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Author SHA1 Message Date
Efraim Flashner
4826856977
gnu: icedtea-7: Fix building on powerpc-linux. 
* gnu/packages/java.scm (icedtea-7)[arguments]: Adjust custom
'install-libjvm phase to add support for powerpc-linux.

Change-Id: Ie77a2b53fdef1e0ddc0351e6c2d0241d08b80508
 2023-11-05 08:42:48 +02:00
Mădălin Ionel Patrașcu
adf716c171
gnu: Add r-screpertoire. 
* gnu/packages/bioconductor.scm (r-screpertoire): New variable.

Change-Id: Iaa876f787d5e39ca2888bf2082da3d7839224e15
 2023-11-04 23:13:51 +01:00
Mădălin Ionel Patrașcu
01b7d917a2
gnu: Add r-powertcr. 
* gnu/packages/bioconductor.scm (r-powertcr): New variable.

Change-Id: I75fc30a7021d6199b768318da3afcfeaaafcf027
 2023-11-04 23:13:51 +01:00
Mădălin Ionel Patrașcu
1678be98f2
gnu: Add r-evmix. 
* gnu/packages/cran.scm (r-evmix): New variable.

Change-Id: I93152dee218e9cef85dd66e17231f1728f0ffb52
 2023-11-04 23:13:51 +01:00
Mădălin Ionel Patrașcu
ab64815f6a
gnu: Add r-truncdist. 
* gnu/packages/cran.scm (r-truncdist): New variable.

Change-Id: Icb9f06a36e5ee5a58828dc2f496b71a850a911b9
 2023-11-04 23:13:51 +01:00
Mădălin Ionel Patrașcu
3f991b817d
gnu: Add r-evd. 
* gnu/packages/cran.scm (r-evd): New variable.

Change-Id: I1f3b2ee5829807f6f76cf87b4df43ae8005688bc
 2023-11-04 23:13:51 +01:00
Wilko Meyer
e3f318f048
gnu: linux-libre 5.10: Fix the hash of the deblob-scripts. 
This is a followup to commit e672066097.

* gnu/packages/linux.scm (deblob-scripts 5.10): Update hash.

Signed-off-by: Leo Famulari <leo@famulari.name>
Change-Id: I0fe56dd2694185b6c77468ecc844aaf25ec7564a
 2023-07-23 22:26:01 -04:00
Wilko Meyer
3bb6938ffc
gnu: linux-libre 5.15: Fix the hash of the deblob-scripts. 
This is a followup to commit b26526ea05.

* gnu/packages/linux.scm (deblob-scripts 5.15): Update hash.

Signed-off-by: Leo Famulari <leo@famulari.name>
Change-Id: Ia59003f2ccfe98e2390593d1ca0b7077f0b7bd5d
 2023-07-23 22:26:00 -04:00
Wilko Meyer
1d4813f275
gnu: linux-libre 6.1: Fix the hash of the deblob-scripts. 
This is a followup to commit 26709726a8.

* gnu/packages/linux.scm (deblob-scripts 6.1): Update hash.

Signed-off-by: Leo Famulari <leo@famulari.name>
Change-Id: I0035078f4c229763e56cf70ccae730804b123640
 2023-07-23 22:26:00 -04:00
Mădălin Ionel Patrașcu
58786c82df
gnu: Add r-rnbeads. 
* gnu/packages/bioconductor.scm (r-rnbeads): New variable.

Change-Id: I78b248a449473fc37ac414295faa6e61269b8625
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2023-11-04 17:09:53 +01:00
Mădălin Ionel Patrașcu
4c17016019
gnu: Add r-ewastools. 
* gnu/packages/bioinformatics.scm (r-ewastools): New variable.

Change-Id: I4117dbee188c7d9547fe63b2b89ec9258bbda60b
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2023-11-04 17:03:24 +01:00
Mădălin Ionel Patrașcu
a04800b811
gnu: Add r-mblm. 
* gnu/packages/cran.scm (r-mblm): New variable.

Change-Id: Iddfa9bc03a4e5782623253cb70d1ae888545e2ec
 2023-11-04 17:03:24 +01:00
Mădălin Ionel Patrașcu
e16d152463
gnu: Add r-dnamcrosshyb. 
* gnu/packages/bioinformatics.scm (r-dnamcrosshyb): New variable.

Change-Id: I19e332e6adf0ce9cc721d89bb74a1aa709778873
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2023-11-04 16:30:11 +01:00
Mădălin Ionel Patrașcu
cb0e60cccf
gnu: Add r-bsgenome-hsapiens-ucsc-hg38-masked. 
* gnu/packages/bioconductor.scm
  (r-bsgenome-hsapiens-ucsc-hg38-masked): New variable.

Change-Id: Ic1b646a3bd3b7262dd82f0972961c2e89628e90b
 2023-11-04 16:30:11 +01:00
Jack Hill
9dcd8802f5
gnu: python-pikepdf: Fix embedded version string. 
* gnu/packages/python-xyz.scm (python-pikepdf)[native-inputs]: Add
python-setuptools-scm to correct embedded version form 0.0.0 to 1.17.0.

Change-Id: I659ed3e725fff6afe17abe6f55449567ba84cdfc
 2023-11-04 19:05:28 +08:00
Nicolas Graves
33644303a1
gnu: emacs-org-ql-dynamic-agenda: Rename to emacs-org-dynamic-agenda-ql. 
* /gnu/packages/emacs-xyz.scm (emacs-org-ql-dynamic-agenda): Rename to…
(emacs-org-dynamic-agenda-ql): …this.
[arguments]<#:include>: Adjust according to source change.

Change-Id: I4b09933a17d301e3017f1628414eade1ee174538
 2023-11-04 19:03:39 +08:00
Mădălin Ionel Patrașcu
7eeab6417f
gnu: Add r-methylaid. 
* gnu/packages/bioconductor.scm (r-methylaid): New variable.

Change-Id: I7839035e5316bdbe5f1386b7b41ed2fc440fb432
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2023-11-04 11:37:15 +01:00
Clément Lassieur
f54f36b363
gnu: passff-host: Add explicit references to inputs and remove some. 
This removes ‘coreutils’, ‘grep’, ‘sed’, ‘which’, ‘bash-minimal’ and
‘gnu-make’ inputs, which were only used by the Makefile and
install_host_app.sh.  Instead of running install_host_app.sh (through
‘make’) which does a few text substitutions, do the text substitutions with
Scheme code.  This simplifies things and avoids unnecessary native inputs.

* gnu/packages/browser-extensions.scm (passff-host)[build-system]: Change to
copy-build-system.
[arguments]: Copy passff.json and passff.py.  Do text substitutions on
them rather than running make.  Refer to ‘password-store’ and ‘python’ through
inputs rather than directly.
[inputs]: Add PASSWORD-STORE and PYTHON.

Change-Id: I8fdb757516a7c30eae36b15f2a8d91e1445b19a5
 2023-11-04 00:52:39 +01:00
Clément Lassieur
625cfb4c4c
gnu: password-store: Add missing ‘tail’ input. 
* gnu/packages/password-utils.scm (password-store)[arguments]: Add “tail” to
the list of requisites.
[inputs]: Add COREUTILS.

Change-Id: I7f59e6c0abfb5396b9548edaec08d3b0a7c0eb23
 2023-11-04 00:52:38 +01:00
Afkhami, Navid
10d728139d
gnu: Add r-ggbreak. 
* gnu/packages/cran.scm (r-ggbreak): New variable.

Change-Id: I27d62d0110fb56e77dc8cf82581adb6259317c2d
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2023-11-03 23:39:57 +01:00
Vinicius Monego
479fdc8451
gnu: python-pymc: Update to 5.9.1. 
* gnu/packages/statistics.scm (python-pymc): Update to 5.9.1.

Change-Id: I3d7927e7173f36ba4edeab06bd930c285432c29f
 2023-11-03 19:25:36 -03:00
Vinicius Monego
43d9fa0802
gnu: python-pytensor: Update to 2.17.3. 
* gnu/packages/python-science.scm (python-pytensor): Update to 2.17.3.

Change-Id: I2843aca1df4d43883bf643e6e363bd3700202c45
 2023-11-03 19:25:36 -03:00
Vinicius Monego
1879bfd88f
gnu: python-deepxde: Update to 1.10.0. 
* gnu/packages/machine-learning.scm (python-deepxde): Update to 1.10.0.

Change-Id: Ibc37f9e7df45c49f590beb1dda87236e853b88c1
 2023-11-03 19:25:36 -03:00
Vinicius Monego
96e8502faa
gnu: Add python-emcee. 
* gnu/packages/statistics.scm (python-emcee): New variable.
 2023-11-03 19:25:35 -03:00
Vinicius Monego
a7d56852e3
gnu: Add python-salib. 
* gnu/packages/python-science.scm (python-salib): New variable.
 2023-11-03 19:25:35 -03:00
Vinicius Monego
9642b1c7af
gnu: python-openturns: Update to 1.21.1. 
* gnu/packages/statistics.scm (python-openturns): Update to 1.21.1.
 2023-11-03 19:25:35 -03:00
Vinicius Monego
a55c3110be
gnu: python-opentsne: Update to 1.0.0. 
* gnu/packages/machine-learning.scm (python-opentsne): Update to 1.0.0.
 2023-11-03 19:25:35 -03:00
Vinicius Monego
ef473d3422
gnu: symengine: Update to 0.11.1. 
* gnu/packages/algebra.scm (symengine): Update to 0.11.1.
 2023-11-03 19:25:31 -03:00
Ricardo Wurmus
eb93ab2d14
gnu: r-gdata: Remove Excel from description. 
gdata 3.0.0 has removed support for reading Excel files.

* gnu/packages/statistics.scm (r-gdata)[description]: Update it.

Change-Id: Ic4090bc765d330d38136bf1b1dbbb6bb136edd39
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
8be2f44765
gnu: Remove r-sigpathway. 
This package has been removed with the release of Bioconductor 3.18.

* gnu/packages/bioconductor.scm (r-sigpathway): Remove variable.

Change-Id: I5cb9d938f370aa28b196f9cea95fb6024c2e6e37
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
38b5777ec8
gnu: r-rhdf5filters: Simplify. 
* gnu/packages/bioconductor.scm (r-rhdf5filters)[arguments]: Remove
'use-system-libraries phase and pass configure flags to disable bundled
libraries.

Change-Id: I2fb115e7b3df00cccb3f8d6659d465075d21f19b
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
78641cf9da
gnu: r-spams: Build with C++11. 
* gnu/packages/statistics.scm (r-spams)[arguments]: Add phase 'use-c++11.

Change-Id: Ie477af6afe8993919090f6c81e071cee542e69bc
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
142313cf0c
gnu: Remove r-genomegraphs. 
This package had been removed from Bioconductor with release 3.11.

* gnu/packages/bioconductor.scm (r-genomegraphs): Remove variable.

Change-Id: I73cc8cc8546089d91212176939b8c0c0a7afc309
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
0150529188
gnu: Remove r-wavetiling. 
This package had been removed from Bioconductor since release 3.12.

* gnu/packages/bioconductor.scm (r-wavetiling): Remove variable.

Change-Id: I5eb624d975f0eb170b263266b144eacf11944580
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
abaca151b2
gnu: r-mpo-db: Include HPO sqlite database. 
* gnu/packages/bioconductor.scm (r-mpo-db)[arguments]: Bypass fetching of the
database from the internet when in build environment.
[native-inputs]: Add MPO.sqlite.

Change-Id: Ic7228322b89ce78a85a9bd5ffbd985ccd906d268
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
b30127052e
gnu: r-readwriter: Update to 0.3.2-1.12d32cb. 
* gnu/packages/bioinformatics.scm (r-readwriter): Update to 0.3.2-1.12d32cb.

Change-Id: I412190ce94bee4e7b5fce27db7ef8a72188e74f4
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
c66c66ee3f
gnu: r-hpo-db: Include HPO sqlite database. 
* gnu/packages/bioconductor.scm (r-hpo-db)[arguments]: Bypass fetching of the
database from the internet when in build environment.
[native-inputs]: Add HPO.sqlite.

Change-Id: Ie01605ef2531d992fb85c07bae5cfaabda626ea6
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
a938342899
gnu: r-rhdf5lib: Adjust modifications to Makevars. 
* gnu/packages/bioconductor.scm (r-rhdf5lib)[arguments]: Adjust patch.

Change-Id: Iaef3d2d80c22de1c2a0b64e7c13f5fa3b8e5719d
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
c82c9c8090
gnu: r-phyloseq: Update to 1.46.0. 
* gnu/packages/bioconductor.scm (r-phyloseq): Update to 1.46.0.

Change-Id: Id11b5e913529ac8efce0d046168f4a9dbe0dbabd
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
1c3e8ab395
gnu: r-tximeta: Update to 1.20.0. 
* gnu/packages/bioconductor.scm (r-tximeta): Update to 1.20.0.

Change-Id: I8d9c5d01efc8f6c64290cdfdd193d95cd1da9152
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
270d7e1079
gnu: r-tricycle: Update to 1.10.0. 
* gnu/packages/bioconductor.scm (r-tricycle): Update to 1.10.0.

Change-Id: I72a9e1140c17ce8605bfe6e83cc290eb1ae2fad2
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
9ee38f4ee6
gnu: r-tcgabiolinks: Update to 2.30.0. 
* gnu/packages/bioconductor.scm (r-tcgabiolinks): Update to 2.30.0.

Change-Id: If7e571bfa6454bfa94dd395606575391dc506ecd
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
28480926a5
gnu: r-biscuiteer: Update to 1.16.0. 
* gnu/packages/bioconductor.scm (r-biscuiteer): Update to 1.16.0.

Change-Id: Ib6cffbbeedfe87932acfcbfb2b789b4c92a9bf81
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
53ebbff56c
gnu: r-omnipathr: Update to 3.10.1. 
* gnu/packages/bioconductor.scm (r-omnipathr): Update to 3.10.1.
[propagated-inputs]: Add r-lubridate and r-stringi.

Change-Id: Ia18b66848cd6996dfdc551bf4b182bb5ac3e17a8
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
41a4f01473
gnu: r-omicade4: Update to 1.42.0. 
* gnu/packages/bioconductor.scm (r-omicade4): Update to 1.42.0.

Change-Id: I4369e5721116bf73f096ee39a516ada94c348872
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
73efb254d8
gnu: r-dmrseq: Update to 1.22.0. 
* gnu/packages/bioconductor.scm (r-dmrseq): Update to 1.22.0.

Change-Id: I738c2fb7e0fa3e816d3767f854b8f9ed77425591
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
f6e56299e7
gnu: r-dada2: Update to 1.30.0. 
* gnu/packages/bioconductor.scm (r-dada2): Update to 1.30.0.

Change-Id: I0955c3a61b4d81cd6809e2eb287d8acfcccfb789
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
407e9b2710
gnu: r-bsseq: Update to 1.38.0. 
* gnu/packages/bioconductor.scm (r-bsseq): Update to 1.38.0.

Change-Id: Ie31f0b5c726da98a0caa4c658a5c62c1a5f40eaa
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
69d7d7a6db
gnu: r-biotmle: Update to 1.26.0. 
* gnu/packages/bioconductor.scm (r-biotmle): Update to 1.26.0.

Change-Id: Ied1d1e649fba277aa724040af31334f664d2debd
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
9f2c8b711b
gnu: r-biotip: Update to 1.16.0. 
* gnu/packages/bioconductor.scm (r-biotip): Update to 1.16.0.

Change-Id: I73503554b0271e5fe950c6da367b4893972f27e9
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
a7d1b8832a
gnu: r-bioqc: Update to 1.30.0. 
* gnu/packages/bioconductor.scm (r-bioqc): Update to 1.30.0.

Change-Id: I0b5fd7cac1283a7f12a1221ad453eb56767e8b90
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
ee259a9ad9
gnu: r-bionetstat: Update to 1.22.0. 
* gnu/packages/bioconductor.scm (r-bionetstat): Update to 1.22.0.

Change-Id: I92f2ebef0b65b947a719bdd1008f07ce279263a4
 2023-11-03 22:49:28 +01:00
Ricardo Wurmus
b0190a7d5c
gnu: r-bionet: Update to 1.62.0. 
* gnu/packages/bioconductor.scm (r-bionet): Update to 1.62.0.

Change-Id: I0712a4ba67c27b32d6666e91d9515f0299e61848
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
63f3a845ea
gnu: r-bionero: Update to 1.10.0. 
* gnu/packages/bioconductor.scm (r-bionero): Update to 1.10.0.

Change-Id: I396a37dd28571a471b45d4d8aca6ce40a1cbd384
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
4ccceb31b9
gnu: r-biomvcclass: Update to 1.70.0. 
* gnu/packages/bioconductor.scm (r-biomvcclass): Update to 1.70.0.

Change-Id: I0c6214669ec284d314eb7dc90270558934070e4b
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
b4e803a8a9
gnu: r-mvcclass: Update to 1.76.0. 
* gnu/packages/bioconductor.scm (r-mvcclass): Update to 1.76.0.

Change-Id: I6e7fa851c804009ae41a955b117d95b33fd1b2f0
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
c91a1a8bc8
gnu: r-biomformat: Update to 1.30.0. 
* gnu/packages/bioconductor.scm (r-biomformat): Update to 1.30.0.

Change-Id: I661d11f81a0dedbc8381b5ba1806643b5ff52aa6
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
2b4dcd4a7b
gnu: r-biodb: Update to 1.10.0. 
* gnu/packages/bioconductor.scm (r-biodb): Update to 1.10.0.

Change-Id: If1d14855b2bf134741c54c0a51daefdf2b80a49f
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
9480ea5046
gnu: r-biocthis: Update to 1.12.0. 
* gnu/packages/bioconductor.scm (r-biocthis): Update to 1.12.0.

Change-Id: I8400ebfd178f916488e022152e75db59f05994e6
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
327c9bd7c8
gnu: r-basilisk: Update to 1.14.0. 
* gnu/packages/bioconductor.scm (r-basilisk): Update to 1.14.0.

Change-Id: I86f5306de138eb1fedffbae65c14f9acd504c86c
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
b5527cc3c6
gnu: r-basilisk-utils: Update to 1.14.0. 
* gnu/packages/bioconductor.scm (r-basilisk-utils): Update to 1.14.0.

Change-Id: I6113042a10770ee50e4ef997ee41fe109f917885
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
b2389dcfc1
gnu: r-dir-expiry: Update to 1.10.0. 
* gnu/packages/bioconductor.scm (r-dir-expiry): Update to 1.10.0.

Change-Id: I1081ec981a52a51a351d98e5079f8fd4bcc399d0
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
d5026a9e16
gnu: r-genetclassifier: Update to 1.42.0. 
* gnu/packages/bioconductor.scm (r-genetclassifier): Update to 1.42.0.

Change-Id: I323ca2d408c640b05c9d845570ee7af28616cce2
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
31fef7c331
gnu: r-minet: Update to 3.60.0. 
* gnu/packages/bioconductor.scm (r-minet): Update to 3.60.0.

Change-Id: I4944d2e34aacc6d3ba8c5a2d2176ecf7b33ca6b8
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
ae127ddf0d
gnu: r-biobtreer: Update to 1.14.0. 
* gnu/packages/bioconductor.scm (r-biobtreer): Update to 1.14.0.

Change-Id: Icf0458c6931237a405178361778a68c1a068337c
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
d40b4c5063
gnu: r-bgeedb: Update to 2.28.0. 
* gnu/packages/bioconductor.scm (r-bgeedb): Update to 2.28.0.

Change-Id: I558f36065a9a751710843f21c6089231309705ca
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
38f88c84bf
gnu: r-bgeecall: Update to 1.18.1. 
* gnu/packages/bioconductor.scm (r-bgeecall): Update to 1.18.1.

Change-Id: I5db747786c63f248dec01879e41a9837c94d6d6c
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
58661d1d54
gnu: r-beclear: Update to 2.18.0. 
* gnu/packages/bioconductor.scm (r-beclear): Update to 2.18.0.

Change-Id: Ia52d2072c95c4ff68cabe22cd6f9da8f3f7833b3
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
6ddf9ed610
gnu: r-megadepth: Update to 1.12.0. 
* gnu/packages/bioconductor.scm (r-megadepth): Update to 1.12.0.

Change-Id: Ia8424334f3183442a8e7ffb21ba664b93f6342a3
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
9d0492c750
gnu: r-ballgown: Update to 2.34.0. 
* gnu/packages/bioconductor.scm (r-ballgown): Update to 2.34.0.

Change-Id: Ice69c2be8df89cb103e73de328ac6eb5919f0502
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
7e36e3ed55
gnu: r-guitar: Update to 2.18.0. 
* gnu/packages/bioconductor.scm (r-guitar): Update to 2.18.0.

Change-Id: I2cd39de6e1fedbc3ed9a137373d6836e930296f2
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
0c881be497
gnu: r-chromstar: Update to 1.28.0. 
* gnu/packages/bioconductor.scm (r-chromstar): Update to 1.28.0.

Change-Id: I48a305a00b1fe7c89ca4f9700ebe6f65a6265080
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
d775b141cf
gnu: r-snpstats: Update to 1.52.0. 
* gnu/packages/bioconductor.scm (r-snpstats): Update to 1.52.0.

Change-Id: Ia770e5b05a7998d552b8ccb5386ddc1ad6722217
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
3b0e948493
gnu: r-snprelate: Update to 1.36.0. 
* gnu/packages/bioconductor.scm (r-snprelate): Update to 1.36.0.

Change-Id: I79ab3d448ab4b10a97d9c9d36b3b849a7c491508
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
bbe5704c17
gnu: r-snapcgh: Update to 1.72.0. 
* gnu/packages/bioconductor.scm (r-snapcgh): Update to 1.72.0.

Change-Id: I7b2adbcb45461b5dc4f8248f92bfbda5f145d906
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
6b8c604e48
gnu: r-pathview: Update to 1.42.0. 
* gnu/packages/bioconductor.scm (r-pathview): Update to 1.42.0.

Change-Id: I56a1425210667cc9b1ee41d20b9a71a749f6ff91
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
740e7ff51b
gnu: r-parody: Update to 1.60.0. 
* gnu/packages/bioconductor.scm (r-parody): Update to 1.60.0.

Change-Id: I409588b32e582c0c6cd631d56a92ca430e2429d4
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
e9618ab210
gnu: r-ldblock: Update to 1.32.0. 
* gnu/packages/bioconductor.scm (r-ldblock): Update to 1.32.0.

Change-Id: I4183a3b48e050120ffb1e5cbba3894a5637ad1cc
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
9f139605ef
gnu: r-kegggraph: Update to 1.62.0. 
* gnu/packages/bioconductor.scm (r-kegggraph): Update to 1.62.0.

Change-Id: Iadaa3580a5755ca5e611d980241191c4ae8b9452
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
b6288f949f
gnu: r-gwastools: Update to 1.48.0. 
* gnu/packages/bioconductor.scm (r-gwastools): Update to 1.48.0.
[native-inputs]: Add r-knitr.

Change-Id: I0544357b6f954e4812d1cdb983e12ed34f83b0d1
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
11300bd9ee
gnu: r-gwascat: Update to 2.34.0. 
* gnu/packages/bioconductor.scm (r-gwascat): Update to 2.34.0.

Change-Id: I3ae4066f1e36e30cecdf15cb9a5bfb469f0d6b49
 2023-11-03 22:49:27 +01:00
Ricardo Wurmus
3e5e4bf311
gnu: r-gviz: Update to 1.46.0. 
* gnu/packages/bioconductor.scm (r-gviz): Update to 1.46.0.

Change-Id: Ib7b7f039dffd4f25731a4be3edfa6ecd293ceeff
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
f52a6fe0f1
gnu: r-ggbio: Update to 1.50.0. 
* gnu/packages/bioconductor.scm (r-ggbio): Update to 1.50.0.

Change-Id: I242df48dce620f327205d7f47bebfba0eae7d0c8
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
7af02a2c1d
gnu: r-erma: Update to 1.18.0. 
* gnu/packages/bioconductor.scm (r-erma): Update to 1.18.0.

Change-Id: I4f5993a1b80fc10b2eceb3177402c5b577a72855
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
bfd81d4846
gnu: r-catalyst: Update to 1.26.0. 
* gnu/packages/bioconductor.scm (r-catalyst): Update to 1.26.0.
[propagated-inputs]: Remove r-magrittr.

Change-Id: I2026d88617251a7dd5b87e57d7891852a0ff84cf
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
fd9c0e4167
gnu: r-msmstests: Update to 1.40.0. 
* gnu/packages/bioconductor.scm (r-msmstests): Update to 1.40.0.

Change-Id: Ia7f0d3e6684411cda2ab93c173b3195fa8a55348
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
bf8406c30a
gnu: r-msmseda: Update to 1.40.0. 
* gnu/packages/bioconductor.scm (r-msmseda): Update to 1.40.0.

Change-Id: Idc5314c04de4e03047d5fa9faac907a2ab8d527d
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
f2ab2bba68
gnu: r-biocio: Update to 1.12.0. 
* gnu/packages/bioconductor.scm (r-biocio): Update to 1.12.0.

Change-Id: Ie6e5aee0c1a0c122f574d801e3268b460f89be2f
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
456beea62b
gnu: r-msfeatures: Update to 1.10.0. 
* gnu/packages/bioconductor.scm (r-msfeatures): Update to 1.10.0.

Change-Id: I47be1fd6789a9cc386bc394e5fe0724156119ec9
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
0708efd724
gnu: r-mscoreutils: Update to 1.14.0. 
* gnu/packages/bioconductor.scm (r-mscoreutils): Update to 1.14.0.

Change-Id: Idbefebedc36bb19f5fe3549c9c3fc1e4056bf4fd
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
8fbc9cecda
gnu: r-delayedmatrixstats: Update to 1.24.0. 
* gnu/packages/bioconductor.scm (r-delayedmatrixstats): Update to 1.24.0.
[propagated-inputs]: Remove r-matrixstats.

Change-Id: I212a19d1938a676f88c0371dc838bdfbea0ba814
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
372d1079d4
gnu: r-spatialexperiment: Update to 1.12.0. 
* gnu/packages/bioconductor.scm (r-spatialexperiment): Update to 1.12.0.
[propagated-inputs]: Remove r-dropletutils.

Change-Id: I0df7aba48690c8472dee732b2aa21c9a83cb1e68
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
fb51c8df4f
gnu: r-sparsematrixstats: Update to 1.14.0. 
* gnu/packages/bioconductor.scm (r-sparsematrixstats): Update to 1.14.0.

Change-Id: Ia8812ca08d97737c1542afc80ce31ae29e673820
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
d797b2bb6f
gnu: r-scran: Update to 1.30.0. 
* gnu/packages/bioconductor.scm (r-scran): Update to 1.30.0.

Change-Id: Ic22fe78b4cd043f42b6e6cf8cf1d18772f7cfe63
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
051831dedc
gnu: r-scater: Update to 1.30.0. 
* gnu/packages/bioconductor.scm (r-scater): Update to 1.30.0.
[propagated-inputs]: Remove r-delayedmatrixstats and r-densvis; add r-matrixgenerics.

Change-Id: I7efb9c918fbc52bd0f3e184b928118cf59901d30
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
9cd2ed0580
gnu: r-scuttle: Update to 1.12.0. 
* gnu/packages/bioconductor.scm (r-scuttle): Update to 1.12.0.

Change-Id: Ia827e7c0cc34e84a82d844909f186eb8acecb604
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
71c77b8a95
gnu: r-singler: Update to 2.4.0. 
* gnu/packages/bioconductor.scm (r-singler): Update to 2.4.0.

Change-Id: I1d3dd6343c3b604431684774075815d0454dbe6f
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
1e98a630ec
gnu: r-singlecellexperiment: Update to 1.24.0. 
* gnu/packages/bioconductor.scm (r-singlecellexperiment): Update to 1.24.0.

Change-Id: I22ffd8659aab63f3abd3ace3e874c8f83df2eeff
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
f936bf66fc
gnu: r-chromvar: Update to 1.24.0. 
* gnu/packages/bioconductor.scm (r-chromvar): Update to 1.24.0.

Change-Id: I90826fc26d2ca866e3502b275b92b77ea091745e
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
c5068f9911
gnu: r-motifmatchr: Update to 1.24.0. 
* gnu/packages/bioconductor.scm (r-motifmatchr): Update to 1.24.0.

Change-Id: Ic656b84be047307728609f7a80b4077b1c638d4c
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
2458396f31
gnu: r-maftools: Update to 2.18.0. 
* gnu/packages/bioconductor.scm (r-maftools): Update to 2.18.0.

Change-Id: I86ad6178d842ab3c93281bc4795a76abeb3c1e35
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
eff0371eed
gnu: r-tfbstools: Update to 1.40.0. 
* gnu/packages/bioconductor.scm (r-tfbstools): Update to 1.40.0.

Change-Id: I5a3422fbd518ba681184e1ac36e3c1d95de07059
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
3e271e4d71
gnu: r-cner: Update to 1.38.0. 
* gnu/packages/bioconductor.scm (r-cner): Update to 1.38.0.

Change-Id: I8907fcc16b67330e76c5d3bd050d594f07924e8a
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
d8aa22981d
gnu: r-beaddatapackr: Update to 1.54.0. 
* gnu/packages/bioconductor.scm (r-beaddatapackr): Update to 1.54.0.

Change-Id: I231314cbe3d77920611221f8d234fffe123e7a26
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
74479eb3af
gnu: r-beadarraysnp: Update to 1.68.0. 
* gnu/packages/bioconductor.scm (r-beadarraysnp): Update to 1.68.0.

Change-Id: I699cd1b68d682e2994b360e226c147674efe440d
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
87a27ee369
gnu: r-beadarray: Update to 2.52.0. 
* gnu/packages/bioconductor.scm (r-beadarray): Update to 2.52.0.

Change-Id: Id9bf32ed5c1ce7ab77eda56e2c05dacc6ce987dd
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
0223873ff9
gnu: r-beachmat: Update to 2.18.0. 
* gnu/packages/bioconductor.scm (r-beachmat): Update to 2.18.0.
[propagated-inputs]: Add r-sparsearray.

Change-Id: I7ef74dcb5778d994f9a25616daa8c43ce97f2a40
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
d7ceedddff
gnu: r-rhdf5lib: Update to 1.24.0. 
* gnu/packages/bioconductor.scm (r-rhdf5lib): Update to 1.24.0.

Change-Id: Iedc6746f91520826543dd3576591fb5d557bee8b
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
a9a7f0e6d5
gnu: r-hdf5array: Update to 1.30.0. 
* gnu/packages/bioconductor.scm (r-hdf5array): Update to 1.30.0.

Change-Id: Id4e3654018ace7d0fae1d242a592a5bdb0064354
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
9940cd5a87
gnu: r-hitc: Update to 1.46.0. 
* gnu/packages/bioconductor.scm (r-hitc): Update to 1.46.0.

Change-Id: I0afa4f9da8a94712fe851268ea94af25db058a8c
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
ac96b72ebf
gnu: r-fithic: Update to 1.28.0. 
* gnu/packages/bioconductor.scm (r-fithic): Update to 1.28.0.

Change-Id: I0a17ee5963458b4aa80d35eab741693f68881793
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
d2819bd479
gnu: r-fishpond: Update to 2.8.0. 
* gnu/packages/bioconductor.scm (r-fishpond): Update to 2.8.0.

Change-Id: If7bdb7c7c7fc1cb1b0350b0b95813bcb48e2665b
 2023-11-03 22:49:26 +01:00
Ricardo Wurmus
c4aeeb8e37
gnu: r-rgraphviz: Update to 2.46.0. 
* gnu/packages/bioconductor.scm (r-rgraphviz): Update to 2.46.0.

Change-Id: Ic983783baa291a4842fbed292c090a0f31226518
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
7d25e2b5c3
gnu: r-s4vectors: Update to 0.40.1. 
* gnu/packages/bioconductor.scm (r-s4vectors): Update to 0.40.1.

Change-Id: I927dc9c82cd0b8c3db90c4e7c5b6eefeddbb68dc
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
43972af221
gnu: r-s4arrays: Update to 1.2.0. 
* gnu/packages/bioconductor.scm (r-s4arrays): Update to 1.2.0.

Change-Id: Ib9b6491f8047d9c8a446f1232e08a1dec7ca740b
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
dbc5c312ae
gnu: r-preprocesscore: Update to 1.64.0. 
* gnu/packages/bioconductor.scm (r-preprocesscore): Update to 1.64.0.

Change-Id: Ifb7fdf7c4d74129500a74d5155b64b065e564136
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
2810ee4b0d
gnu: r-icens: Update to 1.74.0. 
* gnu/packages/bioconductor.scm (r-icens): Update to 1.74.0.

Change-Id: If871b12a0d1076b2cc2f16ea64a87f1086da137e
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
b26b8e521b
gnu: r-m3c: Update to 1.24.0. 
* gnu/packages/bioconductor.scm (r-m3c): Update to 1.24.0.

Change-Id: Ibabb639726245ecffc51ac39fb0fa9636e9bc404
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
75e6f86cc0
gnu: r-pcatools: Update to 2.14.0. 
* gnu/packages/bioconductor.scm (r-pcatools): Update to 2.14.0.

Change-Id: I35eac63ee233c103627cea0d80842c8b7db1c576
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
251e2665cf
gnu: r-biodist: Update to 1.74.0. 
* gnu/packages/bioconductor.scm (r-biodist): Update to 1.74.0.

Change-Id: Ia446e4991c1955b439b2a9b40d7a22c014c5732c
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
78a082720a
gnu: r-biocworkflowtools: Update to 1.28.0. 
* gnu/packages/bioconductor.scm (r-biocworkflowtools): Update to 1.28.0.

Change-Id: I23ba98e1feb48187df231b8174217b4e7a6fc5cd
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
c4f3bc06f5
gnu: r-biocset: Update to 1.16.0. 
* gnu/packages/bioconductor.scm (r-biocset): Update to 1.16.0.

Change-Id: I8c37bdf0eaad27d5c3010aedb400541d3b925183
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
5890114ab6
gnu: r-biocpkgtools: Update to 1.20.0. 
* gnu/packages/bioconductor.scm (r-biocpkgtools): Update to 1.20.0.

Change-Id: I4a19909e48efb3602bbdf346e860cd5fc1de5ced
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
b972c4f697
gnu: r-biocor: Update to 1.26.0. 
* gnu/packages/bioconductor.scm (r-biocor): Update to 1.26.0.

Change-Id: I735115d213344ec92d6e7b37bbabc2f372a3e6ba
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
10cc2092a0
gnu: r-bioconcotk: Update to 1.22.0. 
* gnu/packages/bioconductor.scm (r-bioconcotk): Update to 1.22.0.

Change-Id: I241228a90ff960d98534248e5f49a69acf1fb39b
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
18b06daa50
gnu: r-multiassayexperiment: Update to 1.28.0. 
* gnu/packages/bioconductor.scm (r-multiassayexperiment): Update to 1.28.0.

Change-Id: I4b8c41053ac624832377a285f5002724e409b4da
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
15961e132d
gnu: r-grohmm: Update to 1.36.0. 
* gnu/packages/bioconductor.scm (r-grohmm): Update to 1.36.0.

Change-Id: I692b58aace86c5f69ba1645ebb95113f0a846409
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
2b79447123
gnu: r-experimenthub: Update to 2.10.0. 
* gnu/packages/bioconductor.scm (r-experimenthub): Update to 2.10.0.

Change-Id: I1a47361ad688a9f3219a8d9e6ff2531728129177
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
7943457076
gnu: r-biocviews: Update to 1.70.0. 
* gnu/packages/bioconductor.scm (r-biocviews): Update to 1.70.0.

Change-Id: Ic8cf3a0f1e8767812e951dbfb5d12960726712f6
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
f9dcaf2f11
gnu: r-biocstyle: Update to 2.30.0. 
* gnu/packages/bioconductor.scm (r-biocstyle): Update to 2.30.0.

Change-Id: I4bcb716982fa5eaea2e9aa34624bf4145011d20b
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
cb0e6b7711
gnu: r-biocgraph: Update to 1.64.0. 
* gnu/packages/bioconductor.scm (r-biocgraph): Update to 1.64.0.

Change-Id: Ic9aa7212fa29c9ee691219d915de532b63fc6a37
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
ee1f2a995f
gnu: r-bioccheck: Update to 1.38.0. 
* gnu/packages/bioconductor.scm (r-bioccheck): Update to 1.38.0.
[propagated-inputs]: Add r-biocbaseutils and r-callr.

Change-Id: I98e6b4ad7e3c32597435a3656adcd1cf10d3b019
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
e477608856
gnu: r-biocbaseutils: Update to 1.4.0. 
* gnu/packages/bioconductor.scm (r-biocbaseutils): Update to 1.4.0.

Change-Id: Id934591d48281066c90c36fdb9c0ef715188f8fd
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
92a1f44f6d
gnu: r-ebarrays: Update to 2.66.0. 
* gnu/packages/bioconductor.scm (r-ebarrays): Update to 2.66.0.

Change-Id: Ib13ff4d7edabeba4c3250337f0d23629b9426328
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
72ad29f730
gnu: r-reactomepa: Update to 1.46.0. 
* gnu/packages/bioconductor.scm (r-reactomepa): Update to 1.46.0.

Change-Id: I543add10e14ad634795e29f6db2e07a518878108
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
26e71b7a72
gnu: r-graphite: Update to 1.48.0. 
* gnu/packages/bioconductor.scm (r-graphite): Update to 1.48.0.

Change-Id: Ifcaed9653072ac86fbda18ac7dcf3686dd66116e
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
026bc372d8
gnu: r-biobroom: Update to 1.34.0. 
* gnu/packages/bioconductor.scm (r-biobroom): Update to 1.34.0.

Change-Id: Iba62b38441f0127acb0880105dc4fb174238412b
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
c0beba2647
gnu: r-bioassayr: Update to 1.40.0. 
* gnu/packages/bioconductor.scm (r-bioassayr): Update to 1.40.0.

Change-Id: Idfd958f0ea6e3e73c83a2f67b59c2f600c4de109
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
be0482d40f
gnu: r-fmcsr: Update to 1.44.0. 
* gnu/packages/bioconductor.scm (r-fmcsr): Update to 1.44.0.

Change-Id: Ie4da389382e4d3836342be872a88dcbeb69f59ed
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
dadf10ed8b
gnu: r-chemminer: Update to 3.54.0. 
* gnu/packages/bioconductor.scm (r-chemminer): Update to 3.54.0.

Change-Id: I43836d9323e3034c02a9864deddaf4a854a8e909
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
8d14b99d75
gnu: r-chemmineob: Update to 1.40.0. 
* gnu/packages/bioconductor.scm (r-chemmineob): Update to 1.40.0.

Change-Id: Ic7ab360eafea01ea0f7f586b588120c468d8ffd6
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
df794c84f9
gnu: r-biggr: Update to 1.38.0. 
* gnu/packages/bioconductor.scm (r-biggr): Update to 1.38.0.

Change-Id: I2dd8a24f1f73782ab888af0f89654e0ef7302b3e
 2023-11-03 22:49:25 +01:00
Ricardo Wurmus
0f8cccb01f
gnu: r-hyperdraw: Update to 1.54.0. 
* gnu/packages/bioconductor.scm (r-hyperdraw): Update to 1.54.0.

Change-Id: I0d49e7993e9225d409e863ddba3f6f832b3f95aa
 2023-11-03 22:49:24 +01:00
Ricardo Wurmus
59e55fc39e
gnu: r-hypergraph: Update to 1.74.0. 
* gnu/packages/bioconductor.scm (r-hypergraph): Update to 1.74.0.

Change-Id: I7053e0b906422526bc57220fc63fde8700a40524
 2023-11-03 22:49:24 +01:00
Ricardo Wurmus
0fc5a510b5
gnu: r-hybridmtest: Update to 1.46.0. 
* gnu/packages/bioconductor.scm (r-hybridmtest): Update to 1.46.0.

Change-Id: If225eb7af55746651921d924a10ee95ee9b071b8
 2023-11-03 22:49:24 +01:00
Ricardo Wurmus
772c6fb840
gnu: r-rsbml: Update to 2.60.0. 
* gnu/packages/bioconductor.scm (r-rsbml): Update to 2.60.0.

Change-Id: Ie1f3bc87e1c4c5df2fece70aa0a72133e038f347
 2023-11-03 22:49:24 +01:00
Ricardo Wurmus
99ff99c9eb
gnu: r-bifet: Update to 1.22.0. 
* gnu/packages/bioconductor.scm (r-bifet): Update to 1.22.0.

Change-Id: I8207d5945dcbba850610e1ce6b77f834c927fa2c
 2023-11-03 22:49:24 +01:00
Ricardo Wurmus
a70ca6a613
gnu: r-bicare: Update to 1.60.0. 
* gnu/packages/bioconductor.scm (r-bicare): Update to 1.60.0.

Change-Id: I231f0c6f24b62a9bf999b39af003156cd1578289
 2023-11-03 22:49:24 +01:00
Ricardo Wurmus
6f38f25816
gnu: r-bhc: Update to 1.54.0. 
* gnu/packages/bioconductor.scm (r-bhc): Update to 1.54.0.

Change-Id: I52b46125e0cb912b4e27d4198a676d311a5c5eb9
 2023-11-03 22:49:24 +01:00
Ricardo Wurmus
bab03df210
gnu: r-bgx: Update to 1.68.0. 
* gnu/packages/bioconductor.scm (r-bgx): Update to 1.68.0.

Change-Id: Idcab4760b9e96d74f96c0f9a09c945d9d960e598
 2023-11-03 22:49:24 +01:00