diff options
Diffstat (limited to 'gnu/packages/statistics.scm')
| -rw-r--r-- | gnu/packages/statistics.scm | 203 |
1 files changed, 197 insertions, 6 deletions
diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index db1a6871ad..133ce41c43 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -1,12 +1,12 @@ ;;; GNU Guix --- Functional package management for GNU -;;; Copyright © 2015, 2016 Ricardo Wurmus <rekado@elephly.net> +;;; Copyright © 2015, 2016, 2017 Ricardo Wurmus <rekado@elephly.net> ;;; Copyright © 2015 Vicente Vera Parra <vicentemvp@gmail.com> ;;; Copyright © 2016 Andreas Enge <andreas@enge.fr> ;;; Copyright © 2016 Efraim Flashner <efraim@flashner.co.il> ;;; Copyright © 2016 Pjotr Prins <pjotr.guix@thebird.nl> ;;; Copyright © 2016 Roel Janssen <roel@gnu.org> ;;; Copyright © 2016 Ben Woodcroft <donttrustben@gmail.com> -;;; Copyright © 2016 Raoul Bonnal <ilpuccio.febo@gmail.com> +;;; Copyright © 2016, 2017 Raoul Bonnal <ilpuccio.febo@gmail.com> ;;; ;;; This file is part of GNU Guix. ;;; @@ -116,7 +116,9 @@ be output in text, PostScript, PDF or HTML.") `(#:make-flags (list (string-append "LDFLAGS=-Wl,-rpath=" (assoc-ref %outputs "out") - "/lib/R/lib")) + "/lib/R/lib") + ;; This affects the embedded timestamp of only the core packages. + "PKG_BUILT_STAMP=1970-01-01") #:phases (modify-phases %standard-phases (add-before 'configure 'patch-uname @@ -126,8 +128,13 @@ be output in text, PostScript, PDF or HTML.") (substitute* "src/scripts/R.sh.in" (("uname") uname-bin))) #t)) - (add-before - 'configure 'set-default-pager + (add-after 'unpack 'build-recommended-packages-reproducibly + (lambda _ + (substitute* "src/library/Recommended/Makefile.in" + (("INSTALL_OPTS =.*" line) + (string-append line " --built-timestamp=1970-01-01"))) + #t)) + (add-before 'configure 'set-default-pager ;; Set default pager to "cat", because otherwise it is "false", ;; making "help()" print nothing at all. (lambda _ (setenv "PAGER" "cat") #t)) @@ -727,7 +734,8 @@ legends.") ("r-lazyeval" ,r-lazyeval) ("r-tibble" ,r-tibble) ("r-reshape2" ,r-reshape2) - ("r-scales" ,r-scales))) + ("r-scales" ,r-scales) + ("r-svglite" ,r-svglite))) ; Needed for 'ggsave' (home-page "http://ggplot2.org") (synopsis "An implementation of the grammar of graphics") (description @@ -4004,3 +4012,186 @@ generalized linear model functions that implement secure convergence, dispersion modeling and Tweedie power-law families.") ;; Statmod is distributed under either license (license (list license:gpl2 license:gpl3)))) + +(define-public r-rann + (package + (name "r-rann") + (version "2.5") + (source (origin + (method url-fetch) + (uri (cran-uri "RANN" version)) + (sha256 + (base32 + "007cgqg9bybg2zlljbv5m6cmlm3r6i251018rpgjcn0xnm9sjsj7")))) + (properties + `((upstream-name . "RANN"))) + (build-system r-build-system) + (home-page "https://github.com/jefferis/RANN") + (synopsis "Fast nearest neighbour search") + (description + "This package finds the k nearest neighbours for every point in a given +dataset in O(N log N) time using Arya and Mount's ANN library. Provides +approximate, exact searches, fixed radius searches, bd and kb trees.") + (license license:gpl3+))) + +(define-public r-fivethirtyeight + (package + (name "r-fivethirtyeight") + (version "0.1.0") + (source + (origin + (method url-fetch) + (uri (string-append "https://mran.microsoft.com/src/contrib/" + "fivethirtyeight_" version ".tar.gz")) + (sha256 + (base32 + "0fcc8rq745nsghp27dk0lgih90y4zx8hrzcvsn6ih786yv7qxhvl")))) + (build-system r-build-system) + (propagated-inputs + `(("r-knitr" ,r-knitr) + ("r-rmarkdown" ,r-rmarkdown) + ("r-dplyr" ,r-dplyr) + ("r-readr" ,r-readr) + ("r-ggplot2" ,r-ggplot2) + ("r-magrittr" ,r-magrittr) + ("r-stringr" ,r-stringr))) + (home-page "https://mran.microsoft.com/package/fivethirtyeight/") + (synopsis "Data and code behind the stories at FiveThirtyEight") + (description "This R package provides access to the code and data sets +published by the statistics blog FiveThirtyEight.") + (license license:expat))) + +(define-public r-compquadform + (package + (name "r-compquadform") + (version "1.4.2") + (source + (origin + (method url-fetch) + (uri (cran-uri "CompQuadForm" version)) + (sha256 + (base32 + "0bsgbdblxpv57mbwnf51xyiydp2bqyxkg4zzwqki85cv5xqlrq1n")))) + (properties `((upstream-name . "CompQuadForm"))) + (build-system r-build-system) + (home-page "http://cran.r-project.org/web/packages/CompQuadForm") + (synopsis "Distribution function of quadratic forms in normal variables") + (description + "This package provides functions to compute the distribution function of +quadratic forms in normal variables using Imhof's method, Davies's algorithm, +Farebrother's algorithm or Liu et al.'s algorithm.") + (license license:gpl2+))) + +(define-public r-cowplot + (package + (name "r-cowplot") + (version "0.7.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "cowplot" version)) + (sha256 + (base32 + "03iimcsh1pk7iqzjdlfcj43b8khijdk4hg00j4jdllv19xsfb0hx")))) + (build-system r-build-system) + (propagated-inputs + `(("r-ggplot2" ,r-ggplot2) + ("r-gtable" ,r-gtable) + ("r-plyr" ,r-plyr))) + (home-page "https://github.com/wilkelab/cowplot") + (synopsis "Streamlined plot theme and plot annotations for ggplot2") + (description + "This package provides some helpful extensions and modifications to the +ggplot2 package to combine multiple ggplot2 plots into one and label them with +letters, as is often required for scientific publications.") + (license license:gpl2))) + +(define-public r-mixtools + (package + (name "r-mixtools") + (version "1.0.4") + (source + (origin + (method url-fetch) + (uri (cran-uri "mixtools" version)) + (sha256 + (base32 + "133rr17ywmlhsc6457hs8qxi8ng443ql9ashxpwc8875gjhv1x32")))) + (build-system r-build-system) + (propagated-inputs + `(("r-segmented" ,r-segmented))) + (home-page "http://cran.r-project.org/web/packages/mixtools") + (synopsis "Tools for analyzing finite mixture models") + (description + "This package provides a collection of R functions for analyzing finite +mixture models.") + (license license:gpl2+))) + +(define-public r-lars + (package + (name "r-lars") + (version "1.2") + (source + (origin + (method url-fetch) + (uri (cran-uri "lars" version)) + (sha256 + (base32 + "0blj44wqrx6lmym1m9v6wkz8zxzbjax2zl6swgdczci0ixb5nx34")))) + (build-system r-build-system) + (inputs + `(("gfortran" ,gfortran))) + (home-page "http://www-stat.stanford.edu/~hastie/Papers/#LARS") + (synopsis "Least angle regression software") + (description + "Least Angle Regression (\"LAR\") is a model selection algorithm; a +useful and less greedy version of traditional forward selection methods. A +simple modification of the LAR algorithm implements Tibshirani's Lasso; the +Lasso modification of LARS calculates the entire Lasso path of coefficients +for a given problem at the cost of a single least squares fit. Another LARS +modification efficiently implements epsilon Forward Stagewise linear +regression.") + (license license:gpl2))) + +(define-public r-fastica + (package + (name "r-fastica") + (version "1.2-0") + (source + (origin + (method url-fetch) + (uri (cran-uri "fastICA" version)) + (sha256 + (base32 + "0ykk78fsk5da2g16i4wji85bvji7nayjvkfp07hyaxq9d15jmf0r")))) + (properties `((upstream-name . "fastICA"))) + (build-system r-build-system) + (home-page "http://cran.r-project.org/web/packages/fastICA") + (synopsis "FastICA algorithms to perform ICA and projection pursuit") + (description + "This package provides an implementation of the FastICA algorithm to +perform @dfn{independent component analysis} (ICA) and projection pursuit.") + ;; Any GPL version. + (license license:gpl3+))) + +(define-public r-randomforest + (package + (name "r-randomforest") + (version "4.6-12") + (source + (origin + (method url-fetch) + (uri (cran-uri "randomForest" version)) + (sha256 + (base32 + "1i43idaihhl6nwqw42v9dqpl6f8z3ykcn2in32lh2755i27jylbf")))) + (properties `((upstream-name . "randomForest"))) + (build-system r-build-system) + (home-page "https://www.stat.berkeley.edu/~breiman/RandomForests/") + (native-inputs + `(("gfortran" ,gfortran))) + (synopsis "Breiman and Cutler's random forests for classification and regression") + (description +"This package provides the Breiman and Cutler's random forests algorithm, based on a +forest of trees using random inputs, for classification and regression.") + (license license:gpl2+))) |