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2021-10-08gnu: pigx-scrnaseq: Remove dependency on pandoc-citeproc.Lars-Dominik Braun
* gnu/packages/patches/pigx-scrnaseq-no-citeproc.patch: Add patch. * gnu/local.mk: Register it. * gnu/packages/bioinformatics.scm (pigx-scrnaseq)[source]: Use it. [native-inputs]: Add automake/autoconf.
2021-10-08gnu: pigx-rnaseq: Remove dependency on pandoc-citeproc.Lars-Dominik Braun
* gnu/packages/patches/pigx-rnaseq-no-citeproc.patch: Add patch. * gnu/local.mk: Register it. * gnu/packages/bioinformatics.scm (pigx-rnaseq)[source]: Use it. [native-inputs]: Add automake/autoconf.
2021-10-08gnu: pigx-chipseq: Remove dependency on pandoc-citeproc.Lars-Dominik Braun
* gnu/packages/patches/pigx-chipseq-no-citeproc.patch: Add patch. * gnu/local.mk: Register it. * gnu/packages/bioinformatics.scm (pigx-chipseq)[source]: Use it. [native-inputs]: Add automake/autoconf.
2021-10-08gnu: pigx-sars-cov2-ww: Remove dependency on pandoc-citeproc.Lars-Dominik Braun
* gnu/packages/patches/pigx-sars-cov2-ww-no-citeproc.patch: Add patch. * gnu/local.mk: Register it. * gnu/packages/bioinformatics.scm (pigx-sars-cov2-ww)[source]: Use it. [native-inputs]: Add automake/autoconf.
2021-10-08gnu: pigx-bsseq: Remove dependency on pandoc-citeproc.Lars-Dominik Braun
* gnu/packages/patches/pigx-bsseq-no-citeproc.patch: Add patch. * gnu/local.mk: Register it. * gnu/packages/bioinformatics.scm (pigx-bsseq)[source]: Use it. [native-inputs]: Add automake/autoconf.
2021-10-08gnu: ngless: Fix build.Lars-Dominik Braun
Apply upstream patch to restore compatibility with current Stackage. * gnu/packages/patches/ngless-unliftio.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it. * gnu/packages/bioinformatics.scm (ngless): Use it.
2021-10-08gnu: idris: Fix build.Xinglu Chen
Backport some commits from upstream. * gnu/packages/patches/idris-build-with-haskeline-0.8.patch: * gnu/packages/patches/idris-build-with-megaparsec-9.patch: New patches * gnu/local.mk (dist_patch_DATA): Add them. * gnu/packages/idris.scm (idris): Use them. Signed-off-by: Lars-Dominik Braun <lars@6xq.net>
2021-10-08gnu: hedgewars: Fix build.Lars-Dominik Braun
* gnu/packages/patches/hedgewars-network-bsd.patch: Import upstream patch. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/games.scm (hedgewars): Use it.
2021-10-08gnu: cabal-install: Build with GHC 8.10.Lars-Dominik Braun
* gnu/packages/patches/cabal-install-base16-bytestring1.0.patch: New patch. * gnu/packages/patches/cabal-install-ghc8.10.patch: Ditto. * gnu/local.mk (dist_patch_DATA): Add them. * gnu/packages/haskell-apps.scm (cabal-install) [source]: Use them.
2021-10-08gnu: Update Haskell ecosystem.Lars-Dominik Braun
Bump packages’ versions to the lastest Stackage or Hackage release. Since packages are interdependent, do so in a single commit. 525 packages have been updated. These packages have been removed, because they fail to build, have no newer version available and no dependencies: corrode ghc-easytest ghc-edisonapi ghc-edisoncore ghc-pandoc-types ghc-regex-tdfa-text These have been removed, because they are no longer required: ghc-happy-1.19.9 ghc-prettyprinter-1.6 ghc-protolude-0.3 ghc-pandoc-citeproc and pandoc-citeproc have been removed, because pandoc does not use them any more. Co-authored-by: Xinglu Chen <public@yoctocell.xyz>
2021-10-08gnu: ocaml-cairo2: Update to 0.6.2.Julien Lepiller
* gnu/packages/ocaml.scm (ocaml-cairo2): Update to 0.6.2. * gnu/packages/patches/ocaml-cairo2-caml_ba_array-fix.patch: Remove file. * gnu/local.scm (dist_patch_DATA): Remove it.
2021-10-08gnu: ceph: Fix breaking change in snappy.Greg Hogan
* gnu/packages/storage.scm (ceph)[source]: Add patch. * gnu/packages/patches/ceph-fix-snappy-breaking-change.patch: New file. * gnu/local.mk: Add it. Signed-off-by: Marius Bakke <marius@gnu.org>
2021-10-05gnu: php: Patch failing test case.Ryan Sundberg via Guix-patches via
Fixes a failing test case in PHP (Zend/tests/bug74093.phpt). See <https://github.com/php/php-src/pull/7555/files> for upstream status. * gnu/packages/php.scm (php)[source]: Add patch. * gnu/packages/patches/php-bug-74093-test.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
2021-10-04gnu: diffoscope: Update to 186.Tobias Geerinckx-Rice
* gnu/packages/diffoscope.scm (diffoscope): Update to 186. [source]: Add patch. [arguments]: Add a new 'fix-failing-tests phase. Don't explicitly return #t from phases. * gnu/packages/patches/diffoscope-fix-test_item3_deflate_llvm_bitcode.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it.
2021-10-04gnu: libcacard: Update to 2.8.1.Tobias Geerinckx-Rice
* gnu/packages/spice.scm (libcacard): Update to 2.8.1. [source]: Remove patch. * gnu/packages/patches/libcacard-unknown-variable.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
2021-10-03gnu: hexchat: Update to 2.16.0.Tobias Geerinckx-Rice
* gnu/packages/messaging.scm (hexchat): Update to 2.16.0. [source]: Remove patch. [inputs]: Remove libnotify and libproxy. Upgrade python-2 to python@3. Add python-cffi and bash-minimal. [arguments]: Don't explicitly return #t from phases. Add a new 'wrap-program phase.
2021-10-03gnu: ccache: Update to 4.4.2.Tobias Geerinckx-Rice
* gnu/packages/ccache.scm (ccache): Update to 4.4.2. [source]: Remove patch. [arguments]: Substitute nonexistent compgen. * gnu/packages/patches/ccache-fix-basedir-test.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
2021-09-28gnu: sbcl-burgled-batteries3: Fix compiling with sbcl >= 2.1.6.Guillaume Le Vaillant
* gnu/packages/patches/sbcl-burgled-batteries3-fix-signals.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/lisp-xyz.scm (sbcl-burgled-batteries3)[source]: Use it.
2021-09-28gnu: sbcl-png: Fix compiling with sbcl >= 2.1.6.Guillaume Le Vaillant
* gnu/packages/patches/sbcl-png-fix-sbcl-compatibility.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/lisp-xyz.scm (sbcl-png)[source]: Use it.
2021-09-28gnu: ccache: Update to 4.4.1.Tobias Geerinckx-Rice
* gnu/packages/ccache.scm (ccache): Update to 4.4.1. [source]: Add patch. [arguments]: Remove explicit #t return values from phases. * gnu/packages/patches/ccache-fix-basedir-test.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it.
2021-09-27Merge branch 'wip-guix-home'Oleg Pykhalov
2021-09-26gnu: Add patool.Maxim Cournoyer
* gnu/packages/patool.scm: New module. * gnu/local.mk (GNU_SYSTEM_MODULES): Register it.
2021-09-25gnu: Add xgboost.Vinicius Monego
* gnu/packages/machine-learning.scm (xgboost): New variable. * gnu/packages/patches/xgboost-use-system-dmlc-core.patch: New patch. * gnu/local.mk (dist_patch_DATA): Add it. Signed-off-by: Leo Famulari <leo@famulari.name>
2021-09-24gnu: Add NNPACK.Ludovic Courtès
* gnu/packages/machine-learning.scm (nnpack): New variable. * gnu/packages/patches/nnpack-system-libraries.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it.
2021-09-23gnu: ungoogled-chromium: Update to 93.0.4577.82-0.3f62dbc.Marius Bakke
* gnu/packages/patches/ungoogled-chromium-ffmpeg-compat.patch, gnu/packages/patches/ungoogled-chromium-system-nspr.patch: New files. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. * gnu/packages/chromium.scm (%preserved-third-party-files): Adjust for version 93. (%chromium-version): Set to 93.0.4577.82. (%ungoogled-revision): Set to 93.0.4577.82-1-2-g3f62dbc. (%debian-patches): Remove 'system/nspr.patch'. (%ungoogled-origin): Update source hash. (%guix-patches): Add 'ungoogled-chromium-ffmpeg-compat.patch' and 'ungoogled-chromium-system-nspr.patch'. (ungoogled-chromium-snippet): Remove PYTHON-2 usage. Don't unbundle 'snappy'. (libvpx/chromium): Remove variable. (ungoogled-chromium)[source]: Update hash. [arguments]: Add "is_cfi=false", "use_thin_lto=false", and "blink_enable_generated_code_formatting=false". [native-inputs]: Change CLANG-11 to CLANG-12. Change NODE to NODE-LTS. Add PYTHON-BEAUTIFULSOUP4 and PYTHON-HTML5LIB. Remove PYTHON-2. [inputs]: Change LIBVPX/CHROMIUM to LIBVPX.
2021-09-23gnu: LLVM, Clang: Update to 12.0.1.Marius Bakke
* gnu/packages/patches/clang-12-tools-extra-directory.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. * gnu/packages/llvm.scm (llvm-12, clang-runtime-12): Update to 12.0.1. (clang-12): Likewise. Remove obsolete patch.
2021-09-21gnu: ntfs-3g: Update to 2021.8.22 [security fixes].Leo Famulari
The upstream security advisory is named NTFS3G-SA-2021-0001. Fixes CVE-2021-33285, CVE-2021-35269, CVE-2021-35268, CVE-2021-33289, CVE-2021-33286, CVE-2021-35266, CVE-2021-33287, CVE-2021-35267, CVE-2021-39251, CVE-2021-39252, CVE-2021-39253, CVE-2021-39254, CVE-2021-39255, CVE-2021-39256, CVE-2021-39257, CVE-2021-39258, CVE-2021-39259, CVE-2021-39260, CVE-2021-39261, CVE-2021-39262, CVE-2021-39263. For more information: https://seclists.org/oss-sec/2021/q3/139 * gnu/packages/linux.scm (ntfs-3g): Update to 2021.8.22. [source]: Remove obsolete patch. * gnu/packages/patches/ntfs-3g-CVE-2019-9755.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
2021-09-21gnu: patchutils: Update to 0.4.2.Xinglu Chen
* gnu/packages/patchutils.scm (patchutils): Update to 0.4.2. [source]: Remove patch. [inputs]: Add ‘python’. [arguments]<#:phases>: Remove trailing #t. * gnu/local.mk (dist_patch_DATA): Remove patch. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2021-09-13home-services: Add Mcron.Andrew Tropin
* gnu/home-services/mcron.scm: New file. * gnu/local.mk: Add this. * doc/guix.texi: Add documentation about Mcron Home Service. Signed-off-by: Oleg Pykhalov <go.wigust@gmail.com>
2021-09-10gnu: racket: fix `raco exe` with non-minimal RacketPhilip McGrath
This commit backports an upstream repair for a bug exposed by Guix's change in Racket 8.2 to make the `racket` package a layered/tethered installation that chains to the `racket-minimal` package. When using a layered/tethered installation, the `setup/variant` library would fail to recognize the default Racet variant (CS, 3M, or CGC), leading to confusing failures from `raco exe`, `create-embedding-executable`, and other clients. For further details, see <https://issues.guix.gnu.org/50118> and <https://github.com/racket/racket/issues/3969>. * gnu/packages/patches/racket-minimal-backport-1629887.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/racket.scm (racket-minimal)[source]: Use it. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2021-09-09gnu: go-github-com-urfave-cli-v2: Fix tests when building with Go 1.17.Sarah Morgensen
* gnu/packages/patches/go-github-com-urfave-cli-v2-fix-tests.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it. * gnu/packages/golang.scm (go-github-com-urfave-cli-v2)[origin]: Apply it. Signed-off-by: Leo Famulari <leo@famulari.name>
2021-09-09gnu: go-github-com-urfave-cli: Fix tests when building with Go 1.17.Sarah Morgensen
* gnu/packages/patches/go-github-com-urfave-cli-fix-tests.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it. * gnu/packages/golang.scm (go-github-com-urfave-cli)[origin]: Apply it. Signed-off-by: Leo Famulari <leo@famulari.name>
2021-09-09gnu: mailutils: Update to 3.13.Maxim Cournoyer
* gnu/packages/patches/mailutils-fix-uninitialized-variable.patch: Remove patch. * gnu/local.mk (dist_patch_DATA): De-register it. * gnu/packages/mail.scm (mailutils): Update to 3.13. Remove the 2013 --with-sql option TODO comment; if someone needs that, they can send a patch. [source]: Remove above patch. [phases]{prepare-test-suite}: Also patch shell shebang in 'libmailutils/tests/lock.at' and 'imap4d/tests/testclient.c'. [parallel-tests?]: Reinstate parallel tests. [inputs]: Move m4 to... [native-inputs]: ... here. Add the autoconf, automake, gettext and libtool quartet.
2021-09-09home-services: Add Shepherd.Andrew Tropin
* gnu/home-services/shepherd.scm: New file. * gnu/local.mk: Add this. * doc/guix.texi: Add documentation about Shepherd Home Service. Signed-off-by: Oleg Pykhalov <go.wigust@gmail.com>
2021-09-09gnu: local.mk: Tabify.Oleg Pykhalov
* gnu/local.mk (GNU_SYSTEM_MODULES): Normalize to tabs.
2021-09-09home-services: Add utils module.Andrew Tropin
* gnu/home-services/utils.scm (maybe-object->string object->snake-case-string) (object->snake-case-string): New variables. * gnu/local.mk (GNU_SYSTEM_MODULES): Add home-services/utils.scm. Signed-off-by: Oleg Pykhalov <go.wigust@gmail.com>
2021-09-09home: Add home-environment.Andrew Tropin
* gnu/home.scm (home-environment, home-environment?, this-home-environment) (home-environment-derivation, home-environment-user-services) (home-environment-essential-services, home-environment-services) (home-environment-location, home-environment-with-provenance): New variables. * gnu/local.mk (GNU_SYSTEM_MODULES): Add home.scm. Signed-off-by: Oleg Pykhalov <go.wigust@gmail.com>
2021-09-09home-services: Add xdg.Andrew Tropin
* gnu/home-services/xdg.scm (home-xdg-base-directories-service-type) (home-xdg-base-directories-configuration) (home-xdg-base-directories-configuration?) (home-xdg-user-directories-service-type) (home-xdg-user-directories-configuration) (home-xdg-user-directories-configuration?) (xdg-desktop-action, xdg-desktop-entry) (home-xdg-mime-applications-service-type) (home-xdg-mime-applications-configuration): New variables. * gnu/local.mk (GNU_SYSTEM_MODULES): Add home-services/xdg.scm. Signed-off-by: Oleg Pykhalov <go.wigust@gmail.com>
2021-09-09home-services: Add shells.Andrew Tropin
* gnu/home-services/shells.scm (home-shell-profile-service-type, home-shell-profile-configuration) (home-bash-service-type, home-bash-configuration, home-bash-extension) (home-zsh-service-type, home-zsh-configuration, home-zsh-extension) (home-fish-service-type, home-fish-configuration, home-fish-extension): New variables. * gnu/local.mk (GNU_SYSTEM_MODULES): Add home-services/shells.scm. Signed-off-by: Oleg Pykhalov <go.wigust@gmail.com>
2021-09-09home-services: Add helper functions for service configurations.Andrew Tropin
* gnu/home-services/configuration.scm (helper functions): New variables. * gnu/local.mk (GNU_SYSTEM_MODULES): Add home-services/configuration.scm. Signed-off-by: Oleg Pykhalov <go.wigust@gmail.com>
2021-09-09home-services: Add fontutils.Andrew Tropin
* gnu/home-services/fontutils.scm (home-fontconfig-service-type): New variable. * gnu/local.mk (GNU_SYSTEM_MODULES): Add home-services/fontutils.scm. Signed-off-by: Oleg Pykhalov <go.wigust@gmail.com>
2021-09-09home-services: Add symlink-manager.Andrew Tropin
* gnu/home-services/symlink-manager.scm: New file. * gnu/local.mk (GNU_SYSTEM_MODULES): Add home-services/symlink-manager.scm. Signed-off-by: Oleg Pykhalov <go.wigust@gmail.com>
2021-09-09home-services: Add most essential home services.Andrew Tropin
* gnu/home-services.scm (home-service-type, home-profile-service-type) (home-environment-variables-service-type, home-files-service-type) (home-run-on-first-login-service-type, home-activation-service-type): New variables. * gnu/local.mk (GNU_SYSTEM_MODULES): Add home-services.scm. Signed-off-by: Oleg Pykhalov <go.wigust@gmail.com>
2021-09-06gnu: ocaml-ppx-variants-conv: Patch for building with ocaml-ppxlib.Xinglu Chen
The patch will make it build when building it with ocaml-ppxlib@0.23.0. * gnu/packages/patches/ocaml-ppx-variants-ppxlib-api-change.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it. * gnu/packages/ocaml.scm (ocaml-ppx-variants-conv): Apply the patch. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2021-09-05gnu: u-boot-nintendo-nes-classic-edition: Make it actually boot again.Danny Milosavljevic
* gnu/packages/patches/u-boot-nintendo-nes-serial.patch: New file. * gnu/local.mk (dist_patch_DATA): Add u-boot-nintendo-nes-serial.patch. * gnu/packages/bootloaders.scm (u-boot-nintendo-nes-classic-edition): Downgrade to 2018.11. [source]: Add patch. [description]: Modify. [native-inputs]: Add python-2.
2021-09-04gnu: beets: Update to 1.5.0.Lars-Dominik Braun
* gnu/packages/music.scm (beets) [version]: Update to 1.5.0. [#:phases]: Keep testcase, switch to pytest and respect tests?. [native-inputs]: Move plugin dependencies… [inputs]: …here. * gnu/packages/music.scm (beets-next): Mark as deprecated. * gnu/packages/patches/beets-werkzeug-compat.patch: Delete patch. * gnu/local.mk: Deregister it.
2021-09-04gnu: python-mediafile: Update to 0.7.0.Simon Streit
Remove patch. It is now included in upstream release. * gnu/packages/music.scm (python-mediafile): Update to 0.7.0. * gnu/packages/patches/python-mediafile-wavpack.patch: Delete patch. * gnu/local.mk: Deregister it.
2021-09-01gnu: mailutils: Look up Scheme variables in the right module.Ludovic Courtès
Fixes <https://issues.guix.gnu.org/49295>. Reported by Maxime Devos <maximedevos@telenet.be>. * gnu/packages/patches/mailutils-variable-lookup.patch: New file. * gnu/packages/mail.scm (mailutils)[source]: Use it. * gnu/local.mk (dist_patch_DATA): Add it.
2021-08-30build: Build (gnu packages rocm).Ludovic Courtès
This is a followup to df90cb1d5c82cc83a305f6323f867f14e30ce240. * gnu/local.mk (GNU_SYSTEM_MODULES): Add %D%/packages/rocm.scm.
2021-08-30build: Build (gnu system setuid).Ludovic Courtès
This is a followup to 45235e67e4aeac96ad8d60265bef054990aeb425. * gnu/local.mk (GNU_SYSTEM_MODULES): Add %D%/system/setuid.scm.
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