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Author SHA1 Message Date
Ricardo Wurmus 7cdad00e30
gnu: r-scran: Update to 1.30.2. 
* gnu/packages/bioconductor.scm (r-scran): Update to 1.30.2.

Change-Id: I49388f6307f88cb671b0a721cc4c82a4804312c6
 2024-01-30 16:59:52 +01:00
Ricardo Wurmus aa7950070b
gnu: r-bioccheck: Update to 1.38.2. 
* gnu/packages/bioconductor.scm (r-bioccheck): Update to 1.38.2.
[propagated-inputs]: Remove r-httr; add r-httr2 and r-rvest.

Change-Id: I5bcf99f2e3e93141fe502f061c2f347d4f0783bc
 2024-01-30 16:59:51 +01:00
Ricardo Wurmus 8d8eec7f9d
gnu: r-flowcore: Update to 2.14.1. 
* gnu/packages/bioconductor.scm (r-flowcore): Update to 2.14.1.

Change-Id: I7a8002206aaab85a722463a81939d7cea7d61644
 2024-01-30 16:59:51 +01:00
Ricardo Wurmus 9e1e462746
gnu: r-rsubread: Update to 2.16.1. 
* gnu/packages/bioconductor.scm (r-rsubread): Update to 2.16.1.

Change-Id: Id01d956d2f76347270d05961dba13f65b268862a
 2024-01-30 16:59:51 +01:00
Ricardo Wurmus ca6e432089
gnu: r-edger: Update to 4.0.12. 
* gnu/packages/bioconductor.scm (r-edger): Update to 4.0.12.

Change-Id: If99f10f80fb7c085863d2da79cfce2b94af71543
 2024-01-30 16:59:51 +01:00
Ricardo Wurmus 4df162962d
gnu: r-biostrings: Update to 2.70.2. 
* gnu/packages/bioconductor.scm (r-biostrings): Update to 2.70.2.

Change-Id: Id43796f35c5afe6fbe3a37d72e111d28937254a2
 2024-01-30 16:59:51 +01:00
Ricardo Wurmus 1c27a3a8a8
gnu: r-biomart: Update to 2.58.1. 
* gnu/packages/bioconductor.scm (r-biomart): Update to 2.58.1.

Change-Id: I6304e3be6919367f5d9d99ddb7aae75ab39b9985
 2024-01-30 16:59:51 +01:00
Ricardo Wurmus 6f11ca52f1
gnu: r-robustbase: Update to 0.99-2. 
* gnu/packages/statistics.scm (r-robustbase): Update to 0.99-2.

Change-Id: Ic6a248fd55b6b4467742040a884ed25e9d090f47
 2024-01-30 15:48:57 +01:00
Ricardo Wurmus ef5640f763
gnu: r-viridis: Update to 0.6.5. 
* gnu/packages/statistics.scm (r-viridis): Update to 0.6.5.

Change-Id: Iaa83edbc2a304e0327f8815967f2e28b686691a0
 2024-01-30 15:48:57 +01:00
Ricardo Wurmus c72ceba47f
gnu: r-commonmark: Update to 1.9.1. 
* gnu/packages/statistics.scm (r-commonmark): Update to 1.9.1.

Change-Id: Ifccd39448f0d6181bfcede089aa922cd60c5293c
 2024-01-30 15:48:57 +01:00
Ricardo Wurmus e6847d7a2f
gnu: r-data-table: Update to 1.15.0. 
* gnu/packages/statistics.scm (r-data-table): Update to 1.15.0.

Change-Id: I2187d368fb461d72b07e3445bad0240ecc5cd6f1
 2024-01-30 15:48:57 +01:00
Ricardo Wurmus 71936c6145
gnu: r-tfruns: Update to 1.5.2. 
* gnu/packages/cran.scm (r-tfruns): Update to 1.5.2.

Change-Id: Iefffe073fb7d2d54e190b3d0433dcb760dad9a10
 2024-01-30 15:48:57 +01:00
Ricardo Wurmus 08d6f49857
gnu: r-spatstat-geom: Update to 3.2-8. 
* gnu/packages/cran.scm (r-spatstat-geom): Update to 3.2-8.

Change-Id: Iab7190ff6dbe409cc1b400f6a69001a8c13ac1bc
 2024-01-30 15:48:57 +01:00
Ricardo Wurmus 281db78112
gnu: r-iheatmapr: Update to 0.7.1. 
* gnu/packages/cran.scm (r-iheatmapr): Update to 0.7.1.

Change-Id: I83046a2d71d29a18dc15a7a568d0212947b936dd
 2024-01-30 15:48:57 +01:00
Ricardo Wurmus 2435d457e8
gnu: r-emoa: Update to 0.5-2. 
* gnu/packages/cran.scm (r-emoa): Update to 0.5-2.

Change-Id: Ia1138543ad4a2acf104c4fc19e2d75cfa07eed81
 2024-01-30 15:48:56 +01:00
Ricardo Wurmus 6bde30b814
gnu: r-tidygraph: Update to 1.3.1. 
* gnu/packages/cran.scm (r-tidygraph): Update to 1.3.1.

Change-Id: I597eaa3eb3afba90462b5ca0a7fed262ecf1aa60
 2024-01-30 15:48:56 +01:00
Ricardo Wurmus a03ad38b2f
gnu: r-xgboost: Update to 1.7.7.1. 
* gnu/packages/cran.scm (r-xgboost): Update to 1.7.7.1.

Change-Id: I949455d58c1fdbb878a77d82e8501c5a615ed441
 2024-01-30 15:48:56 +01:00
Ricardo Wurmus 50e728fbab
gnu: r-yulab-utils: Update to 0.1.4. 
* gnu/packages/cran.scm (r-yulab-utils): Update to 0.1.4.

Change-Id: Ic7e6288859a857ecbd23566b9e5bd1796206764c
 2024-01-30 15:48:56 +01:00
Ricardo Wurmus 48f41d06e8
gnu: r-bqtl: Update to 1.0-36. 
* gnu/packages/cran.scm (r-bqtl): Update to 1.0-36.

Change-Id: I598ad41402e05e8ed628aaf57eac4a1e47689228
 2024-01-30 15:48:56 +01:00
Ricardo Wurmus 2bb1d89f97
gnu: r-listenv: Update to 0.9.1. 
* gnu/packages/cran.scm (r-listenv): Update to 0.9.1.

Change-Id: I998a9d35b176ed8dd038fd6392f46b4052e56dd7
 2024-01-30 15:48:56 +01:00
Ricardo Wurmus 8bad30c244
gnu: r-phylobase: Update to 0.8.12. 
* gnu/packages/cran.scm (r-phylobase): Update to 0.8.12.

Change-Id: I4d022d85cdb6f79fae167bfd7c52a0c2620b0092
 2024-01-30 15:48:55 +01:00
Ricardo Wurmus b7e3c82000
gnu: r-densityclust: Update to 0.3.3. 
* gnu/packages/cran.scm (r-densityclust): Update to 0.3.3.
[propagated-inputs]: Remove r-rcpp; add r-cpp11.

Change-Id: Ia6b5737e2225e67fa064f031d985c076694ec9ce
 2024-01-30 15:48:55 +01:00
Ricardo Wurmus 02931399e8
gnu: r-interp: Update to 1.1-6. 
* gnu/packages/cran.scm (r-interp): Update to 1.1-6.

Change-Id: I846729e1637fc0f8762cf8a235cc78df2c1eb810
 2024-01-30 15:48:55 +01:00
Ricardo Wurmus 8b0a49ad4e
gnu: r-zip: Update to 2.3.1. 
* gnu/packages/cran.scm (r-zip): Update to 2.3.1.

Change-Id: I20ff34e492271063d6baf37f59f6da181c1d7805
 2024-01-30 15:48:55 +01:00
Ricardo Wurmus 51d7fae43a
gnu: r-nestedcv: Update to 0.7.4. 
* gnu/packages/cran.scm (r-nestedcv): Update to 0.7.4.
[propagated-inputs]: Add r-rhpcblasctl.

Change-Id: Ica97cf7c960125543210c48851861d7826a8f8aa
 2024-01-30 15:48:55 +01:00
Ricardo Wurmus 775ae73c3d
gnu: r-laeken: Update to 0.5.3. 
* gnu/packages/cran.scm (r-laeken): Update to 0.5.3.

Change-Id: I9ab9a89d88511b80efb912119ec81a24fafceb84
 2024-01-30 15:48:55 +01:00
Ricardo Wurmus f3af65b8d0
gnu: r-sp: Update to 2.1-3. 
* gnu/packages/cran.scm (r-sp): Update to 2.1-3.

Change-Id: I111d108e6f144ecfdecf5e5ff94b6b11110a9395
 2024-01-30 15:48:54 +01:00
Ricardo Wurmus 5701d13103
gnu: r-powerlaw: Update to 0.80.0. 
* gnu/packages/cran.scm (r-powerlaw): Update to 0.80.0.

Change-Id: I1b3c185ac4a8748698fe9218c262620b42f5f06d
 2024-01-30 15:48:54 +01:00
Ricardo Wurmus 854d1be754
gnu: r-httpuv: Update to 1.6.14. 
* gnu/packages/cran.scm (r-httpuv): Update to 1.6.14.

Change-Id: I1f650010cce97020f7b563adfcd74d7e4dec4981
 2024-01-30 15:48:54 +01:00
Ricardo Wurmus 51ca656726
gnu: r-ga: Update to 3.2.4. 
* gnu/packages/cran.scm (r-ga): Update to 3.2.4.

Change-Id: I698d5c3eda6598c435fcf37b5e7eaaf5c4e15e63
 2024-01-30 15:48:54 +01:00
Ricardo Wurmus cd9e88c9d0
gnu: r-ggm: Update to 2.5.1. 
* gnu/packages/bioconductor.scm (r-ggm): Update to 2.5.1.
[propagated-inputs]: Add r-biocmanager.

Change-Id: I8db7e517b96c3c42cb05246378b4190c9c954a47
 2024-01-30 15:48:54 +01:00
Ricardo Wurmus 1541c1bb17
gnu: r-rjava: Update to 1.0-11. 
* gnu/packages/cran.scm (r-rjava): Update to 1.0-11.
[source]: Remove snippet.
[arguments]: Remove 'replace-bundled-minified-JavaScript phase.
[native-inputs]: Remove esbuild.

Change-Id: I008810b6919412023fc419d9cbadfea0fe2892bb
 2024-01-30 15:48:08 +01:00
Ricardo Wurmus 1bb0d6355c
gnu: r-catdata: Update to 1.2.4. 
* gnu/packages/cran.scm (r-catdata): Update to 1.2.4.
[native-inputs]: Add r-knitr.

Change-Id: I7e2873a612f114d7124d5787ff70a8bf0ffefe93
 2024-01-30 15:41:54 +01:00
Ricardo Wurmus c3e2892558
gnu: r-r-devices: Update to 2.17.2. 
* gnu/packages/cran.scm (r-r-devices): Update to 2.17.2.
[arguments]: Add 'set-HOME phase.
[native-inputs]: Add r-r-rsp.

Change-Id: Iaaead01e690e95971148ae063aa7af589969d39c
 2024-01-30 15:41:07 +01:00
Ricardo Wurmus 67c1a96196
gnu: r-igraph: Update to 2.0.1.1. 
* gnu/packages/cran.scm (r-igraph): Update to 2.0.1.1.
[properties]: Tell updater to keep extra native input "which".
[native-inputs]: Add pkg-config and which.

Change-Id: Id56c68784d192f7a3031a338fe63a4c17799c605
 2024-01-30 15:36:03 +01:00
Ricardo Wurmus 788657b62d
gnu: r-antiword: Update to 1.3.3. 
* gnu/packages/cran.scm (r-antiword): Update to 1.3.3.
[properties]: Tell updater not to remove "antiword" input.
[arguments]: Use G-expression.

Change-Id: Ifdbf80f546b0ab3abfc3b8002ba01b46c9105a1c
 2024-01-30 15:31:07 +01:00
Ricardo Wurmus a4e75305e2
gnu: r-sapa: Patch call of dstebz routine. 
* gnu/packages/patches/r-sapa-lapack.patch: New patch.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/cran.scm (r-sapa)[source]: Add it.

Change-Id: I17354c4e8b3a0f322e17c9a1e17bc37c93630105
 2024-01-30 15:16:20 +01:00
Ricardo Wurmus a874d44053
gnu: r-with-tests: Prevent compression of libraries. 
Compression prevents Guix from detecting references.
This is a follow-up to commit ff0d34a29b.

Reported-by: Jonas Freimuth.

* gnu/packages/statistics.scm (r-with-tests)[arguments]: Do not compress
included libraries like "parallel".

Change-Id: I278d19c1504d8ac33a1fc4a941467705a37d574d
 2024-01-30 15:16:20 +01:00
Ricardo Wurmus afe677a623
gnu: r-minimal, r-with-tests: Use G-expressions. 
* gnu/packages/statistics.scm (r-minimal, r-with-tests)[arguments]: Use
G-expressions.

Change-Id: I241297444cdb261dfc9901efd73c436a7ccf0acf
 2024-01-30 15:16:20 +01:00
Efraim Flashner 9f1ab898c3
gnu: python-scipy: Enable building on more architectures. 
* gnu/packages/python-science.scm (python-scipy)[propagated-inputs]:
Only include python-jupytext on systems where it is supported.

Change-Id: Ic085094e4e3977e4c0698e8c03de09ee8e70f144
 2024-01-30 13:43:32 +02:00
Efraim Flashner 7bf98da98b
gnu: libhdate: Fix pkg-config file. 
* gnu/packages/calendar.scm (libhdate)[source]: Add snippet to adjust
the pkg-config file to have the correct prefix.

Change-Id: I5273f732a4e4e512057aa8bc1ecd40a81ec7828e
 2024-01-30 09:25:32 +02:00
Ian Eure 144c95032e
gnu: emacspeak: Update to 59.0. 
* gnu/packages/emacs-xyz.scm (emacspeak): Update to 59.0.
[source]: Switch to git-fetch.

Change-Id: I80e93286fa0de931e85f07c22e050faeaf8d0280
Signed-off-by: Clément Lassieur <clement@lassieur.org>
 2024-01-30 00:40:15 +01:00
Kiran Shila cdadef6409
gnu: Add python-hdbscan. 
* gnu/packages/machine-learning.scm (python-hdbscan): New variable.

Co-authored-by: Sharlatan Hellseher <sharlatanus@gmail.com>
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
Change-Id: I13a78dd795490e6d4a8486741e2d5281605b7bb9
 2024-01-29 22:58:35 +00:00
Troy Figiel cde0adaacd
gnu: Add python-pyjanitor. 
* gnu/packages/python-science.scm (python-pyjanitor): New variable.

Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2024-01-29 21:40:59 +00:00
Troy Figiel 343f4f1d70
gnu: Add python-unyt. 
* gnu/packages/python-science.scm (python-unyt): New variable.

Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2024-01-29 21:12:12 +00:00
David Thompson 370b79b4f5
gnu: guile-next: Update to commit fb1f5e2. 
* gnu/packages/guile.scm (guile-next): Update to commit fb1f5e2.

Change-Id: Ia699bf7bf950b8780366146508eec566a738fb80
 2024-01-29 13:38:35 -05:00
Maxim Cournoyer 21e4d6cd69
gnu: mumi: Update to 0.0.8. 
* gnu/packages/mail.scm (mumi): Update to 0.0.8.

Change-Id: I0342f3cfb1b257d7beb25a5d9d0732895f88ec35
 2024-01-29 10:23:15 -05:00
Maxim Cournoyer 1e0ca05c82
gnu: mumi: Update to 0.0.7. 
* gnu/packages/mail.scm (mumi): Update to 0.0.7.

Change-Id: Ia9280574a6774e27f8ab0b4654997b6518c561d2
 2024-01-29 10:16:07 -05:00
Maxim Cournoyer 2c5293afff
gnu: lugaru: Apply patch fixing sound. 
* gnu/packages/patches/lugaru-fix-sound.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
* gnu/packages/games.scm (lugaru) [source]: Update source URL.
Apply patch.
[arguments]: Use gexps.
[inputs]: Remove labels and sort.

Change-Id: Iebefc9fc43d3473e51c8c732539e6aa2f14d9f5f
 2024-01-28 21:03:31 -05:00
Sharlatan Hellseher f74789cd54
teams: go: Add more related files to the scope. 
* etc/teams.scm (go): Add "gnu/packages/configuration-management.scm",
"gnu/packages/golang-crypto.scm", "gnu/packages/golang-web.scm",
"gnu/packages/syncthing.scm", "gnu/packages/terraform.scm". Sort list
alphabetically.

Change-Id: I56ce5bd21e487e5dbe2d84aa1d83e3239268fb71
 2024-01-28 23:40:23 +00:00