* gnu/packages/astronomy.scm (phd2): Use built-in delete-all-but.
* gnu/packages/bioinformatics.scm (pynsptools-examples-files): Likewise.
* gnu/packages/containers.scm
  (go-github-com-opencontainers-image-spec-schema)
  (go-go-podman-io-common, go-go-podman-io-image-v5)
  (go-go-podman-io-storage): Likewise.
* gnu/packages/databases.scm (mysql): Likewise.
* gnu/packages/debug.scm (fandango): Likewise.
* gnu/packages/electronics.scm (hal, librepcb, nextpnr, surelog):
  Likewise.
* gnu/packages/emacs-xyz.scm (emacs-smartparens): Likewise.
* gnu/packages/emulators.scm (dolphin-emu, libretro-dolphin-emu)
  (libretro-slang-shaders, mgba, pcsx2, retroarch-minimal): Likewise.
* gnu/packages/game-development.scm (sfml): Likewise.
* gnu/packages/gnome.scm (gjs): Likewise.
* gnu/packages/golang-apps.scm (godoc): Likewise.
* gnu/packages/golang-build.scm (go-golang-org-x-tools-go-expect)
  (go-golang-org-x-tools-go-packages-packagestest)
  (go-golang-org-x-tools-godoc): Likewise.
* gnu/packages/golang-check.scm
  (go-github-com-go-openapi-swag-jsonutils-fixtures-test): Likewise.
* gnu/packages/golang-web.scm (go-github-com-containerd-containerd-api)
  (go-cloud-google-com-go-auth, go-cloud-google-com-go-auth-oauth2adapt)
  (go-cloud-google-com-go-iam, go-cloud-google-com-go-kms)
  (go-cloud-google-com-go-logging, go-cloud-google-com-go-longrunning)
  (go-cloud-google-com-go-monitoring, go-cloud-google-com-go-profiler)
  (go-cloud-google-com-go-security, go-cloud-google-com-go-spanner)
  (go-cloud-google-com-go-storage, go-cloud-google-com-go-trace)
  (go-github-com-aws-aws-sdk-go-v2-config)
  (go-github-com-aws-aws-sdk-go-v2-credentials)
  (go-github-com-aws-aws-sdk-go-v2-feature-ec2-imds)
  (go-github-com-aws-aws-sdk-go-v2-internal-configsources)
  (go-github-com-aws-aws-sdk-go-v2-internal-endpoints-v2)
  (go-github-com-aws-aws-sdk-go-v2-service-cloudwatchlogs)
  (go-github-com-aws-aws-sdk-go-v2-service-kms)
  (go-github-com-aws-aws-sdk-go-v2-service-sns)
  (go-github-com-aws-aws-sdk-go-v2-service-sqs)
  (go-github-com-aws-aws-sdk-go-v2-service-ssm)
  (go-github-com-aws-smithy-go-metrics-smithyotelmetrics)
  (go-github-com-azure-azure-sdk-for-go-sdk-azcore)
  (go-github-com-azure-azure-sdk-for-go-sdk-azidentity)
  (go-github-com-azure-azure-sdk-for-go-sdk-internal)
  (go-github-com-azure-azure-sdk-for-go-sdk-security-keyvault-azkeys)
  (go-github-com-azure-azure-sdk-for-go-sdk-security-keyvault-internal)
  (go-github-com-azure-azure-sdk-for-go-sdk-storage-azblob)
  (go-github-com-azure-azure-sdk-for-go-sdk-storage-azfile)
  (go-github-com-envoyproxy-go-control-plane-envoy)
  (go-github-com-go-openapi-swag-loading)
  (go-github-com-googlecloudplatform-opentelemetry-operations-go-exporter-metric)
  (go-github-com-googlecloudplatform-opentelemetry-operations-go-exporter-trace)
  (go-github-com-googlecloudplatform-opentelemetry-operations-go-internal-cloudmock)
  (go-github-com-googlecloudplatform-opentelemetry-operations-go-internal-resourcemapping)
  (go-github-com-grpc-ecosystem-go-grpc-middleware-providers-prometh)
  (go-github-com-hashicorp-go-secure-stdlib-parseutil)
  (go-github-com-jtolio-crawlspace-tools)
  (go-github-com-moby-moby-client)
  (go-github-com-opentracing-contrib-go-grpc-test)
  (go-github-com-sigstore-sigstore-pkg-signature-kms-aws)
  (go-github-com-sigstore-sigstore-pkg-signature-kms-azure)
  (go-github-com-sigstore-sigstore-pkg-signature-kms-gcp)
  (go-github-com-sigstore-sigstore-pkg-signature-kms-hashivault)
  (go-go-etcd-io-etcd-api-v3, go-go-etcd-io-etcd-client-pkg-v3)
  (go-go-opentelemetry-io-auto-sdk)
  (go-go-opentelemetry-io-contrib-detectors-aws-ec2-v2)
  (go-go-opentelemetry-io-contrib-detectors-aws-ecs)
  (go-go-opentelemetry-io-contrib-detectors-gcp)
  (go-go-opentelemetry-io-contrib-instrumentation-net-http-httptrace)
  (go-go-opentelemetry-io-contrib-propagators-autoprop)
  (go-go-opentelemetry-io-otel-bridge-opentracing)
  (go-go-opentelemetry-io-otel-exporters-otlp-otlpmetric-otlpmetricgrpc)
  (go-go-opentelemetry-io-otel-exporters-otlp-otlpmetric-otlpmetrichttp)
  (go-go-opentelemetry-io-otel-exporters-otlp-otlptrace)
  (go-go-opentelemetry-io-otel-exporters-otlp-otlptrace-otlptracegrpc)
  (go-go-opentelemetry-io-otel-exporters-otlp-otlptrace-otlptracehttp)
  (go-go-opentelemetry-io-otel-exporters-prometheus)
  (go-go-opentelemetry-io-otel-exporters-stdout-stdoutmetric)
  (go-go-opentelemetry-io-otel-exporters-stdout-stdouttrace)
  (go-go-opentelemetry-io-otel-exporters-zipkin)
  (go-go-opentelemetry-io-otel-log)
  (go-go-opentelemetry-io-otel-metric-x)
  (go-go-opentelemetry-io-otel-sdk, go-go-opentelemetry-io-otel-sdk-log)
  (go-go-opentelemetry-io-otel-sdk-metric)
  (go-golang-getoutline-org-sdk-x)
  (go-google-golang-org-genproto-googleapis-api)
  (go-google-golang-org-genproto-googleapis-bytestream)
  (go-google-golang-org-grpc-cmd-protoc-gen-go-grpc)
  (go-google-golang-org-grpc-examples)
  (go-k8s-io-kube-openapi-test-integration): Likewise.
* gnu/packages/golang-xyz.scm (go-github-com-ajstarks-deck-generate)
  (go-github-com-charmbracelet-x-ansi)
  (go-github-com-charmbracelet-x-cellbuf)
  (go-github-com-charmbracelet-x-errors)
  (go-github-com-charmbracelet-x-term)
  (go-github-com-charmbracelet-x-xpty)
  (go-github-com-containerd-errdefs-pkg)
  (go-github-com-go-openapi-swag-jsonutils)
  (go-github-com-go-openapi-swag-yamlutils)
  (go-github-com-moby-sys-atomicwriter, go-github-com-moby-sys-devices)
  (go-github-com-moby-sys-mount, go-go-uber-org-zap-exp)
  (go-modernc-org-ccgo-v4, go-sigs-k8s-io-kustomize-cmd-config):
  Likewise.
* gnu/packages/image-processing.scm (opencv): Likewise.
* gnu/packages/ipfs.scm (go-github-com-ipfs-shipyard-nopfs-ipfs):
  Likewise.
* gnu/packages/kubernetes.scm (go-go-etcd-io-etcd-client-v3)
  go-go-etcd-io-etcd-pkg-v3, go-go-etcd-io-etcd-server-v3): Likewise.
* gnu/packages/mail.scm (neomutt): Likewise.
* gnu/packages/mpi.scm (openmpi-5): Likewise.
* gnu/packages/protobuf.scm (protobuf-6): Likewise.
* gnu/packages/python-science.scm (python-vaex-core): Likewise.
* gnu/packages/specifications.scm (specification-astropy-data):
  Likewise.
* gnu/packages/taler.scm (taler-docs): Likewise.
* gnu/packages/version-control.scm (libfossil): Likewise.
* gnu/packages/vnc.scm (turbovnc): Likewise.

Merges: https://codeberg.org/guix/guix/pulls/5312
Reviewed-by: Maxim Cournoyer <maxim@guixotic.coop>
Reviewed-by: Cayetano Santos <csantosb@inventati.org>
Reviewed-by: Gabriel Wicki <gabriel@erlikon.ch>
Co-authored-by: Nguyễn Gia Phong <cnx@loang.net>
Signed-off-by: Nguyễn Gia Phong <cnx@loang.net>

* gnu/packages/debug.scm (qemu-for-aflplusplus)[arguments]<#:phases>:
  Add phase set-addr2line-path.

* gnu/packages/debug.scm (aflplusplus): Update to 5.02c.

* gnu/packages/debug.scm (qemu-for-aflplusplus):
  Update to 5.2.50-3.d4a7b70.

* gnu/packages/llvm.scm (libomp, llvm, clang-runtime, clang, clang-toolchain):
Switch to llvm-22 version.
(ocaml-llvm): Use llvm-13.
(wllvm)[native-inputs]: Remove clang; add clang-13.
(emacs-clang-format)[arguments]: Use #:lisp-directory, Adjust configure
phase. Add #:test-command.
* gnu/packages/bioinformatics.scm (alignoth)[native-inputs]: Remove clang; add
clang-13.
(lammps)[inputs]: Remove libomp; add libomp-13.
* gnu/packages/bootloaders.scm (make-grub)[inputs]: Remove clang; add
clang-13.
* gnu/packages/c.scm (libdispatch)[native-inputs]: Remove clang and llvm; add
clang-13 and llvm-13.
* gnu/packages/check.scm (pedansee)[native-inputs]: Remove clang; add
clang-13.
(python-lit)[native-inputs]: Remove llvm; add llvm-13.
* gnu/packages/codex.scm (codex, codex-acp)[native-inputs]: Remove clang; add
clang-13.
* gnu/packages/compression.scm (cmix)[native-inputs]: Remove clang; add
clang-13.
* gnu/packages/cpp.scm (ccls)[native-inputs]: Remove clang and llvm; add
clang-13 and llvm-13.
* gnu/packages/darwin.scm (cctools)[inputs]: Remove clang-toolchain; add
clang-toolchain-13.
[native-inputs]: Remove clang-toolchain; add clang-toolchain-13.
* gnu/packages/debug.scm (c-vise)[inputs]: Remove clang and llvm; add clang-13
and llvm-13.
(fandango)[native-inputs]: Remove clang; add clang-13.
* gnu/packages/diffoscope.scm (diffoscope)[native-inputs]: Remove llvm; add
llvm-13.
* gnu/packages/electronics.scm (nvc)[inputs]: Remove llvm; add llvm-13.
(openroad)[inputs]: Remove libomp; add libomp-13.
* gnu/packages/emacs-xyz.scm (emacs-irony-mode-server)[inputs]: Remove clang;
add clang-13.
* gnu/packages/file-systems.scm (bcachefs-tools-minimal)[native-inputs]:
Remove clang; add clang-13.
* gnu/packages/freedesktop.scm (waypipe)[native-inputs]: Remove clang; add
clang-13.
* gnu/packages/fusion.scm (fusion)[native-inputs]: Remove clang; add clang-13.
* gnu/packages/games.scm (hedgewars)[native-inputs]: Remove clang; add
clang-13.
* gnu/packages/gnome.scm (gnome-builder)[inputs]: Remove clang and llvm; add
clang-13 and llvm-13.
* gnu/packages/gnustep.scm (libobjc2)[inputs]: Remove clang; add clang-13.
* gnu/packages/gnuzilla.scm (mozjs)[native-inputs]: Remove llvm; add llvm-13.
* gnu/packages/graphics.scm (openshadinglanguage)[native-inputs]: Remove clang
and llvm; add clang-13 and llvm-13.
(skia)[native-inputs]: Remove clang-toolchain; add clang-toolchain-13.
(tinygltf)[native-inputs]: Remove clang; add clang-13.
* gnu/packages/kde-sdk.scm (kdevelop)[inputs]: Remove clang; add clang-13.
* gnu/packages/language.scm (liblouis)[native-inputs]: Remove clang; add
clang-13.
* gnu/packages/lean.scm (lean4)[inputs]: Remove llvm; add llvm-13.
* gnu/packages/lisp.scm (carp, picolisp)[inputs]: Remove clang; add clang-13.
* gnu/packages/machine-learning.scm (ctranslate2)[native-inputs]: Remove
libomp; add libomp-13.
* gnu/packages/mail.scm (stalwart)[native-inputs]: Remove clang; add clang-13.
* gnu/packages/maths.scm (python-mathics-core)[inputs]: Remove llvm; add
llvm-13.
* gnu/packages/ocaml.scm (bap)[inputs]: Remove llvm; add llvm-13.
[native-inputs]: Remove clang; add clang-13.
[arguments]: Use this-package-input to get llvm version.
* gnu/packages/photo.scm (darktable)[inputs]: Remove libomp; add libomp-13.
[native-inputs]: Remove llvm; add llvm-13.
(ansel)[native-inputs]: Remove llvm; add llvm-13.
(photoflare)[inputs]: Remove libomp; add libomp-13.
* gnu/packages/physics.scm (cytnx)[inputs]: Remove libomp; add libomp-13.
* gnu/packages/qt.scm (clazy)[inputs]: Remove clang and llvm; add clang-13 and
llvm-13.
* gnu/packages/rust-apps.scm (c2rust, helvum, ouch, pwmenu)
(soundcloud-tui)[native-inputs]: Remove clang; add clang-13.
* gnu/packages/rust-sources.scm (rust-ring-0.17)[native-inputs]: Remove clang;
add clang-13.
* gnu/packages/sequoia.scm (sequoia-chameleon-gnupg)
(sequoia-sq, sequoia-sqv, sequoia-wot-tools)[native-inputs]: Remove clang; add
clang-13.
* gnu/packages/text-editors.scm (parinfer-rust, parinfer-rust-emacs)[inputs]:
Remove clang; add clang-13.
* gnu/packages/virtualization.scm (xen-guest-agent)[native-inputs]: Remove
clang; add clang-13.
* gnu/packages/wm.scm (niri)[inputs]: Remove clang; add clang-13.
* gnu/packages/xorg.scm (xf86-video-vmware)[inputs]: Remove llvm; add llvm-13.
(xwayland-satellite)[inputs]: Remove clang; add clang-13.

Change-Id: Ifb8f13908a9e7112466b2e966200670ddcc2f162

* gnu/packages/debug.scm (delve): Update to 1.27.0.
[native-inputs]: Remove go-github-com-hashicorp-golang-lru, go-golang-org-x-tools,
and go-gopkg-in-yaml-v3; add go-go-yaml-in-yaml-v3.

* gnu/packages/debug.scm: Remove the import (gnu packages lesstif).
* gnu/packages/audio.scm: Replace (gnu packages lesstif)
  to (gnu packages toolkits).
* gnu/packages/emacs-xyz.scm: Likewise.
* gnu/packages/emacs.scm: Likewise.
* gnu/packages/games.scm: Likewise.
* gnu/packages/pdf.scm: Likewise.
* gnu/packages/sml.scm: Likewise.
* gnu/packages/text-editors.scm: Likewise.

Change-Id: Ice777583e827f0f6e990f2d1ad42322f9b59c539
Merges: https://codeberg.org/guix/guix/pulls/8960
Reviewed-by: Liliana Marie Prikler <liliana.prikler@gmail.com>
Signed-off-by: Nguyễn Gia Phong <cnx@loang.net>

* gnu/packages/c.scm:  Remove references to (gnu packages flex).
* gnu/packages/video.scm: Likewise.
* gnu/packages/web.scm: Likewise.
* gnu/packages/admin.scm: Change (gnu packages flex)
  to (gnu packages compiler-tools).
* gnu/packages/algebra.scm: Likewise.
* gnu/packages/apparmor.scm: Likewise.
* gnu/packages/assembly.scm: Likewise.
* gnu/packages/astronomy.scm: Likewise.
* gnu/packages/audio.scm: Likewise.
* gnu/packages/bioinformatics.scm: Likewise.
* gnu/packages/bison.scm: Likewise.
* gnu/packages/bootloaders.scm: Likewise.
* gnu/packages/cdrom.scm: Likewise.
* gnu/packages/chemistry.scm: Likewise.
* gnu/packages/cluster.scm: Likewise.
* gnu/packages/cobol.scm: Likewise.
* gnu/packages/code.scm: Likewise.
* gnu/packages/commencement.scm: Likewise.
* gnu/packages/coq.scm: Likewise.
* gnu/packages/coreboot.scm: Likewise.
* gnu/packages/databases.scm: Likewise.
* gnu/packages/datalog.scm: Likewise.
* gnu/packages/debug.scm: Likewise.
* gnu/packages/dictionaries.scm: Likewise.
* gnu/packages/dns.scm: Likewise.
* gnu/packages/documentation.scm: Likewise.
* gnu/packages/dotnet.scm: Likewise.
* gnu/packages/education.scm: Likewise.
* gnu/packages/electronics.scm: Likewise.
* gnu/packages/embedded.scm: Likewise.
* gnu/packages/emulators.scm: Likewise.
* gnu/packages/engineering.scm: Likewise.
* gnu/packages/esolangs.scm: Likewise.
* gnu/packages/fabric-management.scm: Likewise.
* gnu/packages/file-systems.scm: Likewise.
* gnu/packages/finance.scm: Likewise.
* gnu/packages/firmware.scm: Likewise.
* gnu/packages/flashing-tools.scm: Likewise.
* gnu/packages/fontutils.scm: Likewise.
* gnu/packages/games.scm: Likewise.
* gnu/packages/gcc.scm: Likewise.
* gnu/packages/gdb.scm: Likewise.
* gnu/packages/geo.scm: Likewise.
* gnu/packages/gl.scm: Likewise.
* gnu/packages/glib.scm: Likewise.
* gnu/packages/gnome.scm: Likewise.
* gnu/packages/graph.scm: Likewise.
* gnu/packages/graphics.scm: Likewise.
* gnu/packages/groff.scm: Likewise.
* gnu/packages/gstreamer.scm: Likewise.
* gnu/packages/guile.scm: Likewise.
* gnu/packages/hardware.scm: Likewise.
* gnu/packages/haskell.scm: Likewise.
* gnu/packages/heads.scm: Likewise.
* gnu/packages/hurd.scm: Likewise.
* gnu/packages/image-processing.scm: Likewise.
* gnu/packages/instrumentation.scm: Likewise.
* gnu/packages/kde-frameworks.scm: Likewise.
* gnu/packages/kde-graphics.scm: Likewise.
* gnu/packages/kde-pim.scm: Likewise.
* gnu/packages/kde-sdk.scm: Likewise.
* gnu/packages/kerberos.scm: Likewise.
* gnu/packages/lego.scm: Likewise.
* gnu/packages/lesstif.scm: Likewise.
* gnu/packages/libreoffice.scm: Likewise.
* gnu/packages/lighting.scm: Likewise.
* gnu/packages/linux.scm: Likewise.
* gnu/packages/logging.scm: Likewise.
* gnu/packages/mail.scm: Likewise.
* gnu/packages/man.scm: Likewise.
* gnu/packages/maths.scm: Likewise.
* gnu/packages/mpi.scm: Likewise.
* gnu/packages/multiprecision.scm: Likewise.
* gnu/packages/music.scm: Likewise.
* gnu/packages/netpbm.scm: Likewise.
* gnu/packages/networking.scm: Likewise.
* gnu/packages/nickle.scm: Likewise.
* gnu/packages/ocaml.scm: Likewise.
* gnu/packages/package-management.scm: Likewise.
* gnu/packages/parallel.scm: Likewise.
* gnu/packages/plotutils.scm: Likewise.
* gnu/packages/pretty-print.scm: Likewise.
* gnu/packages/profiling.scm: Likewise.
* gnu/packages/qt.scm: Likewise.
* gnu/packages/radio.scm: Likewise.
* gnu/packages/rdesktop.scm: Likewise.
* gnu/packages/rpc.scm: Likewise.
* gnu/packages/rust.scm: Likewise.
* gnu/packages/security-token.scm: Likewise.
* gnu/packages/selinux.scm: Likewise.
* gnu/packages/shellutils.scm: Likewise.
* gnu/packages/simulation.scm: Likewise.
* gnu/packages/statistics.scm: Likewise.
* gnu/packages/telephony.scm: Likewise.
* gnu/packages/toys.scm: Likewise.
* gnu/packages/version-control.scm: Likewise.
* gnu/packages/virtualization.scm: Likewise.
* gnu/packages/vpn.scm: Likewise.
* gnu/packages/vulkan.scm: Likewise.
* gnu/packages/webkit.scm: Likewise.
* gnu/packages/wine.scm: Likewise.
* gnu/packages/wm.scm: Likewise.
* gnu/packages/xdisorg.scm: Likewise.
* gnu/packages/xorg.scm: Likewise.

Merges: https://codeberg.org/guix/guix/pulls/8483
Signed-off-by: Nguyễn Gia Phong <cnx@loang.net>

* gnu/packages/build-tools.scm (ninja, ninja/pinned, samurai)
  (samu-as-ninja-wrapper): Move to here...
* gnu/packages/ninja.scm (ninja, ninja/pinned, samurai)
  (samu-as-ninja-wrapper): ...from here.  New deprecated variables.
* guix/build-system/cmake.scm (default-ninja):
  Switch to loading from build-tools module.
* guix/build-system/meson.scm (default-ninja): Likewise.

Change-Id: Ia32fb258159cfcc9a0f1ef91c335c71c25a6d7ef
Closes: https://codeberg.org/guix/guix/issues/3595
Merges: https://codeberg.org/guix/guix/pulls/4329
Signed-off-by: Nguyễn Gia Phong <cnx@loang.net>

* gnu/packages/debug.scm (c-vise): Update to 2.8.0.
[native-inputs]: Relocate field, add python-pytest-flake8.
[inputs]: Relocate field, improve style.
[arguments]<#:phases>: Run guix style -S arguments.
In phase 'wrap, filter out native-input paths.
In phase 'hardcode-paths, use explicit "all" and "blank".

Fixes: guix/guix#8233
Change-Id: I1d3bb7c07c648f1bff731b94acc4d51559935303
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>