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2023-04-22gnu: zig: Fix build....* gnu/packages/patches/zig-do-not-link-against-librt.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it. * gnu/packages/zig.scm (zig-0.10): Use it. Also force LLVM to be dynamically linked, and set up the CC env variable. (zig-0.9): Also use the above patch. Signed-off-by: Andreas Enge <andreas@enge.fr> Josselin Poiret
2023-04-22gnu: prusa-slicer: Update to 2.5.2....* gnu/packages/patches/prusa-slicer-boost-fixes.patch: New file. * gnu/packages/patches/prusa-slicer-fix-tests.patch: New file. * gnu/packages/patches/prusa-slicer-with-cereal-1.3.1.patch: New file. * gnu/local.mk (dist_patch_DATA): Register them. * gnu/packages/engineering.scm (prusa-slicer): Update to 2.5.2. [source]: Use patches. [inputs]: Replace cereal-1.3.0 by cereal. Guillaume Le Vaillant
2023-04-22gnu: libigl: Fix build....* gnu/packages/engineering.scm (libigl)[inputs]: Add tbb. Guillaume Le Vaillant
2023-04-22gnu: embree: Update to 3.13.5....* gnu/packages/graphics.scm (embree): Update to 3.13.5. Guillaume Le Vaillant
2023-04-22gnu: python-genshi: Update to 0.7.7....* gnu/packages/python-web.scm (python-genshi): Update to 0.7.7. Andreas Enge
2023-04-22gnu: python-stdnum: Update to 1.18....* gnu/packages/finance.scm (python-stdnum): Update to 1.18. Andreas Enge
2023-04-22Merge remote-tracking branch 'origin/master' into core-updatesAndreas Enge
2023-04-21gnu: python-cffsubr: Depend on python-afdko@3.6.1....This removes the dependency of GNOME on Java: gnome -> font-abattis-cantarell -> ... -> openjdk Discussed at <https://lists.gnu.org/archive/html/guix-devel/2022-10/msg00226.html>. * gnu/packages/fontutils.scm (python-cffsubr)[inputs]: Switch to PYTHON-AFDKO-3.6.1. Ludovic Courtès
2023-04-21gnu: python-afdko: Add version 3.6.1....* gnu/packages/fontutils.scm (python-afdko-3.6.1): New variable. Ludovic Courtès
2023-04-21gnu: libotr: Fix compilation with glibc 2.35....* gnu/packages/messaging.scm (libotr)[source]: Add 'snippet'. Ludovic Courtès
2023-04-21Revert "gnu: lxqt-admin: Fix path for timezone file."...The timezone database should not be depended on by packages, but rather found at runtime in the environment. Otherwise, this package will eventually report the incorrect time, because time zones change regularly. This reverts commit 99c1c7a30c59c3514a4ced6e0cad0e5c2860331d. Leo Famulari
2023-04-21gnu: ghc-9.0: Make testsuite compatible with Python 3.10....* gnu/packages/haskell.scm (ghc-9.0)[native-inputs]: Add patch and snippet to ghc-testsuite input. Lars-Dominik Braun
2023-04-21home: services: openssh: Add configuration option for jump proxies...Add a new 'proxy' field to openssh-host to allow ProxyCommand or ProxyJump, but not both, to be configured. Configuring both would cause the serialization order to determine which one is used. Deprecate the 'proxy-command' field because the 'proxy' field replaces it. * gnu/home/services/ssh.scm (proxy-jump->string, proxy-command-or-jump-list?, serialize-proxy-command-or-jump-list, sanitize-proxy-command): New procedure. (proxy-jump, proxy-command): New record type. (openssh-host)[proxy-command]: Mark field as deprecated because OpenSSH can't have ProxyCommand and ProxyJump configured at the same time. * doc/guix.texi (Secure Shell): Update to match the changes to the service. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Saku Laesvuori
2023-04-21gnu: guile-dsv: Update to 0.5.2....* gnu/packages/guile-xyz.scm (guile-dsv): Update to 0.5.2. [native-inputs]: Add "help2man". Signed-off-by: Ludovic Courtès <ludo@gnu.org> Artyom V. Poptsov
2023-04-21gnu: Add emacs-gerbil-mode....* gnu/packages/emacs-xyz.scm (emacs-gerbil-mode): Add emacs-gerbil-mode. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Juliana Sims
2023-04-21gnu: kicad: Update to 7.0.2....* gnu/packages/engineering.scm (kicad): Update to 7.0.2. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Peter Polidoro
2023-04-21gnu: kdoctools: Compile with docbook-xml@4.5....* gnu/packages/kde-frameworks.scm (kdoctools): Use docbook-xml-4.5 instead of docbook-xml. Andreas Enge
2023-04-21tests: Fork and exec a new Guile for the marionette REPL....By merely forking PID 1, details from PID 1 (shepherd) would leak into the marionette process, such as the set of modules in scope and state inherited from the shepherd process (<service> instances, fibers, etc.). Running a fresh Guile instance avoids that. * gnu/tests.scm (marionette-program): New procedure. (marionette-shepherd-service): Change 'start' to use 'make-forkexec-constructor', and run the result of 'marionette-program'. Ludovic Courtès
2023-04-21tests: Use the client 'start-service' procedure....The previous code worked "by chance": 'start' from (shepherd service) happened to be in scope because the marionette REPL is created by a mere 'primitive-fork', and 'start' happened to kinda work. * gnu/tests/base.scm (run-basic-test): Use 'start-service' from (gnu services herd), not 'start' from (shepherd service), which is not supposed to work. * gnu/tests/install.scm (run-install): Likewise. Ludovic Courtès
2023-04-21services: herd: 'load-services/safe' is synonymous with 'load-services'....This is a followup to 547965aa27b6a09cadf42130b7ec7db3f1aee61f. * gnu/services/herd.scm (load-services/safe): Make an alias for 'load-services'. Ludovic Courtès
2023-04-21services: nscd: Depend on syslogd....This gets rid of nscd debug messages on the console at boot time. * gnu/services/base.scm (nscd-shepherd-service): Add dependency on 'syslogd'. Ludovic Courtès
2023-04-21services: postgresql: Add default package....* gnu/services/databases.scm (<postgresql-configuration>)[postgresql]: Add default value, moved from... (postgresql-service-type)[default-value]: ... here. Ludovic Courtès
2023-04-21services: knot: Add 'configuration' action....* gnu/services/dns.scm (knot-shepherd-service): Add 'actions' field. Ludovic Courtès
2023-04-21services: rsync: Add 'configuration' action....* gnu/services/rsync.scm (rsync-shepherd-service): Add 'actions' field. Ludovic Courtès
2023-04-21services: redis: Add 'configuration' action....* gnu/services/databases.scm (redis-shepherd-service): Add 'actions' field. Ludovic Courtès
2023-04-21services: mysql: Add 'configuration' action....* gnu/services/databases.scm (mysql-shepherd-service): Add 'actions' field. Ludovic Courtès
2023-04-21services: postgresql: Add 'configuration' action....* gnu/services/databases.scm (postgresql-shepherd-service): Add 'actions' field. Ludovic Courtès
2023-04-21services: postgresql: Add the 'postgresql' Shepherd service name....* gnu/services/databases.scm (postgresql-shepherd-service): Add 'postgresql' to 'provision'. Ludovic Courtès
2023-04-21gnu: freerdp: Update to 2.2.0 [security fixes]....This fixes CVE-2022-39316, CVE-2022-39317, CVE-2022-39318, CVE-2022-39319, CVE-2022-39320, CVE-2022-41877, CVE-2022-39347, CVE-2022-39282, CVE-2022-39283, CVE-2021-41159 and CVE-2021-41160. * gnu/packages/rdesktop.scm (freerdp): Update to 2.2.0. [arguments]: Use gexps. Do not set DOCBOOKXSL_DIR in #:configureflags. Maxim Cournoyer
2023-04-21gnu: freerdp: Update to 2.2.0 [security fixes]....This fixes CVE-2022-39316, CVE-2022-39317, CVE-2022-39318, CVE-2022-39319, CVE-2022-39320, CVE-2022-41877, CVE-2022-39347, CVE-2022-39282, CVE-2022-39283, CVE-2021-41159 and CVE-2021-41160. * gnu/packages/rdesktop.scm (freerdp): Update to 2.2.0. [arguments]: Use gexps. Do not set DOCBOOKXSL_DIR in #:configureflags. Maxim Cournoyer
2023-04-21services: syslog: Log auth.info to /var/log/secure in default configuration....This causes authentication failures such as those generated by SSH brute force attacks to appear in /var/log/secure, which is picked up by tools such as fail2ban. * gnu/services/base.scm (%default-syslog.conf): Add a auth.info selector for the /var/log/secure log. Series-to: 62802@debbugs.gnu.org Maxim Cournoyer
2023-04-21services/syslog: Strip leading white space indent in syslog.conf....This is a cosmetic change. * gnu/services/base.scm (%default-syslog.conf): Add a comment referencing the documentation. Strip the extraneous leading trailing white space indent. Maxim Cournoyer
2023-04-21services: syslog: Add a reload action....* gnu/services/base.scm (syslog-service-type) [actions]: Add a reload action. * doc/guix.texi (Base Services): Document it. Maxim Cournoyer
2023-04-21services: syslog: Move configuration to /etc/syslog.conf....Having the configuration live at a static location makes it possible to hot-reload it. * gnu/services/base.scm (syslog.conf): New variable. (syslog-etc, syslog-shepherd-service): New procedures. (syslog-service-type): Rewrite using the above new variable and procedures, extending etc-service-type with its configuration file. Maxim Cournoyer
2023-04-21gnu: libxml++: Remove fix-documentation phase....* gnu/packages/gnome.scm (libxml++) [arguments]: Delete field. Maxim Cournoyer
2023-04-21gnu: opensp: Fix build....This is a follow up commit to b84d0b81b2. * gnu/packages/xml.scm (opensp) [arguments]: Properly quote. Maxim Cournoyer
2023-04-21gnu: bppsuite: Update to 2.4.1....* gnu/packages/bioinformatics.scm (bppsuite): Update to 2.4.1. [source]: Remove the commit and use the release version. Changed to the github repo. [arguments]: Remove the disabled parallel-build. [inputs]: Use list. [home-page]: Changed to github page. Mădălin Ionel Patrașcu
2023-04-21gnu: bpp-popgen: Update to 2.4.1....* gnu/packages/bioinformatics.scm (bpp-popgen): Update to 2.4.1. [source]: Remove the commit and use the release version. Changed to the github repo. [arguments]: Remove the disabled parallel-build. [home-page]: Changed to new host Université Claude-Bernard Lyon 1. Mădălin Ionel Patrașcu
2023-04-21gnu: Add maffilter....* gnu/packages/bioinformatics.scm (maffilter): New variable. Co-authored-by: Ricardo Wurmus <rekado@elephly.net> Mădălin Ionel Patrașcu
2023-04-21gnu: tensorflow: Adjust for Python 3.10 compatibility....* gnu/packages/machine-learning.scm (tensorflow)[arguments]: Replace build phase 'python3.9-compatibility with 'python3.10-compatibility; patch for move from "collections" to "collections.abc"; add well-meaning but potentially reckless patch to remove overwrite error for __or__ and __ror__ methods; adjust farmhash sources to build with GCC 11; do not use distutils.sysconfig. Ricardo Wurmus
2023-04-21gnu: python-protobuf-3.6: Patch for Python 3.10....* gnu/packages/protobuf.scm (python-protobuf-3.6)[arguments]: Patch collections import. [native-inputs]: Add python-setuptools-for-tensorflow. Ricardo Wurmus
2023-04-21gnu: python-setuptools-for-tensorflow: Patch for Python 3.10 compatibility....* gnu/packages/python-xyz.scm (python-setuptools-for-tensorflow)[arguments]: Patch collections imports; remove wininst support. Ricardo Wurmus
2023-04-21gnu: grpc-1.16.1: Correct input modifications....abseil-cpp is not part of the native-inputs but of the inputs. * gnu/packages/rpc.scm (grpc-1.16.1)[native-inputs]: Only replace protobuf. [inputs]: Replace abseil-cpp. Ricardo Wurmus
2023-04-21gnu: python-grpcio: Rebuild Cythonized source files....* gnu/packages/rpc.scm (python-grpcio)[source]: Delete generated cpp file. [build-system]: Use pyproject-build-system. [arguments]: Patch setup.py to add grpc headers to search path. [inputs]: Replace abseil-cpp with abseil-cpp-20211102.0; add grpc-for-python-grpcio. [native-inputs]: Add python-cython. Ricardo Wurmus
2023-04-21gnu: Add grpc-for-python-grpcio....* gnu/packages/rpc.scm (grpc-for-python-grpcio): New variable. Ricardo Wurmus
2023-04-21gnu: Add abseil-cpp-20211102.0....* gnu/packages/cpp.scm (abseil-cpp-20211102.0): New variable. Ricardo Wurmus
2023-04-21gnu: Add bpp-phyl-omics....* gnu/packages/bioinformatics.scm (bpp-phyl-omics): New variable. Mădălin Ionel Patrașcu
2023-04-21gnu: Add bpp-seq-omics....* gnu/packages/bioinformatics.scm (bpp-seq-omics): New variable. Mădălin Ionel Patrașcu
2023-04-21gnu: bpp-phyl: Update to 2.4.1....* gnu/packages/bioinformatics.scm (bpp-phyl): Update to 2.4.1. [source]: Remove the commit and use the release version. Changed to the github repo. [arguments]: Remove the disabled parallel-build and out-of-source. [home-page]: Changed to new host Université Claude-Bernard Lyon 1. [synopsis]: Use proper capitalization. Mădălin Ionel Patrașcu
2023-04-21gnu: bpp-seq: Update to 2.4.1....* gnu/packages/bioinformatics.scm (bpp-seq): Update to 2.4.1. [source]: Remove the commit and use the release version. Changed to the github repo. [arguments]: Remove the disabled parallel-build and out-of-source. [home-page]: Changed to new host Université Claude-Bernard Lyon 1. Mădălin Ionel Patrașcu