M gnu/packages/bioinformatics.scm => gnu/packages/bioinformatics.scm +5 -5
@@ 478,7 478,7 @@ BED, GFF/GTF, VCF.")
(inputs
`(("bedtools" ,bedtools-2.18)
("samtools" ,samtools-0.1)
- ("r" ,r)
+ ("r-minimal" ,r-minimal)
("r-foreach" ,r-foreach)
("r-xnomial" ,r-xnomial)
("r-domc" ,r-domc)
@@ 1728,7 1728,7 @@ gene predictor designed to work with assembled, aligned RNA-seq transcripts.")
("python2-scipy" ,python2-scipy)
("python2-matplotlib" ,python2-matplotlib)))
(propagated-inputs
- `(("r" ,r)
+ `(("r-minimal" ,r-minimal)
("libsvm" ,libsvm)
("randomjungle" ,randomjungle)))
(native-inputs
@@ 4004,7 4004,7 @@ partial genes, and identifies translation initiation sites.")
("grep" ,grep)
("sed" ,sed)
("gawk" ,gawk)
- ("r" ,r)
+ ("r-minimal" ,r-minimal)
("r-ggplot2" ,r-ggplot2)
("coreutils" ,coreutils)))
(home-page "http://sanger-pathogens.github.io/Roary")
@@ 4119,7 4119,7 @@ phylogenies.")
(inputs
`(("boost" ,boost)
("ncurses" ,ncurses)
- ("r" ,r)
+ ("r-minimal" ,r-minimal)
("perl" ,perl)
("samtools" ,samtools-0.1)
("zlib" ,zlib)))
@@ 7636,7 7636,7 @@ library implementing most of the pipeline's features.")
`("R_LIBS_SITE" ":" = (,(getenv "R_LIBS_SITE")))))
#t)))))
(inputs
- `(("r" ,r)
+ `(("r-minimal" ,r-minimal)
("r-rcas" ,r-rcas)
("guile-next" ,guile-next)
("guile-json" ,guile2.2-json)
M gnu/packages/emacs.scm => gnu/packages/emacs.scm +1 -1
@@ 2924,7 2924,7 @@ E-Prime forbids the use of the \"to be\" form to strengthen your writing.")
(string-append "SHELL = " (which "sh")))))))))
(inputs
`(("emacs" ,emacs-minimal)
- ("r" ,r)))
+ ("r-minimal" ,r-minimal)))
(native-inputs
`(("perl" ,perl)
("texinfo" ,texinfo)
M gnu/packages/machine-learning.scm => gnu/packages/machine-learning.scm +1 -1
@@ 402,7 402,7 @@ sample proximities between pairs of cases.")
(inputs
`(("python" ,python)
("numpy" ,python-numpy)
- ("r" ,r)
+ ("r-minimal" ,r-minimal)
("octave" ,octave)
("swig" ,swig)
("hdf5" ,hdf5)
M gnu/packages/python.scm => gnu/packages/python.scm +1 -1
@@ 4085,7 4085,7 @@ operators such as union, intersection, and difference.")
`(("readline" ,readline)
("icu4c" ,icu4c)
("pcre" ,pcre)
- ("r" ,r)
+ ("r-minimal" ,r-minimal)
("r-survival" ,r-survival)))
(native-inputs
`(("zlib" ,zlib)))
M gnu/packages/statistics.scm => gnu/packages/statistics.scm +6 -6
@@ 103,9 103,9 @@ be output in text, PostScript, PDF or HTML.")
;; Update this package together with the set of recommended packages: r-boot,
;; r-class, r-cluster, r-codetools, r-foreign, r-kernsmooth, r-lattice,
;; r-mass, r-matrix, r-mgcv, r-nlme, r-nnet, r-rpart, r-spatial, r-survival.
-(define-public r
+(define-public r-minimal
(package
- (name "r")
+ (name "r-minimal")
(version "3.3.3")
(source (origin
(method url-fetch)
@@ 538,14 538,14 @@ definition of Surv objects, Kaplan-Meier and Aalen-Johansen (multi-state)
curves, Cox models, and parametric accelerated failure time models.")
(license license:lgpl2.0+)))
-(define-public r-with-recommended-packages
- (package (inherit r)
- (name "r-with-recommended-packages")
+(define-public r
+ (package (inherit r-minimal)
+ (name "r")
(source #f)
(build-system trivial-build-system)
(arguments '(#:builder (mkdir %output)))
(propagated-inputs
- `(("r" ,r)
+ `(("r-minimal" ,r-minimal)
("r-boot" ,r-boot)
("r-class" ,r-class)
("r-cluster" ,r-cluster)
M guix/build-system/r.scm => guix/build-system/r.scm +1 -1
@@ 62,7 62,7 @@ release corresponding to NAME and VERSION."
"Return the default R package."
;; Lazily resolve the binding to avoid a circular dependency.
(let ((r-mod (resolve-interface '(gnu packages statistics))))
- (module-ref r-mod 'r)))
+ (module-ref r-mod 'r-minimal)))
(define* (lower name
#:key source inputs native-inputs outputs system target