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* gnu: gandi.cli: Fix by downgrading python-click.Pierre Langlois2022-05-30
| | | | | * gnu/packages/python-xyz.scm (python-click-7): New variable. * gnu/packages/networking.scm (gandi.cli)[inputs]: Depend on python-click-7.
* gnu: python-click@8: Remove redundant package.Pierre Langlois2022-05-30
| | | | | | | The python-click package is already version 8. * gnu/packages/python-xyz.scm (python-click-8): Remove variable. (python-proselint)[propagated-inputs]: Depend on python-click.
* gnu: python-scanpy: Update to 1.9.1.Ricardo Wurmus2022-05-30
| | | | | | | * gnu/packages/bioinformatics.scm (python-scanpy): Update to 1.9.1. [arguments]: Add phase 'set-numba-cache-dir; disable more broken tests. [propagated-inputs]: Add python-dask and python-session-info; replace python-louvain-0.7 with python-louvain.
* gnu: python-leidenalg: Update to 0.8.10.Ricardo Wurmus2022-05-30
| | | | | | * gnu/packages/graph.scm (python-leidenalg): Update to 0.8.10. [arguments]: Patch setup.py. [native-inputs]: Remove python-setuptools; add python-setuptools-scm.
* gnu: python-dask: Update to 2022.05.2.Ricardo Wurmus2022-05-30
| | | | * gnu/packages/python-xyz.scm (python-dask): Update to 2022.05.2.
* gnu: Add python-session-info.Ricardo Wurmus2022-05-30
| | | | * gnu/packages/python-xyz.scm (python-session-info): New variable.
* gnu: non-sequencer: Update to 1.9.5-5.257ec59.Ricardo Wurmus2022-05-30
| | | | | | | | | | | | * gnu/packages/music.scm (non-sequencer): Update to 1.9.5-5.257ec59. [source]: Use fork as old repository is defunct; use git-file-name and git-version. [arguments]: Remove python-2; add phase to replace bundled waf. [native-inputs]: Add python-waf. (non-session-manager)[native-inputs]: Add python-waf. (non-mixer)[inputs]: Add lv2 and lilv. [native-inputs]: Add python-waf. (non-timeline)[native-inputs]: Add python-waf.
* gnu: quodlibet: Correct wrappers.Liliana Marie Prikler2022-05-30
| | | | | | * gnu/packages/music.scm (quodlibet)[#:phases]: Rename ‘wrap-gi-typelib’ to ‘wrap-extra-paths’. Use ‘=’ for GI_TYPELIB_PATH. Add ‘GST_PLUGIN_SYSTEM_PATH’ with suffix binding.
* gnu: calceph: Add 'release-monitoring-url' property.Ludovic Courtès2022-05-30
| | | | * gnu/packages/astronomy.scm (calceph)[properties]: New field.
* gnu: Add calceph.Sharlatan Hellseher2022-05-30
| | | | | | * gnu/packages/astronomy.scm (calceph): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: emacs-vterm: Update to 0.0.1-1.b447235.Kyle Meyer2022-05-30
| | | | | | * gnu/packages/emacs-xyz.scm (emacs-vterm): Update to 0.0.1-1.b447235. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: rspamd: Update to 3.2ykonai2022-05-30
| | | | | | | | | | | * gnu/packages/mail.scm (rspamd): Update to 3.2 I also added a new build option, that changes the LOCAL_CONFDIR variable to /etc/rspamd. This allows for rspamd configuration via the /etc/rspamd/local.d and override.d directories, which by default were located in the PREFIX which is in /gnu/store. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: pre-commit: Update to 2.19.0.jgart2022-05-30
| | | | | | * gnu/packages/version-control.scm (pre-commit): Update to 2.19.0. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: xpad: Update to 5.8.0.Rene Saavedra2022-05-30
| | | | | | | * gnu/packages/gnome.scm (xpad): Update to 5.8.0. [inputs]: Replace gtksourceview-3 with gtksourceview. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: casync: Update to 99559cd1.Greg Hogan2022-05-30
| | | | | | | | | | | | * gnu/packages/sync.scm (casync): Update to 99559cd1. [source]: Remove patch. [arguments]: Fix installation. [native-inputs]: Add python. [inputs]: Add eudev. * gnu/packages/patches/casync-renameat2-declaration.patch: Delete file. * gnu/local.mk: Remove it. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: rsync: Update to 3.2.4.Greg Hogan2022-05-30
| | | | | | * gnu/packages/rsync.scm (rsync): Update to 3.2.4. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: GCC: Add cross environment variables patch to GCC 12.Morgan Smith2022-05-30
| | | | | | | | | * gnu/packages/patches/gcc-12-cross-environment-variables.patch : New file. * gnu/local.mk (dist_patch_DATA): Add gcc-12-cross-environment-variables.patch. * gnu/packages/cross-base.scm (cross-gcc)[source](patches): Apply the patch. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: emacs-w3m: Update to 20220508.2259.Ludovic Courtès2022-05-30
| | | | | * gnu/packages/emacs-xyz.scm (emacs-w3m): Update to 20220508.2259. [source]: Switch to 'git-fetch'.
* gnu: tor: Record the file name of 'torsocks' in 'torify'.Ludovic Courtès2022-05-30
| | | | | * gnu/packages/tor.scm (tor)[arguments]: Add 'adjust-torify' phase. [inputs]: Add TORSOCKS.
* tests: Adjust crate importer test to spdx changes.Ludovic Courtès2022-05-30
| | | | | | | This is a followup to 95b0544fcfa1a663435a9ac84db94312b938022b. * tests/crate.scm ("licenses: MIT/Apache-2.0 AND BSD-2-Clause"): Adjust expected result.
* store: 'map/accumulate-builds' preserves caches.Ludovic Courtès2022-05-30
| | | | | | | | | | | | | | | | | | Fixes <https://issues.guix.gnu.org/55721>. Starting from the switch to functional object caches ca. 9e5812ac59b01ff011ec0c5b0f437dfe85d6fcc7, we would be losing accumulated caches when aborting to the build handler. This patch fixes that. In particular, by preserving '%reference-cache-id', we avoid redundant 'query-references' RPCs, which accounted for a large part of the extra processing time. * guix/store.scm (build-accumulator): When returning an <unresolved> node, call 'set-store-connection-caches!' before and after to preserve caches. (map/accumulate-builds): Pass STORE as the first argument to the <unresolved> continuation.
* gnu: r-lmom: Update to 2.9.Ricardo Wurmus2022-05-30
| | | | * gnu/packages/statistics.scm (r-lmom): Update to 2.9.
* gnu: r-chron: Update to 2.3-57.Ricardo Wurmus2022-05-30
| | | | * gnu/packages/statistics.scm (r-chron): Update to 2.3-57.
* gnu: r-tree: Update to 1.0-42.Ricardo Wurmus2022-05-30
| | | | * gnu/packages/cran.scm (r-tree): Update to 1.0-42.
* gnu: r-parameters: Update to 0.18.1.Ricardo Wurmus2022-05-30
| | | | * gnu/packages/cran.scm (r-parameters): Update to 0.18.1.
* gnu: r-clue: Update to 0.3-61.Ricardo Wurmus2022-05-30
| | | | * gnu/packages/cran.scm (r-clue): Update to 0.3-61.
* gnu: r-cobs: Update to 1.3-5.Ricardo Wurmus2022-05-30
| | | | * gnu/packages/cran.scm (r-cobs): Update to 1.3-5.
* gnu: r-gee: Update to 4.13-23.Ricardo Wurmus2022-05-30
| | | | * gnu/packages/cran.scm (r-gee): Update to 4.13-23.
* gnu: r-qpdf: Update to 1.2.0.Ricardo Wurmus2022-05-30
| | | | | | | * gnu/packages/cran.scm (r-qpdf): Update to 1.2.0. [source]: Remove trailing #T from snippet. [arguments]: Remove trailing #T from 'configure phase. [inputs]: Add libjpeg-turbo.
* gnu: r-batchelor: Update to 1.12.1.Ricardo Wurmus2022-05-30
| | | | * gnu/packages/bioconductor.scm (r-batchelor): Update to 1.12.1.
* gnu: gcc-9: Update to 9.5.0.Efraim Flashner2022-05-30
| | | | * gnu/packages/gcc.scm (gcc-9): Update to 9.5.0.
* gnu: hello: Update to 2.12.1.Efraim Flashner2022-05-30
| | | | * gnu/packages/base.scm (hello): Update to 2.12.1.
* gnu: nss: Skip tests on riscv64-linux.Efraim Flashner2022-05-30
| | | | | * gnu/packages/nss.scm (nss)[arguments]: Skip tests when building for riscv64-linux.
* gnu: nss: Adjust make-flags for riscv64-linux.Efraim Flashner2022-05-30
| | | | | * gnu/packages/nss.scm (nss)[arguments]: When building for riscv64-linux don't build the binaries with gtest.
* gnu: Add rust-serde-regex-1.Evgenii Lepikhin2022-05-30
| | | | | | * gnu/packages/crates-io.scm (rust-serde-regex-1): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: rust-nom-7: Update to 7.1.1.Evgenii Lepikhin2022-05-30
| | | | | | | * gnu/packages/crates-io.scm (rust-nom-7): Update to 7.1.1. [arguments]: In cargo-inputs replace rust-minimal-lexical-0.1 with 0.2. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-minimal-lexical-0.2.Evgenii Lepikhin2022-05-30
| | | | | | | * gnu/packages/crates-io.scm (rust-minimal-lexical-0.2): New variable. (rust-minimal-lexical-0.1): Inherit from rust-minimal-lexical-0.2. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-located-yaml-0.2.Evgenii Lepikhin2022-05-30
| | | | | | * gnu/packages/crates-io.scm (rust-located-yaml-0.2) New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-pretty-0.11.Evgenii Lepikhin2022-05-30
| | | | | | | * gnu/packages/crates-io.scm (rust-pretty-0.11) New variable. (rust-pretty-0.5): Inherit from rust-pretty-0.11. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-nom-locate-4.Evgenii Lepikhin2022-05-30
| | | | | | * gnu/packages/crates-io.scm (rust-nom-locate-4): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: virtuoso-ose: Register patch.Efraim Flashner2022-05-30
| | | | | | This is a follow-up to 48efbde7a944acfe4fc944bf27bfa9ff82592024. * gnu/local.mk (dist_patch_DATA): Register patch.
* gnu: yt-dlp: Remove trailing #t.Efraim Flashner2022-05-30
| | | | | | * gnu/packages/video.scm (yt-dlp)[source]: Remove trailing #t from snippet. [arguments]: Remove trailing #t from phases.
* gnu: yt-dlp: Update to 2022.05.18.Efraim Flashner2022-05-30
| | | | | * gnu/packages/video.scm (yt-dlp): Update to 2022.05.18. [inputs]: Add python-brotli and python-certifi.
* gnu: links: Update to 2.27.Efraim Flashner2022-05-30
| | | | * gnu/packages/web-browsers.scm (links): Update to 2.27.
* gnu: virtuoso-ose: Update to 7.2.7.Roel Janssen2022-05-30
| | | | | | | * gnu/packages/databases.scm (virtuoso-ose): Update to 7.2.7; Run autogen after applying the patch below. * gnu/packages/patches/virtuoso-ose-remove-pre-built-jar-files.patch: New file.
* gnu: icecat: Update to 91.9.1-guix0-preview1 [security fixes].base-for-series-12531base-for-series-12529Mark H Weaver2022-05-29
| | | | | | | Includes fixes for CVE-2022-1529 and CVE-2022-1802. * gnu/packages/gnuzilla.scm (%icecat-version, %icecat-build-id): Update. (icecat-source): Update gnuzilla commit, base version, and hashes.
* gnu: Add python-gpy.Wiktor Zelazny2022-05-29
| | | | | | * gnu/packages/python-science.scm (python-gpy): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add python-paramz.Wiktor Zelazny2022-05-29
| | | | | | * gnu/packages/python-science.scm (python-paramz): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add python-climin.Wiktor Zelazny2022-05-29
| | | | | | * gnu/packages/python-science.scm (python-climin): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: wla-dx: Update to 10.1.Felix Gruber2022-05-29
| | | | | | | | * gnu/packages/assembly.scm (wla-dx): Update to 10.1. [native-inputs]: Use new style. [arguments]: Add custom 'check phase to run run_tests.sh. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
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