5cac1ec6c5
gnu: r-genomeinfodbdata: Update to 1.2.12.
...
* gnu/packages/bioconductor.scm (r-genomeinfodbdata): Update to 1.2.12.
Change-Id: I185d52161ec45de7d03fedeb51f2a28864df9903
2024-05-08 12:53:15 +02:00
44c5036af2
gnu: r-reactome-db: Update to 1.88.0.
...
* gnu/packages/bioconductor.scm (r-reactome-db): Update to 1.88.0.
Change-Id: I80b58a45e8265e82e7a84d8d428fc4339fd926a7
2024-05-08 12:53:15 +02:00
43b32ab2e6
gnu: r-org-sc-sgd-db: Update to 3.19.1.
...
* gnu/packages/bioconductor.scm (r-org-sc-sgd-db): Update to 3.19.1.
Change-Id: Iee6d57797bb3dde152ce0e22a3ed25c30c039a09
2024-05-08 12:53:15 +02:00
487cf830ae
gnu: r-org-bt-eg-db: Update to 3.19.1.
...
* gnu/packages/bioconductor.scm (r-org-bt-eg-db): Update to 3.19.1.
Change-Id: If37dc4be3287f0729b2e2d4aecef6745700b429c
2024-05-08 12:53:15 +02:00
37696fafac
gnu: r-org-eck12-eg-db: Update to 3.19.1.
...
* gnu/packages/bioconductor.scm (r-org-eck12-eg-db): Update to 3.19.1.
Change-Id: I0f3a84abd0dff114231c341e776b542a7b047176
2024-05-08 12:53:15 +02:00
a1852df9ff
gnu: r-mafh5-gnomad-v3-1-2-grch38: Update to 3.15.1.
...
* gnu/packages/bioconductor.scm (r-mafh5-gnomad-v3-1-2-grch38): Update to 3.15.1.
Change-Id: I6b83a3701c2a4282864bf648677b258c1315598c
2024-05-08 12:53:15 +02:00
8d531f9afb
gnu: Add r-ucsc-utils.
...
* gnu/packages/bioconductor.scm (r-ucsc-utils): New variable.
Change-Id: I02eebaa69a57b8bbd97b38ae7d62799971f70d45
2024-05-08 12:53:15 +02:00
61a5676a9d
gnu: r-biocpkgtools: Update to 1.22.0.
...
* gnu/packages/bioconductor.scm (r-biocpkgtools): Update to 1.22.0.
Change-Id: I4afb2530597279d9f2b6c01fc7d76c95c88aa629
2024-05-08 12:53:14 +02:00
b9040cb312
gnu: r-debcam: Update to 1.22.0.
...
* gnu/packages/bioconductor.scm (r-debcam): Update to 1.22.0.
Change-Id: Iec96dd28f8adc4d8c070f2e50098a02a4582ec33
2024-05-08 12:53:14 +02:00
45b4f78687
gnu: Add r-txdbmaker.
...
* gnu/packages/bioconductor.scm (r-txdbmaker): New variable.
Change-Id: I2e236b42117525a48917604ea14396ff661b72f7
2024-05-08 12:53:14 +02:00
cf3471cc9e
gnu: Add r-pwalign.
...
* gnu/packages/bioconductor.scm (r-pwalign): New variable.
Change-Id: I6a12f48c5de948292af7c6888b12e849e1f42db7
2024-05-08 12:53:14 +02:00
155ac301f7
gnu: Add r-psmatch.
...
* gnu/packages/bioconductor.scm (r-psmatch): New variable.
Change-Id: I7b3071424563b713912016301f551ce00aceddea
2024-05-08 12:53:14 +02:00
6e126301b4
gnu: Add r-gypsum.
...
* gnu/packages/bioconductor.scm (r-gypsum): New variable.
Change-Id: Id3bdf044d9a885605b1b2b2ceba32398da6ddec0
2024-05-08 12:53:14 +02:00
2c6bd40baf
gnu: Add r-alabaster-se.
...
* gnu/packages/bioconductor.scm (r-alabaster-se): New variable.
Change-Id: I698a2d678e4819d9ac4b2668a2f7ef2063f8d674
2024-05-08 12:53:14 +02:00
1dd2cce88f
gnu: Add r-alabaster-sce.
...
* gnu/packages/bioconductor.scm (r-alabaster-sce): New variable.
Change-Id: I8121614d5b93922555b6cb5fd7a05d68980aff20
2024-05-08 12:53:14 +02:00
092609b36a
gnu: Add r-alabaster-ranges.
...
* gnu/packages/bioconductor.scm (r-alabaster-ranges): New variable.
Change-Id: I99e1e6549537acb37de2788961dbd17ef6c1de27
2024-05-08 12:53:14 +02:00
ba8fbb89e4
gnu: Add r-alabaster-matrix.
...
* gnu/packages/bioconductor.scm (r-alabaster-matrix): New variable.
Change-Id: If5b438983a70f8f81e3442d8a1cb3821f4e3489a
2024-05-08 12:53:14 +02:00
8031162607
gnu: Add r-alabaster-base.
...
* gnu/packages/bioconductor.scm (r-alabaster-base): New variable.
Change-Id: Ifb9fe95fb237d12dadf134278f130e614925b5ec
2024-05-08 12:53:14 +02:00
9bd400722d
gnu: Add r-alabaster-schemas.
...
* gnu/packages/bioconductor.scm (r-alabaster-schemas): New variable.
Change-Id: I3d9218af9b4408e3375f9ccd98a4c95935b2c273
2024-05-08 12:53:14 +02:00
1117e96d9f
gnu: r-cytoml: Update to 2.16.0.
...
* gnu/packages/bioconductor.scm (r-cytoml): Update to 2.16.0.
Change-Id: I14ae3ae0d5ff8d66b964651b6fe3753d934f1554
2024-05-08 12:53:14 +02:00
c29bc85ec6
gnu: Add r-jsonvalidate.
...
* gnu/packages/cran.scm (r-jsonvalidate): New variable.
Change-Id: I1393fb3b4034f870663dc887be783e8aaf4c9884
2024-05-08 12:53:14 +02:00
53555dac1c
guix: Update Bioconductor version to 3.19.
...
* guix/build-system/r.scm (bioconductor-uri): Use 3.19 URL.
* guix/import/cran.scm (%bioconductor-version): Set to 3.19.
Change-Id: I7a2c4dfcdb2c4cdfef581f823d87e73acc163549
2024-05-08 12:53:14 +02:00
66e179ac18
gnu: r-xts: Remove vignette outputs.
...
* gnu/packages/cran.scm (r-xts)[source]: Add snippet to remove generated
files.
Change-Id: Iba82b900e632e2cf5a99c9deb807bae6cf3dabcd
2024-05-08 12:53:14 +02:00
628d007b83
gnu: r-desctools: Set HOME variable.
...
* gnu/packages/statistics.scm (r-desctools)[argumonts]: Add phase 'pre-check.
Change-Id: Icec222a5cdcb2c95ad7bd600ce5188bd5588bb4e
2024-05-08 12:53:14 +02:00
79c2b32337
gnu: r-with-tests: Update to 4.4.0.
...
* gnu/packages/statistics.scm (r-with-tests): Update to 4.4.0.
Change-Id: If77c95867cc16141c397e48c899a9ade3e89876d
2024-05-08 12:53:14 +02:00
2bea3f2562
gnu: kubo: Unbundle go-cidutil, go-log and go-ipfs-util.
...
* gnu/packages/ipfs.scm (kubo) [source]: Delete "go-cidutil", "go-log",
"go-ipfs-util" from bundled packages.
[inputs]: Add go-github-com-ipfs-go-cidutil, go-github-com-ipfs-go-log,
go-github-com-ipfs-go-log-v2, and go-github-com-ipfs-go-ipfs-util.
Change-Id: I3e49deb9572c6ac471210a392a52117fd0b9ce1a
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2024-05-08 00:07:21 +01:00
231ffaf1ac
gnu: Add go-github-com-ipfs-go-cidutil.
...
* gnu/packages/ipfs.scm (go-github-com-ipfs-go-cidutil): New variable.
Change-Id: I6077fc00d22b541a959a6623c8666c35288ca105
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2024-05-08 00:05:05 +01:00
6f60f90c15
gnu: Add go-github-com-ipfs-go-log.
...
* gnu/packages/ipfs.scm (go-github-com-ipfs-go-log): New variable.
Change-Id: I5b5b1d594b5458a7ca156346c6a6dc3c8d5bd69d
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2024-05-08 00:05:05 +01:00
58cc52f2dc
gnu: Add go-github-com-ipfs-go-log-v2.
...
* gnu/packages/ipfs.scm (go-github-com-ipfs-go-log-v2): New variable.
Change-Id: Id6d85bfa883670345420c21937681ae2844f6263
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2024-05-08 00:03:02 +01:00
8cb146a3e6
gnu: Add go-github-com-ipfs-go-detect-race.
...
* gnu/packages/ipfs.scm (go-github-com-ipfs-go-detect-race): New variable.
Change-Id: Ic65c12a717a50c4309bc89d29d158a43fbc0c81a
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2024-05-07 23:51:25 +01:00
f669a24a95
gnu: Add go-github-com-ipfs-go-ipfs-util.
...
* gnu/packages/ipfs.scm (go-github-com-ipfs-go-ipfs-util): New variable.
Change-Id: Ic496282dc62b7c0d5bd9017aff6a3818b2661309
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
2024-05-07 23:51:16 +01:00
2795d0f3e7
gnu: kubo: Unbundle go-bazil-org-fuse.
...
* gnu/packages/ipfs.scm (kubo) [source]: Remove vendor/bazil.org.
[inputs]: Add go-bazil-org-fuse.
Change-Id: Ie55e609c15a6eaca7ec32521a55620bf674af240
2024-05-07 23:18:48 +01:00
1f6c4f226d
gnu: Add go-bazil-org-fuse.
...
* gnu/packages/golang-xyz.scm (go-bazil-org-fuse): New variable.
Change-Id: I933d90dca50110f53831febc81d587c14973934f
2024-05-07 23:18:48 +01:00
330a133b85
gnu: go-git-sr-ht-emersion-go-scfg: Move to golang-xyz.
...
* gnu/packages/golang.scm: (go-git-sr-ht-emersion-go-scfg): Move from here ...
* gnu/packages/golang-xyz.scm: ... to here
Change-Id: I75cc680543313e41abc86e71d48a9be9e9ce694a
2024-05-07 23:18:48 +01:00
74b2a9d5a4
gnu: go-git-sr-ht-emersion-gqlclient: Move to golang-web.
...
* gnu/packages/golang.scm (go-git-sr-ht-emersion-gqlclient): Move from
here ...
* gnu/packages/golang-web.scm: ... to here.
Change-Id: I2b07dc198f6710680da0430e5f302893060e37b8
2024-05-07 23:18:47 +01:00
072b06f2f3
gnu: go-git-sr-ht-sircmpwn-getopt: Move to golang-xyz.
...
* gnu/packages/golang.scm (go-git-sr-ht-sircmpwn-getopt): Move from here ...
* gnu/packages/golang-xyz.scm: ... to here.
Change-Id: Ic53ec6828f7389326191b659dd16b623e6d1af43
2024-05-07 23:18:47 +01:00
9716914d4e
gnu: web: Remove syncthing module from used modules.
...
There is no more mudule from syncthing which needs to be imported
anymore.
* gnu/packages/web.scm: Remove (gnu packages syncthing) module.
Change-Id: I688e72009e2daa5e75eaeaaeff9026ca888b266b
2024-05-07 23:17:46 +01:00
fb44cd89df
gnu: go-github-com-nbrownus-go-metrics-prometheus: Disable tests.
...
* gnu/packages/golang-xyz.scm (go-github-com-nbrownus-go-metrics-prometheus):
Disable all tests.
Change-Id: I7f340fd1e58edc0203068c762a1bbc798003a84b
2024-05-07 21:33:45 +01:00
aa1090713a
gnu: tmsu: Enable test suite.
...
* gnu/packages/file-systems.scm (tmsu): Fail over to the project's
Makefile targets.
[arguments]: <#:go>: Use go-1.21.
<#:phases>: Add 'adjust-makefile' phase. Use custom 'build, 'check and
'install phases.
Change-Id: Ice920f2196123f1a1f1561879ab919bc0d4e8512
2024-05-07 21:33:44 +01:00
c7bd735bc4
gnu: sqls: Use go-1.21.
...
Merge all inputs into native-inputs since the output result of the
package is an executable that does not require sources from Golang
modules to be available after installation.
* gnu/packages/databases.scm (sqls):
[arguments]: <#:go>: Use go-1.21.
[inputs]: Remove go-github-com-go-sql-driver-mysql,
go-github-com-lib-pq, go-github-com-mattn-go-runewidth,
go-github-com-mattn-go-sqlite3, go-github-com-olekukonko-tablewriter,
go-github-com-pkg-errors, go-github-com-sourcegraph-jsonrpc2,
go-golang-org-x-crypto, go-golang-org-x-xerrors, and
go-gopkg-in-yaml-v2.
[native-inputs]: Add go-github-com-go-sql-driver-mysql,
go-github-com-lib-pq, go-github-com-mattn-go-runewidth,
go-github-com-mattn-go-sqlite3, go-github-com-olekukonko-tablewriter,
go-github-com-pkg-errors, go-github-com-sourcegraph-jsonrpc2,
go-golang-org-x-crypto, go-golang-org-x-xerrors, and
go-gopkg-in-yaml-v2.
Change-Id: I9312a483dfa954b5f0ad4cfac04b5153570bf571
2024-05-07 21:33:44 +01:00
e582f27a53
gnu: Add go-github-com-msteinert-pam-v2.
...
* gnu/packages/golang-xyz.scm (go-github-com-msteinert-pam-v2): New variable.
Change-Id: I7dfcb72703722f894eb52c603f02e64e7350f53a
2024-05-07 21:33:44 +01:00
243ff41195
gnu: Add soju.
...
* gnu/packages/irc.scm (soju): New variable..
Modified-by: Sharlatan Hellseher <sharlatanus@gmail.com>
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
Change-Id: I18b7e574339e98fdf2623338aac1635c8e727699
2024-05-07 21:33:44 +01:00
13912821a2
gnu: go-github-com-matttproud-golang-protobuf-extensions-pbutil: Update to 2.0.0.
...
* gnu/packages/syncthing.scm (go-github-com-matttproud-golang-protobuf-extensions-pbutil):
Update to 2.0.0.
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
Change-Id: Ia9f1acacd337b95526ee0b9b7b31f1de598f30d3
2024-05-07 21:33:44 +01:00
b2054615da
gnu: go-github-com-prometheus-client-golang: Update to 1.17.0.
...
* gnu/packages/golang.scm (go-github-com-prometheus-client-golang):
Update to 1.17.0.
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
Change-Id: I4d3e9d3e61991f94fc2a7bd4b85e7d4010c4b508
2024-05-07 21:32:36 +01:00
2359feb658
gnu: go-github-com-prometheus-common: Update to 0.45.0.
...
* gnu/packages/golang.scm (go-github-com-prometheus-common): Update to
0.45.0.
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
Change-Id: Ic03cdaf87253df869e1d791336189032fac0d625
2024-05-07 15:38:28 +01:00
b7800aa34f
gnu: go-github-com-prometheus-client-model: Update to 0.5.0.
...
* gnu/packages/golang.scm (go-github-com-prometheus-client-model):
Update to 0.5.0.
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
Change-Id: Iebb57390b99a4ed2567588872a9745a69aae9ced
2024-05-07 15:38:28 +01:00
881f9630c9
gnu: Add go-gopkg-in-irc-v4.
...
* gnu/packages/irc.scm (go-gopkg-in-irc-v4): New variable.
Modified-by: Sharlatan Hellseher <sharlatanus@gmail.com>
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
Change-Id: Ie1afdde3d1a23154e592445b5ce91e5918c6c822
2024-05-07 15:38:28 +01:00
b6a8c4c142
gnu: go-gopkg-in-irc-v3: Enable tests.
...
* gnu/packages/irc.scm (go-gopkg-in-irc-v3): Enable tests, remove input
lables.
[propagated-inputs]: Remove go-github-com-stretchr-testify.
[native-inputs]: Add go-github-com-stretchr-testify and
python-irc-parser-tests.
Change-Id: I83c8094e9417052781993c3cde900c47875a2029
2024-05-07 15:38:28 +01:00
bb49060039
gnu: Add python-irc-parser-tests.
...
* gnu/packages/irc.scm (python-irc-parser-tests): New variable.
Change-Id: Iaffea626ed06e228562b3c92123d30c9712de7c3
2024-05-07 15:38:28 +01:00
4f4034bb46
gnu: Add go-git-sr-ht-emersion-go-sqlite3-fts5.
...
* gnu/packages/golang-xyz.scm (go-git-sr-ht-emersion-go-sqlite3-fts5):
New variable.
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
Change-Id: Icb6f77b306ff5c8a816d8a42e90a1bf23115b38f
2024-05-07 15:38:28 +01:00
Ricardo Wurmus
Artyom V. Poptsov
Sharlatan Hellseher
Jesse Eisses