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| author | zimoun <zimon.toutoune@gmail.com> | 2020-12-23 19:06:32 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2020-12-29 17:40:28 +0100 |
| commit | a2c66d18a565d85e94ea305429878d05e88b982a (patch) | |
| tree | cbec65dbbad7a3d762e26564d4ce606c801f71c6 | |
| parent | 8c2b7c9a2ab9d11d5619e8314f26266cae672bd1 (diff) | |
| download | guix-a2c66d18a565d85e94ea305429878d05e88b982a.tar guix-a2c66d18a565d85e94ea305429878d05e88b982a.tar.gz | |
gnu: r-homo-sapiens: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-homo-sapiens): Move from here...
* gnu/packages/bioconductor.scm (r-homo-sapiens): ...to here.
Replace 'string-append' by 'bioconductor-uri' with 'annotation'.
| -rw-r--r-- | gnu/packages/bioconductor.scm | 27 | ||||
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 32 |
2 files changed, 27 insertions, 32 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 466bb71101..3b8dce30e5 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -389,6 +389,33 @@ musculus (Mouse) as provided by UCSC (mm10, December 2011) and stored in Biostrings objects.") (license license:artistic2.0))) +(define-public r-homo-sapiens + (package + (name "r-homo-sapiens") + (version "1.3.1") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "Homo.sapiens" version 'annotation)) + (sha256 + (base32 + "151vj7h5p1c8yd5swrchk46z469p135wk50hvkl0nhgndvy0jj01")))) + (properties + `((upstream-name . "Homo.sapiens"))) + (build-system r-build-system) + (propagated-inputs + `(("r-genomicfeatures" ,r-genomicfeatures) + ("r-go-db" ,r-go-db) + ("r-org-hs-eg-db" ,r-org-hs-eg-db) + ("r-txdb-hsapiens-ucsc-hg19-knowngene" ,r-txdb-hsapiens-ucsc-hg19-knowngene) + ("r-organismdbi" ,r-organismdbi) + ("r-annotationdbi" ,r-annotationdbi))) + (home-page "https://bioconductor.org/packages/Homo.sapiens/") + (synopsis "Annotation package for the Homo.sapiens object") + (description + "This package contains the Homo.sapiens object to access data from +several related annotation packages.") + (license license:artistic2.0))) + (define-public r-org-ce-eg-db (package (name "r-org-ce-eg-db") diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 1c59d7a690..2a6ac38505 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -10623,38 +10623,6 @@ and more.") the earlier snpMatrix package, allowing for uncertainty in genotypes.") (license license:gpl3))) -(define-public r-homo-sapiens - (package - (name "r-homo-sapiens") - (version "1.3.1") - (source (origin - (method url-fetch) - ;; We cannot use bioconductor-uri here because this tarball is - ;; located under "data/annotation/" instead of "bioc/". - (uri (string-append "https://www.bioconductor.org/packages/" - "release/data/annotation/src/contrib/" - "Homo.sapiens_" - version ".tar.gz")) - (sha256 - (base32 - "151vj7h5p1c8yd5swrchk46z469p135wk50hvkl0nhgndvy0jj01")))) - (properties - `((upstream-name . "Homo.sapiens"))) - (build-system r-build-system) - (propagated-inputs - `(("r-genomicfeatures" ,r-genomicfeatures) - ("r-go-db" ,r-go-db) - ("r-org-hs-eg-db" ,r-org-hs-eg-db) - ("r-txdb-hsapiens-ucsc-hg19-knowngene" ,r-txdb-hsapiens-ucsc-hg19-knowngene) - ("r-organismdbi" ,r-organismdbi) - ("r-annotationdbi" ,r-annotationdbi))) - (home-page "https://bioconductor.org/packages/Homo.sapiens/") - (synopsis "Annotation package for the Homo.sapiens object") - (description - "This package contains the Homo.sapiens object to access data from -several related annotation packages.") - (license license:artistic2.0))) - (define-public r-dropbead (let ((commit "d746c6f3b32110428ea56d6a0001ce52a251c247") (revision "2")) |