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2829 Commits (37cd5536797450e18ffd5a54595a3453a8a8154f)

Author SHA1 Message Date
Ricardo Wurmus 593327ef5b
gnu: r-bgx: Build without CPU tuning. 
Fixes <https://issues.guix.gnu.org/57210>.

* gnu/packages/bioconductor.scm (r-bgx)[arguments]: Add phase
'do-not-tune-cflags-for-reproducibility to patch configure.ac.
[inputs]: Add boost.
[native-inputs]: Add autoconf and automake.
 2022-08-14 20:43:01 +02:00
Ricardo Wurmus 8e87bbde13
gnu: r-lpsymphony: Build reproducibly. 
* gnu/packages/bioconductor.scm (r-lpsymphony)[arguments]: Add build phase
'make-build-order-reproducible.
 2022-08-14 20:43:00 +02:00
Ricardo Wurmus 17d3880de7
gnu: r-activepathways: Update to 1.1.1. 
* gnu/packages/bioconductor.scm (r-activepathways): Update to 1.1.1.
 2022-08-10 15:44:20 +02:00
Ricardo Wurmus 2efc787811
gnu: Add r-ciara. 
* gnu/packages/bioconductor.scm (r-ciara): New variable.
 2022-08-09 10:49:27 +02:00
Ricardo Wurmus 3b75131be6
gnu: Add r-biomartr. 
* gnu/packages/bioconductor.scm (r-biomartr): New variable.
 2022-08-05 15:43:09 +02:00
Mădălin Ionel Patrașcu af207dd46d
gnu: Add r-infercnv. 
* gnu/packages/bioconductor.scm (r-infercnv): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2022-08-01 23:53:23 +02:00
Mădălin Ionel Patrașcu c6800aa31e
gnu: Add r-muscat. 
* gnu/packages/bioconductor.scm (r-muscat): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2022-08-01 16:08:11 +02:00
Paul A. Patience d1b60cb65b
gnu: Add comma after “i.e.” in descriptions. 
* gnu/packages/bioconductor.scm (r-anota)[description]: Add comma after
“i.e.”.
* gnu/packages/code.scm (xenon)[description]: Same.
* gnu/packages/cran.scm (r-crosstalk)[description]: Same.
* gnu/packages/python-xyz.scm (python-radon)[description]: Same.
* gnu/packages/statistics.scm (r-logspline)[description]: Same.
* gnu/packages/suckless.scm (tabbed)[description]: Same.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2022-08-01 14:08:08 +02:00
Ricardo Wurmus 9238ba5874
gnu: r-affycompatible: Build reproducibly. 
* gnu/packages/bioconductor.scm (r-affycompatible)[arguments]: Sort XML
elements before generating R code from them.
 2022-07-15 00:07:42 +02:00
Ricardo Wurmus 602cf66c79
gnu: Add r-dittoseq. 
* gnu/packages/bioconductor.scm (r-dittoseq): New variable.
 2022-07-04 13:48:58 +02:00
Ricardo Wurmus 3bb39fc370
gnu: r-tcgabiolinks: Update to 2.24.3. 
* gnu/packages/bioconductor.scm (r-tcgabiolinks): Update to 2.24.3.
 2022-07-02 23:56:10 +02:00
Ricardo Wurmus af06365a3e
gnu: r-bionetstat: Update to 1.16.1. 
* gnu/packages/bioconductor.scm (r-bionetstat): Update to 1.16.1.
 2022-07-02 23:56:10 +02:00
Ricardo Wurmus 26981da96b
gnu: r-bgeedb: Update to 2.22.3. 
* gnu/packages/bioconductor.scm (r-bgeedb): Update to 2.22.3.
 2022-07-02 23:56:10 +02:00
Ricardo Wurmus 5f03154c15
gnu: r-ggbio: Update to 1.44.1. 
* gnu/packages/bioconductor.scm (r-ggbio): Update to 1.44.1.
 2022-07-02 23:56:10 +02:00
Ricardo Wurmus 11f30bfa3d
gnu: r-rsubread: Update to 2.10.4. 
* gnu/packages/bioconductor.scm (r-rsubread): Update to 2.10.4.
 2022-07-02 23:56:10 +02:00
Ricardo Wurmus 0a5a06ed24
gnu: r-biosigner: Update to 1.24.2. 
* gnu/packages/bioconductor.scm (r-biosigner): Update to 1.24.2.
[propagated-inputs]: Add r-multiassayexperiment and r-summarizedexperiment.
 2022-07-02 23:56:10 +02:00
Ricardo Wurmus fbb6489abd
gnu: r-ropls: Update to 1.28.2. 
* gnu/packages/bioconductor.scm (r-ropls): Update to 1.28.2.
[propagated-inputs]: Add r-multiassayexperiment and r-summarizedexperiment.
 2022-07-02 23:56:10 +02:00
Ricardo Wurmus 4aabb20226
gnu: r-genomicscores: Update to 2.8.2. 
* gnu/packages/bioconductor.scm (r-genomicscores): Update to 2.8.2.
[propagated-inputs]: Add r-httr.
 2022-07-02 23:56:10 +02:00
Ricardo Wurmus b7a5534e61
gnu: r-clusterprofiler: Update to 4.4.4. 
* gnu/packages/bioconductor.scm (r-clusterprofiler): Update to 4.4.4.
 2022-07-02 23:56:10 +02:00
Ricardo Wurmus a17b7aabfd
gnu: r-batchelor: Update to 1.12.3. 
* gnu/packages/bioconductor.scm (r-batchelor): Update to 1.12.3.
 2022-07-02 23:56:10 +02:00
Ricardo Wurmus 7ff0669cee
gnu: r-matrixgenerics: Update to 1.8.1. 
* gnu/packages/bioconductor.scm (r-matrixgenerics): Update to 1.8.1.
 2022-07-02 23:56:10 +02:00
Ricardo Wurmus 605eda07df
gnu: r-zellkonverter: Update to 1.6.3. 
* gnu/packages/bioconductor.scm (r-zellkonverter): Update to 1.6.3.
 2022-07-02 23:56:09 +02:00
Ricardo Wurmus febec55f57
gnu: r-simplifyenrichment: Update to 1.6.1. 
* gnu/packages/bioconductor.scm (r-simplifyenrichment): Update to 1.6.1.
 2022-07-02 23:56:09 +02:00
Ricardo Wurmus c4113d3035
gnu: r-rtracklayer: Update to 1.56.1. 
* gnu/packages/bioconductor.scm (r-rtracklayer): Update to 1.56.1.
 2022-07-02 23:56:09 +02:00
Ricardo Wurmus 5298b57d56
gnu: r-organismdbi: Update to 1.38.1. 
* gnu/packages/bioconductor.scm (r-organismdbi): Update to 1.38.1.
 2022-07-02 23:56:09 +02:00
Ricardo Wurmus 4e6026031a
gnu: r-limma: Update to 3.52.2. 
* gnu/packages/bioconductor.scm (r-limma): Update to 3.52.2.
 2022-07-02 23:56:09 +02:00
Ricardo Wurmus 103d4d918f
gnu: r-ensembldb: Update to 2.20.2. 
* gnu/packages/bioconductor.scm (r-ensembldb): Update to 2.20.2.
 2022-07-02 23:56:09 +02:00
Ricardo Wurmus 01790a6cd6
gnu: r-restfulr: Update to 0.0.15. 
* gnu/packages/bioconductor.scm (r-restfulr): Update to 0.0.15.
 2022-07-02 23:56:04 +02:00
Mădălin Ionel Patrașcu ec23d7caa8
gnu: Add r-antiprofiles. 
* gnu/packages/bioconductor.scm (r-antiprofiles): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2022-07-01 10:28:22 +02:00
Mădălin Ionel Patrașcu 3109d4a30e
gnu: Add r-annmap. 
* gnu/packages/bioconductor.scm (r-annmap): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2022-07-01 10:28:21 +02:00
Mădălin Ionel Patrașcu f004033b47
gnu: Add r-anf. 
* gnu/packages/bioconductor.scm (r-anf): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2022-07-01 10:28:21 +02:00
Mădălin Ionel Patrașcu 4c294ae7fb
gnu: Add r-anaquin. 
* gnu/packages/bioconductor.scm (r-anaquin): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2022-07-01 10:28:21 +02:00
Mădălin Ionel Patrașcu c6d792f34c
gnu: Add r-amaretto. 
* gnu/packages/bioconductor.scm (r-amaretto): New variable.
 2022-06-30 15:35:27 +02:00
Mădălin Ionel Patrașcu dd74da6190
gnu: Add r-amountain. 
* gnu/packages/bioconductor.scm (r-amountain): New variable.
 2022-06-30 15:29:45 +02:00
Ricardo Wurmus 6e333213d3
gnu: r-metap: Update to 1.8. 
* gnu/packages/bioconductor.scm (r-metap): Update to 1.8.
[propagated-inputs]: Add r-mathjaxr and r-qqconf.
 2022-06-30 15:17:58 +02:00
Ricardo Wurmus fce6aeba7e
gnu: r-nbpseq: Update to 0.3.1. 
* gnu/packages/bioconductor.scm (r-nbpseq): Update to 0.3.1.
 2022-06-13 14:21:46 +02:00
Ricardo Wurmus 37378829bc
gnu: r-restfulr: Update to 0.0.14. 
* gnu/packages/bioconductor.scm (r-restfulr): Update to 0.0.14.
 2022-06-13 14:21:42 +02:00
Ricardo Wurmus 0006a9a83a
gnu: Add r-deconvr. 
* gnu/packages/bioconductor.scm (r-deconvr): New variable.
 2022-06-12 22:51:23 +02:00
Ricardo Wurmus 541823b318
gnu: r-hdf5array: Update to 1.24.1. 
* gnu/packages/bioconductor.scm (r-hdf5array): Update to 1.24.1.
 2022-06-12 11:16:30 +02:00
Ricardo Wurmus a12ec47cbd
gnu: r-universalmotif: Update to 1.14.1. 
* gnu/packages/bioconductor.scm (r-universalmotif): Update to 1.14.1.
 2022-06-12 11:16:30 +02:00
Ricardo Wurmus a76b657d93
gnu: r-rsubread: Update to 2.10.2. 
* gnu/packages/bioconductor.scm (r-rsubread): Update to 2.10.2.
 2022-06-12 11:16:30 +02:00
Ricardo Wurmus 41435e0e1c
gnu: r-clusterprofiler: Update to 4.4.2. 
* gnu/packages/bioconductor.scm (r-clusterprofiler): Update to 4.4.2.
 2022-06-12 11:16:29 +02:00
Ricardo Wurmus 640b45d73c
gnu: r-monocle: Update to 2.24.1. 
* gnu/packages/bioconductor.scm (r-monocle): Update to 2.24.1.
 2022-06-12 11:16:29 +02:00
Ricardo Wurmus 8ed8c8b8da
gnu: r-chippeakanno: Update to 3.30.1. 
* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.30.1.
 2022-06-12 11:16:29 +02:00
Ricardo Wurmus 46aab4d33d
gnu: r-zellkonverter: Update to 1.6.2. 
* gnu/packages/bioconductor.scm (r-zellkonverter): Update to 1.6.2.
 2022-06-12 11:16:28 +02:00
Ricardo Wurmus 7a344aa9e2
gnu: r-keggrest: Update to 1.36.2. 
* gnu/packages/bioconductor.scm (r-keggrest): Update to 1.36.2.
 2022-06-12 11:16:28 +02:00
Ricardo Wurmus 1ecac84c73
gnu: r-genomicfeatures: Update to 1.48.3. 
* gnu/packages/bioconductor.scm (r-genomicfeatures): Update to 1.48.3.
 2022-06-12 11:16:28 +02:00
Ricardo Wurmus 15e26f97d9
gnu: r-biocparallel: Update to 1.30.3. 
* gnu/packages/bioconductor.scm (r-biocparallel): Update to 1.30.3.
[propagated-inputs]: Add r-codetools.
 2022-06-12 11:16:28 +02:00
Ricardo Wurmus f5899fe58b
gnu: r-deepsnv: Update to 1.42.1. 
* gnu/packages/bioconductor.scm (r-deepsnv): Update to 1.42.1.
 2022-06-12 11:16:23 +02:00
Ricardo Wurmus bfcae1efbb
gnu: r-batchelor: Update to 1.12.1. 
* gnu/packages/bioconductor.scm (r-batchelor): Update to 1.12.1.
 2022-05-30 15:16:35 +02:00