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2023-11-02gnu: Add r-nestedcv....* gnu/packages/cran.scm (r-nestedcv): New variable. Change-Id: Id998b4192565c220f8d238963ef61217aed12bd3 Afkhami, Navid
2023-11-02gnu: emacs-cider: Include enrich-classpath wrapper scripts....* gnu/packages/emacs-xyz.scm (emacs-cider)[arguments]<#:include>: Add "^lein\\.sh$" and "^clojure\\.sh$" to the list of regexes for installed files. Change-Id: I02507d3cd012dbe827751a21870e4bc1f13d93b5 Signed-off-by: Andrew Tropin <andrew@trop.in> Jelle Licht
2023-11-02gnu: emacs-cider: Update to 1.9.0....* gnu/packages/emacs-xyz.scm (emacs-cider): Update to 1.9.0. Change-Id: I25c511e93bdd7ec19a74ef10d0b5527a9e0b922d Signed-off-by: Andrew Tropin <andrew@trop.in> Jelle Licht
2023-11-02gnu: emacs-clj-refactor: Update to 3.10.0....* gnu/packages/emacs-xyz.scm (emacs-clj-refactor): Update to 3.10.0. Change-Id: Idef5f44e2e3a8ed149d46ba2307184ffee21de4b Signed-off-by: Andrew Tropin <andrew@trop.in> Jelle Licht
2023-11-02gnu: emacs-clojure-mode: Update to 5.18.0....* gnu/packages/emacs-xyz.scm (emacs-clojure-mode): Update to 5.18.0. Change-Id: I84cadfe0af5e1635abd02593e4f5f02b53645b39 Signed-off-by: Andrew Tropin <andrew@trop.in> Jelle Licht
2023-11-02gnu: emacs-org-contrib: Remove dependency on emacs-cider....Since version 0.4 the ob-clojure-literate.el file with a dependency on cider was removed from org-contrib. * gnu/packages/emacs-xyz.scm (emacs-org-contrib)[native-inputs]: Remove emacs-cider. Change-Id: I838e965a819d9793424b6310ae324460b260afcc Signed-off-by: Andrew Tropin <andrew@trop.in> Jelle Licht
2023-11-01gnu: r-rjava: Use OpenJDK 11....See https://github.com/s-u/rJava/issues/307. * gnu/packages/cran.scm (r-rjava)[arguments]: Use search-input-file. [inputs]: Replace icedtea-8 with openjdk11. Change-Id: I9e67210f1bfd585fb53845dad55a56a639a5d806 Ricardo Wurmus
2023-11-01teams.scm: Add file-local variable prop line for the mode....This tells Emacs to use the scheme-mode to edit the file. * etc/teams.scm (mode): New file-local variable. Change-Id: I9a48f552e831317402673d95cf6c1de506d388b5 Maxim Cournoyer
2023-11-01doc: contributiong: Fix ref usage....Previous usage renders as "see See Teams". * doc/contributing.texi: Fix ref usage. Change-Id: I97a91697ecb87d07cc3c962a79d87dd290a70a7c Julien Lepiller
2023-10-31nls: Update translations....Change-Id: I432aec0ea31ead192d6444c96dc42038f5c7ab9a Florian Pelz
2023-10-31Revert "gnu: lvm2: Remove systemd rule."...This reverts commit c0895371c5759c7d9edb330774e90f192cc4cf2c, which does not correctly fix the issue, as reported by Josselin Poiret <dev@jpoiret.xyz> in <https://issues.guix.gnu.org/issue/66586#6>. Simon Tournier
2023-10-31gnu: python-baltica: Add missing R inputs....* gnu/packages/bioinformatics.scm (python-baltica)[propagated-inputs]: Add r-biocmanager, r-dplyr, r-genomicranges, r-here, r-openxlsx, r-optparse, r-readr, r-rsamtools, r-stringr, r-tidyr, r-upsetr, and r-yaml. [description]: Add an extra space after a period. Change-Id: I8c1bb556048b406b95e081155a46da17a6be5676 Afkhami, Navid
2023-10-31gnu: r-logspline: Update to 2.1.21....* gnu/packages/statistics.scm (r-logspline): Update to 2.1.21. Change-Id: Ib4ec6124282851bcc52eb87f7e30027e801f0531 Ricardo Wurmus
2023-10-31gnu: r-withr: Update to 2.5.2....* gnu/packages/statistics.scm (r-withr): Update to 2.5.2. Change-Id: Ie4265bc4a6d9c54e3f64ab12ae0d14c716b4e03f Ricardo Wurmus
2023-10-31gnu: r-checkmate: Update to 2.3.0....* gnu/packages/statistics.scm (r-checkmate): Update to 2.3.0. Change-Id: I0599e3a4e174cc311c37d7c334087eda15deafc1 Ricardo Wurmus
2023-10-31gnu: r-dbplyr: Update to 2.4.0....* gnu/packages/statistics.scm (r-dbplyr): Update to 2.4.0. Change-Id: I8cf5c1b47b47a41b606e76d0b5e14425946f0903 Ricardo Wurmus
2023-10-31gnu: r-knitr: Update to 1.45....* gnu/packages/statistics.scm (r-knitr): Update to 1.45. Change-Id: I1317366a0041f29b284e24d056734498f9d35cd7 Ricardo Wurmus
2023-10-31gnu: r-strex: Update to 1.6.1....* gnu/packages/cran.scm (r-strex): Update to 1.6.1. Change-Id: Id37ef19901a3548128816e2677148405b5845297 Ricardo Wurmus
2023-10-31gnu: r-seuratobject: Update to 5.0.0....* gnu/packages/cran.scm (r-seuratobject): Update to 5.0.0. [propagated-inputs]: Add r-generics, r-lifecycle, and r-spam. Change-Id: I8486d42c1f9d3e5f4b9fc091a4d4aab7b1c803b6 Ricardo Wurmus
2023-10-31gnu: r-rfast: Update to 2.0.9....* gnu/packages/cran.scm (r-rfast): Update to 2.0.9. [propagated-inputs]: Add r-rcppparallel. Change-Id: I551a2b1745b937454b5aad99f4620839f9a89902 Ricardo Wurmus
2023-10-31gnu: r-spatstat: Update to 3.0-7....* gnu/packages/cran.scm (r-spatstat): Update to 3.0-7. Change-Id: I8c54279b92acb7532b1050613a60ba2e96c115eb Ricardo Wurmus
2023-10-31gnu: r-spatstat-linnet: Update to 3.1-3....* gnu/packages/cran.scm (r-spatstat-linnet): Update to 3.1-3. Change-Id: I7f1dadd2e8fecf03cbde3c56de3a3384ba8cf24d Ricardo Wurmus
2023-10-31gnu: r-posterior: Update to 1.5.0....* gnu/packages/cran.scm (r-posterior): Update to 1.5.0. Change-Id: I3fa7adca749efcbe0d8b6ab0f707e70a1e895d2d Ricardo Wurmus
2023-10-31gnu: r-adagio: Update to 0.9.2....* gnu/packages/cran.scm (r-adagio): Update to 0.9.2. Change-Id: I2131b973194fcf710fed1ac4c425717278269308 Ricardo Wurmus
2023-10-31gnu: r-rintrojs: Update to 0.3.3....* gnu/packages/cran.scm (r-rintrojs): Update to 0.3.3. Change-Id: I184740e9bd1ed8d087c2985d08b12f4fe31d72b7 Ricardo Wurmus
2023-10-31gnu: r-sampling: Update to 2.10....* gnu/packages/cran.scm (r-sampling): Update to 2.10. Change-Id: I7a3407c77fb71a8a4355415beeee09edc2a8908c Ricardo Wurmus
2023-10-31gnu: r-polspline: Update to 1.1.24....* gnu/packages/cran.scm (r-polspline): Update to 1.1.24. Change-Id: I323fc3b50c1d215d749cd814a684463810e4bfc4 Ricardo Wurmus
2023-10-31gnu: r-grimport2: Update to 0.3-1....* gnu/packages/cran.scm (r-grimport2): Update to 0.3-1. Change-Id: I6b7de08f4d24a3398e8b788fbe726792ac38a59a Ricardo Wurmus
2023-10-31gnu: r-gridpattern: Update to 1.1.1....* gnu/packages/cran.scm (r-gridpattern): Update to 1.1.1. Change-Id: I63bc1df4fc6f8f5e9931a6a82db68df0e933a1cb Ricardo Wurmus
2023-10-31gnu: r-performance: Update to 0.10.8....* gnu/packages/cran.scm (r-performance): Update to 0.10.8. Change-Id: Ic0c7a1f1402ae5a63bf433fd2f874e24eab5a216 Ricardo Wurmus
2023-10-31gnu: r-wrs2: Update to 1.1-5....* gnu/packages/cran.scm (r-wrs2): Update to 1.1-5. [propagated-inputs]: Remove r-mc2d. Change-Id: I0346e018b401143b4f9cf65845cf4d3b210ed54b Ricardo Wurmus
2023-10-31gnu: r-rbibutils: Update to 2.2.16....* gnu/packages/cran.scm (r-rbibutils): Update to 2.2.16. Change-Id: I188dddbb7fa03f43574e50d43f741c5398e7c331 Ricardo Wurmus
2023-10-31gnu: r-lambertw: Update to 0.6.9....* gnu/packages/cran.scm (r-lambertw): Update to 0.6.9. Change-Id: Ia36a96ddd78585768b88ab662d5c5ba31aa40744 Ricardo Wurmus
2023-10-31gnu: r-mbess: Update to 4.9.3....* gnu/packages/cran.scm (r-mbess): Update to 4.9.3. Change-Id: I8ada8e1a56b7497145409de82865d5d9d83da6e3 Ricardo Wurmus
2023-10-31gnu: r-poorman: Update to 0.2.7....* gnu/packages/cran.scm (r-poorman): Update to 0.2.7. Change-Id: I9c23bd2bbba0eb6f6b2b6b6ac1cc11524b5c6980 Ricardo Wurmus
2023-10-31gnu: r-consort: Update to 1.2.1....* gnu/packages/cran.scm (r-consort): Update to 1.2.1. Change-Id: I28d1749044a38f9a9144eeb5675d6607bf973c53 Ricardo Wurmus
2023-10-31gnu: r-abn: Update to 3.0.2....* gnu/packages/bioconductor.scm (r-abn): Update to 3.0.2. Change-Id: Icf3de104b61e79b9a7c9fbfecb0e071d6e46ef9d Ricardo Wurmus
2023-10-31gnu: r-htmltable: Update to 2.4.2....* gnu/packages/cran.scm (r-htmltable): Update to 2.4.2. [arguments]: Replace minified JavaScript. [native-inputs]: Add esbuild and js-jquery. Change-Id: Iacc17957c2a773ca651d3a9e980a3e4281874829 Ricardo Wurmus
2023-10-31gnu: r-rsqlite: Update to 2.3.2....* gnu/packages/statistics.scm (r-rsqlite): Update to 2.3.2. Change-Id: I97532cd5834e0aad84d7072f7f93bae612ad93bf Ricardo Wurmus
2023-10-31gnu: b43-tools: Use make-flags....* gnu/packages/firmware.scm (b43-tools)[arguments]: Add make-flags. Use make-flags in custom 'build and 'install phases. Remove trailing #t from phases. Change-Id: I8576351ecd571d191598943a2d143ab3e3e9da09 Efraim Flashner
2023-10-31gnu: python-radio-beam: Update to 0.3.6....* gnu/packages/astronomy.scm (python-radio-beam): Update to 0.3.6. [native-inputs]: Add python-setuptools-scm. Change-Id: I3be87a22b701119699d37104f8df4f3fab44d0c8 Maxim Cournoyer
2023-10-31gnu: python-spectral-cube: Update to 0.6.3....* gnu/packages/astronomy.scm (python-spectral-cube): Update to 0.6.3. [native-inputs]: Add python-setuptools-scm. Change-Id: I8b701081d2c8ea2fd8f25ca845e8e26760fdc094 Maxim Cournoyer
2023-10-31gnu: Add python-spectral-cube....* gnu/packages/astronomy.scm (python-spectral-cube): New variable. Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com> Sharlatan Hellseher
2023-10-31gnu: Add python-aplpy....* gnu/packages/astronomy.scm (python-aplpy): New variable. Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com> Sharlatan Hellseher
2023-10-31gnu: Add python-pyregion....* gnu/packages/astronomy.scm (python-pyregion): New variable. Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com> Sharlatan Hellseher
2023-10-31gnu: Add python-pyavm....* gnu/packages/astronomy.scm (python-pyavm): New variable. Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com> Sharlatan Hellseher
2023-10-31gnu: Add python-radio-beam....* gnu/packages/astronomy.scm (python-radio-beam): New variable. Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com> Sharlatan Hellseher
2023-10-29gnu: opensmtpd: Update to 7.4.0p0 (bis)....This time fixing a segfault reported & debugged entirely by graywolf. See: <https://github.com/OpenSMTPD/OpenSMTPD/issues/1233> So, what went wrong here? Mostly me being entirely convinced, to the point of not even looking, that we have no opensmtpd system test. We do. Instead, I tested the update on my own mail server, which for entirely unhysterical raisins happens to link OpenSMTPd against OpenSSL and so just happens to sidestep this bug. Aiya. * gnu/packages/mail.scm (opensmtpd): Update to 7.4.0p0. [native-inputs]: Add pkg-config. [inputs]: Add libbsd. [arguments]: Add "--with-libbsd" to #:configure-flags. Co-authored-by: graywolf in #guix Change-Id: I5536b828eecd16f041ed9381b16bd7aa54158155 Tobias Geerinckx-Rice
2023-10-31gnu: Add r-radiogx....* gnu/packages/bioconductor.scm (r-radiogx): New variable. Change-Id: I8fd06a18bd68f9a3baa2cc129d62aef06528bc97 Signed-off-by: Ricardo Wurmus <rekado@elephly.net> Mădălin Ionel Patrașcu
2023-10-31gnu: Add r-coregx....* gnu/packages/bioconductor.scm (r-coregx): New variable. Change-Id: Ib54ba3c7bebdcc90748d4e4b0b2ce63b7f0fc1b8 Signed-off-by: Ricardo Wurmus <rekado@elephly.net> Mădălin Ionel Patrașcu