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* diagnostics: Fix typo about 0-indexed COL in location.Maxim Cournoyer2022-05-31
| | | | | | * guix/diagnostics.scm (source-properties->location): The location column is 0-indexed, not 1-indexed (the same as in source-properties, so the code is accurate).
* utils: Add a %guix-source-root-directory procedure.Maxim Cournoyer2022-05-31
| | | | * guix/utils.scm (%guix-source-root-directory): New procedure.
* utils: Add a 'delete-expression' procedure.Maxim Cournoyer2022-05-31
| | | | | | | * guix/utils.scm: Fix copyright lines and order imports. (edit-expression): Fix typo in doc. Add a new 'include-trailing-newline?' keyword argument. Update doc. (delete-expression): New procedure.
* etc/committer: Teach it how to commit package removal.Maxim Cournoyer2022-05-31
| | | | | | | | | | | | | | * etc/committer.scm.in (hunk-types): New variable. (<hunk>): Rename hunk-definition? getter to 'hunk-type'. (diff-info): Mute a git warning by separating file names from arguments with '--'. Rename the 'definitions?' variable to 'type'. Use the 'addition type when a new package addition is detected, 'removal when removed else #f. (add-commit-message): Re-indent. (remove-commit-message): New procedure. (main)[definitions]: Make commit message conditional depending on whether it is an addition or removal. [changes]: Adjust indentation.
* etc/committer: Prefix (sxml xpath) symbols to avoid name conflict.Maxim Cournoyer2022-05-31
| | | | | | | | | | This avoids a naming conflict for 'filter', provided by both (srfi srfi-1) and (sxml xpath). * etc/committer.scm.in: Use 'use-modules' instead of 'import', and use a prefix for the (sxml xpath) module. (new-sexp): Adjust accordingly. (change-commit-message): Likewise.
* packages: Fix typo in package-superseded doc.Maxim Cournoyer2022-05-31
| | | | * guix/packages.scm (package-superseded): Fix typo.
* gnu: icecat: Update to 91.10.0-guix0-preview1 [security fixes].Mark H Weaver2022-05-31
| | | | | | | | | Includes fixes for CVE-2022-31736, CVE-2022-31737, CVE-2022-31738, CVE-2022-31739, CVE-2022-31740, CVE-2022-31741, CVE-2022-31742, and CVE-2022-31747. * gnu/packages/gnuzilla.scm (%icecat-version, %icecat-build-id): Update. (icecat-source): Update gnuzilla commit, base version, and hashes.
* gnu: ungoogled-chromium: Update to 102.0.5005.61-3.Marius Bakke2022-05-31
| | | | | * gnu/packages/chromium.scm (%ungoogled-revision): Bump to latest. (%ungoogled-origin): Update hash.
* gnu: python-sip-4: Update to 4.19.25.Efraim Flashner2022-05-31
| | | | * gnu/packages/qt.scm (python-sip-4): Update to 4.19.25.
* gnu: guile-ac-d-bus: Run test suite.Maxim Cournoyer2022-05-31
| | | | | | | | | * gnu/packages/patches/guile-ac-d-bus-fix-tests.patch: New patch. * gnu/local.mk (dist_patch_DATA): Register it. * gnu/packages/guile-xyz.scm (guile-ac-d-bus) [source]: Apply patch. [phases]{check}: New phase. [native-inputs]: Add bash-minimal.
* gnu: guile-ac-d-bus: Build and install info manual.Maxim Cournoyer2022-05-31
| | | | | | | * gnu/packages/guile-xyz.scm (guile-ac-d-bus) [arguments]: Use gexps. [phases]{build-doc, install-doc}: New phases. [native-inputs]: Add texinfo.
* gnu: python-distributed: Update to 2022.05.2.Ricardo Wurmus2022-05-31
| | | | | | | * gnu/packages/python-science.scm (python-distributed): Update to 2022.05.2. [arguments]: Remove 'sanity-check phase; adjust 'check phase. [propagated-inputs]: Add python-urllib3. [native-inputs]: Add python-pytest-timeout and python-flaky.
* gnu: r-haven: Fix build.Ricardo Wurmus2022-05-31
| | | | | | * gnu/packages/cran.scm (r-haven)[arguments]: Adjust 'unbundle-readstat phase. Reported-by: Jonas Freimuth.
* gnu: python-fsspec: Update to 2022.5.0.Ricardo Wurmus2022-05-31
| | | | * gnu/packages/python-xyz.scm (python-fsspec): Update to 2022.5.0.
* image: Add fat32 support.Pavel Shlyak2022-05-31
| | | | | | | | | | | | * gnu/build/image.scm (make-vfat-image): Pass fs-bits as an argument and force 1kb logical sector size only if "ESP" flag is set. (make-partition-image): Add "fat32" partition type, support explicit "fat16" type with vfat alias. * gnu/system/image.scm (partition->dos-type partition): Return file system IDs for "fat16" and "fat32" partitions. (partition->gpt-type partition): Ditto. Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
* gnu: emacs-helpful: Update to 0.19yarl baudig2022-05-31
| | | | | | | | | * gnu/packages/patches/emacs-helpful-docstring-test.patch: New file. * gnu/packages/emacs-xyz.scm (emacs-helpful): Update to 0.19. [source]: Use the patch. * gnu/local.mk (dist_patch_DATA): Register the patch. Signed-off-by: Liliana Marie Prikler <liliana.prikler@gmail.com>
* 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.
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