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Author SHA1 Message Date
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
Ricardo Wurmus 46cae56dfe
gnu: Add r-snprelate. 
* gnu/packages/bioconductor.scm (r-snprelate): New variable.
 2023-07-19 14:53:06 +02:00
Ricardo Wurmus b4cfd40aae
gnu: Add r-enhancedvolcano. 
* gnu/packages/bioconductor.scm (r-enhancedvolcano): New variable.
 2023-07-19 14:37:54 +02:00
Ricardo Wurmus 1b48d723bd
gnu: Add r-logistf. 
* gnu/packages/cran.scm (r-logistf): New variable.
 2023-07-19 13:09:32 +02:00
Ricardo Wurmus c31eea21dd
gnu: Add r-formula-tools. 
* gnu/packages/cran.scm (r-formula-tools): New variable.
 2023-07-19 13:09:25 +02:00
Ricardo Wurmus 5f6daad3c8
gnu: Add r-operator-tools. 
* gnu/packages/cran.scm (r-operator-tools): New variable.
 2023-07-19 13:09:03 +02:00
Ricardo Wurmus 4415a421c4
gnu: Add r-uchardet. 
* gnu/packages/cran.scm (r-uchardet): New variable.
 2023-07-19 13:08:47 +02:00
Ricardo Wurmus ff6b2a88c4
gnu: Add r-gwasexacthw. 
* gnu/packages/cran.scm (r-gwasexacthw): New variable.
 2023-07-19 13:08:02 +02:00
Ricardo Wurmus b2750695f7
gnu: Add r-gsva. 
* gnu/packages/bioconductor.scm (r-gsva): New variable.
 2023-07-19 09:56:55 +02:00
Andre A. Gomes 1f53bfb7d7
gnu: cl-usocket: Update to 0.8.6. 
* gnu/packages/lisp-xyz.scm (sbcl-usocket): Update to 0.8.6.

Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
 2023-07-19 09:14:25 +02:00
Andre A. Gomes 324f56927b
gnu: cl-ndebug: Update to 0.2.0. 
* gnu/packages/lisp-xyz.scm (sbcl-ndebug): Update to 0.2.0.

Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
 2023-07-19 09:12:01 +02:00
Andre A. Gomes 54a49cf1cc
gnu: cl-lisp-unit2: Update to 0.9.4-0.b5aa17b. 
* gnu/packages/lisp-check.scm (sbcl-lisp-unit2): Update to 0.9.4-0.b5aa17b.

Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
 2023-07-19 09:10:10 +02:00
Andre A. Gomes 2d298564e3
gnu: cl-array-utils: Update to 1.2.0-0.29da8fc. 
* gnu/packages/lisp-xyz.scm (sbcl-array-utils): Update to 1.2.0-0.29da8fc.

Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
 2023-07-19 09:10:04 +02:00
Janneke Nieuwenhuizen 8831d3ba9f
gnu: commencement: hurd-minimal-boot0: Update to 0.9.git20230216. 
* gnu/packages/commencement.scm (hurd-minimal-boot0): Remove redundant let
and package-with-bootstrap-guile.
[name]: New field; give proper name.
[version]: New field.
[source]: Update to 0.9.git20230216, using hurd-headers-boot0' source.
[inputs]: Add autoconf-boot0, automake-boot0, gnumach-headers-boot0.
[native-inputs]: Add autoconf-boot0, automake-boot0, and
gnumach-headers-boot0.
* gnu/packages/commencement.scm (hurd-version-boot0, hurd-source-boot0):
Remove.
 2023-07-19 07:33:58 +02:00
Janneke Nieuwenhuizen e9c23e2c8e
gnu: commencement: hurd-headers-boot0: Update to 0.9.git20230216. 
* gnu/packages/commencement.scm (hurd-headers-boot0): Remove redundant outer
let and package-with-bootstrap-guile.
[name]: New field; give proper name.
[version]: New field.
[source]: Update to 0.9.git20230216, using git-fetch-from-tarball.
[inputs]: Add autoconf-boot0, automake-boot0, gnumach-headers-boot0.
 2023-07-19 07:33:58 +02:00
Josselin Poiret 72dbad505a
gnu: mig: Use git-fetch. 
Now that we have `git-fetch-from-tarball' to break the cycle in commencement
for git-fetch sources, we can finally update mig to use git-fetch to allow
`--with-commit' builds.

* gnu/packages/hurd.scm (mig)[source]: Use git-fetch again.
* gnu/packages/commencement.scm (mig-boot0)[source]: Use
git-fetch-from-tarball accordingly.
 2023-07-19 07:33:55 +02:00
Janneke Nieuwenhuizen c1840e9442
gnu: commencement: mig-boot0: Update to 1.8+git20230520. 
* gnu/packages/commencement.scm (mig-boot0): Remove redundant
outer let.
[name]: New field, give proper name.
[version]: New field
[source]: Update to 1.8+git20230520.
[native-inputs]: Add autoconf-boot0, automake-boot0.
[inputs]: Add gnumach-headers-boot0.
 2023-07-19 07:32:33 +02:00
Janneke Nieuwenhuizen 5315c23702
gnu: commencement: gnumach-headers-boot0: Update to 1.8+git20221224. 
* gnu/packages/commencement.scm (gnumach-headers-boot0)[name]: New field; give
proper name.
[source]: Update to 1.8+git20221224, using git-fetch-from-tarball.
[native-inputs]: Add autoconf-boot0, automake-boot0, texinfo-boot0.
[arguments]: Add 'patch-compat' phase to allow building hurd-minimal etc, with
our out-of-date bootstsrap binaries.
 2023-07-19 07:32:32 +02:00
Ludovic Courtès ed88588931
gnu: commencement: Add git-fetch-from-tarball utility. 
* gnu/packages/commencement.scm (git-fetch-from-tarball): New procedure.
 2023-07-19 07:32:32 +02:00
Janneke Nieuwenhuizen 85f940b0e7
gnu: commencement: Add automake-boot0. 
* gnu/packages/commencement.scm (automake-boot0): New variable.
 2023-07-19 07:32:32 +02:00
Janneke Nieuwenhuizen 9c6081c705
gnu: commencement: Add autoconf-boot0. 
* gnu/packages/commencement.scm (autoconf-boot0): New variable.
 2023-07-19 07:32:29 +02:00
Hilton Chain 13cb9b3028
gnu: python-wand: Fix build. 
Fixes <https://issues.guix.gnu.org/64350>.

* gnu/packages/python-xyz.scm (python-wand)[arguments]<#:phases>: Pass tests?
to 'check.

Reported-by: Thorsten Wilms <t_w_@freenet.de>
Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
 2023-07-16 02:00:11 +02:00
Tobias Geerinckx-Rice f858d5c8a5
gnu: bcachefs-tools: Update to 0.1-17.c8bec83. 
* gnu/packages/file-systems.scm (bcachefs-tools): Update to 0.1-17.c8bec83.
[arguments]: Remove obsolete PYTEST_ variables from #:make-flags, and add
NO_RUST.  Delete the obsolete 'promote-mount.bcachefs.sh phase.
Add a custom 'check phase.
[native-inputs]: Consolidate separate lists.
 2023-07-16 02:00:03 +02:00
Tobias Geerinckx-Rice 09c14288cf
gnu: bcachefs-tools: Respect input rewriting. 
* gnu/packages/file-systems.scm (bcachefs-tools)[arguments]: Rewrite the
'promote-mount.bcachefs.sh phase to use SEARCH-INPUT-FILE.
 2023-07-16 02:00:03 +02:00
Tobias Geerinckx-Rice 31733c9090
gnu: libqb: Tweak description. 
* gnu/packages/high-availability.scm (libqb)[synopsis]: Fix spelling.
[description]: Use @acronym{}.
 2023-07-16 02:00:03 +02:00
Tobias Geerinckx-Rice 46cbb6e4d0
gnu: libqb: Update to 2.0.7. 
* gnu/packages/high-availability.scm (libqb): Update to 2.0.7.
 2023-07-16 02:00:03 +02:00
Tobias Geerinckx-Rice 1e8eacf724
gnu: libqb: Fix cross-compilation. 
* gnu/packages/high-availability.scm (libqb)[native-inputs]:
Move libxml2 from here…
[inputs]: …to here.
 2023-07-16 02:00:03 +02:00
Tobias Geerinckx-Rice 5e4480e967
gnu: libqb: Remove obsolete bootstrapping inputs. 
* gnu/packages/high-availability.scm (libqb)[native-inputs]: Remove
autoconf, automake, and libtool.
 2023-07-16 02:00:03 +02:00
Tobias Geerinckx-Rice 5593d1c39e
gnu: gifsicle: Update to 1.94. 
* gnu/packages/image.scm (gifsicle): Update to 1.94.
[arguments]: Don't explicitly return #t from phases.
 2023-07-16 02:00:03 +02:00
Tobias Geerinckx-Rice 4c20d7a661
gnu: hwinfo: Make with flags. 
* gnu/packages/hardware.scm (hwinfo)[arguments]: Move CC, LIBDIR, and
VERSION from hacky substitutions to superior #:make-flags.  Honour them
in the 'build phase.
 2023-07-16 02:00:02 +02:00