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2022-10-04gnu: emacs-nov-el: Update to 0.4.0 and use gexps.Michael Rohleder
* gnu/packages/emacs-xyz.scm (emacs-nov-el): Update to 0.4.0. [arguments]: Use gexps. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2022-10-04gnu: emacs-modus-themes: Update to 2.7.1.Nicolas Goaziou
* gnu/packages/emacs-xyz.scm (emacs-modus-themes): Update to 2.7.1.
2022-10-04gnu: emacs-org-mime: Update to 0.3.2.Nicolas Goaziou
* gnu/packages/emacs-xyz.scm (emacs-org-mime): Update to 0.3.2.
2022-10-04gnu: Add emacs-circadian.kiasoc5
* gnu/packages/emacs-xyz.scm (emacs-circadian): New variable. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2022-10-03gnu: r-tximeta: Update to 1.14.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-tximeta): Update to 1.14.1.
2022-10-03gnu: r-bionero: Update to 1.4.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bionero): Update to 1.4.2. [propagated-inputs]: Remove r-deseq2 and r-ggpubr; add r-ggrepel and r-patchwork.
2022-10-03gnu: r-biodb: Update to 1.4.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-biodb): Update to 1.4.2.
2022-10-03gnu: r-biocdockermanager: Update to 1.8.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-biocdockermanager): Update to 1.8.1.
2022-10-03gnu: r-basilisk: Update to 1.8.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-basilisk): Update to 1.8.1.
2022-10-03gnu: r-bgeecall: Update to 1.12.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bgeecall): Update to 1.12.2.
2022-10-03gnu: r-pathview: Update to 1.36.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-pathview): Update to 1.36.1.
2022-10-03gnu: r-delayedmatrixstats: Update to 1.18.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-delayedmatrixstats): Update to 1.18.1.
2022-10-03gnu: r-scran: Update to 1.24.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-scran): Update to 1.24.1.
2022-10-03gnu: r-scuttle: Update to 1.6.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-scuttle): Update to 1.6.3.
2022-10-03gnu: r-hdf5array: Update to 1.24.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-hdf5array): Update to 1.24.2.
2022-10-03gnu: r-biocpkgtools: Update to 1.14.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-biocpkgtools): Update to 1.14.1.
2022-10-03gnu: r-biocviews: Update to 1.64.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-biocviews): Update to 1.64.1.
2022-10-03gnu: r-bioccheck: Update to 1.32.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bioccheck): Update to 1.32.1.
2022-10-03gnu: r-cytoml: Update to 2.8.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-cytoml): Update to 2.8.1.
2022-10-03gnu: r-opencyto: Update to 2.8.4.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-opencyto): Update to 2.8.4.
2022-10-03gnu: r-flowstats: Update to 4.8.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-flowstats): Update to 4.8.2.
2022-10-03gnu: r-flowviz: Update to 1.60.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-flowviz): Update to 1.60.2.
2022-10-03gnu: r-ggcyto: Update to 1.24.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-ggcyto): Update to 1.24.1.
2022-10-03gnu: r-ncdfflow: Update to 2.42.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-ncdfflow): Update to 2.42.1.
2022-10-03gnu: r-rsubread: Update to 2.10.5.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-rsubread): Update to 2.10.5.
2022-10-03gnu: r-rgadem: Update to 2.44.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-rgadem): Update to 2.44.1.
2022-10-03gnu: r-enrichplot: Update to 1.16.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-enrichplot): Update to 1.16.2.
2022-10-03gnu: r-dose: Update to 3.22.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-dose): Update to 3.22.1.
2022-10-03gnu: r-residualmatrix: Update to 1.6.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-residualmatrix): Update to 1.6.1.
2022-10-03gnu: r-ggtree: Update to 3.4.4.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-ggtree): Update to 3.4.4.
2022-10-03gnu: r-treeio: Update to 1.20.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-treeio): Update to 1.20.2.
2022-10-03gnu: r-scaledmatrix: Update to 1.4.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-scaledmatrix): Update to 1.4.1.
2022-10-03gnu: r-diffbind: Update to 3.6.4.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-diffbind): Update to 3.6.4.
2022-10-03gnu: r-zellkonverter: Update to 1.6.5.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-zellkonverter): Update to 1.6.5.
2022-10-03gnu: r-limma: Update to 3.52.4.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-limma): Update to 3.52.4.
2022-10-03gnu: r-genomicfeatures: Update to 1.48.4.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-genomicfeatures): Update to 1.48.4.
2022-10-03gnu: r-genomeinfodb: Update to 1.32.4.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-genomeinfodb): Update to 1.32.4.
2022-10-03gnu: r-gage: Update to 2.46.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-gage): Update to 2.46.1.
2022-10-03gnu: r-complexheatmap: Update to 2.12.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-complexheatmap): Update to 2.12.1.
2022-10-03gnu: r-chipseeker: Update to 1.32.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-chipseeker): Update to 1.32.1. [propagated-inputs]: Add r-ggvenndiagram.
2022-10-03gnu: r-biostrings: Update to 2.64.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-biostrings): Update to 2.64.1.
2022-10-03gnu: r-annotationforge: Update to 1.38.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-annotationforge): Update to 1.38.1.
2022-10-03gnu: r-dearseq: Update to 1.8.4.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-dearseq): Update to 1.8.4.
2022-10-03doc: Mention sourcing system profile when chrooting.Maxim Cournoyer
* doc/guix.texi (Chrooting into an existing system): Add sourcing of system profile along user profile.
2022-10-03gnu: Remove ocaml-craml.Maxim Cournoyer
The package doesn't build from source and is unmaintained according to its maintainer: https://github.com/realworldocaml/craml/pull/8#issuecomment-529235628. * gnu/packages/ocaml.scm (ocaml-craml): Delete variable.
2022-10-03gnu: r-spams: Update to 2.6.1.Maxim Cournoyer
* gnu/packages/statistics.scm (r-spams): Update to 2.6.1. [source]: Migrate from gforge.inria.fr to gitlab.inria.fr, fetching from git. [phases]: Use gexps. {patch-paths, mkdist}: New phases. {no-mtune}: Delete trailing #t. [native-inputs]: New field. [home-page]: Update URL.
2022-10-03gnu: ocaml-dose3: Migrate from gforce.inria.fr.Maxim Cournoyer
* gnu/packages/ocaml.scm (ocaml-dose3) [source]: Fetch from git from inill's gitlab instance.
2022-10-03gnu: Remove unused scotch patches.Maxim Cournoyer
* gnu/packages/patches/scotch-build-parallelism.patch: Delete file. * gnu/packages/patches/scotch-integer-declarations.patch: Likewise. * gnu/local.mk (dist_patch_DATA): De-register them.
2022-10-03gnu: mpfi: Update to 1.5.4-1.b982534.Maxim Cournoyer
* gnu/packages/multiprecision.scm (mpfi): Update to 1.5.4-1.b982534. [source]: Fetch from git and use latest commit available. [tests?]: Delete argument, enabling test suite. [phases]: New argument. [native-inputs]: New field.
2022-10-03gnu: mpfi: Use gexps and remove input labels.Maxim Cournoyer
* gnu/packages/multiprecision.scm (mpfi) [source]: Re-indentation. [configure-flags]: Use gexps. [native-inputs]: Remove labels.
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