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Author SHA1 Message Date
Afkhami, Navid b963bf6b1d
gnu: python-baltica: Add missing R inputs. 
* gnu/packages/bioinformatics.scm (python-baltica)[propagated-inputs]: Add
r-biocmanager, r-dplyr, r-genomicranges, r-here, r-openxlsx, r-optparse,
r-readr, r-rsamtools, r-stringr, r-tidyr, r-upsetr, and r-yaml.
[description]: Add an extra space after a period.

Change-Id: I8c1bb556048b406b95e081155a46da17a6be5676
 2023-10-31 22:03:24 +01:00
Ricardo Wurmus 4254269ad5
gnu: r-logspline: Update to 2.1.21. 
* gnu/packages/statistics.scm (r-logspline): Update to 2.1.21.

Change-Id: Ib4ec6124282851bcc52eb87f7e30027e801f0531
 2023-10-31 21:57:59 +01:00
Ricardo Wurmus 0858b9c472
gnu: r-withr: Update to 2.5.2. 
* gnu/packages/statistics.scm (r-withr): Update to 2.5.2.

Change-Id: Ie4265bc4a6d9c54e3f64ab12ae0d14c716b4e03f
 2023-10-31 21:57:59 +01:00
Ricardo Wurmus 90a8594c7b
gnu: r-checkmate: Update to 2.3.0. 
* gnu/packages/statistics.scm (r-checkmate): Update to 2.3.0.

Change-Id: I0599e3a4e174cc311c37d7c334087eda15deafc1
 2023-10-31 21:57:59 +01:00
Ricardo Wurmus 76a12b07d1
gnu: r-dbplyr: Update to 2.4.0. 
* gnu/packages/statistics.scm (r-dbplyr): Update to 2.4.0.

Change-Id: I8cf5c1b47b47a41b606e76d0b5e14425946f0903
 2023-10-31 21:57:59 +01:00
Ricardo Wurmus e2d4dd5e1c
gnu: r-knitr: Update to 1.45. 
* gnu/packages/statistics.scm (r-knitr): Update to 1.45.

Change-Id: I1317366a0041f29b284e24d056734498f9d35cd7
 2023-10-31 21:57:59 +01:00
Ricardo Wurmus 4f4ab05dc4
gnu: r-strex: Update to 1.6.1. 
* gnu/packages/cran.scm (r-strex): Update to 1.6.1.

Change-Id: Id37ef19901a3548128816e2677148405b5845297
 2023-10-31 21:57:59 +01:00
Ricardo Wurmus a14e534dbd
gnu: r-seuratobject: Update to 5.0.0. 
* gnu/packages/cran.scm (r-seuratobject): Update to 5.0.0.
[propagated-inputs]: Add r-generics, r-lifecycle, and r-spam.

Change-Id: I8486d42c1f9d3e5f4b9fc091a4d4aab7b1c803b6
 2023-10-31 21:57:59 +01:00
Ricardo Wurmus 75db05d7db
gnu: r-rfast: Update to 2.0.9. 
* gnu/packages/cran.scm (r-rfast): Update to 2.0.9.
[propagated-inputs]: Add r-rcppparallel.

Change-Id: I551a2b1745b937454b5aad99f4620839f9a89902
 2023-10-31 21:57:59 +01:00
Ricardo Wurmus d0013cb066
gnu: r-spatstat: Update to 3.0-7. 
* gnu/packages/cran.scm (r-spatstat): Update to 3.0-7.

Change-Id: I8c54279b92acb7532b1050613a60ba2e96c115eb
 2023-10-31 21:57:59 +01:00
Ricardo Wurmus 12167e57e8
gnu: r-spatstat-linnet: Update to 3.1-3. 
* gnu/packages/cran.scm (r-spatstat-linnet): Update to 3.1-3.

Change-Id: I7f1dadd2e8fecf03cbde3c56de3a3384ba8cf24d
 2023-10-31 21:57:58 +01:00
Ricardo Wurmus 8638f87510
gnu: r-posterior: Update to 1.5.0. 
* gnu/packages/cran.scm (r-posterior): Update to 1.5.0.

Change-Id: I3fa7adca749efcbe0d8b6ab0f707e70a1e895d2d
 2023-10-31 21:57:58 +01:00
Ricardo Wurmus bd15e8babf
gnu: r-adagio: Update to 0.9.2. 
* gnu/packages/cran.scm (r-adagio): Update to 0.9.2.

Change-Id: I2131b973194fcf710fed1ac4c425717278269308
 2023-10-31 21:57:58 +01:00
Ricardo Wurmus 199f6a9967
gnu: r-rintrojs: Update to 0.3.3. 
* gnu/packages/cran.scm (r-rintrojs): Update to 0.3.3.

Change-Id: I184740e9bd1ed8d087c2985d08b12f4fe31d72b7
 2023-10-31 21:57:58 +01:00
Ricardo Wurmus 8aafa8bd45
gnu: r-sampling: Update to 2.10. 
* gnu/packages/cran.scm (r-sampling): Update to 2.10.

Change-Id: I7a3407c77fb71a8a4355415beeee09edc2a8908c
 2023-10-31 21:57:58 +01:00
Ricardo Wurmus 8ab1ea6850
gnu: r-polspline: Update to 1.1.24. 
* gnu/packages/cran.scm (r-polspline): Update to 1.1.24.

Change-Id: I323fc3b50c1d215d749cd814a684463810e4bfc4
 2023-10-31 21:57:58 +01:00
Ricardo Wurmus d034d0a1a0
gnu: r-grimport2: Update to 0.3-1. 
* gnu/packages/cran.scm (r-grimport2): Update to 0.3-1.

Change-Id: I6b7de08f4d24a3398e8b788fbe726792ac38a59a
 2023-10-31 21:57:58 +01:00
Ricardo Wurmus 2fec2b0a7a
gnu: r-gridpattern: Update to 1.1.1. 
* gnu/packages/cran.scm (r-gridpattern): Update to 1.1.1.

Change-Id: I63bc1df4fc6f8f5e9931a6a82db68df0e933a1cb
 2023-10-31 21:57:58 +01:00
Ricardo Wurmus 05e2f170f7
gnu: r-performance: Update to 0.10.8. 
* gnu/packages/cran.scm (r-performance): Update to 0.10.8.

Change-Id: Ic0c7a1f1402ae5a63bf433fd2f874e24eab5a216
 2023-10-31 21:57:58 +01:00
Ricardo Wurmus d7244ece08
gnu: r-wrs2: Update to 1.1-5. 
* gnu/packages/cran.scm (r-wrs2): Update to 1.1-5.
[propagated-inputs]: Remove r-mc2d.

Change-Id: I0346e018b401143b4f9cf65845cf4d3b210ed54b
 2023-10-31 21:57:58 +01:00
Ricardo Wurmus 62ad4b2566
gnu: r-rbibutils: Update to 2.2.16. 
* gnu/packages/cran.scm (r-rbibutils): Update to 2.2.16.

Change-Id: I188dddbb7fa03f43574e50d43f741c5398e7c331
 2023-10-31 21:57:58 +01:00
Ricardo Wurmus d941cec521
gnu: r-lambertw: Update to 0.6.9. 
* gnu/packages/cran.scm (r-lambertw): Update to 0.6.9.

Change-Id: Ia36a96ddd78585768b88ab662d5c5ba31aa40744
 2023-10-31 21:57:58 +01:00
Ricardo Wurmus e11a490138
gnu: r-mbess: Update to 4.9.3. 
* gnu/packages/cran.scm (r-mbess): Update to 4.9.3.

Change-Id: I8ada8e1a56b7497145409de82865d5d9d83da6e3
 2023-10-31 21:57:58 +01:00
Ricardo Wurmus 8e44a14be6
gnu: r-poorman: Update to 0.2.7. 
* gnu/packages/cran.scm (r-poorman): Update to 0.2.7.

Change-Id: I9c23bd2bbba0eb6f6b2b6b6ac1cc11524b5c6980
 2023-10-31 21:57:58 +01:00
Ricardo Wurmus 03c1f71501
gnu: r-consort: Update to 1.2.1. 
* gnu/packages/cran.scm (r-consort): Update to 1.2.1.

Change-Id: I28d1749044a38f9a9144eeb5675d6607bf973c53
 2023-10-31 21:57:58 +01:00
Ricardo Wurmus 221b9422fc
gnu: r-abn: Update to 3.0.2. 
* gnu/packages/bioconductor.scm (r-abn): Update to 3.0.2.

Change-Id: Icf3de104b61e79b9a7c9fbfecb0e071d6e46ef9d
 2023-10-31 21:57:58 +01:00
Ricardo Wurmus a9ee95aec1
gnu: r-htmltable: Update to 2.4.2. 
* gnu/packages/cran.scm (r-htmltable): Update to 2.4.2.
[arguments]: Replace minified JavaScript.
[native-inputs]: Add esbuild and js-jquery.

Change-Id: Iacc17957c2a773ca651d3a9e980a3e4281874829
 2023-10-31 21:57:58 +01:00
Ricardo Wurmus dfd3934b6b
gnu: r-rsqlite: Update to 2.3.2. 
* gnu/packages/statistics.scm (r-rsqlite): Update to 2.3.2.

Change-Id: I97532cd5834e0aad84d7072f7f93bae612ad93bf
 2023-10-31 21:57:58 +01:00
Efraim Flashner e82b700228
gnu: b43-tools: Use make-flags. 
* gnu/packages/firmware.scm (b43-tools)[arguments]: Add make-flags.
Use make-flags in custom 'build and 'install phases.  Remove trailing #t
from phases.

Change-Id: I8576351ecd571d191598943a2d143ab3e3e9da09
 2023-10-31 22:32:53 +02:00
Maxim Cournoyer d96a9c7473
gnu: python-radio-beam: Update to 0.3.6. 
* gnu/packages/astronomy.scm (python-radio-beam): Update to 0.3.6.
[native-inputs]: Add python-setuptools-scm.

Change-Id: I3be87a22b701119699d37104f8df4f3fab44d0c8
 2023-10-31 13:15:25 -04:00
Maxim Cournoyer 6318e7a851
gnu: python-spectral-cube: Update to 0.6.3. 
* gnu/packages/astronomy.scm (python-spectral-cube): Update to 0.6.3.
[native-inputs]: Add python-setuptools-scm.

Change-Id: I8b701081d2c8ea2fd8f25ca845e8e26760fdc094
 2023-10-31 13:15:25 -04:00
Sharlatan Hellseher 5e5547d1b3
gnu: Add python-spectral-cube. 
* gnu/packages/astronomy.scm (python-spectral-cube): New variable.

Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
 2023-10-31 13:15:25 -04:00
Sharlatan Hellseher c1e3ad850d
gnu: Add python-aplpy. 
* gnu/packages/astronomy.scm (python-aplpy): New variable.

Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
 2023-10-31 13:15:24 -04:00
Sharlatan Hellseher 4b1dce7185
gnu: Add python-pyregion. 
* gnu/packages/astronomy.scm (python-pyregion): New variable.

Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
 2023-10-31 13:15:24 -04:00
Sharlatan Hellseher ea2e0eb36b
gnu: Add python-pyavm. 
* gnu/packages/astronomy.scm (python-pyavm): New variable.

Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
 2023-10-31 13:15:24 -04:00
Sharlatan Hellseher c82c6807e8
gnu: Add python-radio-beam. 
* gnu/packages/astronomy.scm (python-radio-beam): New variable.

Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
 2023-10-31 13:15:24 -04:00
Tobias Geerinckx-Rice 5e7f27d6ca
gnu: opensmtpd: Update to 7.4.0p0 (bis). 
This time fixing a segfault reported & debugged entirely by graywolf.
See: <https://github.com/OpenSMTPD/OpenSMTPD/issues/1233>

So, what went wrong here?  Mostly me being entirely convinced, to the
point of not even looking, that we have no opensmtpd system test.  We
do.  Instead, I tested the update on my own mail server, which for
entirely unhysterical raisins happens to link OpenSMTPd against OpenSSL
and so just happens to sidestep this bug.  Aiya.

* gnu/packages/mail.scm (opensmtpd): Update to 7.4.0p0.
[native-inputs]: Add pkg-config.
[inputs]: Add libbsd.
[arguments]: Add "--with-libbsd" to #:configure-flags.

Co-authored-by: graywolf in #guix
Change-Id: I5536b828eecd16f041ed9381b16bd7aa54158155
 2023-10-29 02:00:00 +02:00
Mădălin Ionel Patrașcu a0a377fdd6
gnu: Add r-radiogx. 
* gnu/packages/bioconductor.scm (r-radiogx): New variable.

Change-Id: I8fd06a18bd68f9a3baa2cc129d62aef06528bc97
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2023-10-31 13:58:08 +01:00
Mădălin Ionel Patrașcu 7170720e48
gnu: Add r-coregx. 
* gnu/packages/bioconductor.scm (r-coregx): New variable.

Change-Id: Ib54ba3c7bebdcc90748d4e4b0b2ce63b7f0fc1b8
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2023-10-31 13:58:08 +01:00
Mădălin Ionel Patrașcu e8cd556a7c
gnu: Add r-piano. 
* gnu/packages/bioconductor.scm (r-piano): New variable.

Change-Id: I1bc2387563510c47614748423a3b510adc0486aa
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2023-10-31 13:58:08 +01:00
Mădălin Ionel Patrașcu a8680f59e3
gnu: Add r-bench. 
* gnu/packages/cran.scm (r-bench): New variable.

Change-Id: I9948ff12729b08dd4016df272777651a6b6de2e0
 2023-10-31 13:58:08 +01:00
Mădălin Ionel Patrașcu 4903e70993
gnu: Add r-profmem. 
* gnu/packages/cran.scm (r-profmem): New variable.

Change-Id: If99cf8e963601e9f0a664f12ef263a064b59b0d6
 2023-10-31 13:58:08 +01:00
Mădălin Ionel Patrașcu b538ce0c60
gnu: Add r-relations. 
* gnu/packages/cran.scm (r-relations): New variable.

Change-Id: I4bf67353aa7f7221592d274d61c74b83191a6281
 2023-10-31 13:58:08 +01:00
Mădălin Ionel Patrașcu 91ba3ea8eb
gnu: Add r-magicaxis. 
* gnu/packages/cran.scm (r-magicaxis): New variable.

Change-Id: I9843dcf90cd6d85799fab688d6dccfcfacfad672
 2023-10-31 13:58:08 +01:00
Mădălin Ionel Patrașcu 48b2478067
gnu: Add r-celestial. 
* gnu/packages/cran.scm (r-celestial): New variable.

Change-Id: I9ab9c6b6c79f2fb12d7391a75e7214bbeba675fc
 2023-10-31 13:58:08 +01:00
Mădălin Ionel Patrașcu f123b38090
gnu: Add r-nistunits. 
* gnu/packages/cran.scm (r-nistunits): New variable.

Change-Id: I66328b54045a3125e5f3033605be88e3a1b2646a
 2023-10-31 13:58:08 +01:00
Mădălin Ionel Patrașcu 192514e869
gnu: Add r-r4rna. 
* gnu/packages/bioconductor.scm (r-r4rna): New variable.

Change-Id: I1bde2a17b0ba4a97fa54161744f048dbfaf2217a
 2023-10-31 13:58:08 +01:00
Mădălin Ionel Patrașcu d24c1078d2
gnu: Add r-r3cseq. 
* gnu/packages/bioconductor.scm (r-r3cseq): New variable.

Change-Id: Ib62db1415ef3988ccef88ad600192246964b4d84
 2023-10-31 13:58:08 +01:00
Yann Dupont c0895371c5
gnu: lvm2: Remove systemd rule. 
Fixes <https://issues.guix.gnu.org/65177>.
Reported by Adrien 'neox' Bourmault <neox@gnu.org>.

* gnu/packages/patches/lvm2-no-systemd.patch: New file.
* gnu/packages/linux.scm (lvm2)[source]: Apply patch.
* gnu/local.mk: Register new patch.

Signed-off-by: Simon Tournier <zimon.toutoune@gmail.com>
Change-Id: I6b9d583f5914cc127c067829b5891827c04608cb
 2023-10-31 09:56:13 +01:00
Ricardo Wurmus 5cbb0b15cc
gnu: coturn: Update to 4.6.2. 
* gnu/packages/telephony.scm (coturn): Update to 4.6.2.

Change-Id: If0b46af1a034a72a49c00b1e2a871ea636d203f2
 2023-10-31 09:47:54 +01:00