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Author	SHA1	Message	Date
Ricardo Wurmus	f2dcb38d11	gnu: r-assertive-data-us: Add missing input. ... * gnu/packages/cran.scm (r-assertive-data-us)[native-inputs]: Add r-testthat. Change-Id: Ib2e5540aa6fb409cf807b51871eb80f87d221c5b	2024-12-03 17:00:00 +01:00
Ricardo Wurmus	56fd1386ff	gnu: r-assertive-datetimes: Add missing input. ... * gnu/packages/cran.scm (r-assertive-datetimes)[native-inputs]: Add r-testthat. Change-Id: I41cf25fde0519a2552e2bfabf88325c9790b9598	2024-12-03 16:59:59 +01:00
Ricardo Wurmus	483ea05d47	gnu: r-assertive-code: Add missing input. ... * gnu/packages/cran.scm (r-assertive-code)[native-inputs]: Add r-testthat. Change-Id: Iab971756002abbe84f7472092db82f62eb9acc55	2024-12-03 16:59:59 +01:00
Ricardo Wurmus	78ce99acf5	gnu: r-assertive-strings: Add missing input. ... * gnu/packages/cran.scm (r-assertive-strings)[native-inputs]: Add r-testthat. Change-Id: Ib4f6eb638105f7d1aaa54972176b8d66704ed2a4	2024-12-03 16:59:59 +01:00
Ricardo Wurmus	8f7196cbae	gnu: r-rcas: Add missing inputs ... * gnu/packages/bioconductor.scm (r-rcas)[native-inputs]: Add r-biocmanager. [arguments]: Add phases 'skip-bad-tests and 'set-HOME. Change-Id: I952ae31347776dc35cf012aaa8146f38b375957a	2024-12-03 16:59:59 +01:00
Ricardo Wurmus	eb04b8ca59	gnu: r-affyplm: Add missing inputs and disable tests. ... * gnu/packages/bioconductor.scm (r-affyplm)[native-inputs]: Add r-affydata and r-hgu95av2cdf. [arguments]: Disable tests. [properties]: Tell updater to keep extra input. Change-Id: I05778ba527078d46e955a752a2b1af075508fdf0	2024-12-03 16:59:59 +01:00
Ricardo Wurmus	0e1b5c7d44	gnu: Add r-hgu95av2cdf. ... * gnu/packages/bioconductor.scm (r-hgu95av2cdf): New variable. Change-Id: I12095d54198b563a81c0d3967699016fef0f2de0	2024-12-03 16:59:59 +01:00
Ricardo Wurmus	a18bc29ee0	gnu: r-assertive-files: Add missing input. ... * gnu/packages/cran.scm (r-assertive-files)[native-inputs]: Add r-testthat. [arguments]: Add phases 'set-HOME. Change-Id: Icd6d2dc145b31b25fcad1c0482ba87928165c7f7	2024-12-03 16:59:59 +01:00
Ricardo Wurmus	bf177fb732	gnu: r-assertive-types: Add missing input. ... * gnu/packages/cran.scm (r-assertive-types)[native-inputs]: Add r-testthat. Change-Id: I58ef096504602989de101b744362b115fcb67f27	2024-12-03 16:59:59 +01:00
Ricardo Wurmus	ee88301053	gnu: Remove r-bioconcotk. ... This package has been removed from Bioconductor and tests depend on a package that has also been removed. * gnu/packages/bioconductor.scm (r-bioconcotk): Remove variable. Change-Id: If444fb7a10aea71a5339b4a488683148c84bb236	2024-12-03 16:59:59 +01:00
Ricardo Wurmus	4b0c460719	gnu: r-bigmelon: Add missing inputs. ... * gnu/packages/bioconductor.scm (r-bigmelon)[native-inputs]: Add r-biocstyle and r-knitr. Change-Id: Ie24831140e5b38d330435231d8ea976a060b4800	2024-12-03 16:59:59 +01:00
Ricardo Wurmus	436869bdf9	gnu: r-chipexoqual: Add missing input. ... * gnu/packages/bioconductor.scm (r-chipexoqual)[native-inputs]: Add r-chipexoqualexample. Change-Id: I68e5ac7ce3d0c00cfc1838ef7d6b4e2e5410bb50	2024-12-03 16:59:59 +01:00
Ricardo Wurmus	5f8f7435a2	gnu: Add r-chipexoqualexample. ... * gnu/packages/bioconductor.scm (r-chipexoqualexample): New variable. Change-Id: I181bb085e441d056d886d4110a46668d92cd39f4	2024-12-03 16:59:59 +01:00
Ricardo Wurmus	85c3a9385f	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	2024-12-03 16:59:59 +01:00
Ricardo Wurmus	9ba40c620c	gnu: r-btools: Disable tests. ... * gnu/packages/bioinformatics.scm (r-btools)[arguments]: Disable tests. Change-Id: I0fc83672a3c09908296551b649244ae1993ac01d	2024-12-03 16:59:59 +01:00
Ricardo Wurmus	dcd3f1660d	gnu: r-genomicstate: Disable tests. ... * gnu/packages/bioconductor.scm (r-genomicstate)[arguments]: Disable tests. Change-Id: Ia2a43c0b20af344e74306f88c3306c6bd40267b0	2024-12-03 16:59:59 +01:00
Ricardo Wurmus	7a3d88efa9	gnu: r-googlesheets: Add missing inputs. ... * gnu/packages/statistics.scm (r-googlesheets)[native-inputs]: Add r-knitr and r-testthat. Change-Id: I8ac8ec40c9bbcdb01509dc199b4937e95563aad6	2024-12-03 16:59:59 +01:00
Ricardo Wurmus	38e85d78ad	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	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	91b5e69b29	gnu: r-gostats: Add missing inputs. ... * gnu/packages/bioconductor.scm (r-gostats)[native-inputs]: Add r-biocgenerics and r-hgu95av2-db. Change-Id: I4e5ee933154dc102efe4c034f993c959b2924671	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	803f1f6401	gnu: r-mumin: Add missing inputs. ... * gnu/packages/statistics.scm (r-mumin)[native-inputs]: Add r-mgcv and r-survival. Change-Id: Id5b1a558af6020018d1fbdc88179682681bd625c	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	b0e2aa61e7	gnu: r-nabor: Add missing input. ... * gnu/packages/cran.scm (r-nabor)[native-inputs]: Add r-rann. Change-Id: Ie177502c2f902a6d4e76a94a2d2d30537c747df6	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	169c4e612b	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	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	594d64569d	gnu: Add r-prolocdata. ... * gnu/packages/bioconductor.scm (r-prolocdata): New variable. Change-Id: Iac4da738f793e2a746d1ef8a17251a3b27c2e599	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	6a216a8317	gnu: Add r-rpx. ... * gnu/packages/bioconductor.scm (r-rpx): New variable. Change-Id: Id8b70a61d2657dfe5588f1cb67074d6fe5f1988c	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	79989a9f53	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	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	1c559a129c	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	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	d09ff90cb6	gnu: Add r-rnbeads-hg19. ... * gnu/packages/bioconductor.scm (r-rnbeads-hg19): New variable. Change-Id: I48ad7e0e3831edc280b8241b3d525fb73f95805f	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	22dcd7270f	gnu: r-protviz: Add missing inputs. ... * gnu/packages/cran.scm (r-protviz)[native-inputs]: Add r-lattice and r-xtable. Change-Id: Ibc1f437c3abeef8fbf063864256fc526cdeb0441	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	baef0f8bb3	gnu: Add r-cytoexplorerdata. ... * gnu/packages/bioinformatics.scm (r-cytoexplorerdata): New variable. Change-Id: I5565dff552f033c951bee5bac474cb05c7034066	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	ed7d8f576a	gnu: r-vsn: Add missing input. ... * gnu/packages/bioconductor.scm (r-vsn)[native-inputs]: Add r-biocstyle. Change-Id: I12b619b0ae134132a4536b0e54e1182a55ea816c	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	61c16f3e55	gnu: r-skitools: Add missing input. ... * gnu/packages/bioinformatics.scm (r-skitools)[native-inputs]: Add r-bsgenome-hsapiens-ucsc-hg19. Change-Id: I8331e0df21bda001d6e3ec944f02791c0a9301b6	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	e335531bbd	gnu: r-cicero-monocle3: Disable failing test. ... * gnu/packages/bioconductor.scm (r-cicero-monocle3)[arguments]: Disable failing test. Change-Id: I92d3878ee189403478309837214e09fe66874b69	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	1e335d0c52	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	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	bd109162b3	gnu: r-scseqcomm: Remove commented inputs. ... * gnu/packages/bioinformatics.scm (r-scseqcomm): Remove comments. Change-Id: I537f6377da44637674a0413a30ddd6b70a620ad3	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	0b3aa43797	gnu: r-chromunity: Add missing input. ... * gnu/packages/bioinformatics.scm (r-chromunity)[native-inputs]: Add r-testthat. Change-Id: I5d208a5ab0cb63567ab49783d0fbe0733b08161a	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	cec92c060e	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	2024-12-03 16:59:58 +01:00
Ricardo Wurmus	18c5a3b324	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	2024-12-03 16:59:57 +01:00
Ricardo Wurmus	8dd751f114	gnu: Add r-sift-hsapiens-dbsnp137. ... * gnu/packages/bioconductor.scm (r-sift-hsapiens-dbsnp137): New variable. Change-Id: Ib71a322d3ed0e563f01620e04aca844b290ecc3b	2024-12-03 16:59:57 +01:00
Ricardo Wurmus	a9dc352e79	gnu: Add r-polyphen-hsapiens-dbsnp131. ... * gnu/packages/bioconductor.scm (r-polyphen-hsapiens-dbsnp131): New variable. Change-Id: I65ca94c82b3c9c8d9f0faf6f31a04d52e935f127	2024-12-03 16:59:57 +01:00
Ricardo Wurmus	8417b0f27a	gnu: Add r-mafdb-1kgenomes-phase1-hs37d5. ... * gnu/packages/bioconductor.scm (r-mafdb-1kgenomes-phase1-hs37d5): New variable. Change-Id: Id8827d4a5d788ef2bc4d258048572e697e61b4d2	2024-12-03 16:59:57 +01:00
Ricardo Wurmus	f1d03188a6	gnu: r-mmuphin: Add missing inputs. ... * gnu/packages/bioconductor.scm (r-mmuphin)[native-inputs]: Add r-testthat. Change-Id: I24c838fb0c474cda16a49b48c469d8dfd7194e10	2024-12-03 16:59:57 +01:00
Ricardo Wurmus	12968c7675	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	2024-12-03 16:59:57 +01:00
Ricardo Wurmus	e90cc282f1	gnu: r-sesamedata: Disable tests. ... * gnu/packages/bioconductor.scm (r-sesamedata)[arguments]: Disable tests. [properties]: Tell updater to ignore r-sesame. Change-Id: I42e3a2d83963e79a21db70f4c1f8ddf92107943f	2024-12-03 16:59:57 +01:00
Ricardo Wurmus	64e941ef7a	gnu: r-liana: Add missing input. ... * gnu/packages/bioinformatics.scm (r-liana)[native-inputs]: Add r-testthat. Change-Id: I04c9c5f60842e1ed0a0415e51c25b46b64a60104	2024-12-03 16:59:57 +01:00
Ricardo Wurmus	d8ad680471	gnu: r-abaenrichment: Add missing input. ... * gnu/packages/bioconductor.scm (r-abaenrichment)[native-inputs]: Add r-testthat. Change-Id: I3a5a43d3a1b9f7ff81c589efc0a0aade1e666553	2024-12-03 16:59:57 +01:00
Ricardo Wurmus	8dcf48ab94	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	2024-12-03 16:59:57 +01:00
Ricardo Wurmus	587ec117f4	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	2024-12-03 16:59:57 +01:00
Ricardo Wurmus	3c2964c923	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	2024-12-03 16:59:57 +01:00
Ricardo Wurmus	8f9b6c3137	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	2024-12-03 16:59:57 +01:00
Ricardo Wurmus	17c1e8ef1b	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	2024-12-03 16:59:57 +01:00