| Age | Commit message (Expand) | Author |
|---|
| 2024-12-03 | gnu: Add r-chipexoqualexample....* gnu/packages/bioconductor.scm (r-chipexoqualexample): New variable.
Change-Id: I181bb085e441d056d886d4110a46668d92cd39f4
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-chk: Add missing input....* gnu/packages/cran.scm (r-chk)[native-inputs]: Add tzdata-for-tests.
[properties]: Tell updater to keep it.
Change-Id: I86058064135869dadb79d490f16a8b7ea5fd4661
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-btools: Disable tests....* gnu/packages/bioinformatics.scm (r-btools)[arguments]: Disable tests.
Change-Id: I0fc83672a3c09908296551b649244ae1993ac01d
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-genomicstate: Disable tests....* gnu/packages/bioconductor.scm (r-genomicstate)[arguments]: Disable tests.
Change-Id: Ia2a43c0b20af344e74306f88c3306c6bd40267b0
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-googlesheets: Add missing inputs....* gnu/packages/statistics.scm (r-googlesheets)[native-inputs]: Add r-knitr and
r-testthat.
Change-Id: I8ac8ec40c9bbcdb01509dc199b4937e95563aad6
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-gqtlstats: Add missing input and disable tests....* gnu/packages/bioconductor.scm (r-gqtlstats)[native-inputs]: Add r-runit.
[arguments]: Disable tests.
Change-Id: I1b11251e88826970d16f32a1304a92f9c4923bd5
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-gostats: Add missing inputs....* gnu/packages/bioconductor.scm (r-gostats)[native-inputs]: Add r-biocgenerics
and r-hgu95av2-db.
Change-Id: I4e5ee933154dc102efe4c034f993c959b2924671
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-mumin: Add missing inputs....* gnu/packages/statistics.scm (r-mumin)[native-inputs]: Add r-mgcv and
r-survival.
Change-Id: Id5b1a558af6020018d1fbdc88179682681bd625c
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-nabor: Add missing input....* gnu/packages/cran.scm (r-nabor)[native-inputs]: Add r-rann.
Change-Id: Ie177502c2f902a6d4e76a94a2d2d30537c747df6
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-msnbase: Add missing inputs....* gnu/packages/bioconductor.scm (r-msnbase)[native-inputs]: Add r-msdata,
r-rpx, r-summarizedexperiment, and r-xml.
[arguments]: Add phases 'set-HOME and 'delete-bad-tests.
[properties]: Tell updater to avoid a dependency cycle.
Change-Id: I49f6ec0c516f610785c3e79e0d4a4ad74a9ac38c
| Ricardo Wurmus |
| 2024-12-03 | gnu: Add r-prolocdata....* gnu/packages/bioconductor.scm (r-prolocdata): New variable.
Change-Id: Iac4da738f793e2a746d1ef8a17251a3b27c2e599
| Ricardo Wurmus |
| 2024-12-03 | gnu: Add r-rpx....* gnu/packages/bioconductor.scm (r-rpx): New variable.
Change-Id: Id8b70a61d2657dfe5588f1cb67074d6fe5f1988c
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-cytoexplorer: Add missing inputs....* gnu/packages/bioinformatics.scm (r-cytoexplorer)[native-inputs]: Drop
labels; add r-cytoexplorerdata, r-mockery, and r-testthat.
[arguments]: Add phase 'skip-bad-tests.
Change-Id: I5060b1ae4ad42ae122a46db018f10910340985d6
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-rnbeads: Add missing inputs....* gnu/packages/bioconductor.scm (r-rnbeads)[native-inputs]: Add ghostscript,
r-doparallel, r-impute, r-missmethyl, r-qvalue, r-rnbeads-hg19, and
r-rtracklayer.
[inputs]: Add kentutils.
[source]: Add snippet to delete bundled binaries.
[arguments]: Add phase 'link-to-executables; disable vignettes.
[properties]: Tell updater what inputs to ignore and what to keep.
[description]: Reflow paragraph.
Change-Id: Ied81eeee2210fac43c3868d268aa20c1d0a0fb50
| Ricardo Wurmus |
| 2024-12-03 | gnu: Add r-rnbeads-hg19....* gnu/packages/bioconductor.scm (r-rnbeads-hg19): New variable.
Change-Id: I48ad7e0e3831edc280b8241b3d525fb73f95805f
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-protviz: Add missing inputs....* gnu/packages/cran.scm (r-protviz)[native-inputs]: Add r-lattice and
r-xtable.
Change-Id: Ibc1f437c3abeef8fbf063864256fc526cdeb0441
| Ricardo Wurmus |
| 2024-12-03 | gnu: Add r-cytoexplorerdata....* gnu/packages/bioinformatics.scm (r-cytoexplorerdata): New variable.
Change-Id: I5565dff552f033c951bee5bac474cb05c7034066
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-vsn: Add missing input....* gnu/packages/bioconductor.scm (r-vsn)[native-inputs]: Add r-biocstyle.
Change-Id: I12b619b0ae134132a4536b0e54e1182a55ea816c
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-skitools: Add missing input....* gnu/packages/bioinformatics.scm (r-skitools)[native-inputs]: Add
r-bsgenome-hsapiens-ucsc-hg19.
Change-Id: I8331e0df21bda001d6e3ec944f02791c0a9301b6
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-cicero-monocle3: Disable failing test....* gnu/packages/bioconductor.scm (r-cicero-monocle3)[arguments]: Disable
failing test.
Change-Id: I92d3878ee189403478309837214e09fe66874b69
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-cicero-monocle3: Update to 1.3.9-1.495ef0d....* gnu/packages/bioconductor.scm (r-cicero-monocle3): Update to
1.3.9-1.495ef0d.
Change-Id: Ic3939f8374818cfaaf6a77dee42710d998968021
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-scseqcomm: Remove commented inputs....* gnu/packages/bioinformatics.scm (r-scseqcomm): Remove comments.
Change-Id: I537f6377da44637674a0413a30ddd6b70a620ad3
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-chromunity: Add missing input....* gnu/packages/bioinformatics.scm (r-chromunity)[native-inputs]: Add
r-testthat.
Change-Id: I5d208a5ab0cb63567ab49783d0fbe0733b08161a
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-cytoml: Add missing inputs....* gnu/packages/bioconductor.scm (r-cytoml)[native-inputs]: Add
r-devtools, r-flowclust, r-flowstats, and r-flowworkspacedata.
[properties]: Tell updater to keep extra inputs and ignore others.
Change-Id: I64cfc0b2b424f537b086a7f2f91e1ef15631c461
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-variantfiltering: Add missing inputs....* gnu/packages/bioconductor.scm (r-variantfiltering)[native-inputs]: Add
r-biocstyle, r-bsgenome-hsapiens-1000genomes-hs37d5, r-org-hs-eg-db, and
r-txdb-hsapiens-ucsc-hg19-knowngene.
[properties]: Tell updater to keep extra inputs.
[arguments]: Add phase 'delete-bad-tests; disable vignettes.
Change-Id: I23e78f1bd49b348719c6e03a116228b5657ae379
| Ricardo Wurmus |
| 2024-12-03 | gnu: Add r-sift-hsapiens-dbsnp137....* gnu/packages/bioconductor.scm (r-sift-hsapiens-dbsnp137): New variable.
Change-Id: Ib71a322d3ed0e563f01620e04aca844b290ecc3b
| Ricardo Wurmus |
| 2024-12-03 | gnu: Add r-polyphen-hsapiens-dbsnp131....* gnu/packages/bioconductor.scm (r-polyphen-hsapiens-dbsnp131): New variable.
Change-Id: I65ca94c82b3c9c8d9f0faf6f31a04d52e935f127
| Ricardo Wurmus |
| 2024-12-03 | gnu: Add r-mafdb-1kgenomes-phase1-hs37d5....* gnu/packages/bioconductor.scm (r-mafdb-1kgenomes-phase1-hs37d5): New variable.
Change-Id: Id8827d4a5d788ef2bc4d258048572e697e61b4d2
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-mmuphin: Add missing inputs....* gnu/packages/bioconductor.scm (r-mmuphin)[native-inputs]: Add r-testthat.
Change-Id: I24c838fb0c474cda16a49b48c469d8dfd7194e10
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-lefser: Add missing inputs....* gnu/packages/bioconductor.scm (r-lefser)[native-inputs]: Add r-mia and
r-withr; remove r-testthat.
[properties]: Tell updater to keep r-mia.
Change-Id: I791e6626a3d000f12a149cdc87979389aee886f0
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-sesamedata: Disable tests....* gnu/packages/bioconductor.scm (r-sesamedata)[arguments]: Disable tests.
[properties]: Tell updater to ignore r-sesame.
Change-Id: I42e3a2d83963e79a21db70f4c1f8ddf92107943f
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-liana: Add missing input....* gnu/packages/bioinformatics.scm (r-liana)[native-inputs]: Add r-testthat.
Change-Id: I04c9c5f60842e1ed0a0415e51c25b46b64a60104
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-abaenrichment: Add missing input....* gnu/packages/bioconductor.scm (r-abaenrichment)[native-inputs]: Add
r-testthat.
Change-Id: I3a5a43d3a1b9f7ff81c589efc0a0aade1e666553
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-mosdef: Add missing inputs....* gnu/packages/bioconductor.scm (r-mosdef)[native-inputs]: Add r-macrophage
and r-org-hs-eg-db.
[properties]: Tell updater to ignore r-pcaexplorer.
Change-Id: I27258d7119cbe5de244c2db6d91ec8c5b0bd0975
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-diffbind: Add missing inputs and skip vignettes....* gnu/packages/bioconductor.scm (r-diffbind)[native-inputs]: Add
r-biocstyle and r-xtable.
[properties]: Tell updater to keep r-biocstyle.
[arguments]: Skip building vignettes.
Change-Id: I0a8515301c949c99d890816f37b7da82181b094c
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-quasr: Add missing inputs....* gnu/packages/bioconductor.scm (r-quasr)[native-inputs]: Add
r-genomicalignments and r-rhisat2.
[properties]: Tell updater to keep r-rhisat2.
Change-Id: I304824e27d39f76a1de2aeb1e77c32f5d6faf70e
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-bgeecall: Add missing inputs and disable tests....* gnu/packages/bioconductor.scm (r-bgeecall)[native-inputs]: Add
r-annotationhub and r-httr.
[arguments]: Disable tests.
Change-Id: Ic2ea9e81075c70501d53df556ab9548d46ac24ae
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-milor: Add missing inputs....* gnu/packages/bioconductor.scm (r-milor)[native-inputs]: Add r-mass,
r-mvtnorm, r-scater, and r-scran.
Change-Id: Icdfa0e9a89a21ace0d994800a00b968a803d41ea
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-conos: Add missing input....* gnu/packages/bioconductor.scm (r-conos)[native-inputs]: Add r-pagoda2.
Change-Id: I9b12a3c3ba727d7e6101fa2566c42c0a6858d601
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-maaslin2: Add missing input....* gnu/packages/bioconductor.scm (r-maaslin2)[native-inputs]: Add r-testthat.
Change-Id: I044a9bf1f1e53f0988760f84b822beb6b6779291
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-simona: Add missing input....* gnu/packages/bioconductor.scm (r-simona)[native-inputs]: Add r-go-db,
r-org-hs-eg-db, and r-proxyc.
[properties]: Tell the updater to keep these inputs.
Change-Id: I253374be87eda5c844cda1937895024b8c609d1b
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-circus: Add missing input....* gnu/packages/bioinformatics.scm (r-circus)[native-inputs]: Add r-testthat.
Change-Id: I7178baece0a8134923fd550e2f1cc303f32aaaea
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-gviz: Add missing input....* gnu/packages/bioconductor.scm (r-gviz)[native-inputs]: Add
r-bsgenome-hsapiens-ucsc-hg19.
Change-Id: I2be88201e9219cc55be39217592483f1324e456f
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-xbseq: Add missing inputs....* gnu/packages/bioconductor.scm (r-xbseq)[native-inputs]: Add r-testthat.
Change-Id: I7b8eb1c7a7ffcac81b9ead33969b1e57d99a68f3
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-numbat: Add missing inputs....* gnu/packages/bioconductor.scm (r-numbat)[native-inputs]: Add r-testthat.
Change-Id: I3a3db09ba1c69c27a9bc6a67be9346098710fde3
| Ricardo Wurmus |
| 2024-12-03 | gnu: Remove r-numbat....This is a duplicate of a package in (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-numbat): Delete variable.
Change-Id: Ic1f5d9779a594432a0dd8bd0be9059423a2f5b34
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-spectre: Disable tests....* gnu/packages/bioinformatics.scm (r-spectre)[arguments]: Disable tests.
Change-Id: I7978b05d0c1c2de3ada6b1b490ae36b28171f17c
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-gchain: Add missing inputs....* gnu/packages/bioinformatics.scm (r-gchain)[native-inputs]: Add
r-pwalign and r-testthat.
[arguments]: Add phase 'skip-bad-tests.
Change-Id: Ia11c6e50e0d2886762ec551df3e5d73ef98547f8
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-flowstats: Add missing inputs....* gnu/packages/bioconductor.scm (r-flowstats)[native-inputs]: Add
r-devtools, r-ggcyto, r-ggridges, r-gridextra, r-opencyto, r-scales, and
r-xtable.
Change-Id: I5f2621939b33ece9339f0bbfcbeba2850acf3376
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-ggcyto: Add missing inputs....* gnu/packages/bioconductor.scm (r-ggcyto)[native-inputs]: Add
r-flowworkspacedata, r-opencyto, and r-vdiffr.
[properties]: Tell updater to add r-flowworkspacedata and ignore r-flowstats.
Change-Id: If281e4b930f99e18ccbd07fed7028ba932496c3c
| Ricardo Wurmus |
