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107528 Commits

Author SHA1 Message Date
Marius Bakke ed59b32a40
gnu: python-pytidylib: Fix failing test. 
* gnu/packages/python-xyz.scm (python-pytidylib)[arguments]: Add phase.
 2023-01-07 21:04:27 +01:00
Marius Bakke a6c005dbac
gnu: Remove python-pyev. 
This package fails to build, is no longer on PyPI, and has been inactive
upstream for 10 years.

* gnu/packages/python-xyz.scm (python-pyev): Remove variable.
 2023-01-07 21:04:27 +01:00
Marius Bakke aa861a3980
gnu: python-capstone: Fix tests. 
* gnu/packages/engineering.scm (python-capstone)[arguments]: Override check
phase.  While here, remove label usage in chdir-and-fix-setup-py phase.
 2023-01-07 21:04:27 +01:00
Marius Bakke b9a886bbb3
gnu: Remove python-trollius-redis. 
This package fails to build and has been inactive upstream for 8 years.

* gnu/packages/databases.scm (python-trollius-redis): Remove variable.
 2023-01-07 21:04:27 +01:00
Marius Bakke 3a835f7dd4
gnu: python-openid-teams: Add missing inputs. 
* gnu/packages/python-web.scm (python-openid-teams)[propagated-inputs]: Add
PYTHON-OPENID and PYTHON-SIX.
 2023-01-07 21:04:27 +01:00
Marius Bakke da0a5d483f
gnu: python-openid-cla: Add missing inputs. 
* gnu/packages/python-web.scm (python-openid-cla)[propagated-inputs]: Add
PYTHON-OPENID and PYTHON-SIX.
 2023-01-07 21:04:27 +01:00
Marius Bakke edbacab995
gnu: Use old setuptools in packages that relies on use_2to3 conversion. 
This fixes a regression since 520cdf8058 where
the use_2to3 functionality was removed from setuptools.

* gnu/packages/graph.scm (python-louvain)[native-inputs]: Change from
PYTHON-SETUPTOOLS to PYTHON-SETUPTOOLS-57.
* gnu/packages/python-check.scm (python-parameterizedtestcase)[native-inputs]:
Likewise.
* gnu/packages/python-xyz.scm (python-anyjson)[native-inputs]: Add
PYTHON-SETUPTOOLS-57.
* gnu/packages/bioinformatics.scm (python-pyvcf)[native-inputs]: Change from
PYTHON-SETUPTOOLS-FOR-TENSORFLOW to PYTHON-SETUPTOOLS-57.
 2023-01-07 21:04:26 +01:00
Marius Bakke a47c475678
gnu: python-setuptools: Add 57.5.0. 
* gnu/packages/python-build.scm (python-setuptools-57): New variable.
 2023-01-07 21:04:26 +01:00
Leo Famulari 7f96726607
gnu: linux-libre 5.10: Update to 5.10.162. 
* gnu/packages/linux.scm (linux-libre-5.10-version): Update to 5.10.162.
(linux-libre-5.10-pristine-source): Update hash.
 2023-01-07 14:15:26 -05:00
Leo Famulari 2a7e878253
gnu: linux-libre 6.0: Update to 6.0.17. 
* gnu/packages/linux.scm (linux-libre-6.0-version): Update to 6.0.17.
(linux-libre-6.0-pristine-source): Update hash.
 2023-01-07 14:15:25 -05:00
Leo Famulari ea64560daf
gnu: linux-libre 6.1: Update to 6.1.3. 
* gnu/packages/linux.scm (linux-libre-6.1-version): Update to 6.1.3.
(linux-libre-6.1-pristine-source): Update hash.
 2023-01-07 14:15:25 -05:00
Mathieu Othacehe 699d104146
Revert "services: base: Add extra-env support to guix-configuration." 
This reverts commit 78a9b4f996. It was pushed by
error, while not reviewed yet.
 2023-01-07 20:14:24 +01:00
Olivier Dion 1b7e3196e4
gnu: lttng-tools: Update to 2.13.9. 
* gnu/packages/instrumentation.scm (lttng-tools): Update to 2.13.9.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2023-01-07 20:09:33 +01:00
Nikolay Korotkiy c646ec0586
gnu: tippecanoe: Update to 2.17.0. 
* gnu/packages/geo.scm (tippecanoe): Update to 2.17.0.
[source]: Update the url to a maintained repository.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2023-01-07 20:08:55 +01:00
Matthew James Kraai ab1f4dbf83
gnu: doctl: Update to 1.92.0. 
* gnu/packages/admin.scm (doctl): Update to 1.92.0.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2023-01-07 20:02:42 +01:00
Michael Rohleder 6232e7a067
gnu: strawberry: Update to 1.0.12. 
* gnu/packages/music.scm (strawberry): Update to 1.0.12.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2023-01-07 19:55:59 +01:00
Michael Rohleder 72c9247491
gnu: strawberry: Use qt6 instead of qt5. 
* gnu/packages/music.scm (strawberry)[inputs]: Remove qtbase-5. Add qtbase.
[native-inputs]: Remove qttools-5. Add qttools.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2023-01-07 19:54:46 +01:00
Nikolay Korotkiy 46036dd486
gnu: sfeed: Update to 1.6. 
* gnu/packages/suckless.scm (sfeed): Update to 1.6.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2023-01-07 19:53:17 +01:00
Nikolay Korotkiy 578fa02bba
gnu: slock: Update to 1.5. 
* gnu/packages/suckless.scm (slock): Update to 1.5.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2023-01-07 19:52:21 +01:00
Artyom V. Poptsov 18cb8522d8
gnu: guile-udev: Update to 0.2.4. 
* gnu/packages/guile-xyz.scm (guile-udev): Update to 0.2.4.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2023-01-07 19:51:15 +01:00
Mathieu Othacehe 78a9b4f996
services: base: Add extra-env support to guix-configuration. 
* gnu/services/base.scm (<guix-configuration>)[extra-env]: New field.
(guix-shepherd-service): Honor it.
* doc/guix.texi (Base Services): Document it.
 2023-01-07 19:41:51 +01:00
Nicolas Goaziou db746d1660
gnu: Remove emacs-nadvice as a propagated input. 
* gnu/packages/emacs-xyz.scm (emacs-compat)[propagated-inputs]: Remove
EMACS-NADVICE.
* gnu/packages/emacs-xyz.scm (emacs-excorporate)[propagated-inputs]: Remove
EMACS-NADVICE.

Emacs Nadvice provides a compatibility layer for Emacs < 24.4.  Nowadays, Guix
provides at leas Emacs 28.  This package is not useful.  Worse, it can
introduce issues with autoloads, as reported in
<https://issues.guix.gnu.org/60627>.
 2023-01-07 16:00:07 +01:00
Nicolas Goaziou 7e656bfa28
gnu: emacs-org-ql: Update to 0.6.3-0.2953352. 
* gnu/packages/emacs-xyz.scm (emacs-org-ql): Update to 0.6.3-0.2953352.
[arguments]: Fix a test.
[native-inputs]: Move after arguments field.
[propagated-inputs]: Re-order alphabetically. Move after arguments field.
 2023-01-07 15:56:16 +01:00
Mathieu Othacehe 8b665a4ff3
substitutes: Log the failing queries. 
* guix/substitutes.scm (%debug?): New variable.
(handle-narinfo-response): Log the failing queries if the %debug? parameter is
set.
 2023-01-07 14:27:17 +01:00
Mathieu Othacehe 62f9f34525
scripts: publish: Add a custom baking header. 
Log the not-found responses and their reason (baking or not) to stdout. Also
send the X-Baking custom header so that the client can be informed of the
cause of the failure.

* guix/scripts/publish.scm (not-found): Add a baking? argument to add the
X-Baking HTTP header to the response if baking is in progress.  Also, log the
404 responses to stdout, indicating if it is due to baking or not.
(render-narinfo/cached): Pass the baking? argument.
 2023-01-07 14:11:45 +01:00
Nicolas Goaziou 7c01abeb6e
gnu: emacs-citre: Improve synopsis and description. 
* gnu/packages/emacs-xyz.scm (emacs-citre)[synopsis]: Clarify meaning.
[description]: Fix typo.
 2023-01-07 12:37:25 +01:00
Feng Shu d9a45d2cc8
gnu: emacs-citre: Search proper ctags program. 
* gnu/packages/emacs-xyz.scm (emacs-citre)[arguments]<#:phases>: Do not use
search-input-file to search ctags, for it will get ctags of emacs-minimal
instead of universal-ctags.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2023-01-07 11:47:42 +01:00
Feng Shu d16edd03cf
gnu: emacs-company-posframe: Update to 0.7.0. 
* gnu/packages/emacs-xyz.scm (emacs-company-posframe): Update to 0.7.0.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2023-01-07 00:50:02 +01:00
Feng Shu 605a14a176
gnu: Add emacs-citre. 
* gnu/packages/emacs-xyz.scm (emacs-citre): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2023-01-07 00:50:00 +01:00
Feng Shu 11d9077be1
gnu: Add emacs-ebdb-i18n-chn. 
* gnu/packages/emacs-xyz.scm (emacs-ebdb-i18n-chn): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2023-01-07 00:49:58 +01:00
Feng Shu 5527368bcc
gnu: Add emacs-cal-china-x. 
* gnu/packages/emacs-xyz.scm (emacs-cal-china-x): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2023-01-07 00:49:56 +01:00
Feng Shu 78a29b0f85
gnu: emacs-pyim-basedict: Install pyim-basedict.pyim file. 
* gnu/packages/emacs-xyz.scm (emacs-pyim-basedict) [arguments]<#:include>:
Install "pyim-basedict.pyim" file.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2023-01-07 00:49:54 +01:00
Nicolas Goaziou bd7450d0ba
gnu: emacs-inspector: Update to 0.10. 
* gnu/packages/emacs-xyz.scm (emacs-inspector): Update to 0.10.
 2023-01-07 00:49:52 +01:00
Nicolas Goaziou f283f58f3c
gnu: emacs-consult: Update to 0.31. 
* gnu/packages/emacs-xyz.scm (emacs-consult): Update to 0.31.
 2023-01-07 00:49:50 +01:00
Nicolas Goaziou b334184d1c
gnu: emacs-compat: Update to 29.1.0.1. 
* gnu/packages/emacs-xyz.scm (emacs-compat): Update to 29.1.0.1.
 2023-01-07 00:49:48 +01:00
Nicolas Goaziou 5b057c1983
gnu: emacs-benchmark-init: Update to 1.1. 
* gnu/packages/emacs-xyz.scm (emacs-benchmark-init): Update to 1.1.
 2023-01-07 00:49:39 +01:00
Sharlatan Hellseher cce9ff2d5a
gnu: indi: Update to 1.9.9. 
* gnu/packages/astronomy.scm (indi): Update to 1.9.9.
  [arguments]{tests}: Silent test on aarch64-linux system.
  [inputs]: Add libev.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-01-06 23:46:32 +01:00
Sharlatan Hellseher 109cb41780
gnu: python-astropy: Update to 5.1.1. 
* gnu/packages/astronomy.scm (python-astropy): Update to 5.1.1.
  [source]{snippet}: Unbundle wcslib.
  [arguments]{phases}: preparations: Use all system libraries.
  [inputs]: Add wcslib.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-01-06 23:46:32 +01:00
Sharlatan Hellseher d86ac0008f
gnu: wcslib: Update to 7.12. 
* gnu/packages/astronomy.scm (wcslib): Update to 7.12.
  [arguments]: Use Gexp, enable parallel tests.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-01-06 23:46:31 +01:00
Sharlatan Hellseher 888942a155
gnu: python-fitsio: Update to 1.1.8. 
* gnu/packages/astronomy.scm (python-fitsio): Update to 1.1.8.
  [arguments]{phases}: skip-bzip2-test remove redundant phase as cfitsio
  built with bzip2 support.
  [inputs]: Add curl-minimal.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-01-06 23:46:31 +01:00
Sharlatan Hellseher 5534a69223
gnu: cfitsio: Build with bzip2 support. 
* gnu/packages/astronomy.scm (cfitsio):
  [arguments](configure-flags): Add bzip2 option.
  [inputs]: Add bzip2.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-01-06 23:46:31 +01:00
Sharlatan Hellseher 96df67e068
gnu: cfitsio: Update to 4.2.0. 
Fix build on aarch64-linux as reported in:
- https://issues.guix.gnu.org/59323
- https://github.com/rwesson/ALFA/issues/29

The latest version passed build on aarch64-linux system with curl and
gfortran enabled. wcslib@7.5 passed build with curl enabled (was marked
as failing in cements).

* gnu/packages/astronomy.scm (cfitsio): Update to 4.2.0.
  [arguments]: Use Gexp, enable tests.
  [arguments](phases): Delete check and add post-install-check phases.
  [native-inputs]: Add gfortran.
  [inputs]: Add curl, zlib.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-01-06 23:46:31 +01:00
Ludovic Courtès efb0f8950f
doc: cookbook: Remove 404 link to mitpress.mit.edu. 
* doc/guix-cookbook.texi (A Scheme Crash Course): Remove 404 link to
mitpress.mit.edu.
 2023-01-06 23:46:31 +01:00
Arun Isaac 38086021b8
gnu: guile-email: Update to 0.3.0. 
* gnu/packages/guile-xyz.scm (guile-email): Update to 0.3.0.
[native-inputs]: Remove pkg-config and lzip. Add texinfo.
[arguments]: Remove GUILE_AUTO_COMPILE=0 make-flag. Add prefix
make-flag. Delete configure phase.
(guile2.2-email)[arguments]: Add guile_effective_version=2.2 make-flag.
* gnu/packages/patches/guile-email-fix-tests.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Unregister it.
 2023-01-06 19:57:25 +00:00
David Thompson 22ffa5e00a
gnu: Update guile-syntax-highlight to 0.2.0. 
* gnu/packages/guile-xyz.scm (guile-syntax-highlight): Update to 0.2.0.
 2023-01-06 10:39:19 -05:00
Ricardo Wurmus 1dd8359fa2
gnu: bbmap: Update to 39.01. 
* gnu/packages/bioinformatics.scm (bbmap): Update to 39.01.
 2023-01-06 15:12:07 +01:00
Ricardo Wurmus f72dc615ab
gnu: bbmap: Use gexp. 
* gnu/packages/bioinformatics.scm (bbmap)[arguments]: Use gexp.
 2023-01-06 15:11:48 +01:00
Ricardo Wurmus 04ea0e7de4
gnu: nanopolish: Drop input labels. 
* gnu/packages/bioinformatics.scm (nanopolish)[inputs]: Drop labels.
 2023-01-06 15:01:05 +01:00
Ricardo Wurmus 24e5dbb57a
gnu: nanopolish: Update to 0.14.0. 
* gnu/packages/bioinformatics.scm (nanopolish): Update to 0.14.0.
[source]: Update snippet.
[arguments]: Use gexp; use cc-for-target; drop #T from build phases.
[inputs]: Add minimap2.
[native-inputs]: Add cmake-minimal.
 2023-01-06 14:51:55 +01:00
Ricardo Wurmus 8ace894681
gnu: filtlong: Use Python 3. 
* gnu/packages/bioinformatics.scm (filtlong)[inputs]: Replace python-2 with
python-wrapper.
 2023-01-06 14:06:13 +01:00