diff options
Diffstat (limited to 'gnu/packages/cran.scm')
| -rw-r--r-- | gnu/packages/cran.scm | 383 |
1 files changed, 291 insertions, 92 deletions
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 4bc94b990d..592200bb13 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -1,7 +1,8 @@ ;;; GNU Guix --- Functional package management for GNU ;;; 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> @@ -13,6 +14,7 @@ ;;; 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> @@ -60,7 +62,6 @@ #: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) @@ -95,6 +96,56 @@ the system clipboards.") (license license:gpl3))) +(define-public r-scales + (package + (name "r-scales") + (version "1.1.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "scales" version)) + (sha256 + (base32 "00rdbfj5mwc3kr8pskidn3n2zkp4ms6cx36xazz54pxw3pysdr0y")))) + (build-system r-build-system) + (propagated-inputs + `(("r-farver" ,r-farver) + ("r-labeling" ,r-labeling) + ("r-lifecycle" ,r-lifecycle) + ("r-munsell" ,r-munsell) + ("r-rcolorbrewer" ,r-rcolorbrewer) + ("r-r6" ,r-r6) + ("r-viridislite" ,r-viridislite))) + (home-page "https://github.com/hadley/scales") + (synopsis "Scale functions for visualization") + (description + "This package provides graphical scales that map data to aesthetics, and +provides methods for automatically determining breaks and labels for axes and +legends.") + (license license:expat))) + +(define-public r-pheatmap + (package + (name "r-pheatmap") + (version "1.0.12") + (source + (origin + (method url-fetch) + (uri (cran-uri "pheatmap" version)) + (sha256 + (base32 + "1hdh74az3vyzz6dqa311rhxdm74n46lyr03p862kn80p0kp9d7ap")))) + (build-system r-build-system) + (propagated-inputs + `(("r-gtable" ,r-gtable) + ("r-rcolorbrewer" ,r-rcolorbrewer) + ("r-scales" ,r-scales))) + (home-page "https://cran.r-project.org/web/packages/pheatmap") + (synopsis "Pretty heatmaps") + (description + "This package provides an implementation of heatmaps that offers more +control over dimensions and appearance.") + (license license:gpl2+))) + (define-public r-ellipsis (package (name "r-ellipsis") @@ -243,14 +294,14 @@ data types as well.") (define-public r-tidyverse (package (name "r-tidyverse") - (version "1.2.1") + (version "1.3.0") (source (origin (method url-fetch) (uri (cran-uri "tidyverse" version)) (sha256 (base32 - "0yy3fkjksgcn6wkbgsb0pbnmsyqs4m01mziqafhig578nixs4rxd")))) + "02gyys08qv2v4cl2d66gml4d31ipxay0iyfwwksvxyclx60wp2kd")))) (build-system r-build-system) (propagated-inputs `(("r-broom" ,r-broom) @@ -267,6 +318,7 @@ data types as well.") ("r-lubridate" ,r-lubridate) ("r-magrittr" ,r-magrittr) ("r-modelr" ,r-modelr) + ("r-pillar" ,r-pillar) ("r-purrr" ,r-purrr) ("r-readr" ,r-readr) ("r-readxl" ,r-readxl) @@ -314,14 +366,13 @@ scraping tasks, inspired by libraries like @code{BeautifulSoup}.") (define-public r-selectr (package (name "r-selectr") - (version "0.4-1") + (version "0.4-2") (source (origin (method url-fetch) (uri (cran-uri "selectr" version)) (sha256 - (base32 - "1jp27rxks4w29l47k42869hp8hnkzq2rnvsqbr44wd19fqb2zm4b")))) + (base32 "09y1n3iy297g49xlpl7xrjpwgnm57pskx5991lyfcpizbz8ax22m")))) (build-system r-build-system) (propagated-inputs `(("r-stringr" ,r-stringr) @@ -601,13 +652,13 @@ LaTeX.") (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 @@ -906,14 +957,13 @@ application framework for R, making it easy to create attractive dashboards.") (define-public r-shinyfiles (package (name "r-shinyfiles") - (version "0.7.3") + (version "0.7.5") (source (origin (method url-fetch) (uri (cran-uri "shinyFiles" version)) (sha256 - (base32 - "01as3l9ffj5dwac0vviais2x5l3027zxlj67kcvkdwxaj5hql33i")))) + (base32 "1143m941hma9hc77c3xcw26c0ygfhn9ii2sbp9wrydxv4gc7mr8a")))) (properties `((upstream-name . "shinyFiles"))) (build-system r-build-system) (propagated-inputs @@ -1254,6 +1304,26 @@ applications. That is, compute distances and related measures for angular (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") @@ -1813,14 +1883,14 @@ rows, dropping names) to see if the modified versions are identical.") (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) @@ -2175,14 +2245,14 @@ SpatialVx.") (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 @@ -2339,14 +2409,14 @@ transportation problems.") (define-public r-limsolve (package (name "r-limsolve") - (version "1.5.5.3") + (version "1.5.6") (source (origin (method url-fetch) (uri (cran-uri "limSolve" version)) (sha256 (base32 - "1ll6ir42h3g2fzf0wqai213bm82gpwjj2hfma2np3mz024sc09rg")))) + "1829rd2cnd8qj80z9a7sgc7gx4sf3kvl5g6d2a0lqqw30f9sjzmr")))) (properties `((upstream-name . "limSolve"))) (build-system r-build-system) (propagated-inputs @@ -2584,14 +2654,14 @@ regression using Kernel Ridge Regression.") (define-public r-prodlim (package (name "r-prodlim") - (version "2019.10.13") + (version "2019.11.13") (source (origin (method url-fetch) (uri (cran-uri "prodlim" version)) (sha256 (base32 - "0rsyfpz667y5cijmq33l318mrdw8r340khp72gcg8n490b1g0176")))) + "03wvh3kirp1prac5nky6a5whs97rvaf4hc27x0fnh51sa17r42b8")))) (build-system r-build-system) (propagated-inputs `(("r-kernsmooth" ,r-kernsmooth) @@ -2688,7 +2758,8 @@ dimensioned arrays.") (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))) @@ -3395,14 +3466,14 @@ structure.") (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) @@ -3585,14 +3656,14 @@ normalizations, minimum variance matching, and so on.") (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))) @@ -3826,14 +3897,14 @@ of merit, ordering functions, and enhanced versions of @code{pairs} and (define-public r-webshot (package (name "r-webshot") - (version "0.5.1") + (version "0.5.2") (source (origin (method url-fetch) (uri (cran-uri "webshot" version)) (sha256 (base32 - "08sb1xi376pfy1vwilk2d68zljsg9yiv04n2dkqz383gdhh0sxdr")))) + "0gq4h8cw51z95yvsnf38kj5l58wgljkm0dalmi8mn1sp06bxr0zi")))) (build-system r-build-system) (propagated-inputs `(("r-callr" ,r-callr) @@ -4078,14 +4149,14 @@ published results; and a routine for graphical display.") (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) @@ -4842,14 +4913,13 @@ the application.") (define-public r-algdesign (package (name "r-algdesign") - (version "1.1-7.3") + (version "1.2.0") (source (origin (method url-fetch) (uri (cran-uri "AlgDesign" version)) (sha256 - (base32 - "0bl7mx4dnmkgs2x1fj7cqnrp7jx18mqwxyga0rzlniq12h8mc3fz")))) + (base32 "0ammlg148gk0p24fh700116nd66636np0jb1wwh0axq5jphwk1pz")))) (properties `((upstream-name . "AlgDesign"))) (build-system r-build-system) (home-page "https://github.com/jvbraun/AlgDesign") @@ -5326,14 +5396,14 @@ simple method for converting between file types.") (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) @@ -5762,14 +5832,14 @@ clustering.") (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 @@ -5777,6 +5847,8 @@ clustering.") ("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) @@ -6052,14 +6124,14 @@ to help insert or delete content at a specific location in the document.") (define-public r-abn (package (name "r-abn") - (version "2.1") + (version "2.2") (source (origin (method url-fetch) (uri (cran-uri "abn" version)) (sha256 (base32 - "08jlvb6i5f7ry2dwm0jgrnn2w95vr0l67dpx13n9878lz9ld131b")))) + "19w6bdjyp4zwqs6p0flry4qxqynf9rh8ykdrfrp61wrdf7kysw0d")))) (build-system r-build-system) (inputs `(("gsl" ,gsl))) @@ -6203,14 +6275,14 @@ other add-on packages.") (define-public r-insight (package (name "r-insight") - (version "0.6.0") + (version "0.7.1") (source (origin (method url-fetch) (uri (cran-uri "insight" version)) (sha256 (base32 - "1izqh4j0gzyk25cga67gs0i6rl0j471h5y2c3y1maz79r32fs7fd")))) + "0scjmr8qvwaswb9wfq2lxp1v5fl72way8cid9agrf0z1agp0adad")))) (build-system r-build-system) (home-page "https://easystats.github.io/insight/") (synopsis "Easy access to model information for various model objects") @@ -6368,14 +6440,14 @@ documents.") (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") @@ -8017,14 +8089,14 @@ Hothorn, Westfall, 2010, CRC Press).") (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) @@ -8113,14 +8185,14 @@ correlation, censored, ordered and multivariate problems.") (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) @@ -8175,14 +8247,13 @@ detection, parallelism through BLAS and parallel user templates.") (define-public r-sjstats (package (name "r-sjstats") - (version "0.17.6") + (version "0.17.7") (source (origin (method url-fetch) (uri (cran-uri "sjstats" version)) (sha256 - (base32 - "11z1wfi0d74d1rld0320l3vmv6rl41wa0v9bjc44rk06yc90wld2")))) + (base32 "029rl05p88bp01favz300m980r1khcx2a2kn88yqbnbgkjjgqqc6")))) (build-system r-build-system) (propagated-inputs `(("r-bayestestr" ,r-bayestestr) @@ -8332,22 +8403,47 @@ are also supported. The two main functions are @code{ggpredict()} and results using @code{ggplot2}.") (license license:gpl3))) +(define-public r-effectsize + (package + (name "r-effectsize") + (version "0.0.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "effectsize" version)) + (sha256 + (base32 + "07vgmxdl75798hgdh90zysafjh97rmmj2wjjyr6xff4fbhi8rlkb")))) + (properties `((upstream-name . "effectsize"))) + (build-system r-build-system) + (propagated-inputs + `(("r-bayestestr" ,r-bayestestr) + ("r-insight" ,r-insight) + ("r-parameters" ,r-parameters))) + (home-page "https://github.com/easystats/effectsize") + (synopsis "Indices of effect size and standardized parameters") + (description + "This package provides utilities to work with indices of effect size and +standardized parameters for a wide variety of models, allowing computation and +conversion of indices such as Cohen's d, r, odds, etc.") + (license license:gpl3))) + (define-public r-sjplot (package (name "r-sjplot") - (version "2.7.2") + (version "2.8.1") (source (origin (method url-fetch) (uri (cran-uri "sjPlot" version)) (sha256 - (base32 "1kx1qqgp4fhwwwpqn9mv8m1pnpjxfs7ww36ns7j1ja4a7ydwn2hp")))) + (base32 "0rmfc2pq80w0kxh6icljhqm31q580s0czvllsfxk6crmpyfgxkp7")))) (properties `((upstream-name . "sjPlot"))) (build-system r-build-system) (propagated-inputs `(("r-bayestestr" ,r-bayestestr) - ("r-broom" ,r-broom) ("r-dplyr" ,r-dplyr) + ("r-effectsize" ,r-effectsize) ("r-forcats" ,r-forcats) ("r-ggeffects" ,r-ggeffects) ("r-ggplot2" ,r-ggplot2) @@ -8359,7 +8455,7 @@ results using @code{ggplot2}.") ("r-magrittr" ,r-magrittr) ("r-mass" ,r-mass) ("r-modelr" ,r-modelr) - ("r-nlme" ,r-nlme) + ("r-parameters" ,r-parameters) ("r-performance" ,r-performance) ("r-psych" ,r-psych) ("r-purrr" ,r-purrr) @@ -9047,14 +9143,13 @@ netCDF files.") (define-public r-biocmanager (package (name "r-biocmanager") - (version "1.30.9") + (version "1.30.10") (source (origin (method url-fetch) (uri (cran-uri "BiocManager" version)) (sha256 - (base32 - "1l9b2mr99nhpvk1wkd93397i0d6z4vvbq3zm8dk86gb1pfci26sx")))) + (base32 "03n9s2vf7vgpgb5alpxwamf9xfkn32cbzngwyn6spq1bnh9a9dzk")))) (properties `((upstream-name . "BiocManager"))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/BiocManager/") @@ -9581,13 +9676,13 @@ maps.") (define-public r-tidytree (package (name "r-tidytree") - (version "0.2.9") + (version "0.3.0") (source (origin (method url-fetch) (uri (cran-uri "tidytree" version)) (sha256 - (base32 "1l9rk71dzlwg8736l0g4rdlq3pghxkfzmlxyln8y4bxx7ym51i6g")))) + (base32 "1sbfwcxf9v1lhpa0392b49b6qfjrq7nlqz2djqzk5aknj9j64zvy")))) (build-system r-build-system) (propagated-inputs `(("r-ape" ,r-ape) @@ -9608,13 +9703,13 @@ manipulate tree data.") (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) @@ -9821,14 +9916,14 @@ definiteness of a matrix.") (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 @@ -9970,14 +10065,14 @@ Touzet and Varre (2007).") (define-public r-rnifti (package (name "r-rnifti") - (version "0.11.1") + (version "1.0.1") (source (origin (method url-fetch) (uri (cran-uri "RNifti" version)) (sha256 (base32 - "0jcgdg5k2swmi57aqj347kfi1fc4nvag7pxdfz61kc0vqqamm0wg")))) + "0hfid40pgfi1ykqka8y3v0m7h0iyd6fbvycvqlad3ibmbg621f0w")))) (properties `((upstream-name . "RNifti"))) (build-system r-build-system) (propagated-inputs `(("r-rcpp" ,r-rcpp))) @@ -10083,14 +10178,14 @@ handling.") (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 @@ -10107,14 +10202,14 @@ PostScript pictures in R plots.") (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 @@ -10138,18 +10233,17 @@ be imported and then exported via the @code{gridSVG} package.") (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 @@ -11146,19 +11240,16 @@ library.") (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") @@ -11225,14 +11316,14 @@ model with finite state space using the Aalen-Johansen estimator.") (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 @@ -11407,14 +11498,14 @@ them in distributed compute environments.") (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) @@ -13124,14 +13215,13 @@ lspec, polyclass, and polymars.") (define-public r-rms (package (name "r-rms") - (version "5.1-3.1") + (version "5.1-4") (source (origin (method url-fetch) (uri (cran-uri "rms" version)) (sha256 - (base32 - "0drbr3g0x5pbxyzy50wnf92rbal8izizrcqslqhg0gsfg9adjih9")))) + (base32 "19knh1sw0icw6jh9wfb2hq5jf49i2qfvp9myvqm5paa495689x9q")))) (build-system r-build-system) (propagated-inputs `(("r-ggplot2" ,r-ggplot2) @@ -13360,13 +13450,13 @@ SELECT or UPDATE queries to an end-point.") (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) @@ -15362,13 +15452,13 @@ function and interfaces to external frameworks.") (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 @@ -15539,14 +15629,14 @@ in pipelines.") (define-public r-parameters (package (name "r-parameters") - (version "0.2.0") + (version "0.3.0") (source (origin (method url-fetch) (uri (cran-uri "parameters" version)) (sha256 (base32 - "1mgggb3l67wgjiccq4y84wbs2dw9qk01akd553yiwbwky9rpawgh")))) + "0ifb9g1h8sn661q7jf9d8glk58gxdcym5ywbmx7phwn0y3is5wdv")))) (properties `((upstream-name . "parameters"))) (build-system r-build-system) (propagated-inputs @@ -15566,13 +15656,13 @@ effect size.") (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 @@ -15673,3 +15763,112 @@ unique identifiers, and whether it is a certain length. In addition, 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+))) |