2bf6f659c4
gnu: Add java-pj.
...
* gnu/packages/java.scm (java-pj): New variable.
2023-04-29 20:09:33 +02:00
4837210129
gnu: r-dearseq: Update to 1.12.0.
...
* gnu/packages/bioconductor.scm (r-dearseq): Update to 1.12.0.
2023-04-29 20:09:33 +02:00
8f93a53a4c
gnu: r-damefinder: Update to 1.12.0.
...
* gnu/packages/bioconductor.scm (r-damefinder): Update to 1.12.0.
2023-04-29 20:09:33 +02:00
01ba2a24d2
gnu: r-dama: Update to 1.72.0.
...
* gnu/packages/bioconductor.scm (r-dama): Update to 1.72.0.
2023-04-29 20:09:33 +02:00
9b305554a3
gnu: r-cummerbund: Update to 2.42.0.
...
* gnu/packages/bioconductor.scm (r-cummerbund): Update to 2.42.0.
2023-04-29 20:09:33 +02:00
6233b26d1d
gnu: r-coverageview: Update to 1.38.0.
...
* gnu/packages/bioconductor.scm (r-coverageview): Update to 1.38.0.
2023-04-29 20:09:33 +02:00
f869abfae3
gnu: r-cardelino: Update to 1.2.0.
...
* gnu/packages/bioconductor.scm (r-cardelino): Update to 1.2.0.
2023-04-29 20:09:33 +02:00
084e990d2f
gnu: r-breakpointr: Update to 1.18.0.
...
* gnu/packages/bioconductor.scm (r-breakpointr): Update to 1.18.0.
2023-04-29 20:09:33 +02:00
cb191936d8
gnu: r-biocgenerics: Update to 0.46.0.
...
* gnu/packages/bioconductor.scm (r-biocgenerics): Update to 0.46.0.
2023-04-29 20:09:33 +02:00
3b302bdf35
gnu: r-biocversion: Update to 3.17.1.
...
* gnu/packages/bioconductor.scm (r-biocversion): Update to 3.17.1.
2023-04-29 20:09:33 +02:00
ae85652e4b
gnu: r-barcodetrackr: Update to 1.8.0.
...
* gnu/packages/bioconductor.scm (r-barcodetrackr): Update to 1.8.0.
2023-04-29 20:09:33 +02:00
41bff44b32
gnu: r-banocc: Update to 1.24.0.
...
* gnu/packages/bioconductor.scm (r-banocc): Update to 1.24.0.
2023-04-29 20:09:33 +02:00
c6d14bd6fb
gnu: r-bandits: Update to 1.16.0.
...
* gnu/packages/bioconductor.scm (r-bandits): Update to 1.16.0.
2023-04-29 20:09:33 +02:00
7bce4cdacb
gnu: r-bambu: Update to 3.2.0.
...
* gnu/packages/bioconductor.scm (r-bambu): Update to 3.2.0.
2023-04-29 20:09:33 +02:00
4f4d38cc4d
gnu: r-badregionfinder: Update to 1.28.0.
...
* gnu/packages/bioconductor.scm (r-badregionfinder): Update to 1.28.0.
2023-04-29 20:09:33 +02:00
e10c8fe41a
gnu: r-bader: Update to 1.38.0.
...
* gnu/packages/bioconductor.scm (r-bader): Update to 1.38.0.
2023-04-29 20:09:33 +02:00
ff5191816e
gnu: r-basespacer: Update to 1.44.0.
...
* gnu/packages/bioconductor.scm (r-basespacer): Update to 1.44.0.
2023-04-29 20:09:33 +02:00
bc466e59b8
gnu: r-baalchip: Update to 1.26.0.
...
* gnu/packages/bioconductor.scm (r-baalchip): Update to 1.26.0.
2023-04-29 20:09:32 +02:00
14191d89a7
gnu: r-awst: Update to 1.8.0.
...
* gnu/packages/bioconductor.scm (r-awst): Update to 1.8.0.
2023-04-29 20:09:32 +02:00
d12336de7d
gnu: r-awfisher: Update to 1.14.0.
...
* gnu/packages/bioconductor.scm (r-awfisher): Update to 1.14.0.
2023-04-29 20:09:32 +02:00
ed2578b585
gnu: r-attract: Update to 1.52.0.
...
* gnu/packages/bioconductor.scm (r-attract): Update to 1.52.0.
2023-04-29 20:09:32 +02:00
36aa29a62f
gnu: r-atsnp: Update to 1.16.0.
...
* gnu/packages/bioconductor.scm (r-atsnp): Update to 1.16.0.
2023-04-29 20:09:32 +02:00
9f61c365a4
gnu: r-atena: Update to 1.6.0.
...
* gnu/packages/bioconductor.scm (r-atena): Update to 1.6.0.
[propagated-inputs]: Remove r-scales.
2023-04-29 20:09:32 +02:00
7751b88692
gnu: r-asset: Update to 2.18.0.
...
* gnu/packages/bioconductor.scm (r-asset): Update to 2.18.0.
2023-04-29 20:09:32 +02:00
32b0da7762
gnu: r-assessorf: Update to 1.18.0.
...
* gnu/packages/bioconductor.scm (r-assessorf): Update to 1.18.0.
2023-04-29 20:09:32 +02:00
0968cf8f55
gnu: r-aspli: Update to 2.10.0.
...
* gnu/packages/bioconductor.scm (r-aspli): Update to 2.10.0.
2023-04-29 20:09:32 +02:00
ba469d4674
gnu: r-asics: Update to 2.16.0.
...
* gnu/packages/bioconductor.scm (r-asics): Update to 2.16.0.
2023-04-29 20:09:32 +02:00
d3ae3e616e
gnu: r-asgsca: Update to 1.34.0.
...
* gnu/packages/bioconductor.scm (r-asgsca): Update to 1.34.0.
2023-04-29 20:09:32 +02:00
e1e75eec31
gnu: r-aseb: Update to 1.44.0.
...
* gnu/packages/bioconductor.scm (r-aseb): Update to 1.44.0.
2023-04-29 20:09:32 +02:00
4a5f8cede6
gnu: r-asafe: Update to 1.26.0.
...
* gnu/packages/bioconductor.scm (r-asafe): Update to 1.26.0.
2023-04-29 20:09:32 +02:00
5329b80aa1
gnu: r-arrayexpress: Update to 1.60.0.
...
* gnu/packages/bioconductor.scm (r-arrayexpress): Update to 1.60.0.
[propagated-inputs]: Remove r-xml; add r-httr, r-jsonlite, and r-rlang.
2023-04-29 20:09:32 +02:00
0e88aa5b07
gnu: r-antiprofiles: Update to 1.40.0.
...
* gnu/packages/bioconductor.scm (r-antiprofiles): Update to 1.40.0.
2023-04-29 20:09:32 +02:00
b77e71f07c
gnu: r-annmap: Update to 1.42.0.
...
* gnu/packages/bioconductor.scm (r-annmap): Update to 1.42.0.
2023-04-29 20:09:32 +02:00
18ad546d0a
gnu: r-anf: Update to 1.22.0.
...
* gnu/packages/bioconductor.scm (r-anf): Update to 1.22.0.
2023-04-29 20:09:32 +02:00
099340458b
gnu: r-aneufinder: Update to 1.28.0.
...
* gnu/packages/bioconductor.scm (r-aneufinder): Update to 1.28.0.
[propagated-inputs]: Remove r-reordercluster.
2023-04-29 20:09:32 +02:00
8e5e97293d
gnu: r-altcdfenvs: Update to 2.62.0.
...
* gnu/packages/bioconductor.scm (r-altcdfenvs): Update to 2.62.0.
2023-04-29 20:09:32 +02:00
55f6d75cdb
gnu: r-alpsnmr: Update to 4.2.0.
...
* gnu/packages/bioconductor.scm (r-alpsnmr): Update to 4.2.0.
2023-04-29 20:09:32 +02:00
dec3658f6b
gnu: r-alpine: Update to 1.25.0.
...
* gnu/packages/bioconductor.scm (r-alpine): Update to 1.25.0.
2023-04-29 20:09:32 +02:00
19636f0341
gnu: r-alphabeta: Update to 1.14.0.
...
* gnu/packages/bioconductor.scm (r-alphabeta): Update to 1.14.0.
2023-04-29 20:09:32 +02:00
76ffa191be
gnu: r-alevinqc: Update to 1.16.0.
...
* gnu/packages/bioconductor.scm (r-alevinqc): Update to 1.16.0.
2023-04-29 20:09:32 +02:00
769af4fda7
gnu: r-aldex2: Update to 1.32.0.
...
* gnu/packages/bioconductor.scm (r-aldex2): Update to 1.32.0.
2023-04-29 20:09:32 +02:00
87932885ea
gnu: r-anvil: Update to 1.12.0.
...
* gnu/packages/bioconductor.scm (r-anvil): Update to 1.12.0.
2023-04-29 20:09:32 +02:00
fd5e94f6df
gnu: r-annotationhubdata: Update to 1.30.0.
...
* gnu/packages/bioconductor.scm (r-annotationhubdata): Update to 1.30.0.
2023-04-29 20:09:32 +02:00
6027d657bd
gnu: r-animalcules: Update to 1.16.0.
...
* gnu/packages/bioconductor.scm (r-animalcules): Update to 1.16.0.
2023-04-29 20:09:32 +02:00
71b23bf5e1
gnu: r-ancombc: Update to 2.2.0.
...
* gnu/packages/bioconductor.scm (r-ancombc): Update to 2.2.0.
2023-04-29 20:09:32 +02:00
1f753b82c1
gnu: r-anaquin: Update to 2.24.0.
...
* gnu/packages/bioconductor.scm (r-anaquin): Update to 2.24.0.
2023-04-29 20:09:32 +02:00
ab79d3a4b8
gnu: r-amaretto: Update to 1.16.0.
...
* gnu/packages/bioconductor.scm (r-amaretto): Update to 1.16.0.
2023-04-29 20:09:31 +02:00
4b2295bd4f
gnu: r-amplican: Update to 1.21.0.
...
* gnu/packages/bioconductor.scm (r-amplican): Update to 1.21.0.
2023-04-29 20:09:31 +02:00
a49b8d3be0
gnu: r-amountain: Update to 1.26.0.
...
* gnu/packages/bioconductor.scm (r-amountain): Update to 1.26.0.
2023-04-29 20:09:31 +02:00
945ed79525
gnu: r-airpart: Update to 1.8.0.
...
* gnu/packages/bioconductor.scm (r-airpart): Update to 1.8.0.
2023-04-29 20:09:31 +02:00
02a34b10b6
gnu: r-aims: Update to 1.32.0.
...
* gnu/packages/bioconductor.scm (r-aims): Update to 1.32.0.
2023-04-29 20:09:31 +02:00
47024dae6e
gnu: r-agimicrorna: Update to 2.50.0.
...
* gnu/packages/bioconductor.scm (r-agimicrorna): Update to 2.50.0.
2023-04-29 20:09:31 +02:00
a8730669b5
gnu: r-adductomicsr: Update to 1.16.0.
...
* gnu/packages/bioconductor.scm (r-adductomicsr): Update to 1.16.0.
2023-04-29 20:09:31 +02:00
89c4664ac7
gnu: r-agilp: Update to 3.32.0.
...
* gnu/packages/bioconductor.scm (r-agilp): Update to 3.32.0.
2023-04-29 20:09:31 +02:00
0174fb6d49
gnu: r-aggregatebiovar: Update to 1.10.0.
...
* gnu/packages/bioconductor.scm (r-aggregatebiovar): Update to 1.10.0.
2023-04-29 20:09:31 +02:00
626b010f1a
gnu: r-agdex: Update to 1.48.0.
...
* gnu/packages/bioconductor.scm (r-agdex): Update to 1.48.0.
2023-04-29 20:09:31 +02:00
9baa783e63
gnu: r-affyrnadegradation: Update to 1.46.0.
...
* gnu/packages/bioconductor.scm (r-affyrnadegradation): Update to 1.46.0.
2023-04-29 20:09:31 +02:00
78b3727b60
gnu: r-affyplm: Update to 1.76.0.
...
* gnu/packages/bioconductor.scm (r-affyplm): Update to 1.76.0.
2023-04-29 20:09:31 +02:00
f862832e36
gnu: r-affylmgui: Update to 1.74.0.
...
* gnu/packages/bioconductor.scm (r-affylmgui): Update to 1.74.0.
2023-04-29 20:09:31 +02:00
99e827e67c
gnu: r-affyilm: Update to 1.52.0.
...
* gnu/packages/bioconductor.scm (r-affyilm): Update to 1.52.0.
2023-04-29 20:09:31 +02:00
457938bbb0
gnu: r-affixcan: Update to 1.18.0.
...
* gnu/packages/bioconductor.scm (r-affixcan): Update to 1.18.0.
2023-04-29 20:09:31 +02:00
624498f085
gnu: r-adsplit: Update to 1.70.0.
...
* gnu/packages/bioconductor.scm (r-adsplit): Update to 1.70.0.
2023-04-29 20:09:31 +02:00
4690ee5805
gnu: r-adimpute: Update to 1.10.0.
...
* gnu/packages/bioconductor.scm (r-adimpute): Update to 1.10.0.
2023-04-29 20:09:31 +02:00
bf29af41c9
gnu: r-adamgui: Update to 1.16.0.
...
* gnu/packages/bioconductor.scm (r-adamgui): Update to 1.16.0.
2023-04-29 20:09:31 +02:00
02c3985ecf
gnu: r-adam: Update to 1.16.0.
...
* gnu/packages/bioconductor.scm (r-adam): Update to 1.16.0.
2023-04-29 20:09:31 +02:00
331bb1ea91
gnu: r-adacgh2: Update to 2.40.0.
...
* gnu/packages/bioconductor.scm (r-adacgh2): Update to 2.40.0.
2023-04-29 20:09:31 +02:00
ef9b160820
gnu: r-absseq: Update to 1.54.0.
...
* gnu/packages/bioconductor.scm (r-absseq): Update to 1.54.0.
2023-04-29 20:09:31 +02:00
da4fbf5604
gnu: r-abarray: Update to 1.68.0.
...
* gnu/packages/bioconductor.scm (r-abarray): Update to 1.68.0.
2023-04-29 20:09:31 +02:00
06986a86ad
gnu: r-missmethyl: Update to 1.34.0.
...
* gnu/packages/bioconductor.scm (r-missmethyl): Update to 1.34.0.
2023-04-29 20:09:31 +02:00
d6acf4de78
gnu: r-shiny: Update to 1.7.4.
...
* gnu/packages/cran.scm (r-shiny): Update to 1.7.4.
2023-04-29 20:09:31 +02:00
9b03d78000
gnu: r-glimma: Update to 2.10.0.
...
* gnu/packages/bioconductor.scm (r-glimma): Update to 2.10.0.
[source]: Delete minified JavaScript files.
[arguments]: Add 'process-javascript phase.
[native-inputs]: Add esbuild.
2023-04-29 20:09:31 +02:00
9619504c81
gnu: r-reportingtools: Update to 2.39.0.
...
* gnu/packages/bioconductor.scm (r-reportingtools): Update to 2.39.0.
[source]: Delete minified JavaScript files.
[arguments]: Add 'process-javascript phase.
[native-inputs]: Add source code for jquery 1.8.0.
2023-04-29 20:09:31 +02:00
91204fc357
gnu: Add r-densvis.
...
* gnu/packages/bioconductor.scm (r-densvis): New variable.
2023-04-29 20:09:31 +02:00
921ee8789d
gnu: r-with-tests: Update to 4.3.0.
...
* gnu/packages/statistics.scm (r-with-tests): Update to 4.3.0.
[arguments]: Move 'set-timezone before 'configure.
2023-04-29 20:09:30 +02:00
3676e312aa
gnu: libpotassco: Unbundle catch.
...
This patch incidentally fixes a build failure caused by the bundled catch.
* gnu/packages/potassco.scm (libpotassco)[source]: Unbundle catch.
[native-inputs]: Add catch2-1.
2023-04-29 10:28:39 +02:00
4884ee6dd4
gnu: libexpected: Update to 1.1.0.
...
* gnu/packages/patches/libexpected-use-provided-catch2.patch: Add new patch.
* gnu/packages/patches/libexpected-nofetch.patch: Remove unused patch.
* gnu/local.mk (dist_patch_DATA): Register changes.
* gnu/packages/cpp.scm (libexpected): Update to 1.1.0, and use new patch.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-04-28 21:13:36 +02:00
8a8bd15bfa
gnu: fwupd: Update to 1.8.14.
...
* gnu/packages/firmware.scm (fwupd): Update to 1.8.14. Also, change two
files' timestamp because they are zipped up by Python.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-04-28 21:04:03 +02:00
87ba11eff1
gnu: maven-embedder: Fix build.
...
* gnu/packages/maven (maven-embedder)[arguments]:
Add the'add-sisu-shebang phase after unpack.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-04-28 21:02:54 +02:00
1a93ff9a8b
gnu: maven-core-bootstrap: Fix build.
...
* gnu/packages/maven (maven-core-bootstrap)[arguments]:
Add the'add-sisu-shebang phase after unpack.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-04-28 21:02:54 +02:00
3d2ce30f6b
gnu: maven-resolver-provider: Fix build.
...
* gnu/packages/maven (maven-resolver-provider)[arguments]:
Add the'add-sisu-shebang phase after unpack.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-04-28 21:02:54 +02:00
04f9ac0cfa
gnu: maven-model-builder: Fix build.
...
* gnu/packages/maven (maven-model-builder)[arguments]:
Add the'add-sisu-shebang phase after unpack.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-04-28 21:02:54 +02:00
c0a0cec87f
gnu: maven-settings-builder: Fix build.
...
* gnu/packages/maven (maven-settings-builder)[arguments]:
Add the'add-sisu-shebang phase after unpack.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-04-28 21:02:54 +02:00
06277d8070
gnu: Fix supercollider.
...
Message-Id: <f67786eb958a65ba778f67a8f443fa3d24293438.1682453413.git.gabriel@erlikon.ch>
From: Gabriel Wicki <gabriel@erlikon.ch>
Date: Tue, 25 Apr 2023 22:03:03 +0200
Subject: [PATCH 1/2] gnu: Fix supercollider.
* gnu/packages/audio.scm (supercollider): Fix the build.
[configure-flags] Re-enable DLIBSCSYNTH.
[phases] New phase fix-struct-SOUNDFILE-tag.
[inputs] Add ruby and python to appease the build process.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-04-28 19:52:41 +02:00
aecc6e7058
gnu: dovecot: Fix build.
...
* gnu/packages/mail.scm (dovecot)[source]: Add patch for OpenSSL v3.
* gnu/packages/patches/dovecot-opensslv3.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
2023-04-28 09:33:03 +08:00
e42117bfc9
gnu: mumble: Update to 1.4.287, fix build.
...
* gnu/packages/telephony.scm (mumble): Update to 1.4.287.
[inputs]: Use openssl-1.1.
2023-04-28 08:56:48 +08:00
7193b8f9fd
gnu: python-ipy: Update to 1.01.
...
* gnu/packages/networking.scm (python-ipy): Update to 1.01.
2023-04-28 08:36:37 +08:00
b8b3af93da
gnu: ncdu-1: Update to 1.18.1.
...
* gnu/packages/ncdu.scm (ncdu-1): Update to 1.18.1.
2023-04-27 22:19:10 +03:00
4d42fbd371
gnu: sleef: Adjust inputs.
...
* gnu/packages/maths.scm (sleef)[inputs]: Replace openssl with openssl-1.1;
remove mpfr.
[arguments]: Remove custom phase 'make-git-checkout-writable; use G-expression
for configure-flags.
2023-04-27 21:07:15 +02:00
ecb4f4d015
gnu: gloo: Use OpenSSL 1.1.
...
* gnu/packages/machine-learning.scm (gloo)[inputs]: Use openssl-1.1 instead of
openssl.
2023-04-27 20:58:26 +02:00
688d99282b
gnu: yubico-piv-tool: Update to 2.3.1.
...
* gnu/packages/security-token.scm (yubico-piv-tool): Update to 2.3.1.
[source]: Fetch from Github repository.
[build-system]: Use cmake-build-system.
2023-04-27 20:55:25 +02:00
d59b4764f3
gnu: Add cl-prompter.
...
* gnu/packages/lisp-xyz.scm (cl-prompter, ecl-prompter, sbcl-prompter): New variables.
2023-04-27 17:50:38 +02:00
297805b1f8
gnu: python-docutils-0.15: Add missing input.
...
* gnu/packages/python-xyz.scm (python-docutils-0.15)[native-inputs]: Add
python-setuptools-57.
2023-04-27 16:32:47 +02:00
5775bbdd4b
gnu: gdcm: Disable dependent tests.
...
* gnu/packages/bioinformatics.scm (gdcm)[arguments]: Disable tests that depend
on the output of a disabled test.
2023-04-27 16:23:22 +02:00
fa685c87ea
gnu: freebayes: Update to 1.3.7.
...
* gnu/packages/bioinformatics.scm (freebayes): Update to 1.3.7.
[arguments]: Do not use "grep -P" in tests; drop trailing #T.
2023-04-27 11:40:09 +02:00
133957f7bb
gnu: vcflib: Use libwfa2.pc.
...
* gnu/packages/bioinformatics.scm (vcflib)[source]: Use pkg-config to look for
libwfa2.
[inputs]: Move wfa2-lib from here...
[propagated-inputs]: ...to here.
[arguments]: Drop WFA_LINK_LIBRARIES option; fix typo in build phase name;
patch IntervalTree.h includes; add libwfa2 to pkg-config file.
2023-04-27 11:38:16 +02:00
479f2558fe
gnu: wfa2-lib: Install pkg-config file.
...
* gnu/packages/bioinformatics.scm (wfa2-lib)[arguments]: Install libwfa2.pc.
2023-04-27 11:37:36 +02:00
9d82c475a3
gnu: express: Adjust bamtools location.
...
* gnu/packages/bioinformatics.scm (express)[arguments]: Modify location of
libbamtools.so in 'use-shared-boost-libs-and-set-bamtools-paths; drop trailing
#T.
2023-04-27 09:25:26 +02:00
f196b3b7a5
gnu: python-tinycss2: Simplify.
...
* gnu/packages/python-web.scm (python-tinycss2)[build-system]: Use
pyproject-build-system.
[arguments]: Remove.
2023-04-27 09:11:05 +02:00
0dc7f773fd
gnu: python-openapi-core: Add missing input.
...
* gnu/packages/python-web.scm (python-openapi-core)[build-system]: Use
pyproject-build-system.
[arguments]: Do not override 'check phase; specify #:test-flags.
[native-inputs]: Add python-mock.
2023-04-27 08:43:29 +02:00
d8fe2e4735
gnu: libwebsockets: Update to 4.3.2.
...
* gnu/packages/web.scm (libwebsockets): Update to 4.3.2.
[arguments]: Remove.
[source]: Use GIT-FILE-NAME.
2023-04-27 08:06:13 +02:00
db19e30673
gnu: python-google-cloud-storage: Add missing input.
...
* gnu/packages/python-web.scm (python-google-cloud-storage)[native-inputs]:
Add python-mock.
2023-04-27 06:53:37 +02:00
40451d0f2d
gnu: python-google-resumable-media: Add missing input.
...
* gnu/packages/python-web.scm (python-google-resumable-media)[native-inputs]:
Add python-mock.
2023-04-27 06:53:12 +02:00
cec543e70f
gnu: python-aws-xray-sdk: Update to 2.12.0.
...
* gnu/packages/python-web.scm (python-aws-xray-sdk): Update to 2.12.0.
[build-system]: Use pyproject-build-system.
[arguments]: Specify #:test-flags; do not override 'check phase; add
'pre-check phase.
[native-inputs]: Add python-httpx, python-mock, python-pytest-asyncio, and
python-pytest-benchmark.
2023-04-27 06:48:27 +02:00
e5619147d4
gnu: python-httpx: Update to 0.24.0.
...
* gnu/packages/python-web.scm (python-httpx): Update to 0.24.0.
[build-system]: Use pyproject-build-system.
[arguments]: Remove custom check phase in favor of specifying #:test-flags.
[native-inputs]: Add python-hatchling and python-hatch-fancy-pypi-readme.
(python-httpx-bootstrap)[native-inputs]: Add python-hatchling and
python-hatch-fancy-pypi-readme.
2023-04-27 06:37:23 +02:00
3b19fc1801
gnu: python-httpcore: Update to 0.17.0.
...
* gnu/packages/python-web.scm (python-httpcore): Update to 0.17.0.
[build-system]: Use pyproject-build-system.
[arguments]: Remove custom check phase; specify #:test-flags; disable broken
tests.
2023-04-27 06:36:19 +02:00
f95498c92e
gnu: python-h11: Update to 0.14.0.
...
* gnu/packages/python-web.scm (python-h11): Update to 0.14.0.
[build-system]: Use pyproject-build-system.
[arguments]: Remove.
2023-04-27 06:35:38 +02:00
e1ca411852
gnu: python-wsproto: Update to 1.2.0.
...
* gnu/packages/python-web.scm (python-wsproto): Update to 1.2.0.
[build-system]: Use pyproject-build-system.
[arguments]: Remove.
2023-04-27 06:34:57 +02:00
bb385f2472
gnu: python-dendropy: Fix build.
...
* gnu/packages/bioinformatics.scm (python-dendropy)[native-inputs]: Add
python-pytest.
[arguments]: Add phase 'python-compatibility; remove 'skip-broken-tests; add
#:test-flags; do not delete test files.
[build-system]: Use pyproject-build-system.
2023-04-26 22:53:26 +02:00
4ea332cd50
gnu: python-watchgod: Update to 0.8.1.
...
* gnu/packages/python-xyz.scm (python-watchgod): Update to 0.8.1.
[build-system]: Use pyproject-build-system.
[arguments]: Specify #:test-flags instead of overwriting 'check phase.
[native-inputs]: Add python-anyio.
2023-04-26 22:52:05 +02:00
18786ae502
gnu: python-fastjsonschema: Use pyproject-build-system.
...
* gnu/packages/python-xyz.scm (python-fastjsonschema): Reindent.
[build-system]: Use pyproject-build-system.
[arguments]: Remove custom check phase; update comment on why tests are
disabled.
2023-04-26 22:12:32 +02:00
182fbbb009
gnu: python-rapidjson: Update to 1.10.
...
* gnu/packages/python-web.scm (python-rapidjson): Update to 1.10.
[source]: Simplify snippet.
[arguments]: Run tests conditionally; do not delete test files.
2023-04-26 22:11:07 +02:00
00cf71df80
gnu: rapidjson: Update to 1.1.0-1.949c771.
...
* gnu/packages/patches/rapidjson-gcc-compat.patch: Remove file.
* gnu/local.mk (dist_patch_DATA): Remove it.
* gnu/packages/web.scm (rapidjson): Update to 1.1.0-1.949c771.
[source]: Remove obsolete patch.
2023-04-26 22:09:06 +02:00
abda97b645
gnu: python-multiprocess: Update to 0.70.14.
...
* gnu/packages/python-xyz.scm (python-multiprocess): Update to 0.70.14.
[build-system]: Use pyproject-build-system.
[arguments]: Adjust directory containing tests; disable two more tests;
replace check phase instead of deleting and adding it; run tests
conditionally.
2023-04-26 21:33:02 +02:00
95fdd862d0
gnu: python-dill: Update to 0.3.6.
...
* gnu/packages/python-xyz.scm (python-dill): Update to 0.3.6.
[build-system]: Use pyproject-build-system.
[arguments]: Run tests conditionally; drop trailing #T from build phase.
2023-04-26 21:33:02 +02:00
d12ad4105a
gnu: python-jupyterlab-widgets: Update to 1.1.4.
...
* gnu/packages/jupyter.scm (python-jupyterlab-widgets): Update to 1.1.4.
[build-system]: Use pyproject-build-system.
2023-04-26 21:33:02 +02:00
faa4485b52
gnu: python-fire: Add missing input.
...
* gnu/packages/python-xyz.scm (python-fire)[native-inputs]: Add python-mock.
2023-04-26 21:33:02 +02:00
d38bdca344
gnu: gitg: Fix build.
...
* gnu/packages/patches/gitg-fix-positional-argument.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it here.
* gnu/packages/gnome.scm (gitg)[source]<patches>: Use it here.
2023-04-26 20:52:33 +02:00
d7e489d6e0
gnu: gnome-2048: Fix build.
...
* gnu/packages/patches/gnome-2048-fix-positional-argument.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it here.
* gnu/packages/games.scm (gnome-2048)[source]<patches>: Use it here.
2023-04-26 20:52:32 +02:00
e86851ccb3
gnu: python-umap-learn: Patch for sklearn/numpy compatibility.
...
* gnu/packages/machine-learning.scm (python-umap-learn)[arguments]: Add phase
'numpy-compatibility.
2023-04-26 18:34:46 +02:00
5bfce83dc4
gnu: python-tables: Build cython files from source.
...
* gnu/packages/python-xyz.scm (python-tables)[source]: Remove generated C
files.
[arguments]: Remove trailing #T from build phases; use G-expression; override
library directories.
[inputs]: Add c-blosc and lzo.
2023-04-26 17:01:08 +02:00
2d883cbd6d
gnu: python-bokeh: Add missing input.
...
* gnu/packages/python-xyz.scm (python-bokeh)[native-inputs]: Add python-mock.
2023-04-26 16:39:10 +02:00
41ba9df6ba
gnu: python-tornado: Run a lot more tests and fix collections.
...
* gnu/packages/python-web.scm (python-tornado)[arguments]: Do run tests; add
phase 'fix-collections.
2023-04-26 16:11:11 +02:00
81ec8eba91
gnu: nikola: Add input.
...
* gnu/packages/python-xyz.scm (nikola)[propagated-inputs]: Add python-toml.
2023-04-26 15:56:30 +02:00
1f7d1125a3
gnu: cl-mock: Update to 1.1.0-0.01762fd.
...
* gnu/packages/lisp-xyz.scm (sbcl-cl-mock): Update to 1.1.0-0.01762fd.
[arguments]: Build cl-mock and cl-mock-basic systems.
[inputs]: Add sbcl-bordeaux-threads.
Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
2023-04-26 15:08:15 +02:00
8d217f1e22
gnu: cl-fast-ecs: Update to 0.2.2.
...
* gnu/packages/lisp-xyz.scm (sbcl-cl-fast-ecs): Update to 0.2.2.
[native-inputs]: Add sbcl-chlorophyll, sbcl-cl-mock.
Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
2023-04-26 15:08:15 +02:00
870f2d40e0
gnu: Add cl-chlorophyll.
...
* gnu/packages/lisp-xyz.scm (cl-chlorophyll, ecl-chlorophyll,
sbcl-chlorophyll): New variables.
Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
2023-04-26 15:08:15 +02:00
e129321f13
gnu: cl-nclasses: Update to 0.4.0.
...
gnu/packages/lisp-xyz.scm (sbcl-nclasses): Update to 0.4.0.
Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
2023-04-26 15:08:15 +02:00
62fed3b874
gnu: flwrap: Update to 1.3.6.
...
* gnu/packages/radio.scm (flwrap): Update to 1.3.6.
2023-04-26 15:08:15 +02:00
bfbe2a518d
gnu: pdf2djvu: Update to 0.9.19.
...
* gnu/packages/djvu.scm (pdf2djvu): Update to 0.9.19.
2023-04-26 15:08:15 +02:00
f858704e7c
gnu: xonsh: Add missing input.
...
Xonsh vim emulation mode/environment variable does not work without this.
* gnu/packages/shell.scm (xonsh)[inputs]: Add PYTHON-PROMPT-TOOLKIT.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2023-04-26 14:56:55 +02:00
9d12ce6fa4
gnu: plocate: Update to 1.1.18.
...
* gnu/packages/search.scm (plocate): Update to 1.1.18.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2023-04-26 14:49:08 +02:00
2dc87d8dcf
gnu: emacs-vertico: Update to 1.3.
...
* gnu/packages/emacs-xyz.scm (emacs-vertico): Update to 1.3.
2023-04-26 14:49:08 +02:00
3856ca96fc
gnu: Add emacs-lojban.
...
* gnu/packages/emacs-xyz.scm (emacs-lojban): New variable.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2023-04-26 14:49:07 +02:00
c3509c2148
gnu: valgrind: Update to 3.20.0.
...
* gnu/packages/valgrind.scm (valgrind): Update to 3.20.0. Remove patch.
[arguments]<phases>: Remove trailing #t.
* gnu/packages/patches/valgrind-enable-arm.patch: Delete file.
* gnu/packages/valgrind.scm (dist_patch_DATA): Unregister patch.
Signed-off-by: Andreas Enge <andreas@enge.fr>
2023-04-26 14:34:23 +02:00
50dcd1acd7
gnu: lz4: Remove valgrind from native-inputs.
...
* gnu/compression.scm (lz4)[native-inputs]: Remove valgrind.
[arguments]<phases>: Remove trailing #t.
Signed-off-by: Andreas Enge <andreas@enge.fr>
2023-04-26 14:34:08 +02:00
399e1b8e01
gnu: python-ipykernel: Fix build.
...
* gnu/packages/python-xyz.scm (python-ipykernel)[build-system]: Use
pyproject-build-system.
[arguments]: Use pyproject-build-system modules; add build phase
'hide-zmq-deprecation-warnings.
2023-04-26 13:33:30 +02:00
4ef9fbcc35
gnu: python-jupyter-client: Disable one test.
...
* gnu/packages/python-xyz.scm (python-jupyter-client)[arguments]: Begrudgingly
disable one failing test, because there is no information on why it fails.
2023-04-26 11:44:45 +02:00
cc79caccee
gnu: python-jupyter-client-bootstrap: Hide zmq deprecation warning.
...
* gnu/packages/python-xyz.scm (python-jupyter-client-bootstrap)[arguments]:
Add phase 'hide-zmq-deprecation-warning.
2023-04-26 11:44:45 +02:00
358428c1ec
gnu: python-jupyter-client-bootstrap: Use pyproject-build-system.
...
* gnu/packages/python-xyz.scm (python-jupyter-client-bootstrap)[build-system]:
Use pyproject-build-system.
2023-04-26 11:44:45 +02:00
5409ae48af
gnu: python-distributed: Fix build.
...
* gnu/packages/python-science.scm (python-distributed)[build-system]: Use
pyproject-build-system.
[arguments]: Hide deprecation warnings from tornado, because they break almost
all tests; disable three more tests.
2023-04-26 11:17:41 +02:00
2bf96f2d9e
gnu: cppcheck: Update to 2.10.3.
...
* gnu/packages/check.scm (cppcheck): Update to 2.10.3.
[home-page]: Update to new home-page.
2023-04-26 10:51:52 +03:00
8720e22fd0
gnu: cppcheck: Skip failing test.
...
* gnu/packages/patches/check.scm (cppcheck)[source]: Add patch.
* gnu/packages/patches/cppcheck-disable-char-signedness-test.patch: New
file.
* gnu/local.mk (dist_patch_DATA): Register it.
2023-04-26 10:51:44 +03:00
ff4e463ddc
gnu: graphviz: Remove version 2.38.
...
This is a follow-up to commit 370cb92eaa
2023-04-26 09:40:16 +02:00
8093c6ba21
gnu: lcov: Update to 1.16.
...
* gnu/packages/code.scm (lcov): Update to 1.16.
2023-04-25 23:43:05 +02:00
9fcd51280f
gnu: perl-io-compress: Update to 2.204.
...
* gnu/packages/perl-compression.scm (perl-io-compress): Update to 2.204.
2023-04-25 23:43:05 +02:00
70acf8b23a
gnu: perl-compress-raw-bzip2: Update to 2.204.
...
* gnu/packages/perl-compression.scm (perl-compress-raw-bzip2): Update to
2.204.
2023-04-25 23:43:05 +02:00
6ea4228442
gnu: perl-compress-raw-zlib: Update to 2.204.
...
* gnu/packages/perl-compression.scm (perl-compress-raw-zlib): Update to
2.204.
[arguments]: Remove.
2023-04-25 23:43:05 +02:00
e287a0e402
gnu: gnutls: Don't embed a phase inside another phase.
...
* gnu/packages/tls.scm (gnutls)[arguments]: Adjust powerpc-linux phase
'increase-test-timeout to not be embedded inside another phase.
2023-04-25 23:32:17 +03:00
ccf64b6a8b
gnu: mpdevil: Add missing input.
...
* gnu/packages/mpd.scm (mpdevil)[native-inputs]: Add gettext-minimal.
2023-04-25 23:08:45 +03:00
aeda325cf1
gnu: presage: Build with c++-14.
...
* gnu/packages/fcitx.scm (presage)[arguments]: Adjust configure-flags to
use c++-14 cor CFLAGS and CXXFLAGS.
2023-04-25 23:01:56 +03:00
97323e5262
gnu: libpst: Fix python detection.
...
* gnu/packages/mail.scm (libpst)[arguments]: Add a phase to detect newer
versions of python3.
[native-inputs]: Add autoconf, automake, gettext-minimal, libool.
2023-04-25 22:52:29 +03:00
72b1c9713b
gnu: perl-data-dumper: Update to 2.183.
...
* gnu/packages/perl.scm (perl-data-dumper): Update to 2.183.
2023-04-25 21:18:36 +02:00
4598928a90
gnu: cwltool: Use pyproject-build-system.
...
"setup.py install is deprecated. Use build and pip and other standards-based
tools." It then falls back to attempting to install packages via pip.
* gnu/packages/bioinformatics.scm (cwltool)[build-system]: Use
pyproject-build-system.
2023-04-25 21:18:36 +02:00
92a903499b
gnu: python-schema-salad: Use pyproject-build-system.
...
The python-build-system fails with "setuptools.installer is
deprecated. Requirements should be satisfied by a PEP 517 installer." This,
in turn, causes all Python packages to be ignored and "pip install" to be
invoked for them.
* gnu/packages/bioinformatics.scm (python-schema-salad)[build-system]: Use
pyproject-build-system.
2023-04-25 21:18:35 +02:00
2ec69787aa
gnu: gfeeds: Add missing gettext-minimal.
...
* gnu/packages/syndication.scm (gfeeds)[inputs]: Add gettext-minimal.
2023-04-25 21:09:13 +02:00
30a252760f
gnu: syndication-domination: Update to 1.0-1-7592032.
...
* gnu/packages/syndication.scm (syndication-domination): Update to
1.0-1-7592032.
2023-04-25 21:09:13 +02:00
ff777165cb
gnu: evolution: Update to 3.46.4.
...
* gnu/packages/gnome.scm (evolution): Update to 3.46.4.
2023-04-25 21:09:13 +02:00
916df2b9eb
gnu: evolution-data-server: Update to 3.46.4.
...
* gnu/packages/gnome.scm (evolution-data-server): Update to 3.46.4.
2023-04-25 21:09:12 +02:00
5a1b246736
gnu: adapterremoval: Update to 2.3.3.
...
* gnu/packages/bioinformatics.scm (adapterremoval): Update to 2.3.3.
[arguments]: Simplify.
[inputs]: Reformat.
2023-04-25 19:46:29 +02:00
d67b8788b3
gnu: ocaml-lwt: Add ocaml4.07 variant.
...
* gnu/packages/ocaml.scm (ocaml-lwt)[properties]: New field.
(ocaml4.07-lwt): New variable.
2023-04-25 20:42:22 +03:00
52f6ccef82
gnu: perl-crypt-openssl-rsa: Update to 0.33.
...
* gnu/packages/tls.scm (perl-crypt-openssl-rsa): Update to 0.33.
2023-04-25 20:42:22 +03:00
fc80efe1a0
gnu: bedtools-2.18: Fix build.
...
* gnu/packages/bioinformatics.scm (bedtools-2.18)[arguments]: Fix operators in
'compatibility phase.
2023-04-25 19:41:05 +02:00
f2e90d6f43
gnu: hisat: Build with GCC 10.
...
* gnu/packages/bioinformatics.scm (hisat)[native-inputs]: Add gcc-10.
2023-04-25 19:30:43 +02:00
0a4fa99b39
gnu: kallisto: Update to 0.48.0.
...
* gnu/packages/bioinformatics.scm (kallisto): Update to 0.48.0.
[arguments]: Remove trailing #T from build phase.
2023-04-25 19:28:42 +02:00
7ae5325bf1
gnu: bpp-core: Build with GCC 10.
...
* gnu/packages/bioinformatics.scm (bpp-core)[native-inputs]: Add gcc-10.
2023-04-25 19:12:57 +02:00
2c09cc19e6
gnu: vcflib: Update to 1.0.9.
...
* gnu/packages/bioinformatics.scm (vcflib): Update to 1.0.9.
[source]: Update snippet.
[inputs]: Add curl, pybind11, and wfa2-lib.
[arguments]: Adjust and reformat.
2023-04-25 19:10:19 +02:00
4ad51f5914
gnu: tabixpp: Update to 1.1.2.
...
* gnu/packages/bioinformatics.scm (tabixpp): Update to 1.1.2.
[source]: Simplify snippet.
[inputs]: Add curl.
[arguments]: Simplify and reformat.
2023-04-25 19:10:19 +02:00
8664c6230e
gnu: Add wfa2-lib.
...
* gnu/packages/bioinformatics.scm (wfa2-lib): New variable.
2023-04-25 19:10:18 +02:00
8c5ba69d6e
gnu: biber: Fix build with new Perl.
...
* gnu/packages/patches/biber-adapt-perl-5.36.patch: Backport patch from
upstream's 760e6e4ec08a3097f7e6136331541a7b8c1c9df7.
* gnu/packages/tex.scm (biber): Use it.
* gnu/local.mk (dist_patch_DATA): Register it.
Signed-off-by: Andreas Enge <andreas@enge.fr>
2023-04-25 18:42:22 +02:00
74038cf66e
gnu: gcc: Do not build gcov on MinGW.
...
* gnu/packages/gcc.scm (gcc-configure-flags-for-triplet): Disable gcov when
targetting mingw.
Co-authored-by: Ludovic Courtès <ludo@gnu.org>
2023-04-25 17:20:19 +02:00
7f0fbd0463
gnu: nerd-dictation: Add package variants.
...
* gnu/packages/machine-learning.scm (nerd-dictation)[inputs]: Remove.
(nerd-dictation-gexp): New procedure.
(nerd-dictation/xdotool, nerd-dictation/sox-xdotool)
(nerd-dictation/sox-ydotool, nerd-dictation/sox-wtype): New variables
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-04-25 17:19:21 +02:00
9be1ee6a49
services: tor: Deprecate 'tor-hidden-service' procedure.
...
Due to (now renamed) 'hidden-service' record type not being exported, the only
way Onion services (formely hidden services) could have worked is through the
now deprecated 'tor-hidden-service' procedure.
This commit updates the Tor service documentation, corrects some inconsistently
named accessors in <tor-configuration> record-type, renames and refactors
tor-hidden-service-configuration to tor-onion-service-configuration using
define-configuration and also exports it, allowing Onion services to be
configured directly within a <tor-configuration> record.
Lastly, it also deprecates the 'tor-hidden-service' procedure.
* doc/guix.texi (Networking Services): Substitute mentions of “Hidden services”
with “Onion Services”. Add a Tor Onion service configuration example.
Document <tor-onion-service-configuration>. Remove mention of
'tor-hidden-service' procedure.
* gnu/services/networking.scm: Export tor-configuration-tor,
tor-configuration-config-file, tor-configuration-hidden-services,
tor-configuration-socks-socket-type, tor-configuration-control-socket-path,
tor-onion-service-configuration, tor-onion-service-configuration?,
tor-onion-service-configuration-name, tor-onion-service-configuration-mapping.
(<tor-configuration>)[control-socket?]: Rename accessor.
(<hidden-service>): Replace with …
(<tor-onion-service-configuration>): … this.
(tor-configuration->torrc): Update record-type name.
(tor-activation): Ditto.
(tor-hidden-service-type): Remove variable.
(tor-hidden-service): Deprecate procedure.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-04-25 17:19:21 +02:00
c354a345b9
gnu: ghc-8.10: Avoid testsuite timeouts on i686.
...
* gnu/packages/haskell.scm (ghc-8.10)[arguments]: Add new phase
'skip-failing-tests-i686-cuirass.
2023-04-25 16:54:57 +02:00
3a37e3ecd8
gnu: lofreq: Set file timestamps to 1980s.
...
This keeps Python from complaining: "ZIP does not support timestamps before
1980".
* gnu/packages/bioinformatics.scm (lofreq)[arguments]: Add build phase
'set-source-file-times-to-1980.
2023-04-25 16:17:49 +02:00
0ad4a4d155
gnu: lofreq: Drop input labels.
...
* gnu/packages/bioinformatics.scm (lofreq)[inputs]: Drop package labels.
2023-04-25 16:17:49 +02:00
1fca85cd88
gnu: ivar: Update to 1.4.2.
...
* gnu/packages/bioinformatics.scm (ivar): Update to 1.4.2.
[arguments]: Remove -Werror flag.
2023-04-25 16:17:49 +02:00
f69f346289
gnu: propeller-gcc-4: Use MODIFY-INPUTS.
...
* gnu/packages/embedded.scm (propeller-gcc-4)[native-inputs]: Use
MODIFY-INPUTS and drop package label.
2023-04-25 16:17:49 +02:00
b9162199b3
gnu: propeller-gcc-4: Use G-expression.
...
* gnu/packages/embedded.scm (propeller-gcc-4)[arguments]: Use G-expression
because the parent GCC package uses them too.
2023-04-25 16:17:49 +02:00
b380fbca88
gnu: trurl: Correct inputs.
...
* gnu/packages/curl.scm (trurl): Replace non-existant input curl-7.84.0 by
curl, which is version 7.85.0.
2023-04-25 15:21:05 +02:00
c919bfefd9
Merge remote-tracking branch 'origin/master' into core-updates
2023-04-25 15:19:29 +02:00
472706ae2f
gnu: python-asyncssh: Update to 2.13.1.
...
Includes fix for python-cryptography>=39 disallowing SHA-1 signatures,
which caused the testsuite to fail.
* gnu/packages/ssh.scm (python-asyncssh): Update to 2.13.1.
2023-04-25 14:27:14 +02:00
0daa747de2
gnu: alacritty: Patch reference to xdg-open.
...
* gnu/packages/terminals.scm (alacritty)[arguments]: Add a phase to add
an absolute reference to xdg-open.
[inputs]: Add xdg-utils.
2023-04-25 14:06:14 +03:00
95787ffaa2
gnu: emacs-eshell-syntax-highlighting: Update to 0.5.
...
* gnu/packages/emacs-xyz.scm (emacs-eshell-syntax-highlighting): Update to 0.5.
2023-04-25 11:47:52 +02:00
c9c4fea7c5
gnu: nethack: Update to 3.6.7.
...
* gnu/packages/games.scm (nethack): Update to 3.6.7.
2023-04-25 11:47:51 +02:00
11f078a1fb
gnu: Add trurl.
...
* gnu/packages/curl.scm (trurl): New variable.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2023-04-25 11:47:51 +02:00
26cdc7be84
gnu: emacs-auctex: Update to 13.2.0.
...
* gnu/packages/emacs-xyz.scm (emacs-auctex): Update to 13.2.0.
2023-04-25 11:47:51 +02:00
af3daff5ea
gnu: Add emacs-xonsh-mode.
...
* gnu/packages/emacs-xyz.scm (emacs-xonsh-mode): New variable.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2023-04-25 11:47:51 +02:00
ce0bdceb49
gnu: python-importlib-resources: Update to 5.12.0.
...
* gnu/packages/python-xyz.scm (python-importlib-resources): Update to 5.12.0.
[build-system]: Use pyproject-build-system.
[arguments]: Add phase to avoid "pip install".
[native-inputs]: Remove python-toml; add python-flake8, python-pytest,
python-pytest-black, python-pytest-checkdocs, python-pytest-cov,
python-pytest-enabler, python-pytest-flake8, python-pytest-mypy, and
python-setuptools-57.
[propagated-inputs]: Add python-zipp.
2023-04-25 11:32:10 +02:00
8a5b6d5382
gnu: guix-build-coordinator: Update to 0-79.6a4e827.
...
* gnu/packages/package-management.scm (guix-build-coordinator): Update to
0-79.6a4e827.
2023-04-25 10:25:55 +01:00
a50f0dc5ca
gnu: schismtracker: Update to 20221201.
...
* gnu/packages/music.scm (schismtracker): Update to 20221201.
[source]: Convert snippet to gexp.
[arguments]: Convert to gexp, add configure flags for FLAC and Wayland
support.
[inputs]: Remove libx11, libxext, and sdl; add flac and sdl2.
Signed-off-by: Christopher Baines <mail@cbaines.net>
2023-04-25 10:25:55 +01:00
54771a5b6a
gnu: python-anyio: Upgrade to 3.6.2.
...
* gnu/packages/python-xyz.scm (python-anyio): Upgrade to 3.6.2.
2023-04-25 11:08:32 +02:00
e619750d00
Revert "gnu: python-pytest-trio: Update to 0.8.0."
...
Not compatible with python-trio 0.8.
This reverts commit 27a4bfbd07
2023-04-25 11:08:30 +02:00
27e1451891
gnu: python-trio: Downgrade to 0.21.
...
Version 0.22 deprecates MultiError, which trips up testsuites of
dependents. python-anyio for instance is explicitly not compatible with >=
0.22, so stick to an older release.
* gnu/packages/python-xyz.scm (python-trio): Downgrade to 0.21.
[arguments]: Disable failing test.
2023-04-25 11:08:29 +02:00
ffb7ea6b63
gnu: sbcl-serapeum: Update to 20230423.
...
* gnu/packages/lisp-xyz.scm (sbcl-serapeum): Update to 20230423.
2023-04-25 10:44:16 +02:00
2ebe270927
gnu: sbcl-njson: Update to 1.0.0.
...
* gnu/packages/lisp-xyz.scm (sbcl-njson): Update to 1.0.0.
2023-04-25 10:37:13 +02:00
08c63aac53
gnu: slimevolley: Build with gcc-7.
...
* gnu/packages/games.scm (slimevolley)[native-inputs]: Add gcc-7.
2023-04-25 10:32:46 +03:00
8495069bed
gnu: scribus: Fix build with latest poppler.
...
* gnu/packages/patches/scribus-1.5.8-poppler-22.03.0.patch,
gnu/packages/patches/scribus-1.5.8-poppler-22.04.0.patch,
gnu/packages/patches/scribus-1.5.8-poppler-22.09.0.patch,
gnu/packages/patches/scribus-1.5.8-poppler-22.2.0-1.patch,
gnu/packages/patches/scribus-1.5.8-poppler-22.2.0-2.patch: New files.
* gnu/local.mk (dist_patch_DATA): Add them.
* gnu/packages/scribus.scm (scribus)[source]: Add patches.
[arguments]: Enable WANT_CPP17 option.
2023-04-25 06:17:16 +02:00
7fc2c442c8
gnu: gnucash: Update help installation prefix.
...
The help installation prefix was changed upstream to match the XDG 'help-spec'
specification (see:
https://www.freedesktop.org/wiki/Specifications/help-spec/ ).
* gnu/packages/gnucash.scm (gnucash) [arguments]: Adjust install-docs phase.
2023-04-24 23:35:47 -04:00
971f00f237
gnu: python-tlsh: Fix build.
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* gnu/packages/python-xyz.scm (python-tlsh) [build-system]: Switch to
python-build-system.
[arguments]: Remove #:out-of-source. Remove install phase override. Add a
configure, chdir and adjust the check phase override.
[inputs]: Delete field.
[native-inputs]: New field.
2023-04-24 21:31:56 -04:00
c9f82d57eb
gnu: sicp: Fix build.
...
* gnu/packages/scheme.scm (sicp) [build-system]: Use copy-build-system.
[native-inputs]: Remove source input.
[arguments]: Remove #:modules and #:builder arguments. Add #:install-plan and
#:phases arguments. Patch out obsolete call.
2023-04-24 20:58:37 -04:00
941adac603
gnu: python-pdbpp: Update to 0.10.3-0.e1c2e34.
...
* gnu/packages/python-xyz.scm (python-pdbpp): Update to 0.10.3-0.e1c2e34.
[arguments]: Add pretend-version phase.
2023-04-24 20:19:23 -04:00
381da6260f
gnu: docker-compose: Use python-jsonschema-3 to fix build.
...
* gnu/packages/docker.scm (docker-compose) [inputs]: Replace python-jsonschema
with python-jsonschema-3.
2023-04-24 20:02:26 -04:00
6378c9bb68
gnu: Add python-jsonschema-3.
...
* gnu/packages/python-xyz.scm (python-jsonschema-3): New variable.
2023-04-24 20:01:02 -04:00
960647f016
gnu: emacs-password-store: Update to 2.3.0.
...
* gnu/packages/emacs-xyz.scm (emacs-password-store): Update to 2.3.0.
[propagated-inputs]: Remove emacs-auth-source-pass.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2023-04-25 01:17:24 +02:00
7decb4c394
gnu: Add deal.
...
* gnu/packages/games.scm (deal): New variable.
2023-04-25 01:13:37 +02:00
2ad1a3731f
gnu: lagrange: Update to 1.15.8.
...
* gnu/packages/web-browsers.scm (lagrange): Update to 1.15.8.
2023-04-25 01:13:37 +02:00
1d3bba01ea
gnu: fet: Update to 6.9.0.
...
* gnu/packages/education.scm (fet): Update to 6.9.0.
2023-04-25 01:13:37 +02:00
83167bc131
gnu: giac: Update to 1.9.0-45.
...
* gnu/packages/algebra.scm (giac): Update to 1.9.0-45.
2023-04-25 01:13:36 +02:00
e1c1090a0a
gnu: purescript: Update to 0.15.8.
...
* gnu/packages/purescript.scm (purescript): Update to 0.15.8.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2023-04-25 01:13:36 +02:00
621dad1a37
gnu: audacious: Update to 4.3.
...
* gnu/packages/music.scm (audacious): Update to 4.3.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2023-04-25 01:13:36 +02:00
14970395cc
gnu: Add python-gtts.
...
* gnu/packages/python-xyz.scm (python-gtts): New variable.
Co-authored-by: jgart <jgart@dismail.de>
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2023-04-25 01:13:35 +02:00
69e9349adc
gnu: recoll: Update to 1.34.0.
...
* gnu/packages/search.scm (recoll): Update to 1.34.0.
[arguments]: Add --enable-recollq configure flag.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2023-04-25 01:13:35 +02:00
81519a3ccf
gnu: emacs-posframe: Update to 1.4.2.
...
* gnu/packages/emacs-xyz.scm (emacs-posframe): Update to 1.4.2.
2023-04-25 01:13:35 +02:00
74f2a0bd79
gnu: Add texstudio.
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* gnu/packages/tex.scm (texstudio): New variable.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2023-04-25 01:13:34 +02:00
5eb1d1b648
gnu: dezyne: Add patch to avoid "Exec format error".
...
This fixes
In execvp of ./test/all/parse_import_order/run: Exec format error
on shell scripts that lack a shebang.
* gnu/packages/patches/dezyne-add-missing-shebangs.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/dezyne.scm (dezyne): Use it.
2023-04-24 21:04:11 +02:00
92dd588b81
Merge remote-tracking branch 'origin/master' into core-updates
2023-04-24 20:43:01 +02:00
c7cdd4a6c7
gnu: emacs-git-timemachine: Update to 4.11-0-13769fb6.
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This fixes #62932 ;
command-execute: Symbol’s function definition is void: define-transient-command
* gnu/packages/emacs-xyz.scm (emacs-git-timemachine)[source]: Update outdated
source URI. Update to commit "13769fb603ae88c64566529eae4525ce88026e86". The
4.11 latest release is four years old.
2023-04-24 20:05:09 +02:00
09d2976c86
gnu: python-plotly-2.4.1: Patch for Python 3.10 changes.
...
* gnu/packages/graph.scm (python-plotly-2.4.1)[arguments]: Add phase
'python-compatibility.
2023-04-24 19:49:04 +02:00
bca1496f72
gnu: multiqc: Update to 1.14.
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* gnu/packages/bioinformatics.scm (multiqc): Update to 1.14.
[build-system]: Use pyproject-build-system.
[arguments]: Simplify check phase; restore sanity-check phase.
[propagated-inputs]: Add python-rich-click.
[native-inputs]: Update test data.
2023-04-24 19:49:04 +02:00
523e5ee2f1
gnu: Add python-rich-click.
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* gnu/packages/python-xyz.scm (python-rich-click): New variable.
2023-04-24 19:49:04 +02:00
9703ecc47b
gnu: macs: Patch version check for Python.
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* gnu/packages/bioinformatics.scm (macs)[source]: Patch check for Python >
3.6.
2023-04-24 19:49:04 +02:00
913668e879
gnu: salmon: Update to 1.10.1.
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* gnu/packages/bioinformatics.scm (salmon): Update to 1.10.1.
[inputs]: Replace cereal-1.3.0 with cereal; add htscodecs.
[native-inputs]: Update hash of pufferfish sources.
2023-04-24 19:49:04 +02:00
b8a0a10308
gnu: Add htscodecs.
...
* gnu/packages/bioinformatics.scm (htscodecs): New variable.
2023-04-24 19:49:04 +02:00
0bb60ed3ee
gnu: cereal-1.3.0: Update doctest.h.
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* gnu/packages/serialization.scm (cereal-1.3.0)[native-inputs]: Add gcc-10 and
the sources of the cereal package.
[arguments]: Add a phase to replace the included doctest.h with the variant
from the cereal sources; disable -Werror.
[source]: Delete included doctest.h.
2023-04-24 19:49:04 +02:00
93d95bb843
gnu: cereal: Use GCC 10.
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* gnu/packages/serialization.scm (cereal)[native-inputs]: Add gcc-10.
2023-04-24 19:49:04 +02:00
a0d49a726a
gnu: python-check-manifest: Update to 0.49.
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* gnu/packages/python-xyz.scm (python-check-manifest): Update to 0.49.
[propagated-inputs]: Remove python-tomli.
2023-04-24 12:23:49 -04:00
0c297b9b70
gnu: python-eventlet: Skip two failing tests.
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* gnu/packages/python-xyz.scm (python-eventlet)[arguments]: In 'check' phase,
skip two more tests which are failing with Python 3.10 and have upstream bug
reports.
2023-04-24 11:37:16 -04:00
4b7294cfb8
gnu: mumi: Add bash-minimal to inputs.
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* gnu/packages/mail.scm (mumi)[inputs]: Add bash-minimal.
2023-04-24 15:32:54 +01:00
ec020345d1
gnu: mumi: Update to 0.0.5-2.85d5efb.
...
* gnu/packages/mail.scm (mumi): Update to 0.0.5-2.85d5efb.
2023-04-24 15:32:54 +01:00
70b52b5614
gnu: mumi: Move to Savannah.
...
* gnu/packages/mail.scm (source, home-page): Move to Savannah.
2023-04-24 15:32:54 +01:00
d0575a9847
gnu: dezyne: Update to 2.17.2.
...
* gnu/packages/dezyne.scm (dezyne): Update to 2.17.2.
2023-04-24 15:19:16 +02:00
9e81b4da2d
gnu: python-shiboken-2: Do not rely on _Py_Mangle being available.
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* gnu/packages/patches/python-shiboken-2-compat.patch: Fix the patch
according to upstream.
Signed-off-by: Andreas Enge <andreas@enge.fr>
2023-04-24 12:46:42 +02:00
9350347dab
gnu: openshot: Update to 3.1.0.
...
* gnu/packages/audio.scm (libopenshot-audio): Update to 0.3.1.
* gnu/packages/video.scm (libopenshot): Update to 0.3.1.
(openshot): Update to 3.1.0.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-04-24 12:22:27 +02:00
589aa32fbd
gnu: eid-mw: Update to 5.1.10.
...
* gnu/packages/security-token.scm (eid-mw): Update to 5.1.10
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-04-24 12:18:45 +02:00
f4a6a65d68
gnu: fatrace: Update to 0.17.0.
...
* gnu/packages/monitoring.scm (fatrace): Update to 0.17.0
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2023-04-24 12:17:17 +02:00
a386edb4dc
gnu: openmpi: Update to 4.1.5.
...
* gnu/packages/mpi.scm (openmpi): Update to 4.1.5.
2023-04-24 10:29:42 +02:00
827df9d1dd
gnu: python-magic: Update to 0.4.27.
...
* gnu/packages/patches/python-magic-python-bytecode.patch: Remove file.
* gnu/local.mk (dist_patch_DATA): Unregister it.
* gnu/packages/python-xyz.scm (python-magic): Update to 0.4.27.
[source]<patches>: Remove field.
[#:phases]<check>: Do not invoke ‘tests.py’.
Signed-off-by: Andreas Enge <andreas@enge.fr>
2023-04-24 10:23:59 +02:00
794e8880b9
gnu: openldap-for-linphone: Hide it.
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We don't want this to show up when searching for "openldap".
* gnu/packages/openldap.scm (openldap-for-linphone): Wrap in HIDDEN-PACKAGE
and add a comment.
2023-04-24 09:56:32 +02:00
e2c1506e86
gnu: inspekt3d: Adjust to changes in libfive.
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* gnu/packages/engineering.scm (inspekt3d)[arguments]: Use G-expression; patch
file to avoid loading removed extension; adjust name of libfive library.
2023-04-24 09:53:06 +02:00
2d4888b791
gnu: inspekt3d: Simplify snippet.
...
* gnu/packages/engineering.scm (inspekt3d)[source]: Simplify snippet.
2023-04-24 09:52:29 +02:00
9b381235e0
gnu: libfive: Update to 0-5.b1ea998.
...
* gnu/packages/engineering.scm (libfive): Update to 0-5.b1ea998.
[arguments]: Set HOME variable to fix autocompilation; set GUILE_CCACHE_DIR to
override default target directory for compiled Guile files; add phases
'fix-library-location and 'install-scm-files.
2023-04-24 09:51:44 +02:00
0094b2b25f
gnu: python-sure: Update to 2.0.1.
...
* gnu/packages/python-xyz.scm (python-sure): Update to 2.0.1.
[native-inputs]: Add python-rednose.
2023-04-24 00:25:34 -04:00
519694209e
gnu: python-boltons: Update to 23.0.0.
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* gnu/packages/python-xyz.scm (python-boltons): Update to 23.0.0.
2023-04-24 00:18:50 -04:00
ee40b6684c
gnu: python-pynndescent: Update to 0.5.10.
...
* gnu/packages/machine-learning.scm (python-pynndescent): Update to 0.5.10.
2023-04-23 23:59:22 -04:00
6b9e3f0dd1
gnu: python-configargparse: Update to 1.5.3.
...
* gnu/packages/python-xyz.scm (python-configargparse): Update to 1.5.3.
[build-system]: Switch to pyproject-build-system.
[arguments]: Remove previous 'check' phase.
[native-inputs]: Add python-mock and python-pytest, remove python-pyyaml.
2023-04-23 23:39:32 -04:00
a70e9378cd
gnu: python-scikit-learn: Update to 1.2.2.
...
* gnu/packages/machine-learning.scm (python-scikit-learn): Update to 1.2.2.
2023-04-23 22:52:02 -04:00
94f0b9f6bf
gnu: python-joblib: Update to 1.1.1.
...
* gnu/packages/python-xyz.scm (python-joblib): Update to 1.1.1.
2023-04-23 22:51:58 -04:00
779575cb33
gnu: python-ecdsa: Fix faulty commit.
...
Fix previous commit, which did not properly add the test to be skipped and
repeated the existing skipped test. There is only one new test to be skipped.
* gnu/packages/python-crypto.scm (python-ecdsa)[arguments]: In the 'check'
phase, properly format the string for skipped tests.
2023-04-23 20:59:36 -04:00
94a2e94a26
gnu: python-ecdsa: Skip two failing tests.
...
* gnu/packages/python-crypto.scm (python-ecdsa)[arguments]: In 'check' phase,
skip a couple more tests.
2023-04-23 20:48:20 -04:00
4e0186ec7f
gnu: libmediainfo and mediainfo: Update to 23.03.
...
* gnu/packages/video.scm (libmediainfo, mediainfo): Update to 23.03.
2023-04-23 20:36:13 -04:00
Ricardo Wurmus
Liliana Marie Prikler
Josselin Poiret
Aleksandr Vityazev
Gabriel Wicki
宋文武
Efraim Flashner
Pierre Neidhardt
Andreas Enge
Sharlatan Hellseher
Artyom Bologov
Guillaume Le Vaillant
jgart
kiasoc5
Nicolas Goaziou
Christine Lemmer-Webber
zimoun
Ludovic Courtès
Vivien Kraus
Nicolas Graves
Bruno Victal
Lars-Dominik Braun
Lars-Dominik Braun
Joseph LaFreniere
Christopher Baines
Antero Mejr
Maxim Cournoyer
Mekeor Melire
Yovan Naumovski
Dominik Delgado Steuter
Dominik Delgado Steuter via Guix-patches via
Janneke Nieuwenhuizen
John Kehayias
Arun Isaac
Andy Tai
Raphaël Mélotte
Ludovic Courtès
Leo Famulari