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| author | Raoul Jean Pierre Bonnal <ilpuccio.febo@gmail.com> | 2016-12-27 22:14:28 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2017-01-31 22:35:11 +0100 |
| commit | 69f2b3bdf9ca333a09995d5006d78f83bb417968 (patch) | |
| tree | 5fcbb6d511ec903808617ba70a9f97854435902d /gnu/packages/bioinformatics.scm | |
| parent | d4af25b51bbe9980340d70ae103ec92a284e69ce (diff) | |
| download | patches-69f2b3bdf9ca333a09995d5006d78f83bb417968.tar patches-69f2b3bdf9ca333a09995d5006d78f83bb417968.tar.gz | |
gnu: Add r-rhdf5.
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 43 |
1 files changed, 43 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index f8f6ea1ee7..79d479f75a 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -7822,6 +7822,49 @@ provided as a matrix which can be used as an offset for different expression of gene-level counts.") (license license:gpl2+))) +(define-public r-rhdf5 + (package + (name "r-rhdf5") + (version "2.18.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "rhdf5" version)) + (sha256 + (base32 + "0pb04li55ysag30s7rap7nnivc0rqmgsmpj43kin0rxdabfn1w0k")))) + (build-system r-build-system) + (arguments + `(#:phases + (modify-phases %standard-phases + (add-after 'unpack 'unpack-smallhdf5 + (lambda* (#:key outputs #:allow-other-keys) + (system* "tar" "-xzvf" + "src/hdf5source/hdf5small.tgz" "-C" "src/" ) + (substitute* "src/Makevars" + (("^.*cd hdf5source &&.*$") "") + (("^.*gunzip -dc hdf5small.tgz.*$") "") + (("^.*rm -rf hdf5.*$") "") + (("^.*mv hdf5source/hdf5 ..*$") "")) + (substitute* "src/hdf5/configure" + (("/bin/mv") "mv")) + #t))))) + (propagated-inputs + `(("r-zlibbioc" ,r-zlibbioc))) + (inputs + `(("perl" ,perl) + ("zlib" ,zlib))) + (home-page "http://bioconductor.org/packages/rhdf5") + (synopsis "HDF5 interface to R") + (description + "This R/Bioconductor package provides an interface between HDF5 and R. +HDF5's main features are the ability to store and access very large and/or +complex datasets and a wide variety of metadata on mass storage (disk) through +a completely portable file format. The rhdf5 package is thus suited for the +exchange of large and/or complex datasets between R and other software +package, and for letting R applications work on datasets that are larger than +the available RAM.") + (license license:artistic2.0))) + (define-public emboss (package (name "emboss") |