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Author SHA1 Message Date
Ricardo Wurmus a28a357675
gnu: r-mutoss: Update to 0.1-13. 
* gnu/packages/bioconductor.scm (r-mutoss): Update to 0.1-13.
 2023-03-19 16:11:53 +01:00
Ricardo Wurmus 55710837d9
gnu: r-valr: Update to 0.6.7. 
* gnu/packages/bioconductor.scm (r-valr): Update to 0.6.7.
 2023-03-19 16:11:53 +01:00
Ricardo Wurmus ab428404de
gnu: r-numbat: Update to 1.2.2. 
* gnu/packages/bioconductor.scm (r-numbat): Update to 1.2.2.
 2023-03-19 16:11:53 +01:00
Ricardo Wurmus 9d4e62ccce
gnu: r-memuse: Adjust indentation. 
* gnu/packages/cran.scm (r-memuse): Adjust indentation.
 2023-03-19 16:11:53 +01:00
Ricardo Wurmus af861fdead
gnu: r-shadowtext: Update indentation. 
* gnu/packages/cran.scm (r-shadowtext): Adjust indentation.
 2023-03-19 16:11:53 +01:00
Ricardo Wurmus 257ef3f659
gnu: Add r-mclogit. 
* gnu/packages/cran.scm (r-mclogit): New variable.
 2023-03-19 16:11:53 +01:00
Ricardo Wurmus 8eccc02ec9
gnu: Add r-memisc. 
* gnu/packages/cran.scm (r-memisc): New variable.
 2023-03-19 16:11:53 +01:00
Ricardo Wurmus ac5011546d
gnu: r-qs: Update to 0.25.5. 
* gnu/packages/cran.scm (r-qs): Update to 0.25.5.
[inputs]: Remove zlib.
 2023-03-19 16:11:53 +01:00
Ricardo Wurmus a1fcc6c595
gnu: r-leaflet: Update to 2.1.2. 
* gnu/packages/cran.scm (r-leaflet): Update to 2.1.2.
 2023-03-19 16:11:53 +01:00
Ricardo Wurmus 2c58e06a17
gnu: r-sf: Update to 1.0-11. 
* gnu/packages/cran.scm (r-sf): Update to 1.0-11.
[inputs]: Remove zlib.
 2023-03-19 16:11:53 +01:00
Ricardo Wurmus 47bce97778
gnu: r-ggvis: Update to 0.4.8. 
* gnu/packages/cran.scm (r-ggvis): Update to 0.4.8.
[source]: Remove five minified JavaScript files.
[arguments]: Add build phase 'process-javascript.
[native-inputs]: Add esbuild and js-lodash.
 2023-03-19 16:11:53 +01:00
Ricardo Wurmus 1b50213ad7
gnu: r-opencpu: Update to 2.2.9. 
* gnu/packages/cran.scm (r-opencpu): Update to 2.2.9.
[source]: Remove two minified JavaScript files.
[arguments]: Add build phases 'process-javascript.
[native-inputs]: Add esbuild, r-r-rsp, and js-query.
 2023-03-19 16:11:53 +01:00
Ricardo Wurmus 6b41dccf35
gnu: r-bookdown: Update to 0.33. 
* gnu/packages/cran.scm (r-bookdown): Update to 0.33.
[source]: Delete three minified JavaScript files.
[arguments]: Add build phase 'process-javascript.
[native-inputs]: Add esbuild, js-clipboard, js-lunarjs, and js-mathquill.
 2023-03-19 16:11:53 +01:00
Ricardo Wurmus fce72b3522
gnu: r-haven: Update to 2.5.2. 
* gnu/packages/cran.scm (r-haven): Update to 2.5.2.
[arguments]: Update to link with readstat.
[inputs]: Add zlib.
 2023-03-19 16:11:53 +01:00
Ricardo Wurmus 40cb3c30fc
gnu: readstat: Update to 1.1.9. 
* gnu/packages/statistics.scm (readstat): Update to 1.1.9.
 2023-03-19 16:11:53 +01:00
Ricardo Wurmus 5050034b4e
gnu: r-httpuv: Update to 1.6.9. 
* gnu/packages/cran.scm (r-httpuv): Update to 1.6.9.
[inputs]: Replace libuv with libuv-for-r-httpuv.
[arguments]: Patch Makevars to link with that variant of libuv.
 2023-03-19 16:11:53 +01:00
Ricardo Wurmus ef86b0b12e
gnu: Add libuv-for-r-httpuv. 
* gnu/packages/libevent.scm (libuv-for-r-httpuv): New variable.
 2023-03-19 16:11:53 +01:00
Ricardo Wurmus e72d0d9208
gnu: r-dt: Update to 0.27. 
* gnu/packages/statistics.scm (r-dt): Update to 0.27.
 2023-03-19 16:11:49 +01:00
Lars-Dominik Braun f9702aa9fd
gnu: Add python-brian2. 
* gnu/packages/machine-learning.scm (python-brian2): New variable.
 2023-03-19 11:33:52 +01:00
Lars-Dominik Braun c16add7fd9
gnu: python-pillow: Fix CVE-2022-45199. 
Fixes: <https://issues.guix.gnu.org/issue/61172>

* gnu/packages/python-xyz.scm (python-pillow/security-fixes): New variable.
(python-pillow): Add replacement.
* gnu/packages/patches/python-pillow-CVE-2022-45199.patch: New file.
* gnu/local.mk: Register it.
 2023-03-19 10:57:00 +01:00
Liliana Marie Prikler d7b4ecdb4c
gnu: Add a4pdf. 
* gnu/packages/pdf.scm (a4pdf): New variable.
 2023-03-19 09:25:36 +01:00
Liliana Marie Prikler fa50974134
gnu: komikku: Update to 1.14.0. 
* gnu/packages/gnome.scm (komikku): Update to 1.14.0.
 2023-03-19 09:25:36 +01:00
Ekaitz Zarraga d59eb81b5c
gnu: zig: Build against a baseline CPU. 
* gnu/packages/zig.scm (zig-0.10)[#:configure-flags]: Add
“-DZIG_TARGET_MCPU=baseline”.

Signed-off-by: Liliana Marie Prikler <liliana.prikler@gmail.com>
 2023-03-19 09:25:36 +01:00
Arun Isaac 34fed18169
gnu: Add tissue. 
* gnu/packages/web.scm (tissue): New variable.
 2023-03-18 17:23:32 +00:00
Yovan Naumovski 99114eb638
gnu: bemenu: Update to 0.6.14. 
* gnu/packages/xdisorg.scm (bemenu): Update to 0.6.14.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-03-17 23:20:36 +01:00
Bruno Victal 20aa4c30fb
services: dict: Deprecate 'dicod-service' procedure. 
* doc/guix.texi (Miscellaneous Services): Remove 'dicod-service' mention.
* gnu/services/dict.scm (dicod-service): Deprecate procedure.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-03-17 23:20:36 +01:00
conses 511ae8325d
home: services: Add home-xmodmap-service-type. 
* gnu/home/services/desktop.scm (home-xmodmap-service-type)
(home-xmodmap-configuration): New variables;
(serialize-xmodmap-configuration)
(xmodmap-shepherd-service): New procedures;
* doc/guix.texi (Desktop Services): Document it.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-03-17 23:20:36 +01:00
Vivien Kraus 97a759769d
gnu: guile-gnutls: Do not expect gnulib shebangs to work. 
* gnu/packages/tls.scm (guile-gnutls) [phase patch-more-shebangs]: Fix how
autogen.sh invokes gnulib-tool, and how configure.ac invokes git-version-gen,
so as not to rely on shebangs.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-03-17 23:20:35 +01:00
Vivien Kraus 25cad45639
gnu: gnulib: Restore shebangs. 
* gnu/packages/build-tools.scm (gnulib)[arguments]: Add
'restore-shebangs' phase.
[inputs, native-inputs]: Add bash-minimal.
[phase let-autogen-execute-gnulib-tool]: Specify a shell to execute
gnulib-tool from autogen.sh.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-03-17 23:20:35 +01:00
Antero Mejr 2135f69dc0
ui: format 'display-hint' output when no arguments are passed. 
When display-hint is given format specifiers such as "~%" but no arguments,
it does not format the output, causing the specifiers to be visible in the
displayed text.

* guix/ui.scm (display-hint): Format output when no arguments are passed.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-03-17 23:20:35 +01:00
Ludovic Courtès d15dbdb79c
pack: "fakechroot" engine passes the recursive RUNPATH to ld.so. 
This is a followup to 58abd58739, which
did not fully address <https://issues.guix.gnu.org/43491>.

* guix/scripts/pack.scm (wrapped-package)[build](runpath): Rewrite in
terms of 'file-needed/recursive'.
 2023-03-17 23:20:35 +01:00
Ludovic Courtès b5a70370f5
services: console-font: 'stop' method always returns #f. 
The 'stop' method of Shepherd services is supposed to return #f on
success.

* gnu/services/base.scm (console-font-shepherd-services): 'stop' method
returns #f.
 2023-03-17 23:20:35 +01:00
Maxim Cournoyer 933051281f
Revert "tests: pack: Fix indentation." 
This reverts commit ac1d530d56.
 2023-03-17 12:14:14 -04:00
Maxim Cournoyer d0b7858968
Revert gexp->derivation and computed-file indentation rules. 
This reverts b1c25e2ce3 and partially reverts
82daab4281, which means the computed-file and
gexp->derivation procedures are now indented as normal procedures.

Rationale: see the discussion at
https://lists.gnu.org/archive/html/guix-devel/2023-03/msg00008.html.  In a
nutshell: the convention is to use special rules for special forms (macros),
not for procedures.

* .dir-locals.el (scheme-mode): Remove the special indentation rules for
the computed-file and gexp->derivation procedures.
 2023-03-17 12:11:29 -04:00
Maxim Cournoyer fd4f91dea6
doc: Use 'mount --rbind' for chroot instructions. 
This was reported by a user in #guix.  It's at least necessary for /sys, to
have the /sys/firmware/efivars location available insinde the chroot when
using an UEFI system.

* doc/guix.texi (Chrooting into an existing system): Replace --bind argument
with --rbind

Suggested-by: Josselin Poiret <dev@jpoiret.xyz>
 2023-03-17 10:57:08 -04:00
Maxim Cournoyer 2dc2722dc0
gnu: ccextractor: Update to 0.94 and fix build. 
* gnu/packages/gstreamer.scm (ccextractor): Update to 0.94.
[source]: Apply patches.  Add FIXME comment.
[build-system]: Switch to gnu-build-system.
[arguments]: Delete #tests? argument.  Delete trailing #t and use gexps.
Adjust configure flags accordingly, removing WITH_SHARING (doesn't exist for
Autoconf) and adding '--without-rust'.  Override check phase.
[native-inputs]: Remove labels.  Remove python-wrapper and perl.
[propagated-inputs]: Remove labels.  Remove nanomsg and zlib.  Replace
leptonica with leptonica-1.80.  replace tesseract-ocr with tesseract-ocr-4.
* gnu/packages/patches/ccextractor-add-missing-header.patch: New file.
* gnu/packages/patches/ccextractor-autoconf-tesseract.patch: Likewise.
* gnu/packages/patches/ccextractor-fix-ocr.patch: Likewise.
* gnu/local.mk (dist_patch_DATA): Register them.
 2023-03-17 10:40:02 -04:00
Maxim Cournoyer 8832acc24e
gnu: Add tesseract-ocr-4. 
* gnu/packages/ocr.scm (tesseract-ocr-4): New variable.
 2023-03-17 10:29:50 -04:00
Maxim Cournoyer 13539334ec
gnu: Add leptonica-1.80. 
* gnu/packages/image.scm (leptonica-1.80): New variable.
 2023-03-17 10:29:50 -04:00
Jan (janneke) Nieuwenhuizen 2714c9ef2d
home: services: ssh-agent: Handle setting of SSH_AUTH_SOCK. 
* gnu/home/services/ssh.scm (home-ssh-agent-environment-variables): New
procedure.
(home-ssh-agent-service-type): Use it as ahome-environment-service type
extension.
* doc/guix.texi (Secure Shell): Remove advice about, and examples of setting
SSH_AUTH_SOCK.
 2023-03-17 12:44:33 +01:00
Zhu Zihao 65f5398dfb
gnu: tdlib: Remove version 1.8.0. 
emacs-telega no longer depends on this package.

* gnu/packages/messaging.scm (tdlib-1.8.0): Remove variable.

Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
 2023-03-17 19:06:03 +08:00
Z572 c41bc99650
gnu: gamin: Fix cross-compilation to riscv64. 
* gnu/packages/gnome.scm (gamin)
[arguments]<#:phases>: Apply 'replace-config.sub for riscv64 too.
[native-inputs]: Add config for riscv64 too.

Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
 2023-03-17 18:55:05 +08:00
Z572 84a70d7c15
gnu: m17n-lib: Fix cross-compile. 
* gnu/packages/emacs.scm (m17n-lib)
[source]: Add m17n-lib-1.8.0-use-pkg-config-for-freetype.patch.
[native-inputs]: When cross-compile add pkg-config, libtool, gettext-minimal,
autoconf, automake.
[arguments]: When cross-compile, add phase to fix rpl_malloc undefined references.
* gnu/packages/patches/m17n-lib-1.8.0-use-pkg-config-for-freetype.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.

Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
 2023-03-17 18:33:38 +08:00
Z572 bf2c66b44e
gnu: m17n-db: Fix cross-compile. 
* gnu/packages/emacs.scm (m17n-db)
[inputs]: Move gettext-minimal to ...
[native-inputs]: ... here.

Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
 2023-03-17 18:33:38 +08:00
Peter Polidoro 00b12c65c4
gnu: kicad: Update to 7.0.1. 
* gnu/packages/engineering.scm (kicad): Update to 7.0.1.

Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
 2023-03-17 11:24:59 +01:00
宋文武 5dd0a6214f
gnu: retroarch: Update to 1.15.0. 
* gnu/packages/emulators.scm (retroarch): Update to 1.15.0.
[source]: Remove upstreamed patch.
[arguments]<#:phases>: Remove not needed changes for 'true' and 'zlib'.
Remove "--disable-builtinminiupnpc" from configure flags.
Add "--disable-builtinzlib" to configure flags.
[inputs]: Remove miniupnpc, which is not used any more.
* gnu/packages/patches/retroarch-LIBRETRO_DIRECTORY: Remove file.
* gnu/local.mk (dist_patch_DATA): Remove it.
 2023-03-17 18:19:31 +08:00
Nicolas Goaziou 3893758dac
gnu: emacs-pyim: Update to 5.3.1. 
* gnu/packages/emacs-xyz.scm (emacs-pyim): Update to 5.3.1.
 2023-03-17 09:22:50 +01:00
Simon Streit 0c2eef25c5
gnu: emacs-bash-completion: Update to 3.1.1-1.b38f9bc. 
* gnu/packages/emacs-xyz.scm (emacs-bash-completion): Update to
3.1.1-1.b38f9bc.

Fix an issue <https://github.com/szermatt/emacs-bash-completion/issues/63>
where in a new shell completion would break and cancel the whole shell process
with it.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2023-03-17 09:22:50 +01:00
conses 156aac1b36
gnu: emacs-helpful: Update to 0.19-1.1c98f6f. 
* gnu/packages/emacs-xyz.scm (emacs-helpful): Update to 0.19-1.1c98f6f.
[source]: Remove fix-docstring-test.patch.
[propagated-inputs]: Remove EMACS-SHUT-UP.
* gnu/packages/patches/emacs-helpful-fix-docstring-test.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Apply removal.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2023-03-17 09:22:49 +01:00
conses 1b64641955
gnu: Add emacs-srht. 
* gnu/packages/emacs-xyz.scm (emacs-srht): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2023-03-17 09:22:49 +01:00
Nicolas Goaziou ec2788f077
gnu: Add texlive-onedown. 
* gnu/packages/tex.scm (texlive-onedown): New variable.
 2023-03-17 09:22:49 +01:00