;;; Copyright © 2015, 2016, 2017, 2018, 2019 Ricardo Wurmus <rekado@elephly.net>
;;; Copyright © 2015 Andreas Enge <andreas@enge.fr>
;;; Copyright © 2016, 2017 Ben Woodcroft <donttrustben@gmail.com>
-;;; Copyright © 2017, 2018 Roel Janssen <roel@gnu.org>
+;;; Copyright © 2016, 2017, 2018 Roel Janssen <roel@gnu.org>
;;; Copyright © 2017, 2018, 2019 Tobias Geerinckx-Rice <me@tobias.gr>
;;; Copyright © 2017 Raoul Bonnal <ilpuccio.febo@gmail.com>
;;; Copyright © 2018 Vijayalakshmi Vedantham <vijimay12@gmail.com>
;;; Copyright © 2018 Laura Lazzati <laura.lazzati.15@gmail.com>
;;; Copyright © 2018 Leo Famulari <leo@famulari.name>
;;; Copyright © 2018 Marius Bakke <mbakke@fastmail.com>
+;;; Copyright © 2018 Eric Brown <brown@fastmail.com>
;;; Copyright © 2018, 2019 Brett Gilio <brettg@posteo.net>
;;; Copyright © 2019 Nicolò Balzarotti <anothersms@gmail.com>
;;; Copyright © 2019 Wiktor Żelazny <wzelazny@vurv.cz>
#:use-module (gnu packages imagemagick)
#:use-module (gnu packages java)
#:use-module (gnu packages javascript)
- #:use-module (gnu packages lisp)
#:use-module (gnu packages machine-learning)
#:use-module (gnu packages maths)
#:use-module (gnu packages mpi)
(define-public r-curl
(package
(name "r-curl")
- (version "4.2")
+ (version "4.3")
(source (origin
(method url-fetch)
(uri (cran-uri "curl" version))
(sha256
(base32
- "0xh227gvb056wlipjxxbf555z1i1qcs7rr1igvs6k6645y9irrlp"))))
+ "1nrf6md41b37j424y6rvifdj9zb3j14f60fj7q71k9jhpf2x81kl"))))
(build-system r-build-system)
(arguments
`(#:phases
(longitude/latitude) locations.")
(license license:gpl3+)))
+(define-public r-jpeg
+ (package
+ (name "r-jpeg")
+ (version "0.1-8.1")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (cran-uri "jpeg" version))
+ (sha256
+ (base32
+ "1a8mi70x79a691r40yiw684jkg1mr9n8agkxlcksxcnrdybs9c0x"))))
+ (build-system r-build-system)
+ (inputs `(("libjpeg" ,libjpeg)))
+ (home-page "http://www.rforge.net/jpeg/")
+ (synopsis "Read and write JPEG images with R")
+ (description "This package provides a way to read, write and display
+bitmap images stored in the JPEG format with R. It can read and write both
+files and in-memory raw vectors.")
+ (license license:gpl2+)))
+
(define-public r-ggmap
(package
(name "r-ggmap")
(define-public r-dendextend
(package
(name "r-dendextend")
- (version "1.12.0")
+ (version "1.13.2")
(source
(origin
(method url-fetch)
(uri (cran-uri "dendextend" version))
(sha256
(base32
- "0mgsc9qkr5p6hss3wychdjvk263ay48yx543wawj72l7q7cgx1xl"))))
+ "1iclvd9cyckd4djpa87ynm05fk6zl4b4m735za1w4irimc130m3r"))))
(build-system r-build-system)
(propagated-inputs
`(("r-ggplot2" ,r-ggplot2)
(define-public r-extremes
(package
(name "r-extremes")
- (version "2.0-10")
+ (version "2.0-11")
(source
(origin
(method url-fetch)
(uri (cran-uri "extRemes" version))
(sha256
(base32
- "08fj72gpq2d6695hbm3cgwgal64z009ykrirby7g6r0akfcsx5ic"))))
+ "0hmgynxhzswqnhwb2sxrkczgam8c17s3vpxqc5bcz0bwczpxxyvm"))))
(properties `((upstream-name . "extRemes")))
(build-system r-build-system)
(propagated-inputs
(properties `((upstream-name . "RMySQL")))
(build-system r-build-system)
(inputs
- `(("mariadb" ,mariadb)
+ `(("mariadb" ,mariadb "lib")
+ ("mariadb-dev" ,mariadb "dev")
("zlib" ,zlib)))
(propagated-inputs
`(("r-dbi" ,r-dbi)))
(define-public r-vioplot
(package
(name "r-vioplot")
- (version "0.3.2")
+ (version "0.3.4")
(source
(origin
(method url-fetch)
(uri (cran-uri "vioplot" version))
(sha256
(base32
- "13kfjp747bnzksai8j39y2hyl3ljc6n53c2cfhaw78q3d63x0lbv"))))
+ "1fsklymilspzz5fzlj7666x09aglaw0v4x0yfjjzy4vr5qpjc529"))))
(build-system r-build-system)
(propagated-inputs
`(("r-sm" ,r-sm)
(define-public r-sdmtools
(package
(name "r-sdmtools")
- (version "1.1-221.1")
+ (version "1.1-221.2")
(source
(origin
(method url-fetch)
(uri (cran-uri "SDMTools" version))
(sha256
(base32
- "1fsgnlc7glawimzijp11j53g5bnfp1mdq9wb0754idmxcdi8a99q"))))
+ "1xvcd97ikqsfdpk2fddy3k0z1ajqga7nv9bgac9c1wnjk1gqrpgh"))))
(properties `((upstream-name . "SDMTools")))
(build-system r-build-system)
(propagated-inputs `(("r-r-utils" ,r-r-utils)))
(define-public r-network
(package
(name "r-network")
- (version "1.15")
+ (version "1.16.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "network" version))
(sha256
(base32
- "1cscw5978fyixhkicf06c4b2g1yf6gyi8vx86cz3dy75d41mrgjw"))))
+ "0dnf1wl3za2lhx2lwd8smhlijl1cfhckgr8zz9piiirrfi2m2kx2"))))
(build-system r-build-system)
(propagated-inputs
`(("r-magrittr" ,r-magrittr)
(define-public r-algdesign
(package
(name "r-algdesign")
- (version "1.1-7.3.1")
+ (version "1.2.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "AlgDesign" version))
(sha256
- (base32 "1s69yx0wxi9kqj9kyib0yvd363d7g4zrz0cvz1hn97ladr8656bz"))))
+ (base32 "0ammlg148gk0p24fh700116nd66636np0jb1wwh0axq5jphwk1pz"))))
(properties `((upstream-name . "AlgDesign")))
(build-system r-build-system)
(home-page "https://github.com/jvbraun/AlgDesign")
(define-public r-maptools
(package
(name "r-maptools")
- (version "0.9-8")
+ (version "0.9-9")
(source
(origin
(method url-fetch)
(uri (cran-uri "maptools" version))
(sha256
(base32
- "1ix3cg74w0w6cj8nwi0r9n3y5q9ljc21hm8xq6yqqngs57prvn2x"))))
+ "0v4llkxk8qs61vq4ykvaim4k23aagdaz0p62ns7zfq02sln3pfk9"))))
(build-system r-build-system)
(propagated-inputs
`(("r-foreign" ,r-foreign)
(define-public r-factominer
(package
(name "r-factominer")
- (version "1.42")
+ (version "2.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "FactoMineR" version))
(sha256
(base32
- "1yl16inb2m89l1czgaf0pgy9655dpr751hyx92yw6rqpd2ryznac"))))
+ "0qiw60ypf3bf5xsqz2b9l82i4jvprjm8lzpp12lhl8d9j5s8m0j8"))))
(properties `((upstream-name . "FactoMineR")))
(build-system r-build-system)
(propagated-inputs
("r-cluster" ,r-cluster)
("r-ellipse" ,r-ellipse)
("r-flashclust" ,r-flashclust)
+ ("r-ggplot2" ,r-ggplot2)
+ ("r-ggrepel" ,r-ggrepel)
("r-lattice" ,r-lattice)
("r-leaps" ,r-leaps)
("r-mass" ,r-mass)
(define-public r-insight
(package
(name "r-insight")
- (version "0.7.0")
+ (version "0.7.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "insight" version))
(sha256
(base32
- "1alxc483r3d1ydp983m2872mxd4nj3j25qv47zzgj10nbi4y32sq"))))
+ "0scjmr8qvwaswb9wfq2lxp1v5fl72way8cid9agrf0z1agp0adad"))))
(build-system r-build-system)
(home-page "https://easystats.github.io/insight/")
(synopsis "Easy access to model information for various model objects")
(define-public r-writexl
(package
(name "r-writexl")
- (version "1.1")
+ (version "1.2")
(source
(origin
(method url-fetch)
(uri (cran-uri "writexl" version))
(sha256
(base32
- "0w4wnpl3yhaqp63p32bk60xrbmd7xd11kxifjbzrghi7d4483a46"))))
+ "09fhdip6igcg97fjx4c7727cx2lb49l4d74l4i8rg2bag2s5lrj3"))))
(build-system r-build-system)
(inputs `(("zlib" ,zlib)))
(home-page "https://github.com/ropensci/writexl")
(define-public r-emmeans
(package
(name "r-emmeans")
- (version "1.4.2")
+ (version "1.4.3.01")
(source
(origin
(method url-fetch)
(uri (cran-uri "emmeans" version))
(sha256
(base32
- "1sxwbh6sym2shrj7gva8q96ca2csqz3081q4d84avpxz15dfz1z1"))))
+ "16v5j31516nbqnj2zhgqvyp5yxd4zcs5zi0aspa5plr2qikvrkmg"))))
(build-system r-build-system)
(propagated-inputs
`(("r-estimability" ,r-estimability)
(define-public r-bayesplot
(package
(name "r-bayesplot")
- (version "1.7.0")
+ (version "1.7.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "bayesplot" version))
(sha256
(base32
- "0h23sbfny2hcipvvfhq5aiwdh1vanizn7f8lpb9kffypxhcd7v7w"))))
+ "0sq0ajnm96hmlqf1cv5n2gshh3qdij4n1zbm7qrniz2q6b5aj342"))))
(build-system r-build-system)
(inputs
`(("pandoc" ,ghc-pandoc)
(define-public r-sjplot
(package
(name "r-sjplot")
- (version "2.8.0")
+ (version "2.8.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "sjPlot" version))
(sha256
- (base32 "0ahz6v6bhvq1537inwakmrafs44hs2m9w0ra8q17fz626nn9rb9b"))))
+ (base32 "0rmfc2pq80w0kxh6icljhqm31q580s0czvllsfxk6crmpyfgxkp7"))))
(properties `((upstream-name . "sjPlot")))
(build-system r-build-system)
(propagated-inputs
(define-public r-rvcheck
(package
(name "r-rvcheck")
- (version "0.1.6")
+ (version "0.1.7")
(source
(origin
(method url-fetch)
(uri (cran-uri "rvcheck" version))
(sha256
- (base32 "11n3qxapxcqsa0771s9q8n95kxmfyflya1d6wz4mm0lz0i6q55ia"))))
+ (base32 "1a3xlzi4n1rqiapfa180aif7n7nws8pbg8k3nk7ccaczvmni38aw"))))
(build-system r-build-system)
(propagated-inputs
`(("r-biocmanager" ,r-biocmanager)
(define-public r-rspectra
(package
(name "r-rspectra")
- (version "0.15-0")
+ (version "0.16-0")
(source
(origin
(method url-fetch)
(uri (cran-uri "RSpectra" version))
(sha256
(base32
- "1ab975scdqaxdna9sayjl6l14hz991y0pc8c8ah48w000616km8s"))))
+ "1ab45as2ysjrvkhvmx7y3nbhd0y1w4j9k2a789lcd973zz4wzwda"))))
(properties `((upstream-name . "RSpectra")))
(build-system r-build-system)
(propagated-inputs
(define-public r-rnifti
(package
(name "r-rnifti")
- (version "1.0.0")
+ (version "1.0.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "RNifti" version))
(sha256
(base32
- "0l61hjnzv043ibpkgrhc0yngaqmc58lkvii8j1dzh022z5wbqrj8"))))
+ "0hfid40pgfi1ykqka8y3v0m7h0iyd6fbvycvqlad3ibmbg621f0w"))))
(properties `((upstream-name . "RNifti")))
(build-system r-build-system)
(propagated-inputs `(("r-rcpp" ,r-rcpp)))
(define-public r-grimport
(package
(name "r-grimport")
- (version "0.9-2")
+ (version "0.9-3")
(source
(origin
(method url-fetch)
(uri (cran-uri "grImport" version))
(sha256
(base32
- "0n3y6dzy8s0ifvyrgwbly6cl14lmgd54dyi74s5i984apszpsp16"))))
+ "109mrdvq06xq3zgn9ngz0c7zzgqkv5zbpvsb2i636vmlk6y4dpkd"))))
(properties `((upstream-name . "grImport")))
(build-system r-build-system)
(inputs
(define-public r-grimport2
(package
(name "r-grimport2")
- (version "0.1-5")
+ (version "0.2-0")
(source
(origin
(method url-fetch)
(uri (cran-uri "grImport2" version))
(sha256
(base32
- "0dyb3nrrvxnkk9q5b136bdivcz1jj3ajx1kscm3k0kkpqjif0pls"))))
+ "19q0dd8fpp1g4xf6sg5f8dxybwxjfw553ra6wgjd8b74fzca40m1"))))
(properties `((upstream-name . "grImport2")))
(build-system r-build-system)
(propagated-inputs
(define-public r-kohonen
(package
(name "r-kohonen")
- (version "3.0.8")
+ (version "3.0.10")
(source
(origin
(method url-fetch)
(uri (cran-uri "kohonen" version))
(sha256
(base32
- "1zbfqa1qdlry8w6xhypkiknc5gn98v1ijhlsfka8zjg8ajhqgn1q"))))
+ "1ck7j13x701g67bx81x7plszz804jfhl1yg42krcj9x88vm5cscr"))))
(build-system r-build-system)
(propagated-inputs
- `(("r-mass" ,r-mass)
- ("r-rcpp" ,r-rcpp)))
+ `(("r-rcpp" ,r-rcpp)))
(home-page "https://cran.r-project.org/web/packages/kohonen")
(synopsis "Supervised and unsupervised self-organising maps")
(description
(define-public r-protviz
(package
(name "r-protviz")
- (version "0.4.0")
+ (version "0.5.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "protViz" version))
(sha256
(base32
- "150i2q4nakz28f39kmhrchz4qsr8ax6y02512md94k8hq4hamxg1"))))
+ "0cznzm1ijlq33yd5wsa61prav77y2vi698w0n2fx1xcv504c4bjv"))))
(properties `((upstream-name . "protViz")))
(build-system r-build-system)
- (inputs
- `(("perl" ,perl)
- ("python-2" ,python-2)))
(propagated-inputs `(("r-rcpp" ,r-rcpp)))
(home-page "https://github.com/protViz/protViz/")
(synopsis "Visualizing and analyzing mass spectrometry data in proteomics")
(define-public r-epi
(package
(name "r-epi")
- (version "2.38")
+ (version "2.40")
(source
(origin
(method url-fetch)
(uri (cran-uri "Epi" version))
(sha256
(base32
- "0ald9fjynrlyah8nzwfs49a08j4myd3c5bm56zn61gg5pyyhi8hd"))))
+ "046y10vwks5y84pzccmrn6d4pd6qz70imvp1hw5ywp8fnwzfh4g5"))))
(properties `((upstream-name . "Epi")))
(build-system r-build-system)
(propagated-inputs
(define-public r-future
(package
(name "r-future")
- (version "1.15.0")
+ (version "1.15.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "future" version))
(sha256
(base32
- "1cbp7agb9lipjxsh7xm1yphh8a4hrjy7wrbkvhsxn1swh0c4s3b7"))))
+ "101hi8warqa0py9l6c5p98f7i9xjhx01w655z6a35jx1dhspykzd"))))
(build-system r-build-system)
(propagated-inputs
`(("r-digest" ,r-digest)
(define-public r-bookdown
(package
(name "r-bookdown")
- (version "0.15")
+ (version "0.16")
(source (origin
(method url-fetch)
(uri (cran-uri "bookdown" version))
(sha256
(base32
- "0pgkabaqsckaz8z1nlza84jp172jyzv17kx5dily43jfx5psy2ap"))))
+ "1gwgvx1yg6q3wccnhidr3gshdvlgr42i4pvlg4h29kpsa7smjiv1"))))
(build-system r-build-system)
(propagated-inputs
`(("r-htmltools" ,r-htmltools)
(define-public r-covr
(package
(name "r-covr")
- (version "3.3.2")
+ (version "3.4.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "covr" version))
(sha256
- (base32 "160w0m2d06kdd8dar57lpph39rxx55xwncbpl3b21l7j9drh1s5f"))))
+ (base32 "0p44kr6yz5sqza5zvq6divqglzkpv0if9pjpjmzhmdaaddjrqzg5"))))
(properties `((upstream-name . "covr")))
(build-system r-build-system)
(propagated-inputs
(define-public r-rgdal
(package
(name "r-rgdal")
- (version "1.4-7")
+ (version "1.4-8")
(source
(origin
(method url-fetch)
(uri (cran-uri "rgdal" version))
(sha256
- (base32 "05rvqy8lr2c3phaylmc4g5761208b0xrmgwn9c4a60x7p251dzjs"))))
+ (base32 "1jd691amf3ghznq5im15gvhl6v6k25klpl75m4ngrqf9xlxaa3as"))))
(properties `((upstream-name . "rgdal")))
(build-system r-build-system)
(inputs
files and to efficiently import multiple tabular data files into one
data.table.")
(license license:gpl3)))
+
+(define-public r-quadprog
+ (package
+ (name "r-quadprog")
+ (version "1.5-8")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (cran-uri "quadprog" version))
+ (sha256
+ (base32 "1ka9g8zak8sg4y2xbz93dfrldznlk9qpd4pq9z21cdcdn3b8s4i2"))))
+ (build-system r-build-system)
+ (native-inputs
+ `(("gfortran" ,gfortran)))
+ (home-page "https://cran.r-project.org/web/packages/quadprog")
+ (synopsis "Functions to solve quadratic programming problems")
+ (description
+ "This package contains routines and documentation for solving quadratic
+programming problems.")
+ (license license:gpl3+)))
+
+(define-public r-desolve
+ (package
+ (name "r-desolve")
+ (version "1.25")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (cran-uri "deSolve" version))
+ (sha256
+ (base32 "0735y3p5glhqx69rzrc8qgmvs7p7w0p98qxmvylb6bgqp6kp0cbp"))))
+ (properties `((upstream-name . "deSolve")))
+ (build-system r-build-system)
+ (native-inputs
+ `(("gfortran" ,gfortran)))
+ (home-page "https://desolve.r-forge.r-project.org/")
+ (synopsis "Solvers for initial value problems of differential equations")
+ (description "This package provides functions that solve initial
+value problems of a system of first-order ordinary differential equations (ODE),
+of partial differential equations (PDE), of differential algebraic equations
+(DAE), and of delay differential equations. The functions provide an interface
+to the FORTRAN functions lsoda, lsodar, lsode, lsodes of the ODEPACK collection,
+to the FORTRAN functions dvode and daspk and a C-implementation of solvers of
+the Runge-Kutta family with fixed or variable time steps. The package contains
+routines designed for solving ODEs resulting from 1-D, 2-D and 3-D partial
+differential equations (PDE) that have been converted to ODEs by numerical
+differencing.")
+ (license license:gpl2+)))
+
+(define-public r-pracma
+ (package
+ (name "r-pracma")
+ (version "2.2.5")
+ (source (origin
+ (method url-fetch)
+ (uri (cran-uri "pracma" version))
+ (sha256
+ (base32 "0isd3s0i4mzmva8lkh0j76hwjy1w50q7d1n9lhxsnnkgalx3xs1g"))))
+ (build-system r-build-system)
+ (home-page "https://cran.r-project.org/web/packages/pracma/")
+ (synopsis "Practical numerical math functions")
+ (description "This package provides functions for numerical analysis and
+linear algebra, numerical optimization, differential equations, plus some
+special functions. It uses Matlab function names where appropriate to simplify
+porting.")
+ (license license:gpl3+)))
+
+(define-public r-subplex
+ (package
+ (name "r-subplex")
+ (version "1.5-4")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (cran-uri "subplex" version))
+ (sha256
+ (base32
+ "10cbgbx1bgsax5z7gz6716g360xpq4mvq19cf4qqrxv02mmwz57z"))))
+ (build-system r-build-system)
+ (native-inputs
+ `(("gfortran" ,gfortran)))
+ (home-page "https://cran.r-project.org/web/packages/subplex")
+ (synopsis "Unconstrained optimization using the subplex algorithm")
+ (description
+ "This package implements the Subplex optimization algorithm.
+It solves unconstrained optimization problems using a simplex method on
+subspaces. The method is well suited for optimizing objective functions that
+are noisy or are discontinuous at the solution.")
+ (license license:gpl3+)))
+
+(define-public r-txtplot
+ (package
+ (name "r-txtplot")
+ (version "1.0-3")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (cran-uri "txtplot" version))
+ (sha256
+ (base32
+ "1949ab1bzvysdb79g8x1gaknj0ih3d6g63pv9512h5m5l3a6c31h"))))
+ (build-system r-build-system)
+ (home-page "https://cran.r-project.org/web/packages/txtplot/")
+ (synopsis "Text-based plotting")
+ (description "This package provides functions to produce rudimentary ASCII
+graphics directly in the terminal window. This package provides a basic
+plotting function (and equivalents of curve, density, acf and barplot) as well
+as a boxplot function.")
+ (license license:lgpl3+)))