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Author SHA1 Message Date
Nicolas Goaziou
ebb54e6a5f
gnu: python-nbconvert: Fix build. 
This fixes <https://issues.guix.gnu.org/64729>.

* gnu/packages/python-xyz.scm (python-nbconvert)[propagated-inputs]: Add
TEXLIVE-ENVIRON, TEXLIVE-PDFCOL, TEXLIVE-PGF, and TEXLIVE-XETEX.
 2023-07-19 20:28:07 +02:00
Nicolas Goaziou
29ff5d984d
gnu: Add texlive-pdfcol. 
* gnu/packages/tex.scm (texlive-pdfcol): New variable.
 2023-07-19 20:27:58 +02:00
Tobias Geerinckx-Rice
7abf96a2ec
gnu: frama-c: Build verbosely. 
As verbosely as most other packages, that is.

* gnu/packages/maths.scm (frama-c)[arguments]: Add "--enable-verbosemake"
to #:configure-flags.
 2023-07-16 02:00:08 +02:00
Tobias Geerinckx-Rice
fcf54c717f
gnu: python-sshtunnel: Fix build. 
* gnu/packages/python-xyz.scm (python-sshtunnel)[native-inputs]:
Add python-mock.
 2023-07-16 02:00:08 +02:00
Tobias Geerinckx-Rice
b2066b2ac2
gnu: libbsd: Update to 0.11.7. 
* gnu/packages/libbsd.scm (libbsd): Update to 0.11.7.
 2023-07-16 02:00:08 +02:00
Tobias Geerinckx-Rice
32e022d574
gnu: xfstests: Update to 1.1.0-2.87f90a2. 
This fixes the build.

* gnu/packages/file-systems.scm (xfstests):
Update to 1.1.0-2.87f90a2.
 2023-07-16 02:00:08 +02:00
Tobias Geerinckx-Rice
cfbaef68eb
gnu: libinih: Update to 57. 
* gnu/packages/linux.scm (libinih): Update to 57.
 2023-07-16 02:00:08 +02:00
Tobias Geerinckx-Rice
236edb05d7
gnu: nvme-cli: Separate :doc files. 
* gnu/packages/linux.scm (nvme-cli)[outputs]: Add "doc".
[arguments]: Install HTML documentation there.
 2023-07-16 02:00:08 +02:00
Tobias Geerinckx-Rice
0dafac1cfb
gnu: nvme-cli: Update to 2.5. 
* gnu/packages/linux.scm (nvme-cli): Update to 2.5.
 2023-07-16 02:00:08 +02:00
Tobias Geerinckx-Rice
07f436ce13
gnu: libnvme: Separate :doc files. 
Also fix the .rst files being dumped in the root of the output.

* gnu/packages/linux.scm (libnvme)[outputs]: Add "doc".
[arguments]: Install HTML and RST documentation there.
 2023-07-16 02:00:08 +02:00
Tobias Geerinckx-Rice
2ca16e4318
gnu: libnvme: Update to 1.5. 
* gnu/packages/linux.scm (libnvme): Update to 1.5.
 2023-07-16 02:00:08 +02:00
Tobias Geerinckx-Rice
9e983c611e
gnu: lesspipe: Update to 2.08. 
* gnu/packages/less.scm (lesspipe): Update to 2.08.
 2023-07-16 02:00:07 +02:00
Tobias Geerinckx-Rice
9991028fef
gnu: libtraceevent: Shorten source snippet. 
* gnu/packages/linux.scm (libtraceevent)[source]:
Use SUBSTITUTE*'s features.
 2023-07-16 02:00:07 +02:00
Tobias Geerinckx-Rice
1063a3b564
gnu: libtraceevent: Update to 1.7.3. 
* gnu/packages/linux.scm (libtraceevent): Update to 1.7.3.
 2023-07-16 02:00:07 +02:00
Tobias Geerinckx-Rice
4feaefbb27
gnu: gnome-multi-writer: Fix build. 
* gnu/packages/gnome.scm (gnome-multi-writer)[native-inputs]: Add gettext-minimal.
 2023-07-16 02:00:07 +02:00
Tobias Geerinckx-Rice
33166500d2
gnu: gnome-multi-writer: Remove input labels. 
* gnu/packages/gnome.scm (gnome-multi-writer)[native-inputs]:
Remove input labels.
 2023-07-16 02:00:07 +02:00
Tobias Geerinckx-Rice
3a63ed24f2
gnu: rspamd: Update to 3.5. 
* gnu/packages/mail.scm (rspamd): Update to 3.5.
 2023-07-16 02:00:07 +02:00
Tobias Geerinckx-Rice
f86cd0280e
gnu: ytnef: Update to 2.1.2. 
* gnu/packages/mail.scm (ytnef): Update to 2.1.2.
 2023-07-16 02:00:07 +02:00
Tobias Geerinckx-Rice
e0c434ee72
gnu: tpacpi-bat: Fix cross-compilation. 
* gnu/packages/linux.scm (tpacpi-bat)[arguments]: Use SEARCH-INPUT-FILE.
[inputs]: Add coreutils-minimal.
 2023-07-16 02:00:07 +02:00
Tobias Geerinckx-Rice
4267580a53
gnu: tpacpi-bat: Update to 3.2. 
* gnu/packages/linux.scm (tpacpi-bat): Update to 3.2.
[arguments]: Don't explicitly return #t from phases.
linux tpacpi-bat
 2023-07-16 02:00:07 +02:00
Maxim Cournoyer
1d837aaa32
tests: lightdm: Bump timeout waiting for screen text to 60 seconds. 
This is to avoid non-deterministic failures on slower machines.

* gnu/tests/lightdm.scm (run-lightdm-test) <wait-for-screen-text>: Bump
timeout to 60 s (from the default 30 s).
 2023-07-19 10:38:15 -04:00
Maxim Cournoyer
1edbadc6b4
tests: xvnc: Fix 'gdm auto-suspend is disabled' test. 
This failure is another collateral from commit a09c7da ("tests: Fork and exec
a new Guile for the marionette REPL."), which isolated the marionette
evaluation environment from that of the host.

* gnu/tests/vnc.scm (run-xvnc-test): Move the (guix build utils) import to...
["gdm auto-suspend is disabled"]: ... inside the marionette-eval of this
test.  Complete comment.

Reported-by: Bruno Victal <mirai@makinata.eu>
 2023-07-19 10:38:15 -04:00
Bruno Victal
9542429299
tests: xvnc: Group up GDM test and use GNU Ocrad instead of Tesseract. 
* gnu/tests/vnc.scm (run-xvnc-test): Group up GDM test.  Use GNU Ocrad.

Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
Modified-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
 2023-07-19 10:38:15 -04:00
Bruno Victal
ab2abe16de
tests: gdm: Prefer OCR to delay. 
* gnu/tests/gdm.scm (run-gdm-test): Use wait-for-screen-text instead of sleep.

Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
Modified-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
 2023-07-19 10:38:15 -04:00
Bruno Victal
6a86e2d13a
marionette: Allow passing custom OCR arguments. 
* gnu/build/marionette.scm (%default-ocrad-arguments): New variable.
(invoke-ocrad-ocr, invoke-tesseract-ocr, marionette-screen-text)
[ocr-arguments]: New argument.

Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
 2023-07-19 10:38:15 -04:00
Ricardo Wurmus
b9bd1bcce9
import/utils: beautify-description: Wrap class names in @code{...}. 
* guix/import/utils.scm (beautify-description): Add procedure to wrap words in
@code{...} markup.
* tests/import-utils.scm: Add two tests.
 2023-07-19 15:53:28 +02:00
Ricardo Wurmus
5566f691a2
gnu: Add r-qfeatures. 
* gnu/packages/bioconductor.scm (r-qfeatures): New variable.
 2023-07-19 15:29:23 +02:00
Ricardo Wurmus
16a05db0ac
gnu: Add r-spectra. 
* gnu/packages/bioconductor.scm (r-spectra): New variable.
 2023-07-19 15:29:23 +02:00
Ricardo Wurmus
3fa6c2b1cb
gnu: Add r-rtcgatoolbox. 
* gnu/packages/bioconductor.scm (r-rtcgatoolbox): New variable.
 2023-07-19 15:29:23 +02:00
Ricardo Wurmus
45bf1a9a6b
import/utils: Add more initial words to beautify-description. 
* guix/import/utils.scm (beautify-description): Add "Classes" and "Tools" to
initial words to be prefixed with "This package provides".
 2023-07-19 15:29:22 +02:00
Ricardo Wurmus
571ad39628
gnu: Add r-gwastools. 
* gnu/packages/bioconductor.scm (r-gwastools): New variable.
 2023-07-19 15:29:22 +02:00
Ricardo Wurmus
5be6946e19
gnu: Add r-beadarray. 
* gnu/packages/bioconductor.scm (r-beadarray): New variable.
 2023-07-19 15:29:22 +02:00
Ricardo Wurmus
a4dc8edced
gnu: Add r-beaddatapackr. 
* gnu/packages/bioconductor.scm (r-beaddatapackr): New variable.
 2023-07-19 15:29:22 +02:00
Ricardo Wurmus
9cf4d48850
gnu: Add r-ucell. 
* gnu/packages/bioconductor.scm (r-ucell): New variable.
 2023-07-19 15:29:22 +02:00
Ricardo Wurmus
91b1367e90
gnu: Add r-tcgautils. 
* gnu/packages/bioconductor.scm (r-tcgautils): New variable.
 2023-07-19 15:29:22 +02:00
Ricardo Wurmus
3132fcf7f8
gnu: Add r-globalancova. 
* gnu/packages/bioconductor.scm (r-globalancova): New variable.
 2023-07-19 15:29:22 +02:00
Ricardo Wurmus
72e6324b4a
gnu: Add r-seqarray. 
* gnu/packages/bioconductor.scm (r-seqarray): New variable.
 2023-07-19 15:29:22 +02:00
Ricardo Wurmus
1f80d41735
gnu: Add r-nebulosa. 
* gnu/packages/bioconductor.scm (r-nebulosa): New variable.
 2023-07-19 15:29:22 +02:00
Ricardo Wurmus
15b35874b1
gnu: Add r-ggtreeextra. 
* gnu/packages/bioconductor.scm (r-ggtreeextra): New variable.
 2023-07-19 15:29:22 +02:00
Ricardo Wurmus
c63da4eb52
gnu: Add r-survcomp. 
* gnu/packages/bioconductor.scm (r-survcomp): New variable.
 2023-07-19 15:29:22 +02:00
Ricardo Wurmus
2edbfd43aa
gnu: r-missmethyl: Move out of experiments section. 
* gnu/packages/bioconductor.scm (r-missmethyl): Move from experiments section
to packages section.
 2023-07-19 15:29:14 +02:00
Ricardo Wurmus
e74e9f6240
gnu: r-cellid: Move out of experiments section. 
* gnu/packages/bioconductor.scm (r-cellid): Move from experiments section to
packages section.
 2023-07-19 15:29:14 +02:00
Ricardo Wurmus
efec1a8453
gnu: Add r-mfuzz. 
* gnu/packages/bioconductor.scm (r-mfuzz): New variable.
 2023-07-19 15:29:14 +02:00
Ricardo Wurmus
5a20a14c3e
gnu: Add r-raggedexperiment. 
* gnu/packages/bioconductor.scm (r-raggedexperiment): New variable.
 2023-07-19 15:29:14 +02:00
Ricardo Wurmus
9d45783d77
gnu: Add r-spatialexperiment. 
* gnu/packages/bioconductor.scm (r-spatialexperiment): New variable.
 2023-07-19 15:29:14 +02:00
Ricardo Wurmus
c5f9e435da
gnu: Add r-singscore. 
* gnu/packages/bioconductor.scm (r-singscore): New variable.
 2023-07-19 15:29:14 +02:00
Ricardo Wurmus
f77216721e
gnu: Add r-plyranges. 
* gnu/packages/bioconductor.scm (r-plyranges): New variable.
 2023-07-19 14:57:07 +02:00
Ricardo Wurmus
b7d3a9e2f5
gnu: Add r-tkwidgets. 
* gnu/packages/bioconductor.scm (r-tkwidgets): New variable.
 2023-07-19 14:56:11 +02:00
Ricardo Wurmus
dc889e85a9
gnu: Add r-dyndoc. 
* gnu/packages/bioconductor.scm (r-dyndoc): New variable.
 2023-07-19 14:55:11 +02:00
Ricardo Wurmus
d0c96a78ed
gnu: Add r-genomicdatacommons. 
* gnu/packages/bioconductor.scm (r-genomicdatacommons): New variable.
 2023-07-19 14:54:02 +02:00