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Author SHA1 Message Date
Ricardo Wurmus 7e9a13d789
gnu: r-ggtree: Update to 3.2.1. 
* gnu/packages/bioconductor.scm (r-ggtree): Update to 3.2.1.
 2021-11-18 13:17:58 +00:00
Ricardo Wurmus e52eb93765
gnu: r-treeio: Update to 1.18.1. 
* gnu/packages/bioconductor.scm (r-treeio): Update to 1.18.1.
 2021-11-18 13:17:58 +00:00
Ricardo Wurmus 34ba8b256b
gnu: r-systempiper: Update to 2.0.1. 
* gnu/packages/bioconductor.scm (r-systempiper): Update to 2.0.1.
 2021-11-18 13:17:58 +00:00
Ricardo Wurmus 6b1375d3af
gnu: r-msnbase: Update to 2.20.1. 
* gnu/packages/bioconductor.scm (r-msnbase): Update to 2.20.1.
 2021-11-18 13:17:58 +00:00
Ricardo Wurmus f917fa4e50
gnu: r-ensembldb: Update to 2.18.2. 
* gnu/packages/bioconductor.scm (r-ensembldb): Update to 2.18.2.
 2021-11-18 13:17:57 +00:00
Ricardo Wurmus 30038c5738
gnu: r-chipseeker: Update to 1.30.2. 
* gnu/packages/bioconductor.scm (r-chipseeker): Update to 1.30.2.
 2021-11-18 13:17:57 +00:00
Ricardo Wurmus 443ed83bc3
gnu: r-annotationdbi: Update to 1.56.2. 
* gnu/packages/bioconductor.scm (r-annotationdbi): Update to 1.56.2.
 2021-11-18 13:17:57 +00:00
Ricardo Wurmus f66da037b4
tests: Replace texlive importer tests. 
* tests/texlive.scm (xml, sxml): Remove variables.
("fetch-sxml: returns SXML for valid XML", "sxml->package"): Remove tests.
("texlive->guix-package"): Add new test.
 2021-11-18 13:17:57 +00:00
Ricardo Wurmus 424f2c92b4
import: texlive: Take different package database as optional argument. 
* guix/import/texlive.scm (tlpdb->package): Expect PACKAGE-DATABASE as
argument.
(texlive->guix-package): Accept PACKAGE-DATABASE keyword.
 2021-11-18 13:17:57 +00:00
Ricardo Wurmus a030511fd9
import: texlive: Print inputs with labels and guixified names. 
* guix/import/texlive.scm (tlpdb->package): Improve handling of propagated-inputs.
 2021-11-18 13:17:56 +00:00
Nicolas Goaziou 039c3848c3
gnu: wireshark: Update to 3.4.10. 
* gnu/packages/networking.scm (wireshark): Update to 3.4.10.
 2021-11-18 09:18:41 +01:00
Nicolas Goaziou f4aa543f74
gnu: emacs-elfeed-score: Update to 1.2.0. 
* gnu/packages/emacs-xyz.scm (emacs-elfeed-score): Update to 1.2.0.
 2021-11-18 09:13:22 +01:00
zimoun 7537ec816f
gnu: coq-stdpp: Adjust '#:make-flags'. 
* gnu/packages/coq.scm (coq-stdpp)[arguments]<#:make-flags>: Set install
destination.
<#:phases>: Remove replace 'install.

Signed-off-by: Julien Lepiller <julien@lepiller.eu>
 2021-11-18 04:30:41 +01:00
zimoun 4423caece6
gnu: coq-equations: Adjust '#:make-flags'. 
* gnu/packages/coq.scm (coq-equations)[arguments]<#:make-flags>: Set install
destination.
<#:phases>: Remove replace 'install.

Signed-off-by: Julien Lepiller <julien@lepiller.eu>
 2021-11-18 04:25:38 +01:00
zimoun 5d7d64ff85
gnu: coq-autosubst: Adjust '#:make-flags'. 
* gnu/packages/coq.scm (coq-autosubst)[arguments]<#:make-flags>: Set install
destination.
<#:phases>: Remove replace 'install.

Signed-off-by: Julien Lepiller <julien@lepiller.eu>
 2021-11-18 04:22:21 +01:00
zimoun 7b93c6d777
gnu: coq-mathcomp: Adjust '#:make-flags'. 
* gnu/packages/coq.scm (coq-mathcomp)[arguments]<#:make-flags>: Set install
destination.
<#:phases>: Remove replace 'install.

Signed-off-by: Julien Lepiller <julien@lepiller.eu>
 2021-11-18 04:08:08 +01:00
zimoun 2d60af4d6d
gnu: Add coq-semantics. 
* gnu/packages/coq.scm (coq-semantics): New variable.

Signed-off-by: Julien Lepiller <julien@lepiller.eu>
 2021-11-18 04:08:00 +01:00
Vagrant Cascadian e930d4a747
gnu: perl-tie-handle-offset: Fix typo. 
* gnu/packages/perl.scm (perl-tie-handle-offset)[description]: Fix "This
  module" typo.
 2021-11-17 17:46:13 -08:00
Vagrant Cascadian 67900b9555
gnu: perl-business-ismn: Fix typo. 
* gnu/packages/perl.scm (perl-business-ismn)[description]: Fix "This module"
  typo.
 2021-11-17 17:46:05 -08:00
Vagrant Cascadian e52032ac1d
gnu: perl-business-issn: Fix typo. 
* gnu/packages/perl.scm (perl-business-issn)[description]: Fix "This module"
  typo.
 2021-11-17 17:46:01 -08:00
Vagrant Cascadian f4f93b38aa
gnu: perl-business-isbn: Fix typo. 
* gnu/packages/perl.scm (perl-business-isbn)[description]: Fix "This module"
  typo.
 2021-11-17 17:45:53 -08:00
Vagrant Cascadian 8f6ac12fe4
gnu: perl-test-dir: Fix typo. 
* gnu/packages/perl-check.scm (perl-test-dir)[description]: Fix "This module"
  typo.
 2021-11-17 17:45:49 -08:00
Vagrant Cascadian e782bb901b
gnu: python-sgmllib3k: Fix typo. 
* gnu/packages/python-xyz.scm (python-sgmllib3k)[description]: Fix "This
  package" typo.
 2021-11-17 17:45:45 -08:00
Vagrant Cascadian fb1cd494d7
gnu: rust-fever-api-0.2: Fix typo. 
* gnu/packages/crates-io.scm (rust-fever-api-0.2)[description]: Fix "This
  package" typo.
 2021-11-17 17:45:38 -08:00
Vagrant Cascadian 747403aca5
gnu: perl-test-nowarnings: Fix typo. 
* gnu/packages/perl-check.scm (perl-test-nowarnings)[description]: Fix "This
  module" typo.
 2021-11-17 17:45:21 -08:00
Tobias Geerinckx-Rice 407594d21b
gnu: foo2zjs: Use archived home page. 
* gnu/packages/cups.scm (foo2zjs)[home-page]: Link to the Web Archive'd
URL.
 2021-11-18 01:12:21 +01:00
Tobias Geerinckx-Rice 90c524c94e
gnu: sg3-utils: Omit static library. 
* gnu/packages/scsi.scm (sg3-utils)[arguments]: Add "--disable-static"
to #:configure-flags.
 2021-11-18 01:12:15 +01:00
Tobias Geerinckx-Rice f41fbda9db
gnu: sg3-utils: Update to 1.47. 
* gnu/packages/scsi.scm (sg3-utils): Update to 1.47.
 2021-11-18 01:08:30 +01:00
Marius Bakke e3f70c947f
gnu: ungoogled-chromium: Update to 96.0.4664.45-0. 
* gnu/packages/chromium.scm (%preserved-third-party-files): Adjust for M96.
(%chromium-version): Set to 96.0.4664.45.
(%ungoogled-origin, ungoogled-chromium): Update hashes.
 2021-11-17 23:57:52 +01:00
Marius Bakke b432cd1189
gnu: libtorrent-rasterbar: Update to 1.2.14. 
* gnu/packages/bittorrent.scm (libtorrent-rasterbar): Update to 1.2.14.
[source](uri): Adjust tag name.
[build-system]: Change to CMAKE-BUILD-SYSTEM.
[arguments]: Adjust accordingly.  Override the check phase to fake the time
for one test, and disable another.
[native-inputs]: Add LIBFAKETIME.
 2021-11-17 23:57:52 +01:00
Foo Chuan Wei 94fbcf7b78
gnu: Add rcs-blame. 
* gnu/packages/version-control.scm (rcs-blame): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-11-17 23:05:59 +01:00
Foo Chuan Wei b737607c54
gnu: rcs: Install rcsfreeze. 
* gnu/packages/version-control.scm (rcs): Install rcsfreeze.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-11-17 23:05:58 +01:00
Josselin Poiret 7c4142628a
gnu: system: Improve location of some configuration warnings. 
* gnu/bootloader.scm (%warn-target-field-deprecation): Remove it.
* gnu/bootloader.scm (warn-target-field-deprecation): Use
define-with-syntax-properties.
* gnu/system.scm (ensure-setuid-program-list): Ditto.  Also rename the
'location' variable to 'properties'.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-11-17 23:05:58 +01:00
Josselin Poiret 346d2f6488
diagnostics: Add syntax to capture arguments' syntax-properties. 
* guix/diagnostics.scm (define-with-syntax-properties): Add it.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-11-17 23:05:58 +01:00
Rostislav Svoboda fa67d6eef6
doc: Improve wording for param spec of ./configure. 
* doc/contributing.texi (Running Guix Before It Is Installed): Writing "Do
<this>. But it won't work unless ..." is a bad practice.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-11-17 23:05:58 +01:00
Philip McGrath cb768f3860
gnu: tidy-html: Update to 5.8.0. 
* gnu/packages/web.scm (tidy-html): Update to 5.8.0.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-11-17 23:05:58 +01:00
Xinglu Chen f5fc395ab4
scripts: home: Make ‘guix home import’ write home-configuration.scm. 
* guix/scripts/home.scm (process-command): Populate ‘home-configuration.scm’
  in the destination directory instead of printing to stdout.
* doc/guix.texi (Declaring the Home Environment): Adjust accordingly.
(Invoking guix home): Likewise.

Suggested-by: Ludovic Courtès <ludo@gnu.org>
Co-authored-by: Ludovic Courtès <ludo@gnu.org>
 2021-11-17 23:05:58 +01:00
Michael Rohleder 609066e996
gnu: xfce4-whiskermenu-plugin: Update to 2.6.1. 
* gnu/packages/xfce.scm (xfce4-whiskermenu-plugin): Update to 2.6.1.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-11-17 23:05:57 +01:00
Michael Rohleder 7fe5742e03
gnu: ristretto: Update to 0.12.0. 
* gnu/packages/xfce.scm (ristretto): Update to 0.12.0.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-11-17 23:05:57 +01:00
Michael Rohleder 538a755341
gnu: xfce4-cpugraph-plugin: Update to 1.2.5. 
* gnu/packages/xfce.scm (xfce4-cpugraph-plugin): Update to 1.2.5.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-11-17 23:05:57 +01:00
jgart 5a6af48408
gnu: shellcheck: Update to 0.8.0. 
* gnu/packages/haskell-apps.scm (shellcheck): Update to 0.8.0.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-11-17 23:05:57 +01:00
Xinglu Chen 77483d6b61
gnu: perl-inline-c: Patch paths to ‘make’. 
* gnu/packages/perl.scm (perl-inline-c)[arguments]<#:phases>{patch-paths}: New
  phase.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-11-17 23:05:57 +01:00
Alexey Abramov 4ace645506
services: docker: Add 'environment-variables' configuration field. 
* gnu/services/docker.scm (docker-configuration):  Add the field
(docker-shepherd-service): Pass the list of defined variables to
make-forkexec-constructor.
* doc/guix.texi (Miscellaneous Services): Update doc.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-11-17 23:05:56 +01:00
Vagrant Cascadian 6bffa13040
gnu: perl-log-message: Fix typo. 
* gnu/packages/perl.scm (perl-log-message)[description]: Correctly use "lets
  you".
 2021-11-17 13:29:35 -08:00
Nicolas Goaziou ee98b30a69
gnu: emacs-eldev: Update to 0.10. 
* gnu/packages/emacs-xyz.scm (emacs-eldev): Update to 0.10.
[arguments]: Enable some tests, disable some others.  Remove #t at the end of phases.
 2021-11-17 22:12:26 +01:00
Vagrant Cascadian b066c9b03d
gnu: home: services: Fix typo. 
* gnu/home/services.scm (compute-on-first-login-script): Fix spelling of
  "appropriate".
 2021-11-17 12:55:24 -08:00
Ricardo Wurmus 30474f25d0
gnu: python-numcodecs: Unbundle c-blosc. 
* gnu/packages/python-xyz.scm (python-numcodecs)[source]: Add snippet to
remove bundled c-blosc sources and pre-built Cython files.
[arguments]: Add build phase 'disable-avx2 and 'unbundle; replace 'check phase
to run pytest; disable tests.
[inputs]: Add c-blosc, lz4, zlib, and zstd.
[native-inputs]: Add python-cython.
 2021-11-17 20:45:58 +00:00
Ricardo Wurmus 7850856591
gnu: c-blosc: Build with external libraries and without AVX2. 
* gnu/packages/compression.scm (c-blosc)[inputs]: Add lz4, snappy, zlib, and
zstd.
[arguments]: Disable building with AVX2 instructions; prefer our compression
packages over bundled sources.
 2021-11-17 20:45:54 +00:00
phodina 41c8ee1b50
gnu: font-adobe-source-code-pro: Update to 2.032R-ro-1.052R-it-1.012R-VAR. 
* gnu/packages/fonts (font-adobe-source-code-pro): Update to
2.032R-ro-1.052R-it-1.012R-VAR.
[commit]: Adjust version rewriting regexp accordingly.

Signed-off-by: Liliana Marie Prikler <liliana.prikler@gmail.com>
 2021-11-17 18:11:40 +01:00
Vivien Kraus 948137b62a
gnu: Add emacs-vala-mode. 
* gnu/packages/emacs-xyz (emacs-vala-mode): New variable.

Signed-off-by: Liliana Marie Prikler <liliana.prikler@gmail.com>
 2021-11-17 18:01:19 +01:00