                 (invoke "./test"))))))))
     (home-page "https://play0ad.com")
     (synopsis "3D real-time strategy game of ancient warfare")
     (description "0 A.D. is a real-time strategy (RTS) game of ancient
@@ -9242,7 +9250,7 @@ levels to unlock.")
 (define simgear
   (package
     (name "simgear")
-    (version "2018.3.5")
+    (version "2020.3.11")
     (source
      (origin
        (method url-fetch)
@@ -9250,22 +9258,31 @@ levels to unlock.")
                            (version-major+minor version) "/"
                            "simgear-" version ".tar.bz2"))
        (sha256
-        (base32 "1vkqm66r1205k3hdjmx5wmx5kvmsb0dgfzrs8n5gqnxj8szs42dl"))))
+        (base32 "0g2g3n3sb6kdimvcrn9kvlhyyrp5c6lx20fgzz8l609v5aygr3dv"))
+       (modules '((guix build utils)))
+       (snippet
+        '(begin
+           ;; There are some bundled libraries.
+           (for-each delete-file-recursively
+                     '("3rdparty/expat/"))
+           #t))))
     (build-system cmake-build-system)
     (arguments
-     `(#:phases
+     `(#:configure-flags (list "-DSYSTEM_EXPAT=ON")
+       #:phases
        (modify-phases %standard-phases
          (replace 'check
-           (lambda _
-             ;; Skip tests that require internet access.
-             (invoke "ctest" "-E" "(http|dns)"))))))
+           (lambda* (#:key tests? #:allow-other-keys)
+             (when tests?
+               ;; Skip tests that require internet access.
+               (invoke "ctest" "-E" "(http|dns)")))))))
     (inputs
-     `(("boost" ,boost-for-mysql)       ; fails with 1.69
+     `(("boost" ,boost)
        ("curl" ,curl)
        ("expat" ,expat)
        ("mesa" ,mesa)
        ("openal" ,openal)
-       ("openscenegraph" ,openscenegraph-3.4)
+       ("openscenegraph" ,openscenegraph)
        ("zlib" ,zlib)))
     (home-page "https://home.flightgear.org/")
     (synopsis "Libraries for 3D simulations and games")
@@ -9286,41 +9303,42 @@ and also provides the base for the FlightGear Flight Simulator.")
                            (version-major+minor version) "/"
                            "flightgear-" version ".tar.bz2"))
        (sha256
-        (base32 "0ya3vb539kwi1qrifqhsj5j3k4w6s06hrllp2vdzxf6id7cgf0hc"))
+        (base32 "15sar94x13j2y1m6adgmz2q1m1i9bzj3sxqla6y3m9vyf33hc9zy"))
        (modules '((guix build utils)))
        (snippet
         '(begin
            ;; There are some bundled libraries.
            (for-each delete-file-recursively
-                     '("3rdparty/sqlite3/"))
+                     '("3rdparty/sqlite3/"
+                       "3rdparty/cppunit/"))
            #t))))
-    (build-system cmake-build-system)
+    (build-system qt-build-system)
     (arguments
      `(#:configure-flags
        (list "-DSYSTEM_SQLITE=ON"
+             "-DSYSTEM_CPPUNIT=ON"
              (string-append "-DFG_DATA_DIR="
                             (assoc-ref %outputs "out")
                             "/share/flightgear"))
-       ;; TODO: test cannot be run because the "run_test_suite" executable
-       ;; does not seem to be built.
+       ;; TODO: test suite segfaults.
        #:tests? #f
        #:phases
        (modify-phases %standard-phases
-         (add-after 'install 'wrap-executable
-           (lambda* (#:key inputs outputs #:allow-other-keys)
-             (let ((out (assoc-ref outputs "out")))
-               (wrap-program (string-append out "/bin/fgfs")
-                 `("QT_PLUGIN_PATH" ":" prefix
-                   ,(map (lambda (label)
-                           (string-append (assoc-ref inputs label)
-                                          "/lib/qt5/plugins"))
-                         '("qtbase" "qtdeclarative" "qtsvg")))
-                 `("QML2_IMPORT_PATH" ":" prefix
-                   ,(map (lambda (label)
-                           (string-append (assoc-ref inputs label)
-                                          "/lib/qt5/qml"))
-                         '("qtdeclarative" "qtsvg"))))
-               #t)))
+         (add-after 'unpack 'skip-some-tests
+           (lambda _
+             (substitute* "test_suite/unit_tests/Instrumentation/test_gps.hxx"
+               (("CPPUNIT_TEST\\(testLongLegWestbound\\);" all)
+                (string-append "// " all))
+               (("CPPUNIT_TEST\\(testFinalLegCourse\\);" all)
+                (string-append "// " all)))))
+         (add-after 'build 'build-test-suite
+           (lambda* args
+             ((assoc-ref %standard-phases 'build)
+              #:make-flags (list "fgfs_test_suite"))))
+         ;; Test suite needs access to FGData so run it after 'install.
+         (delete 'check)
+         (add-after 'install-data 'check
+           (assoc-ref %standard-phases 'check))
          (add-after 'install 'install-data
            (lambda* (#:key inputs outputs #:allow-other-keys)
              (let ((share (string-append (assoc-ref outputs "out") "/share/flightgear")))
@@ -9330,7 +9348,7 @@ and also provides the base for the FlightGear Flight Simulator.")
                          "--strip-components=1")))
              #t)))))
     (inputs
-     `(("boost" ,boost-for-mysql)       ; same as simgear
+     `(("boost" ,boost)
        ("dbus" ,dbus)
        ("eudev" ,eudev)
        ("freeglut" ,freeglut)
@@ -9338,7 +9356,7 @@ and also provides the base for the FlightGear Flight Simulator.")
        ("glew" ,glew)
        ("libpng" ,libpng)
        ("openal" ,openal)
-       ("openscenegraph" ,openscenegraph-3.4)
+       ("openscenegraph" ,openscenegraph)
        ("plib" ,plib)
        ("qtbase" ,qtbase-5)
        ("qtdeclarative" ,qtdeclarative)
@@ -9356,11 +9374,11 @@ and also provides the base for the FlightGear Flight Simulator.")
            (method url-fetch)
            (uri (string-append "mirror://sourceforge/flightgear/release-"
                                (version-major+minor version) "/"
-                               "FlightGear-" version "-data.tar.bz2"))
+                               "FlightGear-" version "-data.txz"))
            (sha256
             (base32
-             "04fv9za5zlyxlyfh6jx78y42l3jazvzl9dq2y6rzxqlcc9g5swhk"))))))
-    (home-page "https://home.flightgear.org/")
+             "0n5mw9vw1snab16c1y3i9ylkiv54az57bs2mvpq20hhg5hdiagqj"))))))
+    (home-page "https://www.flightgear.org/")
     (synopsis "Flight simulator")
     (description "The goal of the FlightGear project is to create a
 sophisticated flight simulator framework for use in research or academic
@@ -12656,7 +12674,7 @@ disassembly of the DOS version, extended with new features.")
 (define-public fheroes2
   (package
     (name "fheroes2")
-    (version "0.9.8")
+    (version "0.9.9")
     (build-system cmake-build-system)
     (arguments
      `(#:tests? #f                      ; no tests
@@ -12676,7 +12694,7 @@ disassembly of the DOS version, extended with new features.")
              (commit version)))
        (file-name (git-file-name name version))
        (sha256
-        (base32 "1sc7rmyiciahxh5f6rarhil2hrw8q8sjdssh063grji50mlnrf6a"))))
+        (base32 "030kfaagxy3i7bjvbx2nf05jmbbh5g2r52l17y9bl6vbfj67yvxy"))))
     (home-page "https://ihhub.github.io/fheroes2/")
     (synopsis "Turn-based strategy game engine")
     (description "@code{fheroes2} is an implementation of Heroes of Might and
diff --git a/gnu/packages/geo.scm b/gnu/packages/geo.scm
index 938720f928..7532943839 100644
--- a/gnu/packages/geo.scm
+++ b/gnu/packages/geo.scm
@@ -1181,7 +1181,7 @@ to create databases that are optimized for rendering/tile/map-services.")
 (define-public libosmium
   (package
     (name "libosmium")
-    (version "2.15.6")
+    (version "2.17.1")
     (source
      (origin
        (method git-fetch)
@@ -1190,7 +1190,7 @@ to create databases that are optimized for rendering/tile/map-services.")
              (commit (string-append "v" version))))
        (file-name (git-file-name name version))
        (sha256
-        (base32 "0rqy18bbakp41f44y5id9ixh0ar2dby46z17p4115z8k1vv9znq2"))))
+        (base32 "0xw71lrw4q4sdm51rl0zg87ywxfkxbw9h52zqim0z0xl5qh5q8xf"))))
     (build-system cmake-build-system)
     (propagated-inputs
      `(("boost" ,boost)
@@ -1214,7 +1214,7 @@ OpenStreetMap data.")
 (define-public osm2pgsql
   (package
     (name "osm2pgsql")
-    (version "1.2.2")
+    (version "1.5.1")
     (source
      (origin
        (method git-fetch)
@@ -1223,7 +1223,7 @@ OpenStreetMap data.")
              (commit version)))
        (file-name (git-file-name name version))
        (sha256
-        (base32 "1j35aa8qinhavliqi5pdm0viyi7lm5xyk402rliaxxs1r2hbsafn"))
+        (base32 "0i18mskcs087dn3f3h9n7j0wafn8502m0h13mrjwin38xsz0crfj"))
        (modules '((guix build utils)))
        (snippet
         '(begin
diff --git a/gnu/packages/gnome.scm b/gnu/packages/gnome.scm
index 36ffd3f4a7..f027e287cd 100644
--- a/gnu/packages/gnome.scm
+++ b/gnu/packages/gnome.scm
@@ -48,7 +48,7 @@
 ;;; Copyright © 2020 Oleg Pykhalov <go.wigust@gmail.com>
 ;;; Copyright © 2020 Pierre Neidhardt <mail@ambrevar.xyz>
 ;;; Copyright © 2020 raingloom <raingloom@riseup.net>
-;;; Copyright © 2020 Nicolas Goaziou <mail@nicolasgoaziou.fr>
+;;; Copyright © 2020, 2021 Nicolas Goaziou <mail@nicolasgoaziou.fr>
 ;;; Copyright © 2020 Naga Malleswari <nagamalli@riseup.net>
 ;;; Copyright © 2020 Ryan Prior <rprior@protonmail.com>
 ;;; Copyright © 2020, 2021 Vinicius Monego <monego@posteo.net>
@@ -12003,7 +12003,7 @@ provided there is a DBus service present:
 (define-public parlatype
   (package
     (name "parlatype")
-    (version "2.1")
+    (version "3.0")
     (source
      (origin
        (method git-fetch)
@@ -12012,13 +12012,17 @@ provided there is a DBus service present:
              (commit (string-append "v" version))))
        (file-name (git-file-name name version))
        (sha256
-        (base32 "1c15ja0rwz3jj8bnqdq0nmqka39iwrhy8krdv2a2x8nl4shfpmv0"))))
+        (base32 "0mvzagkg9kq2ji6mffi37mdjxmlj3wa65d4lcayij9hsmjlklnzs"))))
     (build-system meson-build-system)
     (arguments
      `(#:glib-or-gtk? #t
        #:tests? #f                      ;require internet access
        #:phases
        (modify-phases %standard-phases
+         (add-after 'unpack 'skip-gtk-update-icon-cache
+           (lambda _
+             (substitute* "data/meson_post_install.py"
+               (("gtk-update-icon-cache") "true"))))
          (add-after 'install 'wrap-parlatype
            ;; Add gstreamer plugin provided in this package to system's
            ;; plugins.
@@ -12029,8 +12033,7 @@ provided there is a DBus service present:
                                       ":"
                                       (getenv "GST_PLUGIN_SYSTEM_PATH"))))
                (wrap-program (string-append out "/bin/parlatype")
-                 `("GST_PLUGIN_SYSTEM_PATH" ":" = (,gst-plugin-path))))
-             #t)))))
+                 `("GST_PLUGIN_SYSTEM_PATH" ":" = (,gst-plugin-path)))))))))
     (native-inputs
      `(("appstream-glib" ,appstream-glib)
        ("desktop-file-utils" ,desktop-file-utils) ;for desktop-file-validate
@@ -12043,10 +12046,11 @@ provided there is a DBus service present:
        ("gst-plugins-good" ,gst-plugins-good)
        ("gstreamer" ,gstreamer)
        ("gtk+" ,gtk+)
+       ("iso-codes" ,iso-codes)
        ("pocketsphinx" ,pocketsphinx)
        ("pulseaudio" ,pulseaudio)
        ("sphinxbase" ,sphinxbase)))
-    (home-page "http://gkarsay.github.io/parlatype/")
+    (home-page "https://www.parlatype.org")
     (synopsis "GNOME audio player for transcription")
     (description "Parlatype is an audio player for the GNOME desktop
 environment.  Its main purpose is the manual transcription of spoken
diff --git a/gnu/packages/graphics.scm b/gnu/packages/graphics.scm
index c3b55f695a..dbb489452e 100644
--- a/gnu/packages/graphics.scm
+++ b/gnu/packages/graphics.scm
@@ -1289,32 +1289,6 @@ virtual reality, scientific visualization and modeling.")
     ;; LGPL 2.1, but with 4 exceptions. This version is called OSGPL.
     (license license:lgpl2.1)))
 
-;; We need this for simgear
-(define-public openscenegraph-3.4
-  (package (inherit openscenegraph)
-    (name "openscenegraph")
-    (version "3.4.1")
-    (source
-     (origin
-       (method git-fetch)
-       (uri (git-reference
-             (url "https://github.com/openscenegraph/OpenSceneGraph")
-             (commit (string-append "OpenSceneGraph-" version))))
-       (file-name (git-file-name name version))
-       (sha256
-        (base32
-         "1fbzg1ihjpxk6smlq80p3h3ggllbr16ihd2fxpfwzam8yr8yxip9"))))
-    (arguments
-     (substitute-keyword-arguments (package-arguments openscenegraph)
-       ((#:configure-flags flags)
-        `(cons
-          ;; The jpeg plugin requires conversion between integers and booleans
-          "-DCMAKE_CXX_FLAGS=-fpermissive"
-          ,flags))))
-    (inputs
-     `(("libjpeg" ,libjpeg-turbo)
-       ,@(package-inputs openscenegraph)))))
-
 (define-public gr-framework
   (package
     (name "gr-framework")
diff --git a/gnu/packages/haskell-apps.scm b/gnu/packages/haskell-apps.scm
index 994214e900..faa3b52c5c 100644
--- a/gnu/packages/haskell-apps.scm
+++ b/gnu/packages/haskell-apps.scm
@@ -316,14 +316,14 @@ to @code{cabal repl}).")
 (define-public git-annex
   (package
     (name "git-annex")
-    (version "8.20211011")
+    (version "8.20211028")
     (source
      (origin
        (method url-fetch)
        (uri (string-append "https://hackage.haskell.org/package/"
                            "git-annex/git-annex-" version ".tar.gz"))
        (sha256
-        (base32 "02s7921ihmbndp7lk1nhhiljky02ikq4qax4mhg609qjhbl6piwd"))))
+        (base32 "0bff1bchp60hbslb9yaagvd7hym26w0c3gkkssm7sildwqazwpng"))))
     (build-system haskell-build-system)
     (arguments
      `(#:configure-flags
diff --git a/gnu/packages/haskell-xyz.scm b/gnu/packages/haskell-xyz.scm
index 45bf97febd..8373d93c76 100644
--- a/gnu/packages/haskell-xyz.scm
+++ b/gnu/packages/haskell-xyz.scm
@@ -9873,8 +9873,7 @@ syntax and semantics as Perl 5.")
     (home-page "https://www.yesodweb.com/book/persistent")
     (synopsis "Type-safe, multi-backend data serialization for Haskell")
     (description "This Haskell package allows Haskell programs to access data
-storage systems like PostgreSQL, SQLite, MySQL and MongoDB in a type-safe
-way.")
+storage systems like PostgreSQL, SQLite, and MariaDB in a type-safe way.")
     (license license:expat)))
 
 (define-public ghc-persistent-sqlite
diff --git a/gnu/packages/linux.scm b/gnu/packages/linux.scm
index bcdadfbe80..b8997dd42b 100644
--- a/gnu/packages/linux.scm
+++ b/gnu/packages/linux.scm
@@ -352,7 +352,7 @@ corresponding UPSTREAM-SOURCE (an origin), using the given DEBLOB-SCRIPTS."
 
 ;; The current "stable" kernels. That is, the most recently released major
 ;; versions that are still supported upstream.
-(define-public linux-libre-5.14-version "5.14.15")
+(define-public linux-libre-5.14-version "5.14.16")
 (define-public linux-libre-5.14-gnu-revision "gnu")
 (define deblob-scripts-5.14
   (linux-libre-deblob-scripts
@@ -362,7 +362,7 @@ corresponding UPSTREAM-SOURCE (an origin), using the given DEBLOB-SCRIPTS."
    (base32 "024rz0bp3n3r5nkwbib7byx10d72c2fh5cw9iv00diyzgnp819g7")))
 (define-public linux-libre-5.14-pristine-source
   (let ((version linux-libre-5.14-version)
-        (hash (base32 "01m4qw1z7xn3ngsbm1bvcvikqpkjjr9n8585556wkmz9d469mwvl")))
+        (hash (base32 "005wis2y5dhksb6n0r4p3xjldppmdnd360dhxa04rfc4z2qwn3f3")))
    (make-linux-libre-source version
                             (%upstream-linux-source version hash)
                             deblob-scripts-5.14)))
@@ -370,7 +370,7 @@ corresponding UPSTREAM-SOURCE (an origin), using the given DEBLOB-SCRIPTS."
 ;; The "longterm" kernels — the older releases with long-term upstream support.
 ;; Here are the support timelines:
 ;; <https://www.kernel.org/category/releases.html>
-(define-public linux-libre-5.10-version "5.10.76")
+(define-public linux-libre-5.10-version "5.10.77")
 (define-public linux-libre-5.10-gnu-revision "gnu1")
 (define deblob-scripts-5.10
   (linux-libre-deblob-scripts
@@ -380,12 +380,12 @@ corresponding UPSTREAM-SOURCE (an origin), using the given DEBLOB-SCRIPTS."
    (base32 "024rz0bp3n3r5nkwbib7byx10d72c2fh5cw9iv00diyzgnp819g7")))
 (define-public linux-libre-5.10-pristine-source
   (let ((version linux-libre-5.10-version)
-        (hash (base32 "140qkvs88b5zh6mxxzpf36z1r8bbvyh3yigripqjz1k236x0j2j8")))
+        (hash (base32 "1hwgbcfv9wfx9ka25lsqjrnzskynfgmswcyp5vk14wnxq7glxdnk")))
    (make-linux-libre-source version
                             (%upstream-linux-source version hash)
                             deblob-scripts-5.10)))
 
-(define-public linux-libre-5.4-version "5.4.156")
+(define-public linux-libre-5.4-version "5.4.157")
 (define-public linux-libre-5.4-gnu-revision "gnu1")
 (define deblob-scripts-5.4
   (linux-libre-deblob-scripts
@@ -395,12 +395,12 @@ corresponding UPSTREAM-SOURCE (an origin), using the given DEBLOB-SCRIPTS."
    (base32 "1a0k9i8gnzkyvfr80f8xw2fnxfwddhz1pzicz9fh0y3jzzkzk45p")))
 (define-public linux-libre-5.4-pristine-source
   (let ((version linux-libre-5.4-version)
-        (hash (base32 "1zkpqfhrc5n0yiij3jzvzywgabva53c8668f1ly1pkrzcbj77zh6")))
+        (hash (base32 "0jl62j22vs59bc90mvzavv0ii9hvk436pbnrpqf3x9f8nfybngwz")))
    (make-linux-libre-source version
                             (%upstream-linux-source version hash)
                             deblob-scripts-5.4)))
 
-(define-public linux-libre-4.19-version "4.19.214")
+(define-public linux-libre-4.19-version "4.19.215")
 (define-public linux-libre-4.19-gnu-revision "gnu1")
 (define deblob-scripts-4.19
   (linux-libre-deblob-scripts
@@ -410,12 +410,12 @@ corresponding UPSTREAM-SOURCE (an origin), using the given DEBLOB-SCRIPTS."
    (base32 "1a0k9i8gnzkyvfr80f8xw2fnxfwddhz1pzicz9fh0y3jzzkzk45p")))
 (define-public linux-libre-4.19-pristine-source
   (let ((version linux-libre-4.19-version)
-        (hash (base32 "0i08np4gxiks7chp6j328pdqb02apbba53mj4zvxb9v37qpxzqgz")))
+        (hash (base32 "1czjqa5wbsmzgl7wwqlp9qbdig45ibq11m9pcykrjaclrgwn884y")))
     (make-linux-libre-source version
                              (%upstream-linux-source version hash)
                              deblob-scripts-4.19)))
 
-(define-public linux-libre-4.14-version "4.14.253")
+(define-public linux-libre-4.14-version "4.14.254")
 (define-public linux-libre-4.14-gnu-revision "gnu1")
 (define deblob-scripts-4.14
   (linux-libre-deblob-scripts
@@ -425,12 +425,12 @@ corresponding UPSTREAM-SOURCE (an origin), using the given DEBLOB-SCRIPTS."
    (base32 "1a0k9i8gnzkyvfr80f8xw2fnxfwddhz1pzicz9fh0y3jzzkzk45p")))
 (define-public linux-libre-4.14-pristine-source
   (let ((version linux-libre-4.14-version)
-        (hash (base32 "1mgl55c8fa2ry4qp0phkdkzjhwfnkbhvi266n348kyjyqnjl234f")))
+        (hash (base32 "0ihdlsg4jg9wwhhcbjjmrcchnl9pc0szh21nwmbhwnxgqcdmrnfz")))
     (make-linux-libre-source version
                              (%upstream-linux-source version hash)
                              deblob-scripts-4.14)))
 
-(define-public linux-libre-4.9-version "4.9.288")
+(define-public linux-libre-4.9-version "4.9.289")
 (define-public linux-libre-4.9-gnu-revision "gnu1")
 (define deblob-scripts-4.9
   (linux-libre-deblob-scripts
@@ -440,12 +440,12 @@ corresponding UPSTREAM-SOURCE (an origin), using the given DEBLOB-SCRIPTS."
    (base32 "1a0k9i8gnzkyvfr80f8xw2fnxfwddhz1pzicz9fh0y3jzzkzk45p")))
 (define-public linux-libre-4.9-pristine-source
   (let ((version linux-libre-4.9-version)
-        (hash (base32 "0v5592v565bl924c23m1n7p5zddr0w7zn8m97pmikk6p7cyhjq9n")))
+        (hash (base32 "19kz74qgw5yzfinnsvljmn2zm855lr4cxgfpn8gwljmkspyx1hm5")))
     (make-linux-libre-source version
                              (%upstream-linux-source version hash)
                              deblob-scripts-4.9)))
 
-(define-public linux-libre-4.4-version "4.4.290")
+(define-public linux-libre-4.4-version "4.4.291")
 (define-public linux-libre-4.4-gnu-revision "gnu1")
 (define deblob-scripts-4.4
   (linux-libre-deblob-scripts
@@ -455,7 +455,7 @@ corresponding UPSTREAM-SOURCE (an origin), using the given DEBLOB-SCRIPTS."
    (base32 "1a0k9i8gnzkyvfr80f8xw2fnxfwddhz1pzicz9fh0y3jzzkzk45p")))
 (define-public linux-libre-4.4-pristine-source
   (let ((version linux-libre-4.4-version)
-        (hash (base32 "1dcx58nmzkcc5nz2b5b7mgw4w7y28v3s9wd8h78czdqfa0kxrl20")))
+        (hash (base32 "0lbbvv3ha4d8nwzjh8bdk0aqyd12w6gw0nsxsdnp8pbmnndgb9vh")))
     (make-linux-libre-source version
                              (%upstream-linux-source version hash)
                              deblob-scripts-4.4)))
diff --git a/gnu/packages/mail.scm b/gnu/packages/mail.scm
index e88df7d3f4..b9e68231ef 100644
--- a/gnu/packages/mail.scm
+++ b/gnu/packages/mail.scm
@@ -1734,14 +1734,14 @@ addons which can add many functionalities to the base client.")
 (define-public msmtp
   (package
     (name "msmtp")
-    (version "1.8.18")
+    (version "1.8.19")
     (source
      (origin
        (method url-fetch)
        (uri (string-append "https://marlam.de/msmtp/releases/"
                            "/msmtp-" version ".tar.xz"))
        (sha256
-        (base32 "19b0anfrkg4lqp4h13qi2rqgwvipp1ga0id237nwbp7b6ypn5z0l"))))
+        (base32 "0ssj8izcw1fywihlip6wljd9i41w23cy0vp69sz4v1vn26cf389l"))))
     (build-system gnu-build-system)
     (inputs
      `(("libsecret" ,libsecret)
@@ -1772,6 +1772,8 @@ addons which can add many functionalities to the base client.")
                ;; connection, instead look up and ping debian.org.
                (substitute* (string-append bin "/msmtpq")
                  (("EMAIL_CONN_TEST=n") "EMAIL_CONN_TEST=p"))))))))
+    (properties
+     '((release-monitoring-url . "https://marlam.de/msmtp/download/")))
     (synopsis
      "Simple and easy to use SMTP client with decent sendmail compatibility")
     (description
diff --git a/gnu/packages/markup.scm b/gnu/packages/markup.scm
index 359b8c47e8..d0b987159f 100644
--- a/gnu/packages/markup.scm
+++ b/gnu/packages/markup.scm
@@ -7,6 +7,8 @@
 ;;; Copyright © 2020 Marius Bakke <mbakke@fastmail.com>
 ;;; Copyright © 2020 EuAndreh <eu@euandre.org>
 ;;; Copyright © 2021 Noisytoot <noisytoot@disroot.org>
+;;; Copyright © 2021 Zhu Zihao <all_but_last@163.com>
+;;; Copyright © 2021 Petr Hodina <phodina@protonmail.com>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -24,7 +26,7 @@
 ;;; along with GNU Guix.  If not, see <http://www.gnu.org/licenses/>.
 
 (define-module (gnu packages markup)
-  #:use-module (guix licenses)
+  #:use-module ((guix licenses) #:prefix license:)
   #:use-module (guix download)
   #:use-module (guix git-download)
   #:use-module (guix packages)
@@ -34,6 +36,7 @@
   #:use-module (guix build-system perl)
   #:use-module (guix build-system python)
   #:use-module (guix utils)
+  #:use-module (gnu packages base)
   #:use-module (gnu packages compression)
   #:use-module (gnu packages)
   #:use-module (gnu packages perl)
@@ -67,7 +70,7 @@
     (description "Hoedown is a standards compliant, fast, secure markdown
 processing library written in C.")
     (home-page "https://github.com/hoedown/hoedown")
-    (license expat)))
+    (license license:expat)))
 
 (define-public markdown
   (package
@@ -110,8 +113,38 @@ processing library written in C.")
      "Markdown is a text-to-HTML conversion tool for web writers.  It allows
 you to write using an easy-to-read, easy-to-write plain text format, then
 convert it to structurally valid XHTML (or HTML).")
-    (license (non-copyleft "file://License.text"
-                           "See License.text in the distribution."))))
+    (license (license:non-copyleft "file://License.text"
+                                   "See License.text in the distribution."))))
+
+(define-public lowdown
+  (package
+    (name "lowdown")
+    (version "0.10.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (string-append "https://kristaps.bsd.lv/lowdown/snapshots/lowdown-"
+                           version ".tar.gz"))
+       (sha256
+        (base32 "15v2kk4ffqw3n6y6n9plch4qcib3ynnhw0ih8wn2v9qgn4jssp5p"))))
+    (build-system gnu-build-system)
+    (arguments
+     `(#:test-target "regress"
+       #:phases
+       (modify-phases %standard-phases
+         (replace 'configure
+           (lambda* (#:key outputs #:allow-other-keys)
+             (let ((out (assoc-ref outputs "out")))
+               (invoke "./configure"
+                       (string-append "PREFIX=" out)
+                       (string-append "MANDIR=" out "/share/man"))))))))
+    (native-inputs
+     `(("which" ,which)))
+    (home-page "https://kristaps.bsd.lv/lowdown/")
+    (synopsis "Simple Markdown translator")
+    (description "Lowdown is a Markdown translator producing HTML5,
+roff documents in the ms and man formats, LaTeX, gemini, and terminal output.")
+    (license license:isc)))
 
 (define-public discount
   (package
@@ -157,7 +190,7 @@ convert it to structurally valid XHTML (or HTML).")
      "Discount is a markdown implementation, written in C.  It provides a
 @command{markdown} command, and a library.")
     (home-page "https://www.pell.portland.or.us/~orc/Code/discount/")
-    (license bsd-3)))
+    (license license:bsd-3)))
 
 (define-public perl-text-markdown-discount
   (package
@@ -202,7 +235,7 @@ implementation.
   use Text::Markdown::Discount;
   my $html = markdown($text)
 @end example")
-    (license perl-license)))
+    (license license:perl-license)))
 
 (define-public cmark
   (package
@@ -242,7 +275,7 @@ for parsing and rendering CommonMark.")
     ;; cmark is distributed with a BSD-2 license, but some components are Expat
     ;; licensed. The CommonMark specification is Creative Commons CC-BY-SA 4.0
     ;; licensed. See 'COPYING' in the source distribution for more information.
-    (license (list bsd-2 expat cc-by-sa4.0))))
+    (license (list license:bsd-2 license:expat license:cc-by-sa4.0))))
 
 (define-public smu
   (package
@@ -278,7 +311,7 @@ amount of indents it scales just great.
 Smu was started as a rewrite of Markdown but became something more
 lightweight and consistent.  The biggest difference between Markdown
 and smu is that smu doesn't support reference style links.")
-    (license x11)))
+    (license license:x11)))
 
 (define-public md4c
   (package
@@ -300,7 +333,7 @@ and smu is that smu doesn't support reference style links.")
     (description "MD4C is a C Markdown parser with a
 SAX-like interface.  It is compliant to the CommonMark specification,
 with a few extensions.")
-    (license expat)))
+    (license license:expat)))
 
 (define-public python-mistletoe
   (package
@@ -322,4 +355,4 @@ parser that supports definitions of custom tokens.
 Parsing Markdown into an abstract syntax tree also allows @code{mistletoe} to
 swap out renderers for different output formats, without touching any of the
 core components.")
-    (license expat)))
+    (license license:expat)))
diff --git a/gnu/packages/messaging.scm b/gnu/packages/messaging.scm
index 9a3cfc9308..479ed00c94 100644
--- a/gnu/packages/messaging.scm
+++ b/gnu/packages/messaging.scm
@@ -9,7 +9,7 @@
 ;;; Copyright © 2016 Andy Patterson <ajpatter@uwaterloo.ca>
 ;;; Copyright © 2016, 2017, 2018, 2019 Clément Lassieur <clement@lassieur.org>
 ;;; Copyright © 2017 Mekeor Melire <mekeor.melire@gmail.com>
-;;; Copyright © 2017, 2018, 2020 Arun Isaac <arunisaac@systemreboot.net>
+;;; Copyright © 2017, 2018, 2020, 2021 Arun Isaac <arunisaac@systemreboot.net>
 ;;; Copyright © 2017–2021 Tobias Geerinckx-Rice <me@tobias.gr>
 ;;; Copyright © 2017 Theodoros Foradis <theodoros@foradis.org>
 ;;; Copyright © 2017, 2018, 2019 Rutger Helling <rhelling@mykolab.com>
@@ -2986,4 +2986,121 @@ API.  Mattermost is not required.")
     (home-page "https://github.com/42wim/matterbridge")
     (license license:asl2.0)))
 
+(define-public weechat-matrix
+  (package
+    (name "weechat-matrix")
+    (version "0.3.0")
+    (source
+     (origin
+       (method git-fetch)
+       (uri (git-reference
+             (url "https://github.com/poljar/weechat-matrix")
+             (commit version)))
+       (file-name (git-file-name name version))
+       (sha256
+        (base32
+         "1iv55n4k05139f7jzkhczgw4qp6qwilrvfsy3c6v2m1kxffj12d3"))))
+    (build-system python-build-system)
+    (arguments
+     `(#:phases
+       (modify-phases %standard-phases
+         (delete 'build)
+         (replace 'install
+           (lambda* (#:key inputs outputs #:allow-other-keys)
+             (let* ((weechat-python (string-append (assoc-ref outputs "out")
+                                                   "/share/weechat/python")))
+               ;; Avoid circular import by renaming the matrix module to
+               ;; weechat_matrix.
+               (substitute* (cons "main.py"
+                                  (append (find-files "matrix")
+                                          (find-files "tests")))
+                 (("from matrix") "from weechat_matrix")
+                 (("import matrix") "import weechat_matrix"))
+               ;; Install python modules.
+               (invoke "make" "install-lib"
+                       (string-append "INSTALLDIR="
+                                      (site-packages inputs outputs)
+                                      "/weechat_matrix"))
+               ;; Extend PYTHONPATH to find installed python modules.
+               (add-installed-pythonpath inputs outputs)
+               ;; Augment sys.path so that dependencies are found.
+               (substitute* "main.py"
+                 (("import os\n" all)
+                  (apply string-append
+                         all
+                         "import sys\n"
+                         (map (lambda (path)
+                                (string-append "sys.path.append('" path "')\n"))
+                              (string-split (getenv "PYTHONPATH") #\:)))))
+               ;; Install script.
+               (mkdir-p weechat-python)
+               (copy-file "main.py"
+                          (string-append weechat-python "/matrix.py")))))
+         (replace 'check
+           (lambda* (#:key tests? #:allow-other-keys)
+             (when tests?
+               (invoke "pytest")))))))
+    (inputs
+     `(("python-matrix-nio" ,python-matrix-nio)
+       ("python-pygments" ,python-pygments)
+       ("python-pyopenssl" ,python-pyopenssl)
+       ("python-webcolors" ,python-webcolors)))
+    (native-inputs
+     `(("python-pytest" ,python-pytest)))
+    (home-page "https://github.com/poljar/weechat-matrix")
+    (synopsis "Weechat Matrix protocol script")
+    (description "@code{weechat-matrix} is a Python plugin for Weechat that lets
+Weechat communicate over the Matrix protocol.")
+    (license license:isc)))
+
+(define-public weechat-wee-slack
+  (package
+    (name "weechat-wee-slack")
+    (version "2.8.0")
+    (source
+     (origin
+       (method git-fetch)
+       (uri (git-reference
+             (url "https://github.com/wee-slack/wee-slack")
+             (commit (string-append "v" version))))
+       (file-name (git-file-name name version))
+       (sha256
+        (base32
+         "0xfklr0gsc9jgxfyrrb2j756lclz9g8imcb0pk0xgyj8mhsw23zk"))))
+    (build-system python-build-system)
+    (arguments
+     `(#:phases
+       (modify-phases %standard-phases
+         (delete 'build)
+         (replace 'install
+           (lambda* (#:key inputs outputs #:allow-other-keys)
+             ;; Augment sys.path so that dependencies are found.
+             (substitute* "wee_slack.py"
+               (("import sys\n" all)
+                (apply string-append
+                       all
+                       (map (lambda (path)
+                              (string-append "sys.path.append('" path "')\n"))
+                            (string-split (getenv "PYTHONPATH") #\:)))))
+             ;; Install script.
+             (install-file "wee_slack.py"
+                           (string-append (assoc-ref outputs "out")
+                                          "/share/weechat/python"))))
+         (replace 'check
+           (lambda* (#:key tests? #:allow-other-keys)
+             (when tests?
+               (invoke "pytest")))))))
+    (inputs
+     `(("python-websocket-client" ,python-websocket-client)))
+    (native-inputs
+     `(("python-pytest" ,python-pytest)))
+    (home-page "https://github.com/wee-slack/wee-slack")
+    (synopsis "Weechat Slack script")
+    (description "@code{weechat-wee-slack} is a WeeChat native client for
+Slack.  It provides supplemental features only available in the web/mobile
+clients such as synchronizing read markers, typing notification, threads (and
+more)!  It connects via the Slack API, and maintains a persistent websocket
+for notification of events.")
+    (license license:expat)))
+
 ;;; messaging.scm ends here
diff --git a/gnu/packages/music.scm b/gnu/packages/music.scm
index 8ed245474f..8d1836c44e 100644
--- a/gnu/packages/music.scm
+++ b/gnu/packages/music.scm
@@ -6079,7 +6079,7 @@ short-time Fourier transform, available as LV2 audio plugin and JACK client.")
 (define-public x42-plugins
   (package
     (name "x42-plugins")
-    (version "20200714")
+    (version "20211016")
     (source
      (origin
        (method url-fetch)
@@ -6087,7 +6087,7 @@ short-time Fourier transform, available as LV2 audio plugin and JACK client.")
         (string-append "https://gareus.org/misc/x42-plugins/x42-plugins-"
                        version ".tar.xz"))
        (sha256
-        (base32 "1av05ykph8x67018hm9zfgh1vk0zi39mvrsxkj6bm4hkarxf0vvl"))))
+        (base32 "11bf6q42ihyk4qxwf83y0847zzyl65kwpbk3hmyz0f0ykil5fsb7"))))
     (build-system gnu-build-system)
     (arguments
      `(#:tests? #f                      ; no "check" target
@@ -6096,13 +6096,10 @@ short-time Fourier transform, available as LV2 audio plugin and JACK client.")
              "LIBZITACONVOLVER=-lzita-convolver"
              (string-append "FONTFILE="
                             (assoc-ref %build-inputs "font-dejavu")
-                            "/share/fonts/truetype/DejaVuSans-Bold.ttf"))
+                            "/share/fonts/truetype/DejaVuSans-Bold.ttf")
+             (string-append "CC=" ,(cc-for-target)))
        #:phases
        (modify-phases %standard-phases
-         (add-before 'build 'set-CC-variable
-           (lambda _
-             (setenv "CC" "gcc")
-             #t))
          (delete 'configure))))
     (inputs
      `(("cairo" ,cairo)
diff --git a/gnu/packages/ocaml.scm b/gnu/packages/ocaml.scm
index 7b1363a5c3..2f8b9da32a 100644
--- a/gnu/packages/ocaml.scm
+++ b/gnu/packages/ocaml.scm
@@ -778,7 +778,7 @@ the opam file format.")
 (define-public opam
   (package
     (name "opam")
-    (version "2.1.0")
+    (version "2.1.1")
     (source (origin
               (method git-fetch)
               (uri (git-reference
@@ -787,7 +787,7 @@ the opam file format.")
               (file-name (git-file-name name version))
               (sha256
                (base32
-                "12l7l4pbzy71k1yc7ym5aczajszvc9bqkdnfg8xhqc8ch8j1h1lj"))))
+                "12cxpnkv8n90g66b31c7hsxl2yy537fgf19xhr6zn4n024bh6dh3"))))
     (build-system dune-build-system)
     (arguments
      `(#:test-target "."
diff --git a/gnu/packages/patches/i3status-rust-enable-unstable-features.patch b/gnu/packages/patches/i3status-rust-enable-unstable-features.patch
new file mode 100644
index 0000000000..535b45d865
--- /dev/null
+++ b/gnu/packages/patches/i3status-rust-enable-unstable-features.patch
@@ -0,0 +1,20 @@
+From 3006390c0058f06c255d9850327163aebcdc3b40 Mon Sep 17 00:00:00 2001
+From: Petr Hodina <phodina@protonmail.com>
+Date: Mon, 11 Oct 2021 22:35:39 +0200
+Subject: [PATCH] Enable unstable features.
+
+
+diff --git a/src/main.rs b/src/main.rs
+index d9e964b..820e22e 100644
+--- a/src/main.rs
++++ b/src/main.rs
+@@ -1,3 +1,6 @@
++#![feature(bool_to_option)]
++#![feature(clamp)]
++
+ #[macro_use]
+ mod de;
+ #[macro_use]
+--
+2.33.0
+
diff --git a/gnu/packages/patches/libblockdev-glib-compat.patch b/gnu/packages/patches/libblockdev-glib-compat.patch
deleted file mode 100644
index bb25d5d963..0000000000
--- a/gnu/packages/patches/libblockdev-glib-compat.patch
+++ /dev/null
@@ -1,61 +0,0 @@
-Don't use g_memdup() which is removed in newer versions of GLib.
-
-See <https://github.com/storaged-project/libblockdev/pull/623>.
-
-Taken from upstream:
-https://github.com/storaged-project/libblockdev/commit/5528baef6ccc835a06c45f9db34a2c9c3f2dd940
-
-diff --git a/src/lib/plugin_apis/vdo.api b/src/lib/plugin_apis/vdo.api
---- a/src/lib/plugin_apis/vdo.api
-+++ b/src/lib/plugin_apis/vdo.api
-@@ -170,7 +170,22 @@ void bd_vdo_stats_free (BDVDOStats *stats) {
-  * Deprecated: 2.24: Use LVM-VDO integration instead.
-  */
- BDVDOStats* bd_vdo_stats_copy (BDVDOStats *stats) {
--    return g_memdup (stats, sizeof (BDVDOStats));
-+    if (stats == NULL)
-+        return NULL;
-+
-+    BDVDOStats *new_stats = g_new0 (BDVDOStats, 1);
-+
-+    new_stats->block_size = stats->block_size;
-+    new_stats->logical_block_size = stats->logical_block_size;
-+    new_stats->physical_blocks = stats->physical_blocks;
-+    new_stats->data_blocks_used = stats->data_blocks_used;
-+    new_stats->overhead_blocks_used = stats->overhead_blocks_used;
-+    new_stats->logical_blocks_used = stats->logical_blocks_used;
-+    new_stats->used_percent = stats->used_percent;
-+    new_stats->saving_percent = stats->saving_percent;
-+    new_stats->write_amplification_ratio = stats->write_amplification_ratio;
-+
-+    return new_stats;
- }
- 
- GType bd_vdo_stats_get_type () {
-diff --git a/src/plugins/vdo.c b/src/plugins/vdo.c
---- a/src/plugins/vdo.c
-+++ b/src/plugins/vdo.c
-@@ -81,7 +81,22 @@ void bd_vdo_stats_free (BDVDOStats *stats) {
- }
- 
- BDVDOStats* bd_vdo_stats_copy (BDVDOStats *stats) {
--    return g_memdup (stats, sizeof (BDVDOStats));
-+    if (stats == NULL)
-+        return NULL;
-+
-+    BDVDOStats *new_stats = g_new0 (BDVDOStats, 1);
-+
-+    new_stats->block_size = stats->block_size;
-+    new_stats->logical_block_size = stats->logical_block_size;
-+    new_stats->physical_blocks = stats->physical_blocks;
-+    new_stats->data_blocks_used = stats->data_blocks_used;
-+    new_stats->overhead_blocks_used = stats->overhead_blocks_used;
-+    new_stats->logical_blocks_used = stats->logical_blocks_used;
-+    new_stats->used_percent = stats->used_percent;
-+    new_stats->saving_percent = stats->saving_percent;
-+    new_stats->write_amplification_ratio = stats->write_amplification_ratio;
-+
-+    return new_stats;
- }
- 
- 
diff --git a/gnu/packages/protobuf.scm b/gnu/packages/protobuf.scm
index f8dff1f229..59b0d4a3c8 100644
--- a/gnu/packages/protobuf.scm
+++ b/gnu/packages/protobuf.scm
@@ -7,6 +7,7 @@
 ;;; Copyright © 2020, 2021 Maxim Cournoyer <maxim.cournoyer@gmail.com>
 ;;; Copyright © 2020 Vinicius Monego <monego@posteo.net>
 ;;; Copyright © 2020 Brett Gilio <brettg@gnu.org>
+;;; Copyright © 2021 Felix Gruber <felgru@posteo.net>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -209,7 +210,7 @@ code.")
 (define-public protozero
   (package
     (name "protozero")
-    (version "1.6.8")
+    (version "1.7.0")
     (source
      (origin
        (method git-fetch)
@@ -218,7 +219,7 @@ code.")
              (commit (string-append "v" version))))
        (file-name (git-file-name name version))
        (sha256
-        (base32 "1hfijpfylf1c71wa3mk70gjc88b6k1q7cxb87cwqdflw5q2x8ma6"))))
+        (base32 "0fdihfl5j68wayjjxvpvhvnjq1anzcfnfl09f68wpzbkg3zmhblz"))))
     (build-system cmake-build-system)
     (home-page "https://github.com/mapbox/protozero")
     (synopsis "Minimalistic protocol buffer decoder and encoder in C++")
diff --git a/gnu/packages/python-web.scm b/gnu/packages/python-web.scm
index 6439b7a611..49d9410c59 100644
--- a/gnu/packages/python-web.scm
+++ b/gnu/packages/python-web.scm
@@ -44,6 +44,7 @@
 ;;; Copyright © 2021 Greg Hogan <code@greghogan.com>
 ;;; Copyright © 2021 Maxime Devos <maximedevos@telenet.be>
 ;;; Copyright © 2021 Pradana Aumars <paumars@courrier.dev>
+;;; Copyright © 2021 Arun Isaac <arunisaac@systemreboot.net>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -6242,3 +6243,79 @@ communicate with Microsoft Azure Storage services.")
 comments, or tags from HTML snippets, extract base url from HTML snippets,
 translate entities on HTML strings, among other things.")
     (license license:bsd-3)))
+
+(define-public python-webcolors
+  (package
+    (name "python-webcolors")
+    (version "1.11.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (pypi-uri "webcolors" version))
+       (sha256
+        (base32 "1rkda75h2p65zx6r84c9mjavn4xpviqvqrklvdvcklapd5in1wvn"))))
+    (build-system python-build-system)
+    (arguments
+     `(#:phases
+       (modify-phases %standard-phases
+         (replace 'check
+           (lambda* (#:key tests? inputs outputs #:allow-other-keys)
+             (when tests?
+               (add-installed-pythonpath inputs outputs)
+               (invoke "pytest")))))))
+    (native-inputs
+     `(("python-pytest" ,python-pytest)))
+    (home-page "https://github.com/ubernostrum/webcolors")
+    (synopsis "HTML/CSS color definitions library")
+    (description "@code{python-webcolors} is a module for working with
+HTML/CSS color definitions.  Normalizing and converting between the following
+formats is supported.
+@itemize
+@item Specification-defined color names
+@item Six-digit hexadecimal
+@item Three-digit hexadecimal
+@item Integer rgb() triplet
+@item Percentage rgb() triplet
+@end itemize
+Only the RGB colorspace is supported.  Conversion to/from the HSL colorspace
+can be handled by the @code{colorsys} module in the Python standard library.")
+    (license license:bsd-3)))
+
+(define-public python-flask-combo-jsonapi
+  (package
+    (name "python-flask-combo-jsonapi")
+    (version "1.1.0")
+    (source
+     (origin
+       (method git-fetch)
+       (uri (git-reference
+             (url "https://github.com/AdCombo/flask-combo-jsonapi")
+             (commit version)))
+       (file-name (git-file-name name version))
+       (sha256
+        (base32 "07fhcjiyif80z1vyh35za29sqx1mmqh568jrbrrs675j4a797sj1"))))
+    (build-system python-build-system)
+    (propagated-inputs
+     `(("python-flask" ,python-flask)
+       ("python-marshmallow" ,python-marshmallow-3.2)
+       ("python-marshmallow-jsonapi" ,python-marshmallow-jsonapi)
+       ("python-simplejson" ,python-simplejson)
+       ("python-sqlalchemy" ,python-sqlalchemy-1.3)
+       ("python-apispec" ,python-apispec)
+       ("python-simplejson" ,python-simplejson)
+       ("python-six" ,python-six)))
+    (native-inputs
+     `(("python-coverage" ,python-coverage)
+       ("python-coveralls" ,python-coveralls)
+       ("python-pytest" ,python-pytest)
+       ("python-pytest-runner" ,python-pytest-runner)))
+    (home-page "https://github.com/AdCombo/flask-combo-jsonapi")
+    (synopsis "Flask extension to quickly create JSON:API 1.0 REST Web APIs")
+    (description
+     "Flask-COMBO-JSONAPI is a Python Flask extension for building REST Web APIs
+compliant with the @uref{https://jsonapi.org, JSON:API 1.0} specification.
+
+It tries to combine the power of Flask-Restless with the flexibility of
+Flask-RESTful to quickly build APIs that fit the complexity of existing
+real-life projects with legacy data and diverse storage providers.")
+    (license license:expat)))
diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm
index ee37c05dac..60531288a1 100644
--- a/gnu/packages/python-xyz.scm
+++ b/gnu/packages/python-xyz.scm
@@ -19203,11 +19203,52 @@ address is valid and really exists.")
        ("python-pytz" ,python-pytz)))
     (home-page "https://github.com/marshmallow-code/marshmallow")
     (synopsis "Convert complex datatypes to and from native
-Python datatypes.")
+Python datatypes")
     (description "@code{marshmallow} provides a library for converting
 complex datatypes to and from native Python datatypes.")
     (license license:expat)))
 
+(define-public python-marshmallow-3.2
+  (package
+    (inherit python-marshmallow)
+    (version "3.2.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (pypi-uri "marshmallow" version))
+       (sha256
+        (base32 "1w18klwj0z9bqxj252qpj1hz8l46nl27sbc89rkajc7mln73wbws"))))))
+
+(define-public python-marshmallow-jsonapi
+  (package
+    (name "python-marshmallow-jsonapi")
+    (version "0.24.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (pypi-uri "marshmallow-jsonapi" version))
+       (sha256
+        (base32 "1d9pxcgmln4gls99vwj1h24qv0lz7fb2jqmqrsiv1pid1snc125x"))))
+    (build-system python-build-system)
+    (propagated-inputs
+     `(("python-marshmallow" ,python-marshmallow-3.2)))
+    (native-inputs
+     `(("python-faker" ,python-faker)
+       ("python-flake8" ,python-flake8)
+       ("python-flake8-bugbear" ,python-flake8-bugbear)
+       ("python-flask" ,python-flask)
+       ("python-mock" ,python-mock)
+       ("python-pre-commit" ,python-pre-commit)
+       ("python-pytest" ,python-pytest)
+       ("python-tox" ,python-tox)))
+    (home-page "https://github.com/marshmallow-code/marshmallow-jsonapi")
+    (synopsis "JSON:API 1.0 formatting with Marshmallow")
+    (description
+     "The marshmallow-jsonapi package provides a simple way to produce
+@uref{https://jsonapi.org, JSON:API}-compliant data in any Python Web framework.
+It includes optional utilities to integrate with Flask.")
+    (license license:expat)))
+
 (define-public python-apispec
   (package
     (name "python-apispec")
diff --git a/gnu/packages/rust-apps.scm b/gnu/packages/rust-apps.scm
index 94667c79d5..6d95b496c3 100644
--- a/gnu/packages/rust-apps.scm
+++ b/gnu/packages/rust-apps.scm
@@ -12,6 +12,7 @@
 ;;; Copyright © 2021 Zheng Junjie <873216071@qq.com>
 ;;; Copyright © 2021 Alexandru-Sergiu Marton <brown121407@posteo.ro>
 ;;; Copyright © 2021 Maxim Cournoyer <maxim.cournoyer@gmail.com>
+;;; Copyright © 2021 Petr Hodina <phodina@protonmail.com>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -34,6 +35,8 @@
   #:use-module (guix download)
   #:use-module (guix git-download)
   #:use-module (guix packages)
+  #:use-module (guix utils)
+  #:use-module (gnu packages)
   #:use-module (gnu packages admin)
   #:use-module (gnu packages compression)
   #:use-module (gnu packages crates-io)
@@ -41,12 +44,14 @@
   #:use-module (gnu packages curl)
   #:use-module (gnu packages documentation)
   #:use-module (gnu packages fontutils)
+  #:use-module (gnu packages glib)
   #:use-module (gnu packages gtk)
   #:use-module (gnu packages jemalloc)
   #:use-module (gnu packages linux)
   #:use-module (gnu packages ssh)
   #:use-module (gnu packages pcre)
   #:use-module (gnu packages pkg-config)
+  #:use-module (gnu packages pulseaudio)
   #:use-module (gnu packages python-xyz)
   #:use-module (gnu packages rust)
   #:use-module (gnu packages tls)
@@ -439,6 +444,78 @@ characters, ASCII whitespace characters, other ASCII characters and non-ASCII.")
      "This package provides a command-line benchmarking tool.")
     (license (list license:expat license:asl2.0))))
 
+(define-public i3status-rust
+  (package
+    (name "i3status-rust")
+    (version "0.20.1")
+    (source
+      (origin
+        (method git-fetch)
+        (uri (git-reference
+              (url "https://github.com/greshake/i3status-rust")
+              (commit (string-append "v" version))))
+        (file-name (git-file-name name version))
+        (patches (search-patches "i3status-rust-enable-unstable-features.patch"))
+        (sha256
+         (base32 "00gzm3g297s9bfp13vnb623p7dfac3g6cdhz2b3lc6l0kmnnqs1s"))))
+    (build-system cargo-build-system)
+    (native-inputs
+     `(("pkg-config" ,pkg-config)))
+    (inputs
+     `(("curl" ,curl)
+       ("dbus" ,dbus)
+       ("pulseaudio" ,pulseaudio)
+       ("openssl" ,openssl)
+       ("zlib" ,zlib)))
+    (arguments
+     `(#:features '("pulseaudio" "libpulse-binding")
+       #:install-source? #f
+       #:cargo-inputs
+       (("rust-chrono" ,rust-chrono-0.4)
+        ("rust-chrono-tz" ,rust-chrono-tz-0.5)
+        ("rust-crossbeam-channel" ,rust-crossbeam-channel-0.5)
+        ("rust-curl" ,rust-curl-0.4)
+        ("rust-dbus" ,rust-dbus-0.9)
+        ("rust-dbus-tree" ,rust-dbus-tree-0.9)
+        ("rust-lazy-static" ,rust-lazy-static-1)
+        ("rust-nix" ,rust-nix-0.20)
+        ("rust-nl80211" ,rust-nl80211-0.0.2)
+        ("rust-serde" ,rust-serde-1)
+        ("rust-serde-derive" ,rust-serde-derive-1)
+        ("rust-serde-json" ,rust-serde-json-1)
+        ("rust-signal-hook" ,rust-signal-hook-0.3)
+        ("rust-swayipc" ,rust-swayipc-2)
+        ("rust-toml" ,rust-toml-0.5)
+        ("rust-cpuprofiler" ,rust-cpuprofiler-0.0)
+        ("rust-inotify" ,rust-inotify-0.9)
+        ("rust-libpulse-binding" ,rust-libpulse-binding-2)
+        ("rust-maildir" ,rust-maildir-0.5)
+        ("rust-notmuch" ,rust-notmuch-0.6)
+        ("rust-progress" ,rust-progress-0.2))
+       #:cargo-development-inputs
+       (("rust-assert-fs" ,rust-assert-fs-1))
+       #:phases
+       (modify-phases %standard-phases
+         (add-after 'unpack 'fix-resources-path
+           (lambda* (#:key outputs #:allow-other-keys)
+             (let ((resources (string-append %output "/share")))
+               (substitute* "src/util.rs"
+                 (("/usr/share/i3status-rust") resources)))))
+         (add-after 'install 'install-resources
+           (lambda* (#:key outputs #:allow-other-keys)
+             (copy-recursively "files" (string-append %output "/share"))))
+         (add-after 'unpack 'enable-unstable-features
+           (lambda _
+             (setenv "RUSTC_BOOTSTRAP" "1")
+             #t)))))
+    (home-page "https://github.com/greshake/i3status-rust")
+    (synopsis "i3status, written in pure Rust")
+    (description "@code{i3status-rs} is a feature-rich and resource-friendly
+replacement for i3status, written in pure Rust.  It provides a way to display
+@code{blocks} of system information (time, battery status, volume, etc) on the i3
+bar.  It is also compatible with sway.")
+    (license license:gpl3)))
+
 (define-public ripgrep
   (package
     (name "ripgrep")
diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index 87cb7def34..9a4cdd219d 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -191,7 +191,7 @@ This package also provides @command{xls2csv} to export Excel files to CSV.")
 (define r-with-tests
   (package
     (name "r-with-tests")
-    (version "4.1.1")
+    (version "4.1.2")
     (source (origin
               (method url-fetch)
               (uri (string-append "mirror://cran/src/base/R-"
@@ -199,7 +199,7 @@ This package also provides @command{xls2csv} to export Excel files to CSV.")
                                   version ".tar.gz"))
               (sha256
                (base32
-                "0r6kpnxjbvb7gdfg4m1z8zc6xd225vw81wrnf05ps9ajawk06pji"))))
+                "1brqmc7mmb0z94kcs4crgl6v9a6sxhm9fm3y177d81vjkxg24di0"))))
     (build-system gnu-build-system)
     (arguments
      `(#:disallowed-references (,tzdata-for-tests)
@@ -216,8 +216,7 @@ This package also provides @command{xls2csv} to export Excel files to CSV.")
              ;; This ensures that Guix can detect embedded store references;
              ;; see bug #28157 for details.
              (substitute* "src/library/base/makebasedb.R"
-               (("compress = TRUE") "compress = FALSE"))
-             #t))
+               (("compress = TRUE") "compress = FALSE"))))
          (add-before 'configure 'patch-coreutils-paths
            (lambda* (#:key inputs #:allow-other-keys)
              (let ((uname-bin (search-input-file inputs "/bin/uname"))
@@ -225,8 +224,7 @@ This package also provides @command{xls2csv} to export Excel files to CSV.")
                (substitute* "src/scripts/R.sh.in"
                  (("uname") uname-bin))
                (substitute* "src/unix/sys-std.c"
-                 (("rm -Rf ") (string-append rm-bin " -Rf "))))
-             #t))
+                 (("rm -Rf ") (string-append rm-bin " -Rf "))))))
          (add-after 'unpack 'build-reproducibly
            (lambda _
              ;; The documentation contains time stamps to demonstrate
@@ -285,17 +283,17 @@ as.POSIXct(if (\"\" != Sys.getenv(\"SOURCE_DATE_EPOCH\")) {\
              ;; that is suspected to be the culprit.
              (substitute* "src/library/methods/DESCRIPTION.in"
                (("\\(2008\\)\n") "(2008) ")
-               (("  ``Software") "``Software"))
-             #t))
+               (("  ``Software") "``Software")
+               (("Data Analysis:.") "Data Analysis:\n")
+               (("Programming with R") "  Programming with R"))))
          (add-before 'build 'set-locales
            (lambda _
              (setlocale LC_ALL "C")
-             (setenv "LC_ALL" "C")
-             #t))
+             (setenv "LC_ALL" "C")))
          (add-before 'configure 'set-default-pager
           ;; Set default pager to "cat", because otherwise it is "false",
           ;; making "help()" print nothing at all.
-          (lambda _ (setenv "PAGER" "cat") #t))
+          (lambda _ (setenv "PAGER" "cat")))
          (add-before 'check 'set-timezone
            ;; Some tests require the timezone to be set.  However, the
            ;; timezone may not just be "UTC", or else a brittle regression
@@ -638,13 +636,13 @@ nonlinear mixed-effects models.")
 (define-public r-mgcv
   (package
    (name "r-mgcv")
-   (version "1.8-37")
+   (version "1.8-38")
    (source
     (origin
      (method url-fetch)
      (uri (cran-uri "mgcv" version))
      (sha256
-      (base32 "14gw714xcyvgrbajijmyd4v8zs84i701g7gyld6z8p7677dgc8w8"))))
+      (base32 "1fyx8b0xjyx75mp90v314gayzydkca5y90p76jnwxzfnhxbys4nd"))))
    (build-system r-build-system)
    (propagated-inputs
     `(("r-matrix" ,r-matrix)
@@ -1047,14 +1045,14 @@ solution for sending email, including attachments, from within R.")
 (define-public r-stringi
   (package
     (name "r-stringi")
-    (version "1.7.4")
+    (version "1.7.5")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "stringi" version))
        (sha256
         (base32
-         "1mda4612sc573zabsvygnla3vpnf3mql58fc9j450540h6hlwfv2"))))
+         "0r959gzyqkq9683qdfy95g9plwpj3c73n9lhf0a6byybw4scq519"))))
     (build-system r-build-system)
     (inputs `(("icu4c" ,icu4c)))
     (native-inputs `(("pkg-config" ,pkg-config)))
@@ -1386,13 +1384,13 @@ supported via Andre Simon's highlight package.")
 (define-public r-mime
   (package
     (name "r-mime")
-    (version "0.11")
+    (version "0.12")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "mime" version))
               (sha256
                (base32
-                "1h7fz0rqnp970r9q0d95qcxpxm9mb98rqhcdncx0w2qdkyj2fm11"))))
+                "0j9qbq9jfsp61h2d0xmb87pa2wi8nhb1h2wih7l5drf1sr8i0059"))))
     (build-system r-build-system)
     (home-page "https://github.com/yihui/mime")
     (synopsis "R package to map filenames to MIME types")
@@ -1449,13 +1447,13 @@ emitter (http://pyyaml.org/wiki/LibYAML) for R.")
 (define-public r-knitr
   (package
     (name "r-knitr")
-    (version "1.34")
+    (version "1.36")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "knitr" version))
               (sha256
                (base32
-                "0p6jdicyqknrqilcjm2h4r6vza5lpzccnsdirj92jb3ljg10b0by"))))
+                "0hcf5gii0qlvv15f86y6h08qp0hd9lcrykzj0mdfjdfi52sgbkkf"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-evaluate" ,r-evaluate)
@@ -1602,13 +1600,13 @@ R packages that praise their users.")
 (define-public r-testthat
   (package
     (name "r-testthat")
-    (version "3.0.4")
+    (version "3.1.0")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "testthat" version))
               (sha256
                (base32
-                "0iqizv2gpv9fg766qv8hbkmc6c5i9xcfrmq9k5m2550p28zff2w3"))))
+                "11s98q0gm37z1cqzwvdm9pq26v0zbdq9vc5ssl1nsxhsi42v2577"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-brio" ,r-brio)
@@ -1664,13 +1662,13 @@ defined in different packages.")
 (define-public r-rlang
   (package
     (name "r-rlang")
-    (version "0.4.11")
+    (version "0.4.12")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "rlang" version))
               (sha256
                (base32
-                "1pfm24jjkxzdb5qcbc05dcjxyk69zpfr5jv4xakqh1xh41mr43kl"))))
+                "05cr08smr8dlk10m810rw4qi1yhgnny83rwkxib0l4my71br29ia"))))
     (build-system r-build-system)
     (home-page "http://rlang.tidyverse.org")
     (synopsis "Functions for base types, core R and Tidyverse features")
@@ -1682,14 +1680,14 @@ like tidy evaluation.")
 (define-public r-tibble
   (package
     (name "r-tibble")
-    (version "3.1.4")
+    (version "3.1.5")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "tibble" version))
        (sha256
         (base32
-         "0zqpg2haph0qi1x5r6wr083xckab9gw21jbr9spcr8xdf43hx1vk"))))
+         "1ryv1r3cah1s8dyqdhcb0yl81r384jvgc4d1q9zwsrrsd2x8fqys"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-ellipsis" ,r-ellipsis)
@@ -1870,13 +1868,13 @@ times.")
 (define-public r-data-table
   (package
     (name "r-data-table")
-    (version "1.14.0")
+    (version "1.14.2")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "data.table" version))
               (sha256
                (base32
-                "0kgbvap5v2spnkz3dwfm4jh4qcpvbzdn9s8bzfnhzabz9qjdxw8k"))))
+                "0arx5wna0sh0vf5q8rjhh8nqdmnvg2pdpbhljl9l0x4kwm8vjhgp"))))
     (build-system r-build-system)
     (inputs
      `(("zlib" ,zlib)))
@@ -2284,14 +2282,14 @@ module, Java Server Pages, and Python's psp module.")
 (define-public r-desc
   (package
     (name "r-desc")
-    (version "1.3.0")
+    (version "1.4.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "desc" version))
        (sha256
         (base32
-         "1sw4vya3l971gpccq4gnjywgbl73bgx8la18l0wy617qv94f905y"))))
+         "0jfnwn1kpiill8v4hmzdk90yz4gk2ha0prr2p0hq36s40v3y8842"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-crayon" ,r-crayon)
@@ -2557,13 +2555,13 @@ time-of-day values, based on the @code{difftime} class.")
 (define-public r-readr
   (package
     (name "r-readr")
-    (version "2.0.1")
+    (version "2.0.2")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "readr" version))
               (sha256
                (base32
-                "0cj5k3ykkhixgdsqm1gnmpc0d8z04l3fhvm2dr5xp7cpmhgsrpfr"))))
+                "05bnvcc55i0xjilfrqx3700mwiz8sgihq1wxlbvvr8nxa7bmxc4q"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-cli" ,r-cli)
@@ -2650,13 +2648,13 @@ well as additional utilities such as panel and axis annotation functions.")
 (define-public r-rcpparmadillo
   (package
     (name "r-rcpparmadillo")
-    (version "0.10.6.0.0")
+    (version "0.10.7.0.0")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "RcppArmadillo" version))
               (sha256
                (base32
-                "1bcx8fk5l5mmwb6cw36ndvld9v3amkz6vyc19059dw0xp7mxx04v"))))
+                "1x35xb5yfslsdpaz9msl5p9f7gilnbkhwvq7pbycwasvkp2fma01"))))
     (properties `((upstream-name . "RcppArmadillo")))
     (build-system r-build-system)
     (propagated-inputs
@@ -4002,13 +4000,13 @@ vignettes.")
 (define-public r-mvtnorm
   (package
     (name "r-mvtnorm")
-    (version "1.1-2")
+    (version "1.1-3")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "mvtnorm" version))
               (sha256
                (base32
-                "05wh7mprf2sim2kxh3d72pdcmml6vbikzxavws1dq6mxwlsy2p7j"))))
+                "0j14q2bkc14v35s5k03sw44zsssrd2qjljlwzj014qxs74hk0kpz"))))
     (build-system r-build-system)
     (native-inputs
      `(("gfortran" ,gfortran)))
@@ -4050,13 +4048,13 @@ memory usage.")
 (define-public r-viridis
   (package
     (name "r-viridis")
-    (version "0.6.1")
+    (version "0.6.2")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "viridis" version))
               (sha256
                (base32
-                "1fyax36ycjiypcnxhrv58pq67qv03vfg4lx822d38jpjly54q128"))))
+                "048kwhbhd49g86cq11fl7vm0whwhjl5gs9xjn040lwcjv78qrdb9"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-ggplot2" ,r-ggplot2)
@@ -4134,14 +4132,14 @@ selection.")
 (define-public r-tidyr
   (package
     (name "r-tidyr")
-    (version "1.1.3")
+    (version "1.1.4")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "tidyr" version))
        (sha256
         (base32
-         "0cpbrvr759z8p7r9lpkjhj2dcdymsbnaib0rma9b4jb7i3qzmh2a"))))
+         "0h8jfsmn4r7zgfyjmg2qkjd54n0sncq07xjh4mdf2cx4k2z9h30b"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-cpp11" ,r-cpp11)
@@ -4219,13 +4217,13 @@ features present in other programming languages.")
 (define-public r-plotly
   (package
     (name "r-plotly")
-    (version "4.9.4.1")
+    (version "4.10.0")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "plotly" version))
               (sha256
                (base32
-                "1q711c0lg0jmzrmcc2fhjy70ms49as7cakdbgbh2ij9s149fa7iq"))))
+                "16iqj7sv49mva6siibsci7iijsbnk7pqvfns9al0k35w9mjmr6dx"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-base64enc" ,r-base64enc)
@@ -4422,13 +4420,13 @@ package instead.")
 (define-public r-hmisc
   (package
     (name "r-hmisc")
-    (version "4.5-0")
+    (version "4.6-0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "Hmisc" version))
        (sha256
-        (base32 "11qj73zj16p113jpwn2vv06l99kqlcxcmrldbpyi5s7pwing9jnx"))))
+        (base32 "1bd1c8sichyijprfpnqj5g72nmgs9jvi0zyw8v4nsg1kn83fj71c"))))
     (properties `((upstream-name . "Hmisc")))
     (build-system r-build-system)
     (native-inputs
@@ -4683,13 +4681,13 @@ mechanism.")
 (define-public r-ztable
   (package
     (name "r-ztable")
-    (version "0.2.2")
+    (version "0.2.3")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "ztable" version))
               (sha256
                (base32
-                "0wxcdb7yp2r6w5iznz1k49npp5sn4jiybfcj30s3198hkcnv0r8y"))))
+                "1ps7ix0hc84s0p0ra6bkjxky3cffs1rvdcagqzj78lbdq22dk5j8"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-flextable" ,r-flextable)
@@ -5173,14 +5171,14 @@ can be efficiently implemented directly in the R language.")
 (define-public r-robustbase
   (package
     (name "r-robustbase")
-    (version "0.93-8")
+    (version "0.93-9")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "robustbase" version))
        (sha256
         (base32
-         "16fmnk3p32mi70rkx89l1v4pry3gnrpy9jicnlfnk6lg1pwz5j8w"))))
+         "0i9wf4aq8zpn2np6z2rjja21ks9n740dgkiv0qfwdzk3ah3vapyp"))))
     (build-system r-build-system)
     (native-inputs
      `(("gfortran" ,gfortran)))
@@ -5886,18 +5884,18 @@ is supported.")
 (define-public r-lubridate
   (package
     (name "r-lubridate")
-    (version "1.7.10")
+    (version "1.8.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "lubridate" version))
        (sha256
         (base32
-         "1s653d6rnpf9bkynxmbq4fdjdcz7r9ma19aph8f5y9ck70his4hm"))))
+         "199b00cql07gf3rf4hh5ba34amnk0ai40zhx73dq1mpkn7ynxml7"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-generics" ,r-generics)
-       ("r-rcpp" ,r-rcpp)))
+       ("r-cpp11" ,r-cpp11)))
     (native-inputs
      `(("r-knitr" ,r-knitr)))
     (home-page "https://cran.r-project.org/web/packages/lubridate/")
diff --git a/gnu/packages/vim.scm b/gnu/packages/vim.scm
index 358e14b3b5..2537f8e305 100644
--- a/gnu/packages/vim.scm
+++ b/gnu/packages/vim.scm
@@ -1294,3 +1294,32 @@ a sidebar that displays the ctags-generated tags of the current file, ordered
 by their scope.  This means that for example methods in C++ are displayed under
 the class they are defined in.")
     (license license:vim)))
+
+(define-public vim-nerdcommenter
+  (let ((commit "a65465d321f2f8a74b2ffa540b9b87563f7e12e8")
+        (revision "1"))
+    (package
+      (name "vim-nerdcommenter")
+      (version (git-version "2.5.2" revision commit))
+      (source
+       (origin
+         (method git-fetch)
+         (uri (git-reference
+                (url "https://github.com/preservim/nerdcommenter")
+                (commit commit)))
+         (file-name (git-file-name name version))
+         (sha256
+          (base32 "00ir65iv8jfbgzjmj7332fmydh0qhabbhx8zbvd3j6pgfxqpaafw"))))
+      (build-system copy-build-system)
+      (arguments
+       '(#:install-plan
+         '(("autoload" "share/vim/vimfiles/")
+           ("doc" "share/vim/vimfiles/")
+           ("plugin" "share/vim/vimfiles/"))))
+      (home-page "https://github.com/preservim/nerdcommenter")
+      (synopsis "Vim plugin for easy commenting of code")
+      (description
+       "NERD commenter is a Vim plugin that provides many different commenting
+operations and styles which are invoked via key mappings and a menu.  These
+operations are available for most filetypes.")
+      (license license:cc0))))
diff --git a/gnu/packages/web.scm b/gnu/packages/web.scm
index 38be76d582..03b3b09acd 100644
--- a/gnu/packages/web.scm
+++ b/gnu/packages/web.scm
@@ -370,18 +370,18 @@ the same, being completely separated from the Internet.")
 (define-public nginx
   (package
     (name "nginx")
+    ;; Please update the nginx-documentation package together with this one!
     ;; Track the ‘mainline’ branch.  Upstream considers it more reliable than
     ;; ’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/)
-    ;; Please update the nginx-documentation package together with this one!
-    (version "1.21.3")
+    (version "1.21.4")
     (source (origin
               (method url-fetch)
               (uri (string-append "https://nginx.org/download/nginx-"
                                   version ".tar.gz"))
               (sha256
                (base32
-                "0nhps7igdqcpcy1r8677ar807rfclpylmz3y858a678m1np4lxql"))))
+                "1ziv3xargxhxycd5hp6r3r5mww54nvvydiywcpsamg3i9r3jzxyi"))))
     (build-system gnu-build-system)
     (inputs `(("libxml2" ,libxml2)
               ("libxslt" ,libxslt)
@@ -476,9 +476,9 @@ and as a proxy to reduce the load on back-end HTTP or mail servers.")
 
 (define-public nginx-documentation
   ;; This documentation should be relevant for the current nginx package.
-  (let ((version "1.21.3")
-        (revision 2769)
-        (changeset "16f6fa718be2"))
+  (let ((version "1.21.4")
+        (revision 2791)
+        (changeset "9385526a9b2d"))
     (package
       (name "nginx-documentation")
       (version (simple-format #f "~A-~A-~A" version revision changeset))
@@ -490,7 +490,7 @@ and as a proxy to reduce the load on back-end HTTP or mail servers.")
                (file-name (string-append name "-" version))
                (sha256
                 (base32
-                 "1rjq5xqzx843yk9nblz8lq14r4kmlrahap7m0lkvx5mky80vqp79"))))
+                 "07v5vpwg2k4y1asbygmrvsk61l1vbdb2pyllc5k4hcjykg9avfza"))))
       (build-system gnu-build-system)
       (arguments
        '(#:tests? #f                    ; no test suite
diff --git a/gnu/packages/webkit.scm b/gnu/packages/webkit.scm
index e54b680855..688e745d95 100644
--- a/gnu/packages/webkit.scm
+++ b/gnu/packages/webkit.scm
@@ -241,7 +241,7 @@ acceleration in mind, leveraging common 3D graphics APIs for best performance.")
     (build-system cmake-build-system)
     (outputs '("out" "doc"))
     (arguments
-     '(#:tests? #f ; no tests
+     `(#:tests? #f ; no tests
        #:build-type "Release" ; turn off debugging symbols to save space
        #:configure-flags (list
                           "-DPORT=GTK"
@@ -295,10 +295,24 @@ acceleration in mind, leveraging common 3D graphics APIs for best performance.")
                  (("libWPEBackend-fdo-([\\.0-9]+)\\.so" all version)
                   (string-append wpebackend-fdo "/lib/" all)))
                #t)))
+         ,@(if (string-prefix? "x86_64" (or (%current-target-system)
+                                            (%current-system)))
+               '()
+               '((add-after 'unpack 'disable-sse2
+                   (lambda _
+                     (substitute* "Source/cmake/DetectSSE2.cmake"
+                       (("CHECK_FOR_SSE2\\(\\)") ""))))))
          (add-before 'configure 'prepare-build-environment
            (lambda* (#:key inputs #:allow-other-keys)
              (setenv "CC" "clang")
              (setenv "CXX" "clang++")
+             ;; XXX Until we switch back to using GCC,
+             ;; work around <https://bugs.gnu.org/51591>.
+             ,@(if (target-x86-32?)
+                   '((substitute* "Source/WTF/wtf/CheckedArithmetic.h"
+                       (("#define USE_MUL_OVERFLOW 1")
+                        "#define USE_MUL_OVERFLOW 0")))
+                   '())
              #t))
          (add-after 'install 'move-doc-files
            (lambda* (#:key outputs #:allow-other-keys)
diff --git a/gnu/packages/zig.scm b/gnu/packages/zig.scm
index ab62f554f4..a7966736e8 100644
--- a/gnu/packages/zig.scm
+++ b/gnu/packages/zig.scm
@@ -1,5 +1,5 @@
 ;;; GNU Guix --- Functional package management for GNU
-;;; Copyright © 2021 Liliana Prikler <liliana.prikler@gmail.com>
+;;; Copyright © 2021 Liliana Marie Prikler <liliana.prikler@gmail.com>
 ;;; Copyright © 2021 Sarah Morgensen <iskarian@mgsn.dev>
 ;;;
 ;;; This file is part of GNU Guix.
diff --git a/gnu/system/file-systems.scm b/gnu/system/file-systems.scm
index e69cfd06e6..c6c1b96d16 100644
--- a/gnu/system/file-systems.scm
+++ b/gnu/system/file-systems.scm
@@ -1,5 +1,5 @@
 ;;; GNU Guix --- Functional package management for GNU
-;;; Copyright © 2013, 2014, 2015, 2016, 2017, 2018, 2019, 2020 Ludovic Courtès <ludo@gnu.org>
+;;; Copyright © 2013-2021 Ludovic Courtès <ludo@gnu.org>
 ;;; Copyright © 2020 Google LLC
 ;;; Copyright © 2020 Jakub Kądziołka <kuba@kadziolka.net>
 ;;; Copyright © 2020, 2021 Maxim Cournoyer <maxim.cournoyer@gmail.com>
@@ -30,7 +30,8 @@
   #:use-module (srfi srfi-35)
   #:use-module (srfi srfi-9 gnu)
   #:use-module (guix records)
-  #:use-module ((guix diagnostics) #:select (&fix-hint))
+  #:use-module ((guix diagnostics)
+                #:select (source-properties->location leave &fix-hint))
   #:use-module (guix i18n)
   #:use-module (gnu system uuid)
   #:re-export (uuid                               ;backward compatibility
@@ -107,6 +108,45 @@
 ;;;
 ;;; Code:
 
+(eval-when (expand load eval)
+  (define invalid-file-system-flags
+    ;; Note: Keep in sync with 'mount-flags->bit-mask'.
+    (let ((known-flags '(read-only
+                         bind-mount no-suid no-dev no-exec
+                         no-atime strict-atime lazy-time)))
+      (lambda (flags)
+        "Return the subset of FLAGS that is invalid."
+        (remove (cut memq <> known-flags) flags))))
+
+  (define (%validate-file-system-flags flags location)
+    "Raise an error if FLAGS contains invalid mount flags; otherwise return
+FLAGS."
+    (match (invalid-file-system-flags flags)
+      (() flags)
+      (invalid
+       (leave (source-properties->location location)
+              (N_ "invalid file system mount flag:~{ ~s~}~%"
+                  "invalid file system mount flags:~{ ~s~}~%"
+                  (length invalid))
+              invalid)))))
+
+(define-syntax validate-file-system-flags
+  (lambda (s)
+    "Validate the given file system mount flags, raising an error if invalid
+flags are found."
+    (syntax-case s (quote)
+      ((_ (quote (symbols ...)))                  ;validate at expansion time
+       (begin
+         (%validate-file-system-flags (syntax->datum #'(symbols ...))
+                                      (syntax-source s))
+         #'(quote (symbols ...))))
+      ((_ flags)
+       #`(%validate-file-system-flags flags
+                                      '#,(datum->syntax s (syntax-source s))))
+      (id
+       (identifier? #'id)
+       #'%validate-file-system-flags))))
+
 ;; File system declaration.
 (define-record-type* <file-system> %file-system
   make-file-system
@@ -115,7 +155,8 @@
   (mount-point      file-system-mount-point)      ; string
   (type             file-system-type)             ; string
   (flags            file-system-flags             ; list of symbols
-                    (default '()))
+                    (default '())
+                    (sanitize validate-file-system-flags))
   (options          file-system-options           ; string or #f
                     (default #f))
   (mount?           file-system-mount?            ; Boolean