branch master updated (db6290a -> 9ae4bd0)

[guix-commits]

rekado pushed a change to branch master
in repository guix.

    from db6290a  lint: check-patch-file-names: Use origin-actual-file-name.
     new a620d22  gnu: r-gprofiler: Move to (gnu packages cran).
     new 8e518d4  guix: Update to Bioconductor 3.11.
     new f9311ea  gnu: node: Build shared library.
     new 45f54b4  gnu: Add r-gprofiler2.
     new e6aacef  gnu: Add r-scatterpie.
     new 06ceac3  gnu: Add r-v8.
     new 67a289e  gnu: Add r-dot.
     new 2226a2a  gnu: r-preprocesscore: Update to 1.50.0.
     new c85e5ac  gnu: r-rgraphviz: Update to 2.32.0.
     new 5fdea05  gnu: r-genefilter: Update to 1.70.0.
     new 3d7de4e  gnu: r-deseq2: Update to 1.28.1.
     new db5addb  gnu: r-dexseq: Update to 1.34.0.
     new 397568d  gnu: r-annotationforge: Update to 1.30.1.
     new 7d8b96e  gnu: r-rbgl: Update to 1.64.0.
     new a8613ff  gnu: r-gseabase: Update to 1.50.1.
     new be41428  gnu: r-category: Update to 2.54.0.
     new 3d2899d  gnu: r-gostats: Update to 2.54.0.
     new 681cca9  gnu: r-shortread: Update to 1.46.0.
     new bb18d11  gnu: r-systempiper: Update to 1.22.0.
     new 5de96ae  gnu: r-grohmm: Update to 1.22.0.
     new 1ca88fb  gnu: r-biocviews: Update to 1.56.0.
     new 9f416be  gnu: r-biocstyle: Update to 2.16.0.
     new 1a9de6c  gnu: r-bioccheck: Update to 1.24.0.
     new f189f53  gnu: r-s4vectors: Update to 0.26.1.
     new 8a38b67  gnu: r-iranges: Update to 2.22.2.
     new 506735e  gnu: r-genomeinfodb: Update to 1.24.0.
     new c14d59d  gnu: r-edger: Update to 3.30.3.
     new cdd83b2  gnu: r-variantannotation: Update to 1.34.0.
     new 49c766d  gnu: r-limma: Update to 3.44.1.
     new e0d40fa  gnu: r-xvector: Update to 0.28.0.
     new 087a97f  gnu: r-genomicranges: Update to 1.40.0.
     new 7d91e3b  gnu: r-biobase: Update to 2.48.0.
     new 9202247  gnu: r-annotationdbi: Update to 1.50.0.
     new e87e6cc  gnu: r-biomart: Update to 2.44.0.
     new cb486f1  gnu: r-biocparallel: Update to 1.22.0.
     new d3491d4  gnu: r-biostrings: Update to 2.56.0.
     new 1f9c87a  gnu: r-rsamtools: Update to 2.4.0.
     new 46e103a  gnu: r-delayedarray: Update to 0.14.0.
     new 87c98cf  gnu: r-summarizedexperiment: Update to 1.18.1.
     new 58613ca  gnu: r-genomicalignments: Update to 1.24.0.
     new f85794e  gnu: r-rtracklayer: Update to 1.48.0.
     new a285314  gnu: r-genomicfeatures: Update to 1.40.0.
     new 543fd63  gnu: r-topgo: Update to 2.40.0.
     new d9b23ec  gnu: r-bsgenome: Update to 1.56.0.
     new e6df69a  gnu: r-impute: Update to 1.62.0.
     new 2d537b5  gnu: r-seqpattern: Update to 1.20.0.
     new 837e763  gnu: r-genomation: Update to 1.20.0.
     new 40ba4e8  gnu: r-seqlogo: Update to 1.54.3.
     new 239ca0f  gnu: r-motifrg: Update to 1.31.0.
     new 52ce0d2  gnu: r-zlibbioc: Update to 1.34.0.
     new 8f08457  gnu: r-rhtslib: Update to 1.20.0.
     new 261d931  gnu: r-bamsignals: Update to 1.20.0.
     new 3c53617  gnu: r-rcas: Update to 1.14.0.
     new 40a4772  gnu: r-mutationalpatterns: Update to 2.0.0.
     new 876e05b  gnu: r-tximport: Update to 1.16.1.
     new 05716c1  gnu: r-rhdf5: Update to 2.32.0.
     new 43dec92  gnu: r-annotationfilter: Update to 1.12.0.
     new 6a25fb9  gnu: r-chipseq: Update to 1.38.0.
     new 3475ad0  gnu: r-copywriter: Update to 2.20.0.
     new c336d54  gnu: r-methylkit: Update to 1.14.2.
     new d95a1cb  gnu: r-sva: Update to 3.36.0.
     new 157eb89  gnu: r-protgenerics: Update to 1.20.0.
     new d93af7d  gnu: r-affyio: Update to 1.58.0.
     new 736f6cf  gnu: r-affy: Update to 1.66.0.
     new 8e0d11d  gnu: r-vsn: Update to 3.56.0.
     new 8eb5798  gnu: r-mzid: Update to 1.26.0.
     new 7b4fc6a  gnu: r-pcamethods: Update to 1.80.0.
     new 10a7ee2  gnu: r-msnbase: Update to 2.14.2.
     new f6ddf20  gnu: r-msnid: Update to 1.22.0.
     new 019bc36  gnu: r-aroma-light: Update to 3.18.0.
     new c9059a3  gnu: r-deseq: Update to 1.39.0.
     new 1599061  gnu: r-edaseq: Update to 2.22.0.
     new 334e8d7  gnu: r-interactivedisplaybase: Update to 1.26.3.
     new 5fce232  gnu: r-annotationhub: Update to 2.20.0.
     new 3422533  gnu: r-fastseg: Update to 1.34.0.
     new d80a6ca  gnu: r-keggrest: Update to 1.28.0.
     new 817e4c8  gnu: r-gage: Update to 2.37.0.
     new 8323ff3  gnu: r-genomicfiles: Update to 1.24.0.
     new ca5c92c  gnu: r-complexheatmap: Update to 2.4.2.
     new 7a9e7e4  gnu: r-dirichletmultinomial: Update to 1.30.0.
     new 39da6fb  gnu: r-ensembldb: Update to 2.12.1.
     new 7c26687  gnu: r-organismdbi: Update to 1.30.0.
     new 07518c3  gnu: r-biovizbase: Update to 1.36.0.
     new 7038aeb  gnu: r-ggbio: Update to 1.36.0.
     new 42d8cd9  gnu: r-gqtlbase: Update to 1.20.0.
     new aab0e28  gnu: r-snpstats: Update to 1.38.0.
     new 87772ab  gnu: r-erma: Update to 1.4.0.
     new 6caad43  gnu: r-ldblock: Update to 1.18.0.
     new a97897b  gnu: r-gqtlstats: Update to 1.20.0.
     new 522da60  gnu: r-gviz: Update to 1.32.0.
     new ddef43a  gnu: r-gwascat: Update to 2.20.1.
     new a811751  gnu: r-sushi: Update to 1.26.0.
     new 6be25cc  gnu: r-fithic: Update to 1.14.0.
     new 46f188d  gnu: r-hitc: Update to 1.32.0.
     new cf90768  gnu: r-hdf5array: Update to 1.16.0.
     new 87d5444  gnu: r-rhdf5lib: Update to 1.10.0.
     new 16dd6ba  gnu: r-beachmat: Update to 2.4.0.
     new 9e7acf2  gnu: r-singlecellexperiment: Update to 1.10.1.
     new 7039b53  gnu: r-scater: Update to 1.16.1.
     new 47c7670  gnu: r-scran: Update to 1.16.0.
     new a3b5516  gnu: r-delayedmatrixstats: Update to 1.10.0.
     new 725eea0  gnu: r-ideoviz: Update to 1.24.0.
     new 751fa8f  gnu: r-coverageview: Update to 1.26.0.
     new 1ab0380  gnu: r-cummerbund: Update to 2.30.0.
     new bc217e4  gnu: r-biocversion: Update to 3.11.1.
     new 2e15c16  gnu: r-biocgenerics: Update to 0.34.0.
     new 66aeb1b  gnu: r-affycomp: Update to 1.64.0.
     new 251c18f  gnu: r-affycompatible: Update to 1.48.0.
     new 36d4ca4  gnu: r-affycontam: Update to 1.46.0.
     new fa61069  gnu: r-affycoretools: Update to 1.60.1.
     new acaf8a2  gnu: r-affxparser: Update to 1.60.0.
     new c2f4ad9  gnu: r-annotate: Update to 1.66.0.
     new 07bea01  gnu: r-hpar: Update to 1.30.0.
     new 7f34dd5  gnu: r-regioner: Update to 1.20.0.
     new 7f94cf0  gnu: r-reportingtools: Update to 2.28.0.
     new 53e4201  gnu: r-geneplotter: Update to 1.66.0.
     new b628842  gnu: r-oligoclasses: Update to 1.50.0.
     new ace82f8  gnu: r-oligo: Update to 1.52.0.
     new f9a2475  gnu: r-qvalue: Update to 2.20.0.
     new b47b649  gnu: r-diffbind: Update to 2.16.0.
     new 8cadf25  gnu: r-multtest: Update to 2.44.0.
     new 7d37c6d  gnu: r-graph: Update to 1.66.0.
     new dc24de4  gnu: r-chippeakanno: Update to 3.22.2.
     new 49d589e  gnu: r-marray: Update to 1.66.0.
     new bd93ec4  gnu: r-cghbase: Update to 1.48.0.
     new de4a352  gnu: r-cghcall: Update to 2.50.0.
     new f4ef564  gnu: r-qdnaseq: Update to 1.24.0.
     new 9834c36  gnu: r-bayseq: Update to 2.22.0.
     new ef1d323  gnu: r-chipcomp: Update to 1.18.0.
     new 7aae05a  gnu: r-riboprofiling: Update to 1.18.0.
     new 6b78a91  gnu: r-riboseqr: Update to 1.22.0.
     new 861a903  gnu: r-interactionset: Update to 1.16.0.
     new 76dd036  gnu: r-genomicinteractions: Update to 1.22.0.
     new c7be592  gnu: r-ctc: Update to 1.62.0.
     new 7fbd977  gnu: r-goseq: Update to 1.40.0.
     new a6251d6  gnu: r-glimma: Update to 1.16.0.
     new ee73dea  gnu: r-rots: Update to 1.16.0.
     new 46a973b  gnu: r-plgem: Update to 1.60.0.
     new 437bc4d  gnu: r-inspect: Update to 1.18.0.
     new 14f40ae  gnu: r-dnabarcodes: Update to 1.18.0.
     new ae0fcaa  gnu: r-ruvseq: Update to 1.22.0.
     new f5864c1  gnu: r-biocneighbors: Update to 1.6.0.
     new a8351d4  gnu: r-biocsingular: Update to 1.4.0.
     new 265b645  gnu: r-destiny: Update to 3.2.0.
     new 784d167  gnu: r-savr: Update to 1.26.0.
     new 9697afb  gnu: r-chipexoqual: Update to 1.12.0.
     new 866939b  gnu: r-copynumber: Update to 1.28.0.
     new 6a7cfd5  gnu: r-dnacopy: Update to 1.62.0.
     new 1e37cac  gnu: r-ebseq: Update to 1.28.0.
     new 6e2dc9e  gnu: r-karyoploter: Update to 1.14.0.
     new 0653b8b  gnu: r-lpsymphony: Update to 1.16.0.
     new 359a084  gnu: r-ihw: Update to 1.16.0.
     new ee1e8fe  gnu: r-icobra: Update to 1.16.0.
     new 97cba97  gnu: r-mast: Update to 1.14.0.
     new d1f3c37  gnu: r-monocle: Update to 2.16.0.
     new 22c084b  gnu: r-noiseq: Update to 2.31.0.
     new ce9e19b  gnu: r-scdd: Update to 1.12.0.
     new 3fc1e03  gnu: r-scone: Update to 1.12.0.
     new 159e427  gnu: r-geoquery: Update to 2.56.0.
     new d784a47  gnu: r-illuminaio: Update to 0.30.0.
     new debaa0f  gnu: r-siggenes: Update to 1.62.0.
     new e3fbcb2  gnu: r-bumphunter: Update to 1.30.0.
     new 83e6ffd  gnu: r-minfi: Update to 1.34.0.
     new 5f25d5f  gnu: r-methylumi: Update to 2.34.0.
     new ae1c51a  gnu: r-lumi: Update to 2.40.0.
     new 1465873  gnu: r-linnorm: Update to 2.12.0.
     new 293fb8a  gnu: r-ioniser: Update to 2.12.0.
     new ecb4e16  gnu: r-triform: Update to 1.29.0.
     new f2b686f  gnu: r-varianttools: Update to 1.30.0.
     new 65e0a7b  gnu: r-heatplus: Update to 2.34.0.
     new 621cd90  gnu: r-gosemsim: Update to 2.14.0.
     new 8d30d59  gnu: r-anota: Update to 1.36.0.
     new b1d76ad  gnu: r-sigpathway: Update to 1.56.0.
     new 1dec455  gnu: r-fgsea: Update to 1.14.0.
     new 3a80f1c  gnu: r-dose: Update to 3.14.0.
     new 43fb14c  gnu: r-enrichplot: Update to 1.8.1.
     new 63c8323  gnu: r-clusterprofiler: Update to 3.16.0.
     new 500f7df  gnu: r-mlinterfaces: Update to 1.68.0.
     new d200b4d  gnu: r-annaffy: Update to 1.60.0.
     new 4f2112a  gnu: r-a4core: Update to 1.36.0.
     new 33c9c85  gnu: r-a4classif: Update to 1.36.0.
     new 6afea4e  gnu: r-a4preproc: Update to 1.36.0.
     new e47f9f4  gnu: r-a4reporting: Update to 1.36.0.
     new 2a91c98  gnu: r-a4base: Update to 1.36.0.
     new b391b1e  gnu: r-a4: Update to 1.36.0.
     new 35bcfae  gnu: r-abseqr: Update to 1.6.0.
     new 7450edc  gnu: r-bacon: Update to 1.16.0.
     new 6d02e17  gnu: r-rgadem: Update to 2.36.0.
     new 352cfa3  gnu: r-motiv: Update to 1.43.0.
     new da6a75f  gnu: r-motifdb: Update to 1.30.0.
     new e65783e  gnu: r-motifbreakr: Update to 2.2.0.
     new e6fbaf0  gnu: r-motifstack: Update to 1.32.0.
     new 785c759  gnu: r-genomicscores: Update to 2.0.0.
     new a007de8  gnu: r-atacseqqc: Update to 1.12.3.
     new 19b39ac  gnu: r-gofuncr: Update to 1.8.0.
     new 6a65ac1  gnu: r-abaenrichment: Update to 1.18.0.
     new 7866994  gnu: r-annotationfuncs: Update to 1.38.0.
     new 231898d  gnu: r-annotationtools: Update to 1.62.0.
     new 6314938  gnu: r-allelicimbalance: Update to 1.26.0.
     new e059ab2  gnu: r-aucell: Update to 1.10.0.
     new 4eccf8e  gnu: r-ebimage: Update to 4.30.0.
     new 6e397aa  gnu: r-yamss: Update to 1.14.0.
     new a471def  gnu: r-gtrellis: Update to 1.20.1.
     new 63c1471  gnu: r-somaticsignatures: Update to 2.24.0.
     new 8a5abc6  gnu: r-yapsa: Update to 1.14.0.
     new f0439a1  gnu: r-gcrma: Update to 2.60.0.
     new 9ce80f9  gnu: r-simpleaffy: Update to 2.64.0.
     new 761c942  gnu: r-yaqcaffy: Update to 1.48.0.
     new 70d90ae  gnu: r-quantro: Update to 1.22.0.
     new a37a6ff  gnu: r-yarn: Update to 1.14.0.
     new 1ec10e1  gnu: r-roar: Update to 1.24.0.
     new bcd06bd  gnu: r-xbseq: Update to 1.20.0.
     new 11cf2d7  gnu: r-massspecwavelet: Update to 1.54.0.
     new ff9f179  gnu: r-xcms: Update to 3.10.1.
     new 996f07b  gnu: r-wrench: Update to 1.6.0.
     new ee0f746  gnu: r-wiggleplotr: Update to 1.12.0.
     new 08c4d31  gnu: r-widgettools: Update to 1.66.0.
     new 620cc4d  gnu: r-webbioc: Update to 1.60.0.
     new 8fdca89  gnu: r-zfpkm: Update to 1.10.0.
     new 297854e  gnu: r-rbowtie2: Update to 1.10.0.
     new 8e5933a  gnu: r-progeny: Update to 1.10.0.
     new 989b7bb  gnu: r-arrmnormalization: Update to 1.28.0.
     new 173844f  gnu: r-biocfilecache: Update to 1.12.0.
     new ca8d80c  gnu: r-iclusterplus: Update to 1.24.0.
     new 568c392  gnu: r-rbowtie: Update to 1.28.0.
     new 201902b  gnu: r-sgseq: Update to 1.22.0.
     new 2aff272  gnu: r-rhisat2: Update to 1.4.0.
     new a84abf4  gnu: r-quasr: Update to 1.28.0.
     new 1c5360a  gnu: r-rqc: Update to 1.22.0.
     new f50609a  gnu: r-birewire: Update to 3.20.0.
     new cb941ca  gnu: r-birta: Update to 1.31.0.
     new 905bbb1  gnu: r-multidataset: Update to 1.16.0.
     new 7733416  gnu: r-ropls: Update to 1.20.0.
     new 8b6f26e  gnu: r-biosigner: Update to 1.16.0.
     new 5ca991b  gnu: r-annotatr: Update to 1.14.0.
     new 5d63f69  gnu: r-rsubread: Update to 2.2.2.
     new 6954950  gnu: r-flowutils: Update to 1.52.0.
     new 0c2573e  gnu: r-consensusclusterplus: Update to 1.52.0.
     new 3c73d7c  gnu: r-cytolib: Update to 2.0.3.
     new faff2de  gnu: r-flowcore: Update to 2.0.1.
     new 76b163d  gnu: r-flowmeans: Update to 1.48.0.
     new 631b12c  gnu: r-ncdfflow: Update to 2.34.0.
     new 3407dfa  gnu: r-ggcyto: Update to 1.16.0.
     new 062789b  gnu: r-flowviz: Update to 1.52.0.
     new b347d6c  gnu: r-flowclust: Update to 3.26.0.
     new bafade8  gnu: r-rprotobuflib: Update to 2.0.0.
     new a9af09d  gnu: r-flowworkspace: Update to 4.0.3.
     new 372caae  gnu: r-flowstats: Update to 4.0.0.
     new 8f5e167  gnu: r-opencyto: Update to 2.0.0.
     new 8d5a83b  gnu: r-cytoml: Update to 2.0.0.
     new 32bd029  gnu: r-flowsom: Update to 1.20.0.
     new 7bec32f  gnu: r-mixomics: Update to 6.12.1.
     new af66e35  gnu: r-depecher: Update to 1.4.0.
     new 93235b1  gnu: r-rcistarget: Update to 1.8.0.
     new e677c9b  gnu: r-cicero: Update to 1.6.0.
     new b328088  gnu: r-genie3: Update to 1.10.0.
     new cad8a509 gnu: r-roc: Update to 1.64.0.
     new 939ace9  gnu: r-watermelon: Update to 1.32.0.
     new f4954b0  gnu: r-gdsfmt: Update to 1.24.0.
     new 8112796  gnu: r-bigmelon: Update to 1.14.0.
     new 83b7625  gnu: r-seqbias: Update to 1.36.0.
     new efb44eb  gnu: r-reqon: Update to 1.34.0.
     new 12b255f  gnu: r-wavcluster: Update to 2.22.0.
     new 49dd504  gnu: r-timeseriesexperiment: Update to 1.6.0.
     new 41f7fe4  gnu: r-variantfiltering: Update to 1.24.0.
     new fbbaf5a  gnu: r-variancepartition: Update to 1.18.0.
     new 518050a  gnu: r-htqpcr: Update to 1.42.0.
     new a9148d0  gnu: r-unifiedwmwqpcr: Update to 1.24.0.
     new 296992b  gnu: r-bgmix: Update to 1.48.0.
     new de91f15  gnu: r-bgx: Update to 1.54.0.
     new 2415576  gnu: r-bhc: Update to 1.40.0.
     new 7642517  gnu: r-bicare: Update to 1.46.0.
     new a54fd40  gnu: r-bifet: Update to 1.8.0.
     new d65bdbb  gnu: r-rsbml: Update to 2.46.0.
     new 0ff7246  gnu: r-hypergraph: Update to 1.60.0.
     new 3116998  gnu: r-hyperdraw: Update to 1.40.0.
     new f31edb0  gnu: r-biggr: Update to 1.24.0.
     new eef9c99  gnu: r-bigmemoryextras: Update to 1.36.0.
     new d0badcc  gnu: r-bigpint: Update to 1.4.0.
     new 06908a7  gnu: r-chemminer: Update to 3.40.0.
     new c8cbde9  gnu: r-bioassayr: Update to 1.26.0.
     new e09ca03  gnu: r-biobroom: Update to 1.20.0.
     new 29b1702  gnu: r-graphite: Update to 1.34.0.
     new affb4ab  gnu: r-reactomepa: Update to 1.32.0.
     new a74a427  gnu: r-ebarrays: Update to 2.52.0.
     new 8b71b14  gnu: r-bioccasestudies: Update to 1.50.0.
     new 543c63f  gnu: r-biocgraph: Update to 1.50.0.
     new b56a346  gnu: r-experimenthub: Update to 1.14.0.
     new 4091eae  gnu: r-multiassayexperiment: Update to 1.14.0.
     new 1c51821  gnu: r-bioconcotk: Update to 1.8.0.
     new 132abe5  gnu: r-biocor: Update to 1.12.0.
     new 1759a13  gnu: r-biocpkgtools: Update to 1.6.0.
     new 723fa00  gnu: r-biocset: Update to 1.2.1.
     new 6a88291  gnu: r-biocworkflowtools: Update to 1.14.0.
     new 6b9e3b9  gnu: r-biodist: Update to 1.60.0.
     new 9ae4bd0  gnu: r-mzr: Update to 2.22.0.

The 296 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "add" were already present in the repository and have only
been added to this reference.


Summary of changes:
 gnu/packages/bioconductor.scm   | 1063 +++++++++++++++++++++++----------------
 gnu/packages/bioinformatics.scm |  524 ++++++++++---------
 gnu/packages/cran.scm           |  170 +++++++
 gnu/packages/graph.scm          |    4 +-
 gnu/packages/node.scm           |    3 +-
 gnu/packages/statistics.scm     |    4 +-
 guix/build-system/r.scm         |    4 +-
 guix/import/cran.scm            |    4 +-
 8 files changed, 1110 insertions(+), 666 deletions(-)