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dkim=fail ("headers rsa verify failed") header.d=mdc-berlin.de header.s=mdc header.b=TZ1FdiCf; spf=pass (aspmx1.migadu.com: domain of "guix-patches-bounces+larch=yhetil.org@gnu.org" designates 209.51.188.17 as permitted sender) smtp.mailfrom="guix-patches-bounces+larch=yhetil.org@gnu.org"; dmarc=fail reason="SPF not aligned (relaxed)" header.from=mdc-berlin.de (policy=none) X-TUID: 8V4IJ+Q40XaX * gnu/packages/bioconductor.scm (r-hdcytodata): New variable. --- gnu/packages/bioconductor.scm | 40 +++++++++++++++++++++++++++++++++++ 1 file changed, 40 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index d603bd42c1..1cf33501d6 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -560,6 +560,46 @@ (define-public r-hdo-db https://github.com/DiseaseOntology/HumanDiseaseOntology/tree/main/src/ontology}.") (license license:artistic2.0))) +(define-public r-hdcytodata + (package + (name "r-hdcytodata") + (version "1.18.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "HDCytoData" version + 'experiment)) + (sha256 + (base32 + "1fn8q6ds10z3ymdarkfyh88pcqnrry9yhzammp84vf86f0bl8mrc")))) + (properties `((upstream-name . "HDCytoData"))) + (build-system r-build-system) + (arguments + (list #:phases '(modify-phases %standard-phases + (add-after 'unpack 'set-HOME + (lambda _ + (setenv "HOME" "/tmp"))) + (add-after 'unpack 'avoid-internet-access + (lambda _ + (setenv "GUIX_BUILD" "yes") + (substitute* "R/zzz.R" + (("createHubAccessors.*" m) + (string-append + "if (Sys.getenv(\"GUIX_BUILD\") == \"\") {" m + "}")))))))) + (propagated-inputs (list r-experimenthub r-flowcore r-summarizedexperiment)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/lmweber/HDCytoData") + (synopsis + "Set of high-dimensional flow cytometry and mass cytometry benchmark datasets") + (description + "HDCytoData contains a set of high-dimensional cytometry benchmark datasets. +These datasets are formatted into SummarizedExperiment and flowSet +Bioconductor object formats, including all required metadata. Row metadata +includes sample IDs, group IDs, patient IDs, reference cell population or +cluster labels and labels identifying spiked in cells. Column metadata +includes channel names, protein marker names, and protein marker classes.") + (license license:expat))) + (define-public r-homo-sapiens (package (name "r-homo-sapiens") -- 2.34.1