a33ee9bd51
gnu: Add go-github-com-biogo-store-interval.
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* gnu/packages/bioinformatics.scm (go-github-com-biogo-store-interval): New variable.
2022-08-16 16:18:31 +02:00
2b4dcc477b
gnu: Add go-github-com-biogo-graph.
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* gnu/packages/bioinformatics.scm (go-github-com-biogo-graph): New variable.
2022-08-16 16:09:54 +02:00
872e17ddc1
gnu: Add stpipeline.
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* gnu/packages/bioinformatics.scm (stpipeline): New variable.
2022-08-16 15:22:07 +02:00
9c2400c282
gnu: Add python-taggd.
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* gnu/packages/bioinformatics.scm (python-taggd): New variable.
2022-08-16 15:22:07 +02:00
a60412019e
gnu: Add python-sqlitedict.
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* gnu/packages/databases.scm (python-sqlitedict): New variable.
2022-08-16 15:22:06 +02:00
752be79bf3
gnu: htseq: Update to 2.0.2.
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* gnu/packages/bioinformatics.scm (htseq): Update to 2.0.2.
[source]: Fetch from git repository.
[arguments]: Delete 'build phase; run tests with pytest in 'check phase.
[propagated-inputs]: Add python-matplotlib and python-pysam.
[inputs]: Remove python-matplotlib and python-pysam.
[native-inputs]: Add python-pandas, python-pytest, python-scipy, and swig.
[synopsis]: Update.
[description]: Update.
2022-08-16 15:22:06 +02:00
0598b5d143
gnu: emacs-geiser-guile: Update guile input to guile-3.0-latest.
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* gnu/packages/emacs-xyz.scm (emacs-geiser-guile)[inputs]: Update guile to
guile-3.0-latest.
2022-08-16 09:20:45 +03:00
ace7b5babe
gnu: terminals: Deprecate wterm.
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`wterm` no longer works with modern Wayland, and has been unmaintained
since early 2021. See issue #52029 .
* gnu/packages/terminals.scm (wterm): Deprecate in favour of `foot`.
Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2022-08-16 09:21:52 +08:00
302b3cdca3
gnu: python-daemon: Remove unused input.
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* gnu/packages/python-xyz.scm (python-daemon)[native-inputs]: Remove
PYTHON-UNITTEST2.
2022-08-16 00:43:46 +02:00
b38df69c2c
gnu: python-case: Remove unused input.
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* gnu/packages/python-xyz.scm (python-case)[propagated-inputs]: Remove
PYTHON-UNITTEST2.
2022-08-16 00:43:45 +02:00
afdcd03689
gnu: python-posix-ipc: Remove unused input.
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* gnu/packages/python-xyz.scm (python-posix-ipc)[native-inputs]: Remove.
2022-08-16 00:43:45 +02:00
d23a04e52e
gnu: python-pyu2f: Remove unused inputs.
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* gnu/packages/python-crypto.scm (python-pyu2f)[native-inputs]: Remove.
2022-08-16 00:43:45 +02:00
24834c2722
gnu: python-pymysql: Remove unused input.
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* gnu/packages/databases.scm (python-pymysql)[native-inputs]: Remove
PYTHON-UNITTEST2.
2022-08-16 00:43:45 +02:00
715a5efc49
gnu: python-pyclipper: Update to 1.3.0.post3.
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* gnu/packages/python-xyz.scm (python-pyclipper): Update to 1.3.0.post3.
[source](uri): Use tarball instead of zipball.
[source](snippet): Adjust for renamed file.
[arguments]: Likewise.
[propagated-inputs]: Remove.
[native-inputs]: Remove PYTHON-UNITTEST2 and UNZIP. Add PYTHON-SETUPTOOLS-SCM.
2022-08-16 00:43:45 +02:00
90ec03cae3
gnu: python-ufo2ft: Add missing input.
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* gnu/packages/fontutils.scm (python-ufo2ft)[native-inputs]: Add
PYTHON-SETUPTOOLS-SCM.
2022-08-16 00:43:44 +02:00
46b3fb82f8
gnu: python-afdko: Add missing input.
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* gnu/packages/fontutils.scm (python-afdko)[native-inputs]: Add
PYTHON-SETUPTOOLS-SCM.
2022-08-16 00:43:44 +02:00
b74744fee6
gnu: python-ufoprocessor: Add missing input.
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* gnu/packages/fontutils.scm (python-ufoprocessor)[native-inputs]: Add
PYTHON-SETUPTOOLS-SCM.
2022-08-16 00:43:44 +02:00
5f2c529a59
gnu: python-fontparts: Add missing input.
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* gnu/packages/fontutils.scm (python-fontparts-bootstrap)[native-inputs]: Add
PYTHON-SETUPTOOLS-SCM.
2022-08-16 00:43:44 +02:00
a038bfc481
gnu: python-booleanoperations: Add missing input.
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* gnu/packages/graphics.scm (python-booleanoperations)[native-inputs]: Add
PYTHON-SETUPTOOLS-SCM.
2022-08-16 00:43:44 +02:00
faea55669f
gnu: python-mando: Update to 0.7.1.
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* gnu/packages/python-xyz.scm (python-mando): Update to 0.7.1.
[arguments]: Override check phase.
2022-08-16 00:43:44 +02:00
46cb02c7cb
gnu: python-radon: Permit newer versions of mando.
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* gnu/packages/python-xyz.scm (python-radon)[arguments]: Add setup.py
substitution.
2022-08-16 00:43:44 +02:00
389ae75a37
gnu: python-lz4: Update to 4.0.2.
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* gnu/packages/python-compression.scm (python-lz4): Update to 4.0.2.
[native-inputs]: Remove PYTHON-NOSE. Add PYTHON-PKGCONFIG and PYTHON-PSUTIL.
[arguments]: Override check phase.
2022-08-16 00:43:43 +02:00
7e0116740b
gnu: python-mypy: Update to 0.971.
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* gnu/packages/patches/python-mypy-12332.patch,
gnu/packages/patches/python-mypy-use-sys-path.patch: Delete files.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
* gnu/packages/python-check.scm (python-mypy): Update to 0.971.
[source](patches): Remove.
[arguments]: Skip one test.
2022-08-16 00:43:43 +02:00
1e969dafb7
gnu: libreoffice: Remove obsolete workaround.
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* gnu/packages/libreoffice.scm (libreoffice)[arguments]: Don't pass LDFLAGS.
2022-08-16 00:43:43 +02:00
97386910fb
gnu: encodings: Update to 1.0.6.
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* gnu/packages/xorg.scm (encodings): Update to 1.0.6.
2022-08-14 02:00:54 +02:00
73eca39df7
gnu: mu: Update to 1.8.9.
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* gnu/packages/mail.scm (mu): Update to 1.8.9.
[arguments]: Adjust the 'patch-bin-references phase accordingly.
2022-08-14 02:00:00 +02:00
c3c2dfdb5e
gnu: plink-ng: Build sources from 2.0 directory
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* gnu/packages/bioinformatics.scm (plink-ng)[arguments]: Disable tests; adjust
make flags; enter 2.0 directory in 'chdir phase; replace 'install phase.
[inputs]: Add zstd:lib.
2022-08-15 18:08:20 +02:00
d248d8b519
gnu: rnnoise: Remove input labels.
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* gnu/packages/xiph.scm (rnnoise)[native-inputs]:
Remove input labels.
2022-08-14 02:00:01 +02:00
2388d2d3f7
gnu: rnnoise: Unhide and rename variable.
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* gnu/packages/xiph.scm (xiph-rnnoise): Rename to…
(rnnoise): …this. Adjust all users.
[properties]: Remove HIDDEN? property as it is no longer ambiguous.
2022-08-14 02:00:01 +02:00
2790d118b2
gnu: noise-suppression-for-voice: Rename from ‘rnnoise’.
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This is a set of plug-ins *based on* Xiph's rnnoise package (also in Guix).
* gnu/packages/pulseaudio.scm (rnnoise): Rename this variable…
(noise-suppression-for-voice): …to this.
[noisetorch](inputs): Adjust its only user.
2022-08-14 02:00:01 +02:00
8e82a70a4f
gnu: noisetorch: Update to 0.12.2.
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* gnu/packages/pulseaudio.scm (noisetorch): Update to 0.12.2.
[source]: Switch to maintained fork.
[arguments]: Update all ‘paths’ accordingly. Rename 'symlink-rnnoise
phase to 'copy-rnnoise-library and do so. Remove 'gen-version.go phase.
Don't explicitly return #f from phases.
[home-page]: Update to match SOURCE.
2022-08-14 02:00:01 +02:00
39b77ed3aa
gnu: openvpn: Update to 2.5.7.
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* gnu/packages/vpn.scm (openvpn): Update to 2.5.7.
2022-08-14 02:00:01 +02:00
0d92088d5c
gnu: nftables: Update to 1.0.5.
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* gnu/packages/linux.scm (nftables): Update to 1.0.5.
2022-08-14 02:00:01 +02:00
4985043c7c
gnu: libnftnl: Update to 1.2.3.
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* gnu/packages/linux.scm (libnftnl): Update to 1.2.3.
2022-08-14 02:00:00 +02:00
ab34425e53
gnu: bird: Update to 2.0.10.
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* gnu/packages/networking.scm (bird): Update to 2.0.10.
2022-08-14 02:00:00 +02:00
3ee8a17eff
gnu: catfish: Update to 4.16.4.
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* gnu/packages/xfce.scm (catfish): Update to 4.16.4.
2022-08-14 02:00:00 +02:00
367b045c55
gnu: libupnp: Update to 1.14.13.
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* gnu/packages/upnp.scm (libupnp): Update to 1.14.13.
2022-08-14 02:00:00 +02:00
25e9bb05da
gnu: os-prober: Update to 1.81.
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* gnu/packages/bootloaders.scm (os-prober): Update to 1.81.
2022-08-14 02:00:00 +02:00
de29a26008
guile-fibers: Backport the ‘epoll instance is dead’ bugfix.
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This fixes some indeterministic test failures for gnunet-scheme observed while
developing gnunet-scheme. The following checks were made:
All dependents compile for x86_64:
$ ./pre-inst-env guix build shepherd gnunet-scheme guix-build-coordinator nar-herder guix-data-service guile-fibers --system=x86_64-linux
Everything except guix-build-coordinator (which depends on the
non-cross-compilable sqitch) cross-compile from x86_64 to aarch64-linux-gnu:
$ ./pre-inst-env guix build shepherd gnunet-scheme nar-herder guile-fibers --system=x86_64-linux --target=aarch64-linux-gnu
I tried testing for reproducibility but the check phase took to long.
However, you can compare the hash you get against the hash I got:
$ ./pre-inst-env guix hash --serializer=nar $(./pre-inst-env guix build guile-fibers --no-grafts --system=x86_64-linux) 0qsaqx27b6q2s22h7y93417ijpkwl6gc1fhhck8aha6bvmawk5h0
I tried an emulated build for another architecture, but there the tests took
overly long.
There were no lint warnings for guile-fibers.
* gnu/packages/patches/guile-fibers-epoll-instance-is-dead.patch: New patch.
* gnu/local.mk (dist_patch_DATA): Register the patch.
* gnu/packages/guile-xyz.scm (guile-fibers)[source]{patches}: Use the patch.
Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
2022-08-15 15:51:27 +02:00
3084fc28fd
Revert "gnu: python-lxml: Update to 4.6.5."
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This reverts commit 2365e8435ahttps://ci.guix.gnu.org/eval/543158 .
2022-08-15 15:45:46 +02:00
9ddd37d6ab
gnu: Add kissat.
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* gnu/packages/maths.scm (kissat): New variable.
Signed-off-by: Liliana Marie Prikler <liliana.prikler@gmail.com>
2022-08-15 15:15:11 +02:00
2365e8435a
gnu: python-lxml: Update to 4.6.5.
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* gnu/packages/xml.scm (python-lxml): Update to 4.6.5.
2022-08-15 14:48:41 +02:00
d8537c68d0
gnu: Add python-robotframework-sshtunnellibrary.
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* gnu/packages/python-xyz.scm (python-robotframework-sshtunnellibrary): New variable.
2022-08-15 08:30:14 -04:00
21f1a47097
gnu: Add python-sshtunnel.
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* gnu/packages/python-xyz.scm (python-sshtunnel): New variable.
2022-08-15 08:30:14 -04:00
0e53328a8a
gnu: torsocks: Wrap lines.
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* gnu/packages/tor.scm (torsocks)[source, arguments]: Wrap long lines
and remove a trailing #t.
2022-08-15 11:21:22 +02:00
ae549cf48f
gnu: torsocks: Update to 2.4.0.
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* gnu/packages/tor.scm (torsocks): Update to 2.4.0.
[native-inputs]: Add autoconf, automake, libtool because torsocks releases
no longer pre-run autogen.sh.
[synopsis, description]: Clarify that applications do not need to be
socks-aware to be used with torsocks.
Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
2022-08-15 11:20:28 +02:00
6b2d29a6f5
Revert "gnu: python-lsp-server: Update to 1.5.0."
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This reverts commit 07f807f12c
2022-08-15 11:08:05 +02:00
2e88164023
gnu: r-tweenr: Build reproducibly.
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* gnu/packages/cran.scm (r-tweenr)[arguments]: Add phase 'build-reproducibly
to avoid embedding random time difference.
2022-08-15 11:01:35 +02:00
f6709ee234
gnu: emacs-org-re-reveal: Update to 3.15.0.
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* gnu/packages/emacs-xyz.scm (emacs-org-re-reveal): Update to 3.15.0.
2022-08-15 10:32:18 +02:00
82fbb54207
gnu: asymptote: Update to 2.82.
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* gnu/packages/plotutils.scm (asymptote): Update to 2.82.
2022-08-15 10:29:16 +02:00
Ricardo Wurmus
Andrew Tropin
(
Marius Bakke
Tobias Geerinckx-Rice
Maxime Devos
Mathieu Othacehe
Maximilian Heisinger
Danny Milosavljevic
Maxim Cournoyer
Jim Newsome
Nicolas Goaziou