gnu: Remove unused patch.

* gnu/packages/patches/python-flake8-polyfill-flake8-4-compat.patch:
Remove file.
* gnu/local.mk (dist_patch_DATA): Remove it.

gnu: python-debian: Set version to build reproducibly.

* gnu/packages/python-xyz.scm (python-debian)[arguments]: Add 'set-version
  phase.

gnu: offlate: Fix build.

* gnu/packages/python-xyz.scm (offlate)
[phases]{patch-for-pygit2}: New phase.

gnu: python-pygit2: Update to 1.9.2 and enable tests.

* gnu/packages/python-xyz.scm (python-pygit2): Update to 1.9.2.
[tests?]: Delete argument.
[phases]{check}: New phase override.
[description]: Fix sentence.

gnu: python-pygmsh: Update to 7.1.17.

* gnu/packages/simulation.scm (python-pygmsh): Update to 7.1.17.
[source]: Remove snippet and modules fields.
[origin]: Prefix tag by "v".
[phases]: Delete trailing #t.
{workaround-gmsh-detection-failure}: New phase.
{build, install}: New phase overrides.
{check}: Honor tests and remove extraneous add-installed-pythonpath call.
[native-inputs]: Remove wheel.  Add python-pypa-build and python-flit-core.
[propagated-inputs]: Remove python-importlib-metadata.

gnu: python-xunitparser: Update to 1.3.4.

* gnu/packages/python-check.scm (python-xunitparser): Update to 1.3.4.

gnu: nikola: Update to 8.2.2.

* gnu/packages/python-xyz.scm (nikola): Update to 8.2.2.

gnu: electron-cash: Apply new style to inputs and use gexps.

* gnu/packages/finance.scm (electron-cash)[phases]: Use gexps.
[inputs]: Use new style.

gnu: electron-cash: Update to 4.2.10.

* gnu/packages/finance.scm (electron-cash): Update to 4.2.10.

gnu: trezor-agent: Update to 0.14.4.

* gnu/packages/finance.scm (trezor-agent): Update to 0.14.4.
[phases]{relax-requirements}: New phase.

gnu: python-trezor: Add python-hidapi optional dependency.

* gnu/packages/finance.scm (python-trezor)
[propagated-inputs]: Add python-hidapi.

gnu: python-trezor-agent: Delete trailing #t and honor TESTS?.

* gnu/packages/finance.scm (python-trezor-agent)
[phases]: Delete trailing #t.
{check}: Honor TESTS?.  Delete extraneous add-installed-pythonpath call.

gnu: python-trezor: Update to 0.13.0.

* gnu/packages/finance.scm (python-trezor): Update to 0.13.0.
[source]: Delete broken symbolic links in snippet.
[propagated-inputs]: Use python-click-7.
[native-inputs]: Re-order.

gnu: python-flask-restx: Skip networking dependent test.

* gnu/packages/python-web.scm (python-flask-restx)
[phases]{check}: Skip the 'test_redirect' test.

gnu: python-flask-combo-jsonapi: Skip failing test.

* gnu/packages/python-web.scm (python-flask-combo-jsonapi)
[phases]{check}: Skip
test_get_list_with_simple_filter_relationship_custom_qs_api test.
[native-inputs]: Normalize indentation.

gnu: xenon: Update to 0.9.0, rename and relocate.

* gnu/packages/python-xyz.scm (python-xenon): Rename to...
* gnu/packages/code.scm (xenon): ... this.  Update to 0.9.0.
[native-inputs]: Delete field.
[inputs]: New field.
[phases]: Delete argument.
(python-xenon): Mark as deprecated.

gnu: python-flake8: Update to 4.0.1.

* gnu/packages/python-xyz.scm (python-flake8): Update to 4.0.1.
[phases]{check}: Delete extraneous add-installed-pythonpath call.
[propagated-inputs]: Re-indent.
[native-inputs]: Remove python-mock.

gnu: Remove python-flake8-polyfill.

This package is mostly useful for Flake8 version 2 or 3 (see:
https://github.com/PyCQA/flake8-polyfill/pull/14#issuecomment-979161161).

* gnu/packages/python-xyz.scm (python-flake8-polyfill): Delete variable.

gnu: python-pep8-naming: Update to 0.13.0.

* gnu/packages/python-xyz.scm (python-pep8-naming): Update to 0.13.0.
[propagated-inputs]: Remove python-flake8-polyfill.

gnu: python-radon: Update to 5.1.0.

* gnu/packages/python-xyz.scm (python-radon): Update to 5.1.0.
[propagated-inputs]: Remove python-flake8-polyfill.

gnu: install: Add uvesafb service only on targets that support v86d.

Fixes <https://issues.guix.gnu.org/55806>.

* gnu/system/install.scm (%installation-services): Refactor into a
procedure, so that it can capture the system it's installing for.
Conditionally add uvesafb-service-type based on whether v86d is
supported by the target architecture.
(installation-os)[services]: Use the %installation-service procedure.
(uvesafb-shepherd-service): Remove %host-type checks.

Signed-off-by: Florian Pelz <pelzflorian@pelzflorian.de>

gnu: python-flake8-polyfill: Update home-page.

* gnu/packages/python-xyz.scm (python-flake8-polyfill)[home-page]: Update
to new upstream URI.

gnu: python-flake8-polyfill: Honor tests? flag.

* gnu/packages/python-xyz.scm (python-flake8-polyfill)[arguments]:
Adjust custom 'check phase to honor the #:tests? flag.

gnu: python-flake8-polyfill: Fix building with python-flake8@4.

* gnu/packages/python-xyz.scm (python-flake8-polyfill)[source]: Add patch.
* gnu/packages/patches/python-flake8-polyfill-flake8-4-compat.patch: New
file.
* gnu/local.mk (dist_patch_DATA): Register it.

gnu: python-flake8: Update to 4.0.1.

* gnu/packages/python-xyz.scm (python-flake8): Update to 4.0.1.
[source]: Remove snippet.
[arguments]: Respect tests?.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>

gnu: python-pycodestyle: Update to 2.8.0.

* gnu/packages/python-xyz.scm (python-pycodestyle): Update to 2.8.0.
[arguments]: Respect tests?.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>

gnu: Borg: Update to 1.2.1.

* gnu/packages/backup.scm (borg): Update to 1.2.1.

gnu: python-msgpack: Update to 1.0.4.

* gnu/packages/python-xyz.scm (python-msgpack): Update to 1.0.4.

gnu: perl-catalyst-devel: Update to 1.42.

* gnu/packages/web.scm (perl-catalyst-devel): Update to 1.42.

gnu: perl-xml-compile-soap: Update to 3.27.

* gnu/packages/xml.scm (perl-xml-compile-soap): Update to 3.27.
[propagated-inputs]: Replace perl-file-slurp-tiny with perl-file-slurper.

daemon: Quote consistently within a string.

* nix/libstore/build.cc (DerivationGoal::registerOutput): ‘’ → `'.

gnu: sudo: Update to 1.9.11.

* gnu/packages/admin.scm (sudo): Update to 1.9.11.

gnu: guvcview: Update to 2.0.8.

* gnu/packages/video.scm (guvcview): Update to 2.0.8.
[inputs]: Add bdb and libjpeg-turbo.

doc: Remove left-over MIPS.

* doc/guix.texi (Additional Build Options): Substitute aarch64 for MIPS.

gnu: mu: Update to 1.6.11.

* gnu/packages/mail.scm (mu): Update to 1.6.11.

gnu: Mutt: Update to 2.2.6.

* gnu/packages/mail.scm (mutt): Update to 2.2.6.

gnu: virtuoso-ose: Do not embed kernel version and timestamps.

* gnu/packages/databases.scm (virtuoso-ose)[arguments]: Add
  'avoid-embedding-kernel-and-timestamps phase.

gnu: uim: Build reproducibly.

* gnu/packages/xorg.scm (uim)[arguments]: Disable parallel build.

gnu: discrover: Use reproducible timestamps.

* gnu/packages/bioinformatics.scm (discrover)[arguments]: Add
  'set-force-source-date phase.

gnu: perl-term-size-perl: Remove timestamps.

* gnu/packages/perl.sc (perl-term-size-perl)[arguments]: Add
  'remote-timestamps phase.

gnu: itpp: Avoid embedding build dates.

* gnu/packages/maths.scm (itpp): Add 'set-man-page-date and
  'set-force-source-date phases.

services: syslogd: Do not fsync at each line.

Fixes <https://issues.guix.gnu.org/55707>.

Previously Inetutils' syslogd would call 'fsync' after each line written
to a file.  This would significantly increase boot times on machines
with slow-ish spinning HDDs, where each 'fsync' call would take between
0.1s and 0.4s (and we'd do two of them for each line, one for
/var/log/messages and one for /var/log/debug).

* gnu/services/base.scm (%default-syslog.conf): Add a '-' before each
file name, except /var/log/secure.  Change what goes to /var/log/debug.

packages: Use SRFI-71 instead of SRFI-11.

* gnu/packages.scm (%package-module-path): Use 'let*' instead of
'let*-values'.
(specification->package, specification->location)
(specification->package+output): Use 'let' instead of 'let-values'.

packages: Add 'specifications->packages'.

* gnu/packages.scm (specifications->packages): New procedure.
* guix/scripts/home/import.scm (manifest+configuration-files->code): Use it.
* tests/home-import.scm (match-home-environment-no-services)
(match-home-environment-no-services-nor-packages)
(match-home-environment-bash-service)
(match-home-environment-bash-service-with-alias): Adjust 'packages'
field accordingly.

Co-authored-by: Ludovic Courtès <ludo@gnu.org>

gnu: Add python-progress.

* gnu/packages/python-xyz.scm (python-progress): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>

gnu: Add python-canopen.

* gnu/packages/python-xyz.scm (python-canopen): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>

bootloader: grub: Add removable grub-efi bootloader option.

For single-disk installs (external USBs) and for amnesiac UEFIs, Guix is not
found using its default Grub EFI bootloader location of
/boot/efi/EFI/Guix/grubx64.efi means the Guix install will not be found.

To handle this, we can place the bootloader file in the UEFI specification
location, overwriting any other OS that may have placed a file there. This
location is namely /boot/efi/EFI/BOOT/BOOTX64.efi. Grub has explicit support
for this location/situation with the `--removable` flag.

* gnu/bootloader/grub.scm (install-grub-efi-removable)
(grub-efi-removable-bootloader): New variables.
* doc/guix.texi (Bootloader Configuration): Document it.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>

gnu: guile-xapian: Update to 0.2.0.

* gnu/packages/guile-xyz.scm (guile-xapian): Update to 0.2.0.
[source]: Remove modules and snippet setting LD_LIBRARY_PATH.

gnu: python-flake8: Allow building with newer python-pyflakes.

* gnu/packages/python-xyz.scm (python-flake8)[source]: Add snippet to
remove upper bound on dependency python-pyflakes version.

gnu: Add python-labjack.

* gnu/packages/python-xyz.scm (python-labjack): New variable.

gnu: Add python-exodriver.

* gnu/packages/python-xyz.scm (python-exodriver): New variable.

system: Fix typo, add doc.

* gnu/system.scm (operating-system-kernel-arguments): Fix typo in doc.
(boot-parameters->menu-entry): Add doc.

gnu: xsecurelock: Remove input labels.

* gnu/packages/xdisorg.scm (xsecurelock)[inputs]:
Remove input labels.

gnu: xsecurelock: Update setuid example in description.

* gnu/packages/xorg.scm (xsecurelock)[description]: Update example code.

gnu: papirus-icon-theme: Remove input labels.

* gnu/packages/gnome-xyz.scm (papirus-icon-theme)[native-inputs]:
Remove input labels.

gnu: papirus-icon-theme: Update to 20220508.

* gnu/packages/gnome-xyz.scm (papirus-icon-theme): Update to 20220508.

gnu: node: Fix cross-compilation.

* gnu/packages/node.scm (node)[phases]{configure}: Unwind the stack before
invoking the exception handler.
{patch-hardcoded-program-references}: Use search-input-file where appropriate.

gnu: node-lts: Update to 14.19.3.

* gnu/packages/node.scm (node-lts): Update to 14.19.3.
[arguments]: Disable test that requires networking.
[native-inputs]: Replace icu4c-67 with icu4c-70.
[inputs]: Replace icu4c-67 with icu4c-70.

gnu: python-rope: Update to 1.1.1.

* gnu/packages/python-xyz.scm (python-rope): Update to 1.1.1.
[arguments]: Add build phase to disable broken test.
[native-inputs]: Add python-pytest and python-pytest-timeout.
[description]: Remove explicit mention of Python 2.

import: hackage: Filter upper/mixed case dependencies too.

* guix/import/hackage.scm (filter-dependencies): Convert OWN-NAMES
to lowercase before filtering.
(hackage-module->sexp): Remove #f from OWN-NAMES, which is used for
unnamed (default) libraries.
* tests/hackage.scm (test-cabal-internal-library-ignored): Add mismatched
uppercase letters.

import: hackage: Filter internal libraries from inputs and native-inputs.

Fixes <https://issues.guix.gnu.org/54760>.

* guix/import/hackage.scm (filter-dependencies): Support multiple
OWN-NAMES.
(hackage-module->sexp): Filter OWN-NAMES from HACKAGE-DEPENDENCIES and
HACKAGE-NATIVE-DEPENDENCIES.
* tests/hackage.scm (test-cabal-internal-library-ignored): New variable.
("hackage->guix-package test internal libraries are ignored"): New testcase.

import: cabal: Support library names

* guix/import/cabal.scm (make-cabal-parser): Add name to section.
(is-lib): Add optional name to regular expression.
(lex-rx-res): Support selecting different substring.
(lex-lib): Match 2nd substring from IS-LIB.
(lex-line): Adapt to changes for lex-lib.
(cabal-library): Add name field and export CABAL-LIBRARY-NAME.
(eval): Remove special case for 'library, which is not required any more.
(make-cabal-section): Move special case for LIBRARY.
* tests/hackage.scm (test-read-cabal-library-name): New variable.
("read-cabal test 1"): Adapt testcase to changed internal structure.
("read-cabal test: library name"): New testcase.

import: cabal: Document failing syntax through tests.

* tests/hackage.scm (test-read-cabal-brackets-newline): New variable.
(test-cabal-no-final-newline): Likewise.
("hackage->guix-package test without final newline",
"read-cabal test: property brackets on new line"): New tests.

import: cabal: Allow curly bracket before else statement.

* guix/import/cabal.scm (is-else): Turn into procedure.
(lex-line): Move IS-ELSE…
(lex-word): …here.
* tests/hackage.scm (test-cabal-elif-brackets): Extend testcase.

import: cabal: Allow properties without space between key and value.

* guix/import/cabal.scm (lex-word): Add colon to delimiters.
* tests/hackage.scm (test-cabal-property-no-space): New variable.
("hackage->guix-package test properties without space"): New test.

import: cabal: Allow curly brackets in more positions.

* guix/import/cabal.scm (is-layout-property): Do not expect end of line.
(lex-layout-property): Check for newline.
(lex-property): Stop reading on closing curly bracket.
* tests/hackage.scm (test-read-cabal-2): New variable.
("read-cabal test: if brackets on the same line"): New test.

import: cabal: Support elif statement.

Fixes <https://issues.guix.gnu.org/54752>.

* guix/import/cabal.scm (make-cabal-parser): Replace if-then-else grammar case with elif-else, modify if-then accordingly.
(is-elif): New procedure.
(lex-elif): Likewise.
(is-id): Add elif keyword.
(lex-word): Add test for elif.
* tests/hackage.scm (test-cabal-if): New variale.
(test-cabal-else): Likewise.
(test-cabal-elif): Likewise.
(test-cabal-elif-brackets): Likewise.
(match-ghc-elif): Likewise.
("hackage->guix-package test lonely if statement",
"hackage->guix-package test else statement",
"hackage->guix-package test elif statement",
"hackage->guix-package test elif statement with brackets"): New tests.

gnu: aqbanking: Do not embed build date.

* gnu/packages/gnucash.scm (aqbanking)[arguments]: Add
  'use-version-instead-of-date phase.

gnu: timescaledb: Do not embed running kernel version.

* gnu/packages/databases.scm (timescaledb)[arguments]: Add
  'remove-kernel-version phase.

gnu: ncftp: Build reproducibly.

* gnu/packages/patches/ncftp-reproducible.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add patch.
* gnu/packages/ftp.scm (ncftp): Add patch.

gnu: sendmail: Remove timestamps.

* gnu/packages/mail.scm (sendmail)[arguments]: Add 'remove-build-timestamps
  phase.

gnu: autogen: Use reproducible date for man pages.

* gnu/packages/autogen.scm (autogen)[arguments]: Add 'set-man-page-date phase.

gnu: rhino: Remove build timestamps.

* gnu/packages/javascript.scm (rhino)[arguments]: Add 'remove-build-dates
  phase.

gnu: transmission: Do not embed kernel version in user agent.

* gnu/packages/bittorrent.scm (transmission)[arguments]: Add
  'remove-kernel-version phase.

gnu: python-flake8: Update to 3.9.2.

* gnu/packages/python-xyz.scm (python-flake8): Update to 3.9.2.

gnu: emacs-elm-mode: Update to 0.22.0.

This version fixes compilation on Emacs 28.1 (see
https://github.com/jcollard/elm-mode/issues/186).

*  gnu/packages/emacs-xyz.scm (emacs-elm-mode): Update to 0.22.0.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>

services: guix-data-service: Increase timeout for service start.

The guix-data-service system test fails on a slower machine with a one-minute
time limit.

* gnu/services/guix.scm (guix-data-service): Double the #:pid-file-timeout.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>

services: pam-limits: Add sudo and sshd.

* gnu/services/base.scm (pam-limits-service-type): Add "sudo" and "sshd"
to the list.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>

gnu: Add gitlint.

* gnu/packages/version-control.scm (gitlint): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>

gnu: python-sh: Update to 1.14.2.

* gnu/packages/python-xyz.scm (python-sh): Update to 1.14.2.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>

gnu: wpa-supplicant: Install DBus service file.

* gnu/packages/admin.scm (wpa-supplicant)[arguments]: In
'install-dbus-conf' phase, install DBus service file for
dbus-system-services-builder to find.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>

tests: childhurd: Make sure "guix build -d" works.

* gnu/tests/virtualization.scm (run-childhurd-test)
["guix-daemon up and running"]: New test.

tests: childhurd: Generalize command execution over SSH.

* gnu/tests/virtualization.scm (run-childhurd-test)[run-uname-over-ssh]:
Rename to...
[run-command-over-ssh]: ... this.  Add 'command' parameter and honor it.
["SSH up and running"]: Adjust accordingly.

gnu: commencement: Remove unnecessary uses of 'bootstrap-origin'.

* gnu/packages/commencement.scm (gnumach-headers-boot0): Remove
unnecessary 'package-with-bootstrap-guile'.
(hurd-source-boot0): Remove unnecessary 'bootstrap-origin'.

gnu: commencement: Fetch bootstrap tarballs from ftp.gnu.org too.

As a side effect, this ensures those tarballs are eventually archived by
Software Heritage.

* gnu/packages/commencement.scm (tcc-boot0)[source]: Add "mirror://gnu"
URL.
(gnumach-headers-boot0)[source]: Likewise.
(hurd-source-boot0): Likewise.

gnu: Add apricots.

* gnu/packages/games.scm (apricots): New variable.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>

gnu: worklog: Remove duplicated word in description.

* gnu/packages/task-management.scm (worklog)[description]: Remove
  duplicated word.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>

gnu: emacs-ox-gemini: Update to latest commit.

* gnu/packages/emacs-xyz.scm (emacs-ox-gemini): Update to latest commit.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>

gitignore: Add .DS_Store.

Ignore MacOS specific file: https://en.wikipedia.org/wiki/.DS_Store

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>

gnu: python-pyflakes: Update to 2.4.0.

* gnu/packages/python-xyz.scm (python-pyflakes): Update to 2.4.0.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>

gnu: Add python-musical-scales

* gnu/packages/python-xyz.scm (python-musical-scales): New variable.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>

gnu: Add emacs-corfu-doc.

* gnu/packages/emacs-xyz.scm (emacs-corfu-doc): New variable.

Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>

gnu: emacs-corfu: Update to 0.25.

* gnu/packages/emacs-xyz.scm (emacs-corfu): Update to 0.25.

Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>

gnu: gnumeric: Remove input labels.

* gnu/packages/gnome.scm (gnumeric)[native-inputs]:
Remove input labels.

gnu: gnumeric: Update to 1.12.52.

* gnu/packages/gnome.scm (gnumeric): Update to 1.12.52.

gnu: goffice: Update to 0.10.52.

* gnu/packages/gnome.scm (goffice): Update to 0.10.52.

gnu: gnome-autoar: Update to 0.4.3.

* gnu/packages/gnome.scm (gnome-autoar): Update to 0.4.3.

gnu: gnome-mines: Make yelp a regular input.

* gnu/packages/gnome.scm (gnome-mines)[native-inputs]: Move yelp from here…
[inputs]: …to here, as it's a reference of .gnome-mines-real.

gnu: gnome-mines: Remove input labels.

* gnu/packages/gnome.scm (gnome-mines)[native-inputs]:
Remove input labels.

gnu: gnome-mines: Update to 40.1.

* gnu/packages/gnome.scm (gnome-mines): Update to 40.1.