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2024-08-18gnu: icu4c: Add patch for VTIMEZONE bug.Jonathan Brielmaier
Icedove@115 does not properly work without this patch. See: https://bugzilla.mozilla.org/show_bug.cgi?id=1843007 * gnu/packages/icu4c.scm (icu4c-73)[source]: Use patch. * gnu/packages/patches/icu4c-icu-22132-fix-vtimezone.patch: New file. * gnu/local.mk (dist_patch_DATA): Register patch. Change-Id: Ie64d1e33afedbaedbaafaeb607a201eb671ac7bd Change-Id: I6d753eacc7daac5663128b20a550044d0fd0ddb7
2024-08-11privilege: Add POSIX capabilities(7) support.Tobias Geerinckx-Rice
* gnu/system/privilege.scm (<privileged-program>): Add a field representing the program's POSIX capabilities. (privileged-program-capabilities): New public procedure. * doc/guix.texi (Privileged Programs): Document it. * gnu/build/activation.scm (activate-privileged-programs): Take a LIBCAP package argument providing setcap(8) to apply said capabilities. * gnu/services.scm (privileged-program->activation-gexp): Pass said package argument where supported. Include privileged-program-capabilities in the compatibility hack.
2024-08-11system: Add privileged-programs to <operating-system>.Tobias Geerinckx-Rice
* gnu/system.scm (<operating-system>): Add new privileged-programs field, that defaults to… (%default-privileged-programs): …this new variable, renamed from… (%setuid-programs): …this, which is now defined as the empty list. * doc/guix.texi (Setuid Programs): Rename this… (Privileged Programs): …to this. Adjust all refs. Update all mentions of ‘setuid’ (whether in prose, variable names, or code samples) to use the new ‘privilege[d]’ terminology instead. (operating-system Reference, X Window, Invoking guix system) (Service Reference): Adjust likewise.
2024-08-11system: Use privileged-program-service-type by default.Tobias Geerinckx-Rice
* gnu/system.scm (operating-system-default-essential-services) (hurd-default-essential-services): Substitute privileged-program-service-type for setuid-program-service-type.
2024-08-11services: Rename setuid-program-service-type.Tobias Geerinckx-Rice
* gnu/services.scm (setuid-program->activation-gexp): Rename this… (privileged-program->activation-gexp): …to this. Operate on a list of <privileged-program> records. (privileged-program-service-type): New variable, renamed from setuid-program-service-type. Rename the service-type accordingly. (setuid-program-service-type): Redefine as an alias for the above.
2024-08-11build: Rename activate-setuid-programs.Tobias Geerinckx-Rice
* gnu/build/activation.scm (activate-setuid-programs): Rename this… (activate-privileged-programs): …to this. Operate on a list of <privileged-program> records. * gnu/services.scm (setuid-program->activation-gexp): Adjust caller.
2024-08-11system: (gnu system setuid) wraps (gnu system privilege).Tobias Geerinckx-Rice
* gnu/system/setuid.scm (setuid-program): Rewrite as syntax to create a <privileged-program> record that is setuid by default. (setuid-program?, setuid-program-program, setuid-program-setuid?) (setuid-program-setgid?, setuid-program-user, setuid-program-group): Alias their privileged-program equivalent.
2024-08-11system: Add (gnu system privilege).Tobias Geerinckx-Rice
* gnu/system/privilege.scm: New file. * gnu/local.mk (GNU_SYSTEM_MODULES): Add it.
2024-08-11gnu: Replace (almost) all uses of /run/setuid-programs.Tobias Geerinckx-Rice
…those good for master, anyway. * gnu/packages/admin.scm (ktsuss, opendoas, hosts) [arguments]: Replace /run/setuid-programs with /run/privileged/bin. * gnu/packages/containers.scm (slirp4netns)[arguments]: Likewise. * gnu/packages/debian.scm (pbuilder)[arguments]: Likewise. * gnu/packages/disk.scm (udevil)[arguments]: Likewise. * gnu/packages/enlightenment.scm (efl, enlightenment) [arguments]: Likewise. * gnu/packages/gnome.scm (gdm, gnome-control-center) [arguments]: Likewise. * gnu/packages/linux.scm (singularity)[arguments]: Likewise. * gnu/packages/lxde.scm (spacefm)[arguments]: Likewise. * gnu/packages/monitoring.scm (zabbix-agentd)[arguments]: Likewise. * gnu/packages/virtualization.scm (ganeti)[arguments]: Likewise. * gnu/packages/xdisorg.scm (xsecurelock)[arguments]: Likewise. * gnu/services/dbus.scm (dbus-configuration-directory): Likewise. * gnu/services/ganeti.scm (%default-ganeti-environment-variables): Likewise. * gnu/services/monitoring.scm (zabbix-agent-shepherd-service): Likewise. * gnu/tests/ldap.scm (marionette): Likewise. * gnu/tests/monitoring.scm (os): Likewise.
2024-08-11system: Use /run/privileged/bin in search paths.Tobias Geerinckx-Rice
* gnu/system.scm (operating-system-etc-service): Substitute /run/privileged/bin for deprecated /run/setuid-programs.
2024-08-11services: setuid-program: Populate /run/privileged/bin.Tobias Geerinckx-Rice
Create /run/setuid-programs compatibility symlinks so that we can migrate all users (both package and human) piecemeal at our leisure. Apart from being symlinks, this should be a user-invisible change. * gnu/build/activation.scm (%privileged-program-directory): New variable. [activate-setuid-programs]: Put privileged copies in %PRIVILEGED-PROGRAM-DIRECTORY, with compatibility symlinks to each in %SETUID-DIRECTORY. * gnu/services.scm (setuid-program-service-type): Update docstring. * doc/guix.texi (Setuid Programs): Update @file{} name accordingly.
2024-08-11system: Disallow file-like setuid-programs.Tobias Geerinckx-Rice
It has been a warning for well over a year now. Now, with privileged-programs coming, don't let's support nested deprecation hacks. * gnu/system.scm (<operating-system>): Don't ‘sanitize’ the setuid-programs field. (ensure-setuid-program-list): Delete syntax. (%ensure-setuid-program-list): Delete variable.
2024-08-18gnu: kmonad: Update to 0.4.2-1.07cd1cb.Andrew Tropin
* gnu/packages/haskell-apps.scm (kmonad): Update to 0.4.2-1.07cd1cb. Change-Id: I8a8d36577804d2221b39b430d26e9fd17204c0de
2024-08-17gnu: r-dmrseq: Update to 1.24.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-dmrseq): Update to 1.24.1. Change-Id: I22fb49eee056e0dd5306fec4575fcb38cbe916aa
2024-08-17gnu: r-bgeecall: Update to 1.20.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bgeecall): Update to 1.20.1. [propagated-inputs]: Add r-txdbmaker. Change-Id: Ia51c1ccdb0e49d8dc74a61f605f00c86718bc1f8
2024-08-17gnu: r-mscoreutils: Update to 1.16.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-mscoreutils): Update to 1.16.1. Change-Id: I233a01625f223c571dae863c977825d4a2909ee7
2024-08-17gnu: r-scater: Update to 1.32.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-scater): Update to 1.32.1. Change-Id: I0232d463f243505a9b3706d64e6666eb245ceb1c
2024-08-17gnu: r-hdf5array: Update to 1.32.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-hdf5array): Update to 1.32.1. Change-Id: Iebab45185f6f1fe3e6919a1e70e45127d9f1124f
2024-08-17gnu: r-s4vectors: Update to 0.42.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-s4vectors): Update to 0.42.1. Change-Id: I58dc50344c5eb477da9d4ddd4447bcb41f456037
2024-08-17gnu: r-multiassayexperiment: Update to 1.30.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-multiassayexperiment): Update to 1.30.3. Change-Id: Iabbd0c74d7515f8f166827b8b99b2ac49b271c13
2024-08-17gnu: r-universalmotif: Update to 1.22.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-universalmotif): Update to 1.22.1. Change-Id: I60a617d120e5da046decb491b7641f1e10aac0cb
2024-08-17gnu: r-clusterprofiler: Update to 4.12.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-clusterprofiler): Update to 4.12.2. Change-Id: I17d837fb314c26fcb26c13240a01c91bc2da9797
2024-08-17gnu: r-enrichplot: Update to 1.24.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-enrichplot): Update to 1.24.2. Change-Id: I188e7e908a09337d4bacf4802b1557ddd31048f3
2024-08-17gnu: r-dose: Update to 3.30.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-dose): Update to 3.30.2. Change-Id: Ic07fab82efcbda004d6c7ff21d4ed7b49cc426fb
2024-08-17gnu: r-chippeakanno: Update to 3.38.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.38.1. Change-Id: Ia4c89074674f3473e11f3b9e1f9ed828701591f6
2024-08-17gnu: r-qfeatures: Update to 1.14.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-qfeatures): Update to 1.14.2. Change-Id: I93c4fc00d19b18a1e0981f21dd0950d1e1a81f37
2024-08-17gnu: r-seqarray: Update to 1.44.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-seqarray): Update to 1.44.1. Change-Id: I06bb0b45d1a4299e835f7a18c7ed70d847bdb565
2024-08-17gnu: r-msa: Update to 1.36.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-msa): Update to 1.36.1. Change-Id: I91665d8ff4cd7570b5bcad27ff132611a09b8ecc
2024-08-17gnu: r-limma: Update to 3.60.4.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-limma): Update to 3.60.4. Change-Id: Iaaf9317ab3921070f5b8e06a7948b42575bbe00b
2024-08-17gnu: r-raggedexperiment: Update to 1.28.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-raggedexperiment): Update to 1.28.1. Change-Id: If7e8b60435413acda999f055bf9f104929e7f50f
2024-08-17gnu: r-edger: Update to 4.2.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-edger): Update to 4.2.1. Change-Id: Ia8cb57ada3f036f7fe45972ad1d3a8ff2e53c27b
2024-08-17gnu: r-iranges: Update to 2.38.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-iranges): Update to 2.38.1. Change-Id: I95d34fb3f339590c1980b7a77093835baa0e0136
2024-08-17gnu: r-dmrcate: Update to 3.0.5.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-dmrcate): Update to 3.0.5. Change-Id: I88768682f65b821e188f29c4dfee94927040cbbd
2024-08-17gnu: r-degreport: Update to 1.40.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-degreport): Update to 1.40.1. Change-Id: I35e7284270c81cd10178e7d848dfa5872645405d
2024-08-17gnu: r-anvil: Update to 1.16.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-anvil): Update to 1.16.1. Change-Id: Ief1b321d44a3bd534c6107c4434957c0de2dd977
2024-08-17gnu: r-desctools: Update to 0.99.55.Ricardo Wurmus
* gnu/packages/statistics.scm (r-desctools): Update to 0.99.55. Change-Id: Ic6b6222e1702db59786ad2ab73645425645575a1
2024-08-17gnu: r-exact: Update to 3.3.Ricardo Wurmus
* gnu/packages/statistics.scm (r-exact): Update to 3.3. Change-Id: If388135e98d31308d6d6170f30038ea9b44c994f
2024-08-17gnu: r-lme4: Update to 1.1-35.5.Ricardo Wurmus
* gnu/packages/statistics.scm (r-lme4): Update to 1.1-35.5. Change-Id: I886898d0158ba4a6d29e61e8a19a280ce387ee2e
2024-08-17gnu: r-rcppeigen: Update to 0.3.4.0.1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-rcppeigen): Update to 0.3.4.0.1. Change-Id: I4b7b3569c414d57a1af788fedcdaaf1e59e42fe7
2024-08-17gnu: r-pcapp: Update to 2.0-4-1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-pcapp): Update to 2.0-4-1. Change-Id: I7a08f67e636843e36bc80af0d94778f6d2b202d6
2024-08-17gnu: r-sparsem: Update to 1.84-2.Ricardo Wurmus
* gnu/packages/statistics.scm (r-sparsem): Update to 1.84-2. Change-Id: Id2123705c08bab173a4c8da3029e9bbda4db3ceb
2024-08-17gnu: r-segmented: Update to 2.1-1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-segmented): Update to 2.1-1. Change-Id: I754caaac1fca6903103b3c36f3d4894350c9a63d
2024-08-17gnu: r-rcurl: Update to 1.98-1.16.Ricardo Wurmus
* gnu/packages/statistics.scm (r-rcurl): Update to 1.98-1.16. Change-Id: I7c1570708479711e32a98e586cf51ddf7958e4b6
2024-08-17gnu: r-bitops: Update to 1.0-8.Ricardo Wurmus
* gnu/packages/statistics.scm (r-bitops): Update to 1.0-8. Change-Id: I0f5e97d07097a0ec13cce1b1d61e4633cdb9cd70
2024-08-17gnu: r-rcpparmadillo: Update to 14.0.0-1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 14.0.0-1. Change-Id: I9594cab48497f4767b2f5435828057704efdb01f
2024-08-17gnu: r-withr: Update to 3.0.1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-withr): Update to 3.0.1. Change-Id: Ic9302091cacb203a3d6e45183c871ba12276e3ba
2024-08-17gnu: r-openssl: Update to 2.2.1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-openssl): Update to 2.2.1. Change-Id: Id279140de607eb0f8324ab2e38ce248398110979
2024-08-17gnu: r-checkmate: Update to 2.3.2.Ricardo Wurmus
* gnu/packages/statistics.scm (r-checkmate): Update to 2.3.2. Change-Id: I8dbd8ed86a5cc652da180c1bac951abc7ba82fb5
2024-08-17gnu: r-knitr: Update to 1.48.Ricardo Wurmus
* gnu/packages/statistics.scm (r-knitr): Update to 1.48. Change-Id: I87ec28f830230f8fd51f7a2701a6bc83c14bd3b6
2024-08-17gnu: r-yaml: Update to 2.3.10.Ricardo Wurmus
* gnu/packages/statistics.scm (r-yaml): Update to 2.3.10. Change-Id: I64802f3c68be2498ea48755608ddf55dc3adae3e
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