;;; GNU Guix --- Functional package management for GNU
;;; Copyright © 2015, 2016, 2017 Ricardo Wurmus <rekado@elephly.net>
;;;
;;; This file is part of GNU Guix.
;;;
;;; GNU Guix is free software; you can redistribute it and/or modify it
;;; under the terms of the GNU General Public License as published by
;;; the Free Software Foundation; either version 3 of the License, or (at
;;; your option) any later version.
;;;
;;; GNU Guix is distributed in the hope that it will be useful, but
;;; WITHOUT ANY WARRANTY; without even the implied warranty of
;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
;;; GNU General Public License for more details.
;;;
;;; You should have received a copy of the GNU General Public License
;;; along with GNU Guix.  If not, see <http://www.gnu.org/licenses/>.

(define-module (gnu packages cran)
  #:use-module ((guix licenses) #:prefix license:)
  #:use-module (guix packages)
  #:use-module (guix download)
  #:use-module (guix utils)
  #:use-module (guix build-system r)
  #:use-module (gnu packages statistics))

(define-public r-colorspace
  (package
    (name "r-colorspace")
    (version "1.3-2")
    (source
     (origin
       (method url-fetch)
       (uri (cran-uri "colorspace" version))
       (sha256
        (base32 "0d1ya7hx4y58n5ivwmdmq2zgh0g2sbv7ykh13n85c1355csd57yx"))))
    (build-system r-build-system)
    (home-page "http://cran.r-project.org/web/packages/colorspace")
    (synopsis "Color space manipulation")
    (description
     "This package carries out a mapping between assorted color spaces
including RGB, HSV, HLS, CIEXYZ, CIELUV, HCL (polar CIELUV), CIELAB and polar
CIELAB.  Qualitative, sequential, and diverging color palettes based on HCL
colors are provided.")
    (license license:bsd-3)))

(define-public r-glue
  (package
    (name "r-glue")
    (version "1.1.1")
    (source
     (origin
       (method url-fetch)
       (uri (cran-uri "glue" version))
       (sha256
        (base32
         "01awmqby7rwzhzr51m7d87wqibx7ggl6xair8fi3z3q1hkyyv7ih"))))
    (build-system r-build-system)
    (home-page "https://github.com/tidyverse/glue")
    (synopsis "Interpreted string literals")
    (description
     "This package provides an implementation of interpreted string literals,
inspired by Python's Literal String Interpolation (PEP-0498) and
Docstrings (PEP-0257) and Julia's Triple-Quoted String Literals.")
    (license license:expat)))

(define-public r-plogr
  (package
    (name "r-plogr")
    (version "0.1-1")
    (source
     (origin
       (method url-fetch)
       (uri (cran-uri "plogr" version))
       (sha256
        (base32
         "13zliqlbkl8b04k9ga0sx5jsh7k867gracgl84l2a9kcqy9mqx92"))))
    (build-system r-build-system)
    (home-page "https://github.com/krlmlr/plogr")
    (synopsis "R bindings for the plog C++ logging library")
    (description
     "This package provides the header files for a stripped-down version of
the plog header-only C++ logging library, and a method to log to R's standard
error stream.")
    (license license:expat)))

(define-public r-rcpp
  (package
    (name "r-rcpp")
    (version "0.12.12")
    (source
     (origin
       (method url-fetch)
       (uri (cran-uri "Rcpp" version))
       (sha256
        (base32 "1byyqvlgb2p46p1gv243k73rk69fa8pa4l5m5asmckag2pkb2glz"))))
    (build-system r-build-system)
    (home-page "http://www.rcpp.org")
    (synopsis "Seamless R and C++ integration")
    (description
     "The Rcpp package provides R functions as well as C++ classes which offer
a seamless integration of R and C++.  Many R data types and objects can be
mapped back and forth to C++ equivalents which facilitates both writing of new
code as well as easier integration of third-party libraries.  Documentation
about Rcpp is provided by several vignettes included in this package, via the
'Rcpp Gallery' site at <http://gallery.rcpp.org>, the paper by Eddelbuettel
and Francois (2011, JSS), and the book by Eddelbuettel (2013, Springer); see
'citation(\"Rcpp\")' for details on these last two.")
    (license license:gpl2+)))

(define-public r-bindr
  (package
    (name "r-bindr")
    (version "0.1")
    (source
     (origin
       (method url-fetch)
       (uri (cran-uri "bindr" version))
       (sha256
        (base32
         "0d95ifm0x4mrfzi20xf39f5pzd7rfzqsld0vjqf6xzga5rhnd8fc"))))
    (build-system r-build-system)
    (home-page "https://github.com/krlmlr/bindr")
    (synopsis "Parametrized active bindings")
    (description
     "This package provides a simple interface for creating active bindings
where the bound function accepts additional arguments.")
    (license license:expat)))

(define-public r-bindrcpp
  (package
    (name "r-bindrcpp")
    (version "0.2")
    (source
     (origin
       (method url-fetch)
       (uri (cran-uri "bindrcpp" version))
       (sha256
        (base32
         "0l1l22zl87wiyl79m3gj2vlxmkhxvrkl4alhyy08h55q7hqs3vyh"))))
    (build-system r-build-system)
    (propagated-inputs
     `(("r-bindr" ,r-bindr)
       ("r-plogr" ,r-plogr)
       ("r-rcpp" ,r-rcpp)))
    (home-page "https://github.com/krlmlr/bindrcpp")
    (synopsis "Rcpp interface to active bindings")
    (description
     "This package provides an easy way to fill an environment with active
bindings that call a C++ function.")
    (license license:expat)))

(define-public r-auc
  (package
    (name "r-auc")
    (version "0.3.0")
    (source
     (origin
       (method url-fetch)
       (uri (cran-uri "AUC" version))
       (sha256
        (base32
         "0ripcib2qz0m7rgr1kiz68nx8f6p408l1ww7j78ljqik7p3g41g7"))))
    (properties `((upstream-name . "AUC")))
    (build-system r-build-system)
    (home-page "http://cran.r-project.org/web/packages/AUC")
    (synopsis "Compute the area under the curve of selected measures")
    (description
     "This package includes functions to compute the area under the curve of
selected measures: the area under the sensitivity curve (AUSEC), the area
under the specificity curve (AUSPC), the area under the accuracy
curve (AUACC), and the area under the receiver operating characteristic
curve (AUROC).  The curves can also be visualized.  Support for partial areas
is provided.")
    (license license:gpl2+)))

(define-public r-calibrate
  (package
    (name "r-calibrate")
    (version "1.7.2")
    (source
     (origin
       (method url-fetch)
       (uri (cran-uri "calibrate" version))
       (sha256
        (base32
         "010nb1nb9y7zhw2k6d2i2drwy5brp7b83mjj2w7i3wjp9xb6l1kq"))))
    (build-system r-build-system)
    (propagated-inputs
     `(("r-mass" ,r-mass)))
    (home-page "http://cran.r-project.org/web/packages/calibrate")
    (synopsis "Calibration of scatterplot and biplot axes")
    (description
     "This is a package for drawing calibrated scales with tick marks
on (non-orthogonal) variable vectors in scatterplots and biplots.")
    (license license:gpl2)))

(define-public r-shape
  (package
    (name "r-shape")
    (version "1.4.2")
    (source
     (origin
       (method url-fetch)
       (uri (cran-uri "shape" version))
       (sha256
        (base32
         "0yk3cmsa57svcvbnm21pyr0s0qbhnllka8nmsg4yb41frjlqph66"))))
    (build-system r-build-system)
    (home-page "http://cran.r-project.org/web/packages/shape")
    (synopsis "Functions for plotting graphical shapes")
    (description
     "This package provides functions for plotting graphical shapes such as
ellipses, circles, cylinders, arrows, ...")
    (license license:gpl3+)))