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2022-06-13gnu: Add js-mathjax-for-r-mathjaxr.Ricardo Wurmus
* gnu/packages/patches/mathjax-3.1.2-no-a11y.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/javascript.scm (js-mathjax-for-r-mathjaxr): New variable.
2022-06-13gnu: python-asyncssh: Update to 2.11.0.Lars-Dominik Braun
* gnu/packages/ssh.scm (python-asyncssh)[version]: Update to 2.11.0. [propagated-inputs]: Add python-typing-extensions. [native-inputs]: Add python-fido2, python-aiofiles, netcat and python-pytest. [arguments]: Disable netcat autodetection. Replace 'check with call to pytest.
2022-06-13gnu: Add python-langcodes.Artyom V. Poptsov
* gnu/packages/python-xyz.scm (python-langcodes): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-06-13services: guix: Generalize extensions.terramorpha
* gnu/services/base.scm (<guix-extension>): New record type. (guix-extension-merge): New procedure. (guix-service-type): Honor extensions. * doc/guix.texi (Base Services): Document it. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-06-13gnu: racket: Avoid use of (ice-9 exceptions).Ludovic Courtès
Fixes <https://issues.guix.gnu.org/54546>. Reported by Giovanni Biscuolo <g@xelera.eu> and Michael Chirillo <michael.a.chirillo@gmail.com>. * gnu/packages/racket.scm (racket): Rewrite in terms of SRFI-34/35 instead of (ice-9 exceptions).
2022-06-13challenge: Actually delete nars that have been extracted.Ludovic Courtès
Fixes <https://issues.guix.gnu.org/55809>. Reported by Vagrant Cascadian <vagrant@reproducible-builds.org>. * guix/scripts/challenge.scm (make-directory-writable): New procedure. (call-with-mismatches)[restore-file*]: New procedure. Use it instead of 'restore-file'.
2022-06-13gnu: txr: Update to 277.Guillaume Le Vaillant
* gnu/packages/lisp.scm (txr): Update to 277. [inputs]: Add zlib.
2022-06-13Merge branch 'staging'Ludovic Courtès
2022-06-13gnu: ungoogled-chromium: Update to 102.0.5005.115-1.Marius Bakke
* gnu/packages/chromium.scm (%chromium-version): Set to 102.0.5005.115. (%ungoogled-revision): Set to 1. (%ungoogled-origin, ungoogled-chromium): Update hash.
2022-06-13gnu: LLVM, Clang, LLD: Update to 14.0.5.Marius Bakke
* gnu/packages/llvm.scm (llvm-14, clang-14, lld-14): Update to 14.0.5. (%llvm-monorepo-hashes, %llvm-patches): Adjust accordingly.
2022-06-13gnu: uBlock Origin: Update to 1.43.0.Marius Bakke
* gnu/packages/browser-extensions.scm (ublock-origin): Update to 1.43.0.
2022-06-12gnu: Add r-deconvr.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-deconvr): New variable.
2022-06-12gnu: Add r-rsq.Ricardo Wurmus
* gnu/packages/cran.scm (r-rsq): New variable.
2022-06-12Merge branch 'master' into stagingLudovic Courtès
2022-06-12gnu: Add emacs-corfu-doc-terminal.jgart
* gnu/packages/emacs-xyz.scm (emacs-corfu-doc-terminal): New variable. Signed-off-by: Liliana Marie Prikler <liliana.prikler@gmail.com>
2022-06-12gnu: Add emacs-corfu-terminal.jgart
* gnu/packages/emacs-xyz.scm (emacs-corfu-terminal): New variable. Signed-off-by: Liliana Marie Prikler <liliana.prikler@gmail.com>
2022-06-12gnu: llvm-14: Fix configure-flags for cross-compiling.Efraim Flashner
* gnu/packages/llvm.scm (llvm-14)[arguments]: Fix syntax error in configure-flags when cross-compiling llvm.
2022-06-12gnu: zig: Limit to 64bit systems.Efraim Flashner
* gnu/packages/zig.scm (zig)[supported-systems]: New field.
2022-06-12guix: packages: Add %32bit-supported-systems, %64bit-supported-systems.Efraim Flashner
* guix/packages.scm (%32bit-supported-systems, %64bit-supported-systems): New variables. (%supported-systems): Rewrite using %32bit-supported-systems, %64bit-supported-systems.
2022-06-12gnu: r-hdf5array: Update to 1.24.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-hdf5array): Update to 1.24.1.
2022-06-12gnu: r-universalmotif: Update to 1.14.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-universalmotif): Update to 1.14.1.
2022-06-12gnu: r-rsubread: Update to 2.10.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-rsubread): Update to 2.10.2.
2022-06-12gnu: r-clusterprofiler: Update to 4.4.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-clusterprofiler): Update to 4.4.2.
2022-06-12gnu: r-monocle: Update to 2.24.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-monocle): Update to 2.24.1.
2022-06-12gnu: r-chippeakanno: Update to 3.30.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.30.1.
2022-06-12gnu: r-zellkonverter: Update to 1.6.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-zellkonverter): Update to 1.6.2.
2022-06-12gnu: r-keggrest: Update to 1.36.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-keggrest): Update to 1.36.2.
2022-06-12gnu: r-genomicfeatures: Update to 1.48.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-genomicfeatures): Update to 1.48.3.
2022-06-12gnu: r-biocparallel: Update to 1.30.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-biocparallel): Update to 1.30.3. [propagated-inputs]: Add r-codetools.
2022-06-12gnu: r-deepsnv: Update to 1.42.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-deepsnv): Update to 1.42.1.
2022-06-12gnu: java-plexus-component-metadata: Fix package.Julien Lepiller
* gnu/packages/java.scm (java-plexus-component-metadata): Apply fix for newer jdom.
2022-06-08Merge branch 'master' into stagingLudovic Courtès
2022-06-08gnu: Add emacs-pyimport.jgart via Guix-patches via
* gnu/packages/emacs-xyz.scm (emacs-pyimport): New variable. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2022-06-08gnu: Add emacs-toodoo.Stefan Reichör
* gnu/packages/emacs-xyz.scm (emacs-toodoo): New variable. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2022-06-08gnu: Add emacs-opencl-mode.Thomas Albers
* gnu/packages/emacs-xyz.scm (emacs-opencl-mode): New variable. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2022-06-07gnu: timescaledb: Adjust test preparation to PostgreSQL 13.6.Ludovic Courtès
The previous method of making a union with symlinks would work with 13.4 but not with 13.6, which has an extra 'canonicalize_path' call in 'find_my_exec'. * gnu/packages/databases.scm (timescaledb)[arguments]: In 'prepare-tests', pass #:symlink argument to 'union-build'.
2022-06-05gnu: postgresql@10: Fix manual compilation.Ludovic Courtès
This is a followup to f0227a18c2394d3403d0265f3c700cfd9d1ee5b4. * gnu/packages/databases.scm (postgresql-10)[native-inputs]: New field.
2022-06-05gnu: docbook-sgml: Add 4.2.Ludovic Courtès
* gnu/packages/docbook.scm (docbook-sgml-4.2, docbook-sgml-4.1): New variables. (docbook-sgml): Make an alias to 'docbook-sgml-4.1'.
2022-06-05gnu: go: Make 'make-go-std' memoizing.Ludovic Courtès
* gnu/packages/golang.scm (make-go-std): Use 'mlambdaq'.
2022-06-05gnu: go-std: Make public.Ludovic Courtès
* gnu/packages/golang.scm (go-std-1.14, go-std-1.16, go-std-1.17): New variables.
2022-06-05gnu: emacs-rainbow-mode: Update to 1.0.6.Tobias Geerinckx-Rice
* gnu/packages/emacs-xyz.scm (emacs-rainbow-mode): Update to 1.0.6.
2022-06-05gnu: emacs-undo-tree: Update to 0.8.2.Tobias Geerinckx-Rice
* gnu/packages/emacs-xyz.scm (emacs-undo-tree): Update to 0.8.2.
2022-06-05gnu: emacs-ghub: Update to 3.5.6.Tobias Geerinckx-Rice
* gnu/packages/emacs-xyz.scm (emacs-ghub): Update to 3.5.6.
2022-06-05gnu: putty: Update to 0.77.Tobias Geerinckx-Rice
* gnu/packages/networking.scm (putty): Update to 0.77. [build-system]: Switch to CMAKE-BUILD-SYSTEM. [arguments]: Remove the old 'chdir phase. Add a custom 'check phase. [native-inputs]: Add perl.
2022-06-05gnu: emacs-d-mode: Update to 2.0.12.Tobias Geerinckx-Rice
* gnu/packages/emacs-xyz.scm (emacs-d-mode): Update to 2.0.12.
2022-06-05gnu: openmpi: Update to 4.1.4.Tobias Geerinckx-Rice
* gnu/packages/mpi.scm (openmpi): Update to 4.1.4.
2022-06-07gnu: Add emacs-xah-fly-keys.Jai Vetrivelan
* gnu/packages/emacs-xyz.scm (emacs-xah-fly-keys): New variable. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2022-06-07gnu: emacs-plz: Update to 0.1.Aleksandr Vityazev
* gnu/packages/emacs-xyz (emacs-plz): Update to 0.1. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2022-06-07gnu: emacs-evil-collection: Update to 0.0.8.Rostislav Svoboda
* gnu/packages/emacs-xyz.scm (emacs-evil-collection): Update to 0.0.8. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2022-06-07gnu: emacs-modus-themes: Update to 2.4.0.André A. Gomes
* gnu/packages/emacs-xyz.scm (emacs-modus-themes): Update to 2.4.0. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
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