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2023-10-13gnu: Add r-mafh5-gnomad-v3-1-2-grch38.Afkhami, Navid
* gnu/packages/bioconductor.scm (r-mafh5-gnomad-v3-1-2-grch38): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2023-10-12gnu: gsequencer: Update to 6.1.3.Vinicius Monego
* gnu/packages/music.scm (gsequencer): Update to 6.1.3.
2023-10-12gnu: python-metpy: Update to 1.5.1.Vinicius Monego
* gnu/packages/geo.scm (python-metpy): Update to 1.5.1.
2023-10-12gnu: python-pint: Update to 0.22.Vinicius Monego
* gnu/packages/python-xyz.scm (python-pint): Update to 0.22. [native-inputs]: Add python-uncertainties. [propagated-inputs]: Add python-typing-extensions.
2023-10-12gnu: python-scrapy: Update to 2.11.0.Vinicius Monego
* gnu/packages/python-web.scm (python-scrapy): Update to 2.11.0.
2023-10-12services: cuirass: Add ‘log-expiry’ option for ‘remote-server’.Ludovic Courtès
* gnu/services/cuirass.scm (<cuirass-remote-server-configuration>)[log-expiry]: New field. (cuirass-shepherd-service): Honor it. * doc/guix.texi (Continuous Integration): Document it.
2023-10-12gnu: cuirass: Use gexps.Ludovic Courtès
* gnu/packages/ci.scm (cuirass)[arguments]: Rewrite as per ‘guix style -S arguments’.
2023-10-12gnu: cuirass: Simplify ‘wrap-program’ phase.Ludovic Courtès
* gnu/packages/ci.scm (cuirass)[arguments]: Add (srfi srfi-1) and (ice-9 match) to #:modules. Rewrite ‘wrap-program’ phase to iterate over INPUTS and select the subset that actually provides Guile modules.
2023-07-23gnu: Update my copyright.Wilko Meyer
* gnu/packages/linux.scm: Update copyright header. Signed-off-by: Leo Famulari <leo@famulari.name>
2023-07-23gnu: linux-libre 4.14: Update to 4.14.327.Wilko Meyer
* gnu/packages/linux.scm (linux-libre-4.14-version): Update to 4.14.327. (linux-libre-4.14-pristine-source): Update hash. Signed-off-by: Leo Famulari <leo@famulari.name>
2023-07-23gnu: linux-libre 4.19: Update to 4.19.296.Wilko Meyer
* gnu/packages/linux.scm (linux-libre-4.19-version): Update to 4.19.296. (linux-libre-4.19-pristine-source): Update hash. Signed-off-by: Leo Famulari <leo@famulari.name>
2023-07-23gnu: linux-libre 5.4: Update to 5.4.258.Wilko Meyer
* gnu/packages/linux.scm (linux-libre-5.4-version): Update to 5.4.258. (linux-libre-5.4-pristine-source): Update hash. Signed-off-by: Leo Famulari <leo@famulari.name>
2023-07-23gnu: linux-libre 5.10: Update to 5.10.198.Wilko Meyer
* gnu/packages/linux.scm (linux-libre-5.10-version): Update to 5.10.198. (linux-libre-5.10-pristine-source): Update hash. Signed-off-by: Leo Famulari <leo@famulari.name>
2023-07-23gnu: linux-libre 5.15: Update to 5.15.135.Wilko Meyer
* gnu/packages/linux.scm (linux-libre-5.15-version): Update to 5.15.135. (linux-libre-5.15-pristine-source): Update hash. Signed-off-by: Leo Famulari <leo@famulari.name>
2023-07-23gnu: linux-libre 6.1: Update to 6.1.57.Wilko Meyer
* gnu/packages/linux.scm (linux-libre-6.1-version): Update to 6.1.57. (linux-libre-6.1-pristine-source): Update hash. Signed-off-by: Leo Famulari <leo@famulari.name>
2023-07-23gnu: linux-libre 6.5: Update to 6.5.7.Wilko Meyer
* gnu/packages/linux.scm (linux-libre-6.5-version): Update to 6.5.7. (linux-libre-6.5-pristine-source): Update hash. Signed-off-by: Leo Famulari <leo@famulari.name>
2023-10-12gnu: cuirass: Update to db6b633.Ludovic Courtès
* gnu/packages/ci.scm (cuirass): Update to db6b633.
2023-10-12gnu: Add senpai.Nguyễn Gia Phong
* gnu/packaging/messaging.scm (senpai): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-10-12gnu: Add go-github-com-delthas-go-localeinfo.Nguyễn Gia Phong
gnu/packages/golang.scm (go-github-com-delthas-go-localeinfo): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-10-12gnu: Add go-github-com-delthas-go-libnp.Nguyễn Gia Phong
gnu/packages/golang.scm (go-github-com-delthas-go-libnp): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-10-12gnu: go-github-com-godbus-dbus: Update to 5.1.0Nguyễn Gia Phong
gnu/packages/golang.scm (go-github-com-godbus-dbus): Update to 5.1.0. Signed-off-by: Nguyễn Gia Phong <mcsinyx@disroot.org> Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-10-12accounts: Fix typo in comment.Ludovic Courtès
* gnu/build/accounts.scm (passwd->shadow): Fix typo in comment.
2023-10-12gnu: ripgrep: Prepare for cross-compiling.Efraim Flashner
* gnu/packages/rust-apps.scm (ripgrep) [native-inputs]: Move pcre2 ... [inputs]: ... to here.
2023-10-12gnu: stfl: Fix cross-compiling.Efraim Flashner
* gnu/packages/ncurses.scm (stfl)[native-inputs]: Add ncurses.
2023-10-12gnu: Add r-complexupset.Navid Afkhami
* gnu/packages/cran.scm (r-complexupset): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2023-10-12gnu: glibc: Fix CVE-2023-4911.Liliana Marie Prikler
* gnu/packages/patches/glibc-2.35-CVE-2023-4911.patch: New file. * gnu/local.mk: Register it here. * gnu/packages/base.scm (glibc/fixed): New variable. (glibc): Use it as replacement.
2023-10-11gnu: curl/fixed: Fix version.John Kehayias
This is a followup to d6d706a58b8159748d3a46fa97cae18850487c8a. The version string is set separately to have the same length as curl for grafting and was forgotten in the previous commit. * gnu/packages/curl.scm (curl/fixed)[version]: Set to "8.4.0a" to match actual version and length needed for grafting.
2023-10-11gnu: curl/fixed: Update to 8.4.0 [security fixes].John Kehayias
Fixes CVE-2023-38545 and CVE-2023-38546. See <https://curl.se/docs/CVE-2023-38545.html> and <https://curl.se/docs/CVE-2023-38546.html> for details. * gnu/packages/curl.scm (curl/fixed): Update to 8.4.0.
2023-10-11gnu: libcue: Update to 2.3.0 [security fixes].Leo Nikkilä
Fixes CVE-2023-43641, see <https://github.blog/2023-10-09-coordinated-disclosure-1-click-rce-on-gnome-cve-2023-43641/> for details. * gnu/packages/cdrom.scm (libcue): Update to 2.3.0. Signed-off-by: John Kehayias <john.kehayias@protonmail.com>
2023-10-11gnu: python-pyte: Update to 0.8.1.Stefan Reichör
* gnu/packages/terminals.scm (python-pyte): Update to 0.8.1. Co-authored-by: jgart <jgart@dismail.de>
2023-10-11gnu: python-pyvirtualdisplay: Update to 3.0.jgart
* gnu/packages/python-xyz.scm (python-pyvirtualdisplay): Update to 3.0.
2023-10-11gnu: Remove python-google-api-core-1 and its dependency python-google-auth-1Pierre-Evariste Dagand
python-google-auth-1 doesn't self-test anymore. The tests depend on `python-mock` (easy to fix) but also on an outdated version of `python-cryptography`. * gnu/packages/python-web.scm (python-google-auth-1) (python-google-api-core-1): Remove. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-10-11gnu: python-google-api-client: Update to 2.102.0.Pierre-Evariste Dagand
* gnu/packages/python-web.scm (python-google-api-client): Update to 2.102.0 (python-google-auth-httplib2): Update to 0.1.1. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-10-11gnu: Add python-google-auth-oauthlib.Pierre-Evariste Dagand
* gnu/packages/python-web.scm (python-google-auth-oauthlib): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-10-11gnu: Add bliss.David Elsing
* gnu/packages/maths.scm (bliss): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-10-11services: static-networking: Add support for bonding.Alexey Abramov
* gnu/services/base.scm (<network-link>): Add mac-address field. Set type field to #f by default, so it won't be mandatory. network-link without a type will be used for existing interfaces. (assert-network-link-mac-address, mac-address?): Add sanitizer. Allow valid mac-address or #f. (assert-network-link-type): Add sanitizer. Allow symbol or #f. * gnu/services/base.scm (network-set-up/linux, network-tear-down/linux): Adapt to new structure. * doc/guix.texi (Networking Setup): Document it. * gnu/tests/networking.scm (run-static-networking-advanced-test): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-10-11gnu: Add r-chemmineob.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-chemmineob): New variable.
2023-10-11gnu: indi: Update to 2.0.4.Sharlatan Hellseher
* gnu/packages/astronomy.scm (indi-2.0): New variable. (indi-1.9): New variable. Inherited from indi-2.0. (indi): Set it to use indi-1.9 as default, as Stellarium and PHD2 are still depended on 1.9 and fail with Indi 2.0+. See: https://github.com/Stellarium/stellarium/issues/3038 Signed-off-by: Christopher Baines <mail@cbaines.net>
2023-10-11gnu: python-tweakwcs: Update to 0.8.3.Sharlatan Hellseher
* gnu/packages/astronomy.scm (python-tweakwcs): Update to 0.8.3. Signed-off-by: Christopher Baines <mail@cbaines.net>
2023-10-11gnu: python-sunpy: Update to 5.0.1.Sharlatan Hellseher
* gnu/packages/astronomy.scm (python-sunpy): Update to 5.0.1. Signed-off-by: Christopher Baines <mail@cbaines.net>
2023-10-11gnu: python-stpipe: Update to 0.5.1.Sharlatan Hellseher
* gnu/packages/astronomy.scm (python-stpipe): Update to 0.5.1. [arguments]{test-flags}: Disable on failing test. Signed-off-by: Christopher Baines <mail@cbaines.net>
2023-10-11gnu: python-stdatamodels: Update packages style.Sharlatan Hellseher
* gnu/packages/astronomy.scm (python-stdatamodels): Update indentation to improve readability of the package. [description]: Add TexInfo styling bits. Signed-off-by: Christopher Baines <mail@cbaines.net>
2023-10-11gnu: python-stdatamodels: Update to 1.8.3.Sharlatan Hellseher
* gnu/packages/astronomy.scm (python-stdatamodels): Update to 1.8.3. Signed-off-by: Christopher Baines <mail@cbaines.net>
2023-10-11gnu: python-stcal: Update package style.Sharlatan Hellseher
* gnu/packages/astronomy.scm (python-stcal): Update indentation to improve readability of the package. Signed-off-by: Christopher Baines <mail@cbaines.net>
2023-10-11gnu: python-stcal: Update to 1.4.4.Sharlatan Hellseher
* gnu/packages/astronomy.scm (python-stcal): Update to 1.4.4. [arguments]{phases}: Add 'build-extensions phase. [native-inputs]: Add python-cython. Signed-off-by: Christopher Baines <mail@cbaines.net>
2023-10-11gnu: python-jwst: Update to 1.12.3.Sharlatan Hellseher
* gnu/packages/astronomy.scm (python-jwst): Update to 1.12.3. Signed-off-by: Christopher Baines <mail@cbaines.net>
2023-10-11gnu: python-cdflib: Update to 1.2.1.Sharlatan Hellseher
* gnu/packages/astronomy.scm (python-cdflib): Update to 1.2.1. Signed-off-by: Christopher Baines <mail@cbaines.net>
2023-10-11gnu: python-crds: Update to 11.17.6.Sharlatan Hellseher
* gnu/packages/astronomy.scm (python-crds): Update to 11.17.6. Signed-off-by: Christopher Baines <mail@cbaines.net>
2023-10-11gnu: python-drizzle: Update package style.Sharlatan Hellseher
* gnu/packages/astronomy.scm (python-drizzle): Update package style, indent and align regions. [arguments]{test-flags}: Remove them as all tests are passed successfully. [native-inputs]: Remove python-coverage, python-pytest-cov. [description]: Indent region. Signed-off-by: Christopher Baines <mail@cbaines.net>
2023-10-11gnu: python-drizzle: Update to 1.14.3.Sharlatan Hellseher
* gnu/packages/astronomy.scm (python-drizzle): Update to 1.14.3. Signed-off-by: Christopher Baines <mail@cbaines.net>
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