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2023-03-16gnu: Add julia-tokenize.Nicolas Graves via Guix-patches via
* gnu/packages/julia-xyz.scm (julia-tokenize): New variable. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2023-03-16gnu: emacs-julia-snail: Update include list.Nicolas Graves via Guix-patches via
* gnu/packages/emacs-xyz.scm (emacs-julia-snail): Update include list. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2023-03-16gnu: Add emacs-ac-php.Rostislav Svoboda
* gnu/packages/emacs-xyz.scm (emacs-ac-php): New variable. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2023-03-16gnu: Add emacs-xcscope.Rostislav Svoboda
* gnu/packages/emacs-xyz.scm (emacs-xcscope): New variable. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2023-03-15gnu: Add r-conqur.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-conqur): New variable.
2023-03-15gnu: Add r-cqrreg.Ricardo Wurmus
* gnu/packages/cran.scm (r-cqrreg): New variable.
2023-03-15gnu: Add r-fastdummies.Ricardo Wurmus
* gnu/packages/cran.scm (r-fastdummies): New variable.
2023-03-15gnu: r-biocthis: Update to 1.8.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-biocthis): Update to 1.8.3.
2023-03-15gnu: r-chromvar: Update to 1.20.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-chromvar): Update to 1.20.2.
2023-03-15gnu: r-fishpond: Update to 2.4.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-fishpond): Update to 2.4.1. [propagated-inputs]: Remove r-rcpp.
2023-03-15gnu: r-s4vectors: Update to 0.36.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-s4vectors): Update to 0.36.2.
2023-03-15gnu: r-biocviews: Update to 1.66.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-biocviews): Update to 1.66.3.
2023-03-15gnu: r-bioccheck: Update to 1.34.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bioccheck): Update to 1.34.3.
2023-03-15gnu: r-variancepartition: Update to 1.28.7.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-variancepartition): Update to 1.28.7.
2023-03-15gnu: r-circrnaprofiler: Update to 1.12.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-circrnaprofiler): Update to 1.12.2.
2023-03-15gnu: r-cicero: Update to 1.16.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-cicero): Update to 1.16.2.
2023-03-15gnu: r-rsubread: Update to 2.12.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-rsubread): Update to 2.12.3.
2023-03-15gnu: r-iclusterplus: Update to 1.34.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-iclusterplus): Update to 1.34.3.
2023-03-15gnu: r-rbowtie2: Update to 2.4.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-rbowtie2): Update to 2.4.2.
2023-03-15gnu: r-motifbreakr: Update to 2.12.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-motifbreakr): Update to 2.12.3.
2023-03-15gnu: r-clusterexperiment: Update to 2.18.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-clusterexperiment): Update to 2.18.2.
2023-03-15gnu: r-clusterprofiler: Update to 4.6.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-clusterprofiler): Update to 4.6.2.
2023-03-15gnu: r-sigpathway: Update to 1.66.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-sigpathway): Update to 1.66.2.
2023-03-15gnu: r-linnorm: Update to 2.22.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-linnorm): Update to 2.22.2.
2023-03-15gnu: r-glmgampoi: Update to 1.10.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-glmgampoi): Update to 1.10.2.
2023-03-15gnu: r-diffbind: Update to 3.8.4.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-diffbind): Update to 3.8.4.
2023-03-15gnu: r-scmap: Update to 1.20.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-scmap): Update to 1.20.2.
2023-03-15gnu: r-mutationalpatterns: Update to 3.8.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-mutationalpatterns): Update to 3.8.1.
2023-03-15gnu: r-muscat: Update to 1.12.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-muscat): Update to 1.12.1.
2023-03-15gnu: r-limma: Update to 3.54.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-limma): Update to 3.54.2.
2023-03-15gnu: r-lfa: Update to 1.28.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-lfa): Update to 1.28.2.
2023-03-15gnu: r-genomicalignments: Update to 1.34.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-genomicalignments): Update to 1.34.1.
2023-03-15gnu: r-annotationdbi: Update to 1.60.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-annotationdbi): Update to 1.60.2.
2023-03-15gnu: r-infercnv: Update to 1.14.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-infercnv): Update to 1.14.2.
2023-03-15gnu: r-bandits: Update to 1.14.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bandits): Update to 1.14.2.
2023-03-15gnu: r-bambu: Update to 3.0.8.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bambu): Update to 3.0.8.
2023-03-15gnu: r-atena: Update to 1.4.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-atena): Update to 1.4.1. [propagated-inputs]: Add r-matrixstats.
2023-03-15gnu: r-alpsnmr: Update to 4.0.4.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-alpsnmr): Update to 4.0.4. [propagated-inputs]: Add r-cli.
2023-03-15gnu: r-biocpkgtools: Update to 1.16.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-biocpkgtools): Update to 1.16.1. [source]: Add snippet to remove bundled minified JavaScript files. [native-inputs]: Add esbuild, js-bootstrap, js-d3, js-jquery, and js-underscore. [arguments]: Add build phase 'process-javascript.
2023-03-15gnu: r-mast: Update to 1.24.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-mast): Update to 1.24.1. [source]: Delete minified JavaScript. [arguments]: Add build phase 'process-javascript. [native-inputs]: Add esbuild and js-jquery-sticky-kit.
2023-03-15gnu: sbcl-nclasses: Update to 0.3.0.Pierre Neidhardt
* gnu/packages/lisp-xyz.scm (sbcl-nclasses): Update to 0.3.0.
2023-03-15gnu: Add sbcl-stumpwm-hostname.jgart
* gnu/packages/wm.scm (sbcl-stumpwm-hostname): New variable. Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
2023-03-15gnu: sbcl-mcclim: Update project urls.jgart
* gnu/packages/lisp-xyz.scm (sbcl-mcclim)[source]: Update source url. [home-page]: Update project home page. Signed-off-by: Andreas Enge <andreas@enge.fr>
2023-03-15gnu: reprotest: Update to 0.7.23.Vagrant Cascadian
* gnu/packages/diffoscope.scm (reprotest): Update to 0.7.23. [phases] Update adjust-locales.
2023-03-15gnu: diffoscope: Update to 238.Vagrant Cascadian
* gnu/packages/diffoscope.scm (diffoscope): Update to 238. [native-inputs]: Switch from poppler to poppler-next.
2023-03-15gnu: emacs-org-modern: Update to 0.9.Andrew Tropin
* gnu/packages/emacs-xyz.scm (emacs-org-modern): Update to 0.9.
2023-03-14gnu: r-rhandsontable: Move to (gnu packages cran).Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-rhandsontable): Move this variable from here... * gnu/packages/cran.scm (r-rhandsontable): ...to here.
2023-03-14gnu: Add r-premessa.Navid Afkhami
* gnu/packages/bioinformatics.scm (r-premessa): New variable. Co-authored-by: Ricardo Wurmus <rekado@elephly.net>.
2023-03-14gnu: icecat: Update to 102.9.0-guix0-preview1 [security fixes].Mark H Weaver
Includes fixes for CVE-2023-25751, CVE-2023-25752, CVE-2023-28162, CVE-2023-28163, CVE-2023-28164, and CVE-2023-28176. * gnu/packages/gnuzilla.scm (%icecat-base-version, %icecat-build-id): Update. (icecat-source): Update gnuzilla commit, base version, and hashes.
2023-03-14gnu: Add r-rhandsontable.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-rhandsontable): New variable. Co-authored-by: Navid Afkhami <navid.afkhami@mdc-berlin.de>
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