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author | Ludovic Courtès <ludo@gnu.org> | 2019-01-20 22:12:10 +0100 |
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committer | Ludovic Courtès <ludo@gnu.org> | 2019-01-20 22:12:10 +0100 |
commit | 3e2d4e69c340c3520f546f8c7e21e52383058d1c (patch) | |
tree | 0bc92edb753cfdf9a9e7ef763ebc19f0cd2d528c /gnu/packages/bioinformatics.scm | |
parent | ad79ae7e2d7505292b11e87302b08f4db0f934e9 (diff) | |
parent | e5ad2cdf172eecc7edef37a500593b1941af013c (diff) | |
download | guix-patches-3e2d4e69c340c3520f546f8c7e21e52383058d1c.tar guix-patches-3e2d4e69c340c3520f546f8c7e21e52383058d1c.tar.gz |
Merge branch 'master' into staging
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
-rw-r--r-- | gnu/packages/bioinformatics.scm | 79 |
1 files changed, 2 insertions, 77 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 42f5c3b80d..28dbdca13b 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -98,7 +98,9 @@ #:use-module (gnu packages popt) #:use-module (gnu packages protobuf) #:use-module (gnu packages python) + #:use-module (gnu packages python-compression) #:use-module (gnu packages python-web) + #:use-module (gnu packages python-xyz) #:use-module (gnu packages readline) #:use-module (gnu packages ruby) #:use-module (gnu packages serialization) @@ -6338,63 +6340,6 @@ between two different types of motif instances using as much relevant information as possible.") (license (list license:gpl2+ license:gpl3+)))) -(define-public r-vegan - (package - (name "r-vegan") - (version "2.5-3") - (source - (origin - (method url-fetch) - (uri (cran-uri "vegan" version)) - (sha256 - (base32 - "023xznh0iy0496icpchadmp7a3rk3nj9s48fvwlvp3dssw58yp3c")))) - (build-system r-build-system) - (native-inputs - `(("gfortran" ,gfortran))) - (propagated-inputs - `(("r-cluster" ,r-cluster) - ("r-knitr" ,r-knitr) ; needed for vignettes - ("r-lattice" ,r-lattice) - ("r-mass" ,r-mass) - ("r-mgcv" ,r-mgcv) - ("r-permute" ,r-permute))) - (home-page "https://cran.r-project.org/web/packages/vegan") - (synopsis "Functions for community ecology") - (description - "The vegan package provides tools for descriptive community ecology. It -has most basic functions of diversity analysis, community ordination and -dissimilarity analysis. Most of its multivariate tools can be used for other -data types as well.") - (license license:gpl2+))) - -(define-public r-annotate - (package - (name "r-annotate") - (version "1.60.0") - (source - (origin - (method url-fetch) - (uri (bioconductor-uri "annotate" version)) - (sha256 - (base32 - "0p6c96lay23a67dyirgnwzm2yw22m592z780vy6p4nqwla8ha18n")))) - (build-system r-build-system) - (propagated-inputs - `(("r-annotationdbi" ,r-annotationdbi) - ("r-biobase" ,r-biobase) - ("r-biocgenerics" ,r-biocgenerics) - ("r-dbi" ,r-dbi) - ("r-rcurl" ,r-rcurl) - ("r-xml" ,r-xml) - ("r-xtable" ,r-xtable))) - (home-page - "https://bioconductor.org/packages/annotate") - (synopsis "Annotation for microarrays") - (description "This package provides R environments for the annotation of -microarrays.") - (license license:artistic2.0))) - (define-public r-copynumber (package (name "r-copynumber") @@ -7092,26 +7037,6 @@ use multiple corrections. Visualization of data can be done either by barplots or heatmaps.") (license license:gpl2+))) -(define-public r-biocgenerics - (package - (name "r-biocgenerics") - (version "0.28.0") - (source (origin - (method url-fetch) - (uri (bioconductor-uri "BiocGenerics" version)) - (sha256 - (base32 - "0cvpsrhg7sn7lpqgxvqrsagv6j7xj5rafq5xdjfd8zc4gxrs5rb8")))) - (properties - `((upstream-name . "BiocGenerics"))) - (build-system r-build-system) - (home-page "https://bioconductor.org/packages/BiocGenerics") - (synopsis "S4 generic functions for Bioconductor") - (description - "This package provides S4 generic functions needed by many Bioconductor -packages.") - (license license:artistic2.0))) - (define-public r-biocinstaller (package (name "r-biocinstaller") |