diff options
| -rw-r--r-- | gnu/packages/bioconductor.scm | 35 | ||||
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 35 |
2 files changed, 35 insertions, 35 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 1bb1871fd0..a4e436e61d 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -507,6 +507,41 @@ is derived from the UCSC mm9 genome and based on the \"knownGene\" track. The database is exposed as a @code{TxDb} object.") (license license:artistic2.0))) +(define-public r-txdb-mmusculus-ucsc-mm10-knowngene + (package + (name "r-txdb-mmusculus-ucsc-mm10-knowngene") + (version "3.4.4") + (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/" + "TxDb.Mmusculus.UCSC.mm10.knownGene_" + version ".tar.gz")) + (sha256 + (base32 + "01lgxc1fx5nhlpbwjd5zqghkkbmh6axd98ikx4b0spv0jdg6gf39")))) + (properties + `((upstream-name . "TxDb.Mmusculus.UCSC.mm10.knownGene"))) + (build-system r-build-system) + ;; As this package provides little more than a very large data file it + ;; doesn't make sense to build substitutes. + (arguments `(#:substitutable? #f)) + (propagated-inputs + `(("r-bsgenome" ,r-bsgenome) + ("r-genomicfeatures" ,r-genomicfeatures) + ("r-annotationdbi" ,r-annotationdbi))) + (home-page + "https://bioconductor.org/packages/TxDb.Mmusculus.UCSC.mm10.knownGene/") + (synopsis "Annotation package for TxDb knownGene object(s) for Mouse") + (description + "This package loads a TxDb object, which is an R interface to +prefabricated databases contained in this package. This package provides +the TxDb object of Mouse data as provided by UCSC (mm10, December 2011) +based on the knownGene track.") + (license license:artistic2.0))) + (define-public r-biocgenerics (package diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index d45dedb6c9..b9973ba81f 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -8105,41 +8105,6 @@ plots the corresponding sequence logo as introduced by Schneider and Stephens (1990).") (license license:lgpl2.0+))) -(define-public r-txdb-mmusculus-ucsc-mm10-knowngene - (package - (name "r-txdb-mmusculus-ucsc-mm10-knowngene") - (version "3.4.4") - (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/" - "TxDb.Mmusculus.UCSC.mm10.knownGene_" - version ".tar.gz")) - (sha256 - (base32 - "01lgxc1fx5nhlpbwjd5zqghkkbmh6axd98ikx4b0spv0jdg6gf39")))) - (properties - `((upstream-name . "TxDb.Mmusculus.UCSC.mm10.knownGene"))) - (build-system r-build-system) - ;; As this package provides little more than a very large data file it - ;; doesn't make sense to build substitutes. - (arguments `(#:substitutable? #f)) - (propagated-inputs - `(("r-bsgenome" ,r-bsgenome) - ("r-genomicfeatures" ,r-genomicfeatures) - ("r-annotationdbi" ,r-annotationdbi))) - (home-page - "https://bioconductor.org/packages/TxDb.Mmusculus.UCSC.mm10.knownGene/") - (synopsis "Annotation package for TxDb knownGene object(s) for Mouse") - (description - "This package loads a TxDb object, which is an R interface to -prefabricated databases contained in this package. This package provides -the TxDb object of Mouse data as provided by UCSC (mm10, December 2011) -based on the knownGene track.") - (license license:artistic2.0))) - (define-public r-motifrg (package (name "r-motifrg") |