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2023-06-02gnu: r-densvis: Update to 1.10.2.•••* gnu/packages/bioconductor.scm (r-densvis): Update to 1.10.2. Ricardo Wurmus
2023-06-02gnu: r-delayedarray: Update to 0.26.3.•••* gnu/packages/bioconductor.scm (r-delayedarray): Update to 0.26.3. Ricardo Wurmus
2023-06-02gnu: r-dearseq: Update to 1.12.1.•••* gnu/packages/bioconductor.scm (r-dearseq): Update to 1.12.1. Ricardo Wurmus
2023-06-02gnu: r-bambu: Update to 3.2.3.•••* gnu/packages/bioconductor.scm (r-bambu): Update to 3.2.3. Ricardo Wurmus
2023-06-02gnu: r-alpine: Update to 1.26.0.•••* gnu/packages/bioconductor.scm (r-alpine): Update to 1.26.0. Ricardo Wurmus
2023-06-02gnu: r-anvil: Update to 1.12.3.•••* gnu/packages/bioconductor.scm (r-anvil): Update to 1.12.3. Ricardo Wurmus
2023-06-02gnu: r-biocviews: Sort inputs.•••* gnu/packages/bioconductor.scm (r-biocviews)[propagated-inputs]: Sort them. Ricardo Wurmus
2023-06-02gnu: r-biocparallel: Sort inputs.•••* gnu/packages/bioconductor.scm (r-biocparallel)[propagated-inputs]: Sort them. Ricardo Wurmus
2023-06-02gnu: r-dismo: Replace bundled jars.•••Fixes <https://issues.guix.gnu.org/63783>. * gnu/packages/cran.scm (r-dismo)[source]: Delete bundled jars. [inputs]: Add java-maxent. [native-inputs]: Add JDK and zip. [arguments]: Add phases 'build-jars and 'strip-jar-timestamps. Ricardo Wurmus
2023-06-02gnu: Add java-maxent.•••* gnu/packages/bioinformatics.scm (java-maxent): New variable. Ricardo Wurmus
2023-06-02gnu: swaylock-effects: Update to 1.6.11.•••* gnu/packages/wm.scm (swaylock-effects): Update to 1.6.11. Andrew Tropin
2023-06-02gnu: xdg-desktop-portal-wlr: Update to 0.7.0.•••* gnu/packages/freedesktop.scm (xdg-desktop-portal-wlr): Update to 0.7.0. [inputs]: Add mesa. Andrew Tropin
2023-06-02gnu: xdg-desktop-portal-gtk: Update to 1.14.1.•••* gnu/packages/freedesktop.scm (xdg-desktop-portal-gtk): Update to 1.14.1. Andrew Tropin
2023-06-02gnu: xdg-desktop-portal: Update to 1.16.0.•••* gnu/packages/freedesktop.scm (xdg-desktop-portal): Update to 1.16.0. Andrew Tropin
2023-06-02gnu: libportal: Update to 0.6.•••* gnu/packages/freedesktop.scm (libportal): Update to 0.6. [arguments]: Remove deprecated backends option from #:configure-flags. Add set-qt-environment-variables phase. Andrew Tropin
2023-06-01gnu: gopls: Update to 0.12.0.•••* gnu/packages/golang.scm (gopls): Update to 0.12.0. Katherine Cox-Buday
2023-06-01gnu: Update waybar to 0.9.18.•••* gnu/packages/wm.scm (waybar): Update to 0.9.18. jgart
2023-06-01gnu: python-fire: Update to 0.5.0.•••* gnu/packages/python-xyz.scm (python-fire): Update to 0.5.0. [inputs]: Remove python-six and python-termcolor. [propagated-inputs]: Add python-six and python-termcolor. jgart
2023-06-01gnu: Add python-colored.•••* gnu/packages/python-xyz.scm (python-colored): New variable. Ricardo Wurmus
2023-06-01gnu: Add python-plotext.•••* gnu/packages/python-xyz.scm (python-plotext): New variable. Ricardo Wurmus
2023-06-01gnu: Add python-pyani.•••* gnu/packages/bioinformatics.scm (python-pyani): New variable. Ricardo Wurmus
2023-06-01gnu: Add python-illumina-utils.•••* gnu/packages/bioinformatics.scm (python-illumina-utils): New variable. Ricardo Wurmus
2023-06-01gnu: libtommath: Honor the #:tests? flag.•••* gnu/packages/multiprecision.scm (libtommath)[arguments]: Adjust custom 'check phase to honor the #:tests? flag. Efraim Flashner
2023-06-01gnu: libtommath: Prevent possible integer overflow.•••* gnu/packages/multiprecision.scm (libtommath)[source]: Add patch. * gnu/packages/patches/libtommath-integer-overflow.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it. Efraim Flashner
2023-06-01gnu: bear: Update to 3.1.2.•••* gnu/packages/build-tools.scm (bear): Update to 3.1.2. Efraim Flashner
2023-06-01gnu: Add python-ete3.•••* gnu/packages/bioinformatics.scm (python-ete3): New variable. Ricardo Wurmus
2023-06-01gnu: parallel: Update to 20230522.•••* gnu/packages/parallel.scm (parallel): Update to 20230522. Signed-off-by: Efraim Flashner <efraim@flashner.co.il> Andy Tai
2023-06-01gnu: zenity: Update to 3.44.1.•••* gnu/packages/gnome.scm (zenity): Update to 3.44.1. [native-inputs]: Add gtk+:bin. Signed-off-by: Efraim Flashner <efraim@flashner.co.il> Greg Hogan
2023-06-01gnu: iperf: Update to 3.13.•••* gnu/packages/networking.scm (iperf): Update to 3.13. Signed-off-by: Efraim Flashner <efraim@flashner.co.il> Greg Hogan
2023-06-01gnu: iotop: Update to 1.23.•••* gnu/packages/linux.scm (iotop): Update to 1.23. Signed-off-by: Efraim Flashner <efraim@flashner.co.il> Greg Hogan
2023-06-01gnu: html-xml-utils: Update to 8.6.•••* gnu/packages/xml.scm (html-xml-utils): Update to 8.6. Signed-off-by: Efraim Flashner <efraim@flashner.co.il> Greg Hogan
2023-06-01gnu: hstr: Update to 3.1.•••* gnu/packages/shellutils.scm (hstr): Update to 3.1. Signed-off-by: Efraim Flashner <efraim@flashner.co.il> Greg Hogan
2023-06-01gnu: glances: Update to 3.4.0.3.•••* gnu/packages/python-xyz.scm (glances): Update to 3.4.0.3. Signed-off-by: Efraim Flashner <efraim@flashner.co.il> Greg Hogan
2023-06-01gnu: fish: Update to 3.6.1.•••* gnu/packages/shells.scm (fish): Update to 3.6.1. Signed-off-by: Efraim Flashner <efraim@flashner.co.il> Greg Hogan
2023-06-01gnu: fio: Update to 3.35.•••* gnu/packages/benchmark.scm (fio): Update to 3.35. Signed-off-by: Efraim Flashner <efraim@flashner.co.il> Greg Hogan
2023-06-01gnu: atop: Update to 2.9.0.•••* gnu/packages/admin.scm (atop): Update to 2.9.0. Signed-off-by: Efraim Flashner <efraim@flashner.co.il> Greg Hogan
2023-06-01gnu: openblas: Update make-flags comments and coding style.•••* gnu/packages/maths.scm (openblas)[arguments]: In the make-flags use the target-* macros. Adjust the wording describing why the different architectures have the flags they do. Efraim Flashner
2023-06-01gnu: openblas: Update architectures we provide substitutes for.•••* gnu/packages/maths.scm (openblas)[arguments]: Adjust the substitutable? flag to only not provide substitutes when building for powerpc-linux. Adjust the comment accordingly. Efraim Flashner
2023-06-01gnu: openblas-ilp64: Add powerpc64le-linux as a supported system.•••* gnu/packages/maths.scm (openblas-ilp64)[supported-systems]: Add powerpc64le-linux. Efraim Flashner
2023-06-01gnu: r-mbecs: Fix indentation.•••* gnu/packages/bioconductor.scm (r-mbecs)[arguments]: Adjust indentation and spelling of comment. Ricardo Wurmus
2023-06-01gnu: Add squashfuse.•••* gnu/packages/file-systems.scm (squashfuse): New variable. Ricardo Wurmus
2023-06-01gnu: Add r-mbecs.•••* gnu/packages/bioconductor.scm (r-mbecs): New variable. Mădălin Ionel Patrașcu
2023-05-31gnu: Remove linux-libre 6.2.•••This kernel series is no longer supported upstream. * gnu/packages/linux.scm (linux-libre-6.2-version, linux-libre-6.2-gnu-revision, deblob-scripts-6.2, linux-libre-6.2-pristine-source, linux-libre-6.2-source, linux-libre-headers-6.2, linux-libre-6.2): Remove variables. * gnu/packages/aux-files/linux-libre/6.2-arm.conf, gnu/packages/aux-files/linux-libre/6.2-arm64.conf, gnu/packages/aux-files/linux-libre/6.2-i686.conf, gnu/packages/aux-files/linux-libre/6.2-x86_64.conf: Delete files. * Makefile.am (AUX_FILES): Remove them. Leo Famulari
2023-05-31gnu: linux-libre 4.14: Update to 4.14.316.•••* gnu/packages/linux.scm (linux-libre-4.14-version): Update to 4.14.316. (linux-libre-4.14-pristine-source): Update hash. Leo Famulari
2023-05-31gnu: linux-libre 4.19: Update to 4.19.284.•••* gnu/packages/linux.scm (linux-libre-4.19-version): Update to 4.19.284. (linux-libre-4.19-pristine-source): Update hash. Leo Famulari
2023-05-31gnu: linux-libre 5.4: Update to 5.4.244.•••* gnu/packages/linux.scm (linux-libre-5.4-version): Update to 5.4.244. (linux-libre-5.4-pristine-source): Update hash. Leo Famulari
2023-05-31gnu: linux-libre 5.10: Update to 5.10.181.•••* gnu/packages/linux.scm (linux-libre-5.10-version): Update to 5.10.181. (linux-libre-5.10-pristine-source): Update hash. Leo Famulari
2023-05-31gnu: linux-libre 5.15: Update to 5.15.114.•••* gnu/packages/linux.scm (linux-libre-5.15-version): Update to 5.15.114. (linux-libre-5.15-pristine-source): Update hash. Leo Famulari
2023-05-31gnu: linux-libre 6.1: Update to 6.1.31.•••* gnu/packages/linux.scm (linux-libre-6.1-version): Update to 6.1.31. (linux-libre-6.1-pristine-source): Update hash. Leo Famulari
2023-05-31gnu: linux-libre: Update to 6.3.5.•••* gnu/packages/linux.scm (linux-libre-6.3-version): Update to 6.3.5. (linux-libre-6.3-pristine-source): Update hash. Leo Famulari
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