diff options
Diffstat (limited to 'gnu/packages/cran.scm')
| -rw-r--r-- | gnu/packages/cran.scm | 1543 |
1 files changed, 1218 insertions, 325 deletions
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 80e2ca9021..23645faa8a 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -11,7 +11,7 @@ ;;; Copyright © 2018 Sandeep Subramanian <sandeepsubramanian94@gmail.com> ;;; Copyright © 2018 Charlie Ritter <chewzeirta@posteo.net> ;;; Copyright © 2018 Konrad Hinsen <konrad.hinsen@fastmail.net> -;;; Copyright © 2018, 2020, 2021 Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de> +;;; Copyright © 2018, 2020, 2021, 2022 Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de> ;;; Copyright © 2018 Laura Lazzati <laura.lazzati.15@gmail.com> ;;; Copyright © 2018 Leo Famulari <leo@famulari.name> ;;; Copyright © 2018 Marius Bakke <mbakke@fastmail.com> @@ -55,6 +55,7 @@ #:use-module ((guix licenses) #:prefix license:) #:use-module (guix packages) #:use-module (guix download) + #:use-module (guix gexp) #:use-module (guix git-download) #:use-module (guix utils) #:use-module (guix build-system gnu) @@ -155,6 +156,25 @@ can limit either their total size or the age of the oldest object (or both), automatically pruning objects to maintain the constraints.") (license license:expat))) +(define-public r-collections + (package + (name "r-collections") + (version "0.3.5") + (source + (origin + (method url-fetch) + (uri (cran-uri "collections" version)) + (sha256 + (base32 "053ig88pva78wxxwya3v7cz853k563dkpgxrf2xvd0l0d9fanxmz")))) + (properties `((upstream-name . "collections"))) + (build-system r-build-system) + (home-page "https://github.com/randy3k/collections") + (synopsis "High performance container data types") + (description + "This package provides high performance container data types such as +queues, stacks, deques, dicts and ordered dicts.") + (license license:expat))) + (define-public r-curry (package (name "r-curry") @@ -187,14 +207,14 @@ etc.") (define-public r-datawizard (package (name "r-datawizard") - (version "0.2.2") + (version "0.3.0") (source (origin (method url-fetch) (uri (cran-uri "datawizard" version)) (sha256 (base32 - "0sd0blrczf9qz5kd0jg112fag2w401kkbw1gp9wi5pgffgwp6va3")))) + "1jmrkfymh66d0n4256hamvrbqipfl3bl05q618z4flmq2byifibs")))) (properties `((upstream-name . "datawizard"))) (build-system r-build-system) (propagated-inputs @@ -231,17 +251,36 @@ wrangling backend for the packages in the @code{easystats} ecosystem.") visualization of their differences.") (license license:gpl2+))) +(define-public r-dirichletreg + (package + (name "r-dirichletreg") + (version "0.7-1") + (source + (origin + (method url-fetch) + (uri (cran-uri "DirichletReg" version)) + (sha256 + (base32 "1ql5mwb7zb06y9j6inrlngq7c15as4j17wd8kc71fxs0a2jdj7xi")))) + (properties `((upstream-name . "DirichletReg"))) + (build-system r-build-system) + (propagated-inputs (list r-formula r-maxlik)) + (native-inputs (list r-knitr)) + (home-page "https://cran.r-project.org/package=DirichletReg") + (synopsis "Dirichlet regression") + (description "This package implements Dirichlet regression models.") + (license license:gpl2+))) + (define-public r-emdist (package (name "r-emdist") - (version "0.3-1") + (version "0.3-2") (source (origin (method url-fetch) (uri (cran-uri "emdist" version)) (sha256 (base32 - "1z14pb9z9nkd0f2c8pln4hzkfqa9dk9n3vg8czc8jiv0ndnqi7rq")))) + "05mv6xhm15b0mq9kzyiblkb14bdqmjrwl64ghdk66il0w8i7p6nh")))) (properties `((upstream-name . "emdist"))) (build-system r-build-system) (home-page "http://www.rforge.net/emd") @@ -378,14 +417,14 @@ easier.") (define-public r-rticles (package (name "r-rticles") - (version "0.22") + (version "0.23") (source (origin (method url-fetch) (uri (cran-uri "rticles" version)) (sha256 (base32 - "0jgsmqwwqzvsxcbsm9fx0rp724mn3ipi70883bhvm7n9i8mq877m")))) + "1ipblw3rmkma22jl2hf1pyfm6l8k31zcmm3swmwii6k0x7khiav1")))) (properties `((upstream-name . "rticles"))) (build-system r-build-system) (propagated-inputs @@ -397,6 +436,28 @@ easier.") for authoring journal articles and conference submissions.") (license license:gpl3))) +(define-public r-babelwhale + (package + (name "r-babelwhale") + (version "1.0.3") + (source + (origin + (method url-fetch) + (uri (cran-uri "babelwhale" version)) + (sha256 + (base32 "0ph825dwvr48fhamy1l5564linz7cj7b9sj511as77f1yqycv4a2")))) + (properties `((upstream-name . "babelwhale"))) + (build-system r-build-system) + (propagated-inputs + (list r-crayon r-dplyr r-dynutils r-processx r-purrr)) + (home-page "https://github.com/dynverse/babelwhale") + (synopsis "Talking to Docker and Singularity containers") + (description + "This package provides a unified interface to interact with Docker and +Singularity containers. You can execute a command inside a container, mount a +volume or copy a file.") + (license license:expat))) + (define-public r-benchmarkmedata (package (name "r-benchmarkmedata") @@ -489,14 +550,14 @@ similar rank-based tests for equal probability distributions due to Neuhauser (define-public r-v8 (package (name "r-v8") - (version "4.0.0") + (version "4.1.0") (source (origin (method url-fetch) (uri (cran-uri "V8" version)) (sha256 (base32 - "1j5vknhq12kfzda46y7nwiqdzqipzgympqzjq9d8ckr6f6v4qshl")))) + "15ylzcxlhkba99cccw5rvhwhg9i4zcax2fhmr03w8g4fdhbd3n89")))) (properties `((upstream-name . "V8"))) (build-system r-build-system) (arguments @@ -553,17 +614,41 @@ SVG (Scalable Vector Graphics) formats. In addition, it supports literate programming packages such as @code{knitr} and @code{rmarkdown}.") (license license:expat))) +(define-public r-carrier + (package + (name "r-carrier") + (version "0.1.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "carrier" version)) + (sha256 + (base32 "0bqnwnnjqjk9q0lxq6kkz9s75ss10lfyyywyyi24m8wppxpw1vqc")))) + (properties `((upstream-name . "carrier"))) + (build-system r-build-system) + (propagated-inputs + (list r-pryr r-rlang)) + (home-page "https://github.com/r-lib/carrier") + (synopsis "Isolate functions for remote execution") + (description + "Sending functions to remote processes can be wasteful of resources +because they carry their environments with them. With this package, it is +easy to create functions that are isolated from their environment. These +isolated functions, also called crates, print to the console with their total +size and can be easily tested locally before being sent to a remote.") + (license license:gpl3))) + (define-public r-clipr (package (name "r-clipr") - (version "0.7.1") + (version "0.8.0") (source (origin (method url-fetch) (uri (cran-uri "clipr" version)) (sha256 (base32 - "1ywa4kipwc2d7na6iiz3wzdah99h6aynnh74yxl3nzl40xxlgbgz")))) + "1s9vvv3cxnz8w11gsi8z9ddv9jzib5qf5qqxnwqrrv7vj8cr7hij")))) (build-system r-build-system) (native-inputs (list r-knitr)) @@ -742,6 +827,30 @@ variables.") ") (license license:gpl2+))) +(define-public r-lmds + (package + (name "r-lmds") + (version "0.1.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "lmds" version)) + (sha256 + (base32 "130azb0nc2wwxv0qi8v5s4rd02p9lc92zwn634pv7b8awbw81i65")))) + (properties `((upstream-name . "lmds"))) + (build-system r-build-system) + (propagated-inputs + (list r-assertthat r-dynutils r-irlba r-matrix)) + (home-page "https://github.com/dynverse/lmds") + (synopsis "Landmark multi-dimensional scaling") + (description + "This package provides a fast dimensionality reduction method scaleable +to large numbers of samples. @dfn{Landmark Multi-Dimensional Scaling} (LMDS) +is an extension of classical Torgerson MDS, but rather than calculating a +complete distance matrix between all pairs of samples, only the distances +between a set of landmarks and the samples are calculated.") + (license license:gpl3))) + (define-public r-lmodel2 (package (name "r-lmodel2") @@ -796,6 +905,32 @@ axis} (SMA), and @dfn{ranged major axis} (RMA).") respecting the grammar of its graphics paradigm.") (license license:gpl2+))) +(define-public r-ggside + (package + (name "r-ggside") + (version "0.2.0") + (source (origin + (method url-fetch) + (uri (cran-uri "ggside" version)) + (sha256 + (base32 + "1x505zizv7hf65pxp9j5v92c3bchhxh9dsrkk1m55kwqqnsl5nza")))) + (properties `((upstream-name . "ggside"))) + (build-system r-build-system) + (propagated-inputs (list r-ggplot2 r-glue r-gtable r-rlang r-scales)) + (native-inputs (list r-knitr)) + (home-page "https://cran.r-project.org/package=ggside") + (synopsis "Side grammar graphics that extends @code{ggplot2}") + (description + "The grammar of graphics as shown in @code{ggplot2} has provided an +expressive API for users to build plots. This package @{ggside} extends +@code{ggplot2} by allowing users to add graphical information about one of the +main panel's axis using a familiar @code{ggplot2} style API with tidy data. +This package is particularly useful for visualizing metadata on a discrete +axis, or summary graphics on a continuous axis such as a boxplot or a density +distribution.") + (license license:expat))) + (define-public r-gprofiler (package (name "r-gprofiler") @@ -981,6 +1116,57 @@ accessibility from hue, saturation, and lightness value scaling using the Chroma.js Color Palette Helper. See @url{https://gka.github.io/palettes}.") (license license:cc0))) +(define-public r-plotfunctions + (package + (name "r-plotfunctions") + (version "1.4") + (source + (origin + (method url-fetch) + (uri (cran-uri "plotfunctions" version)) + (sha256 + (base32 "0asmxw8283fpvl83h478j5nyg59xqifqaa8f2f6l199gvvswhhg2")))) + (properties `((upstream-name . "plotfunctions"))) + (build-system r-build-system) + (native-inputs (list r-knitr)) + (home-page "https://jacolienvanrij.com/tutorials.html") + (synopsis "Various functions to facilitate visualization of data and analysis") + (description + "When analyzing data, plots are a helpful tool for visualizing data and +interpreting statistical models. This package provides a set of simple tools +for building plots incrementally, starting with an empty plot region, and +adding bars, data points, regression lines, error bars, gradient legends, +density distributions in the margins, and even pictures. The package builds +further on R graphics by simply combining functions and settings in order to +reduce the amount of code to produce for the user. As a result, the package +does not use formula input or special syntax, but can be used in combination +with default R plot functions.") + (license license:gpl2+))) + +(define-public r-polychrome + (package + (name "r-polychrome") + (version "1.3.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "Polychrome" version)) + (sha256 + (base32 "044vbylgbqf0ccv4r15nmbw1vz0j95g67i6blw73hvbvbm6w5x4d")))) + (properties `((upstream-name . "Polychrome"))) + (build-system r-build-system) + (propagated-inputs + (list r-colorspace r-scatterplot3d)) + (native-inputs + (list r-knitr)) + (home-page "http://oompa.r-forge.r-project.org/") + (synopsis "Qualitative palettes with many colors") + (description + "This package provides tools for creating, viewing, and assessing +qualitative palettes with many (20-30 or more) colors. See Coombes and +colleagues (2019) @url{https://doi:10.18637/jss.v090.c01}.") + (license license:asl2.0))) + (define-public r-ecp (package (name "r-ecp") @@ -1029,6 +1215,42 @@ experiment that allows a generic to warn if any arguments passed in @code{...} are not used.") (license license:gpl3))) +(define-public r-ga + (package + (name "r-ga") + (version "3.2.2") + (source + (origin + (method url-fetch) + (uri (cran-uri "GA" version)) + (sha256 + (base32 "135z03lnbj44jihnk6dii5a684jmc666ncpdwyyi910vl4sccib2")))) + (properties `((upstream-name . "GA"))) + (build-system r-build-system) + (propagated-inputs + (list r-cli + r-crayon + r-foreach + r-iterators + r-rcpp + r-rcpparmadillo)) + (native-inputs + (list r-knitr)) + (home-page "https://luca-scr.github.io/GA/") + (synopsis "Genetic algorithms for stochastic optimisation") + (description + "Flexible general-purpose toolbox implementing genetic algorithms (GAs) +for stochastic optimisation. Binary, real-valued, and permutation +representations are available to optimize a fitness function, i.e., a function +provided by users depending on their objective function. Several genetic +operators are available and can be combined to explore the best settings for +the current task. Furthermore, users can define new genetic operators and +easily evaluate their performances. Local search using general-purpose +optimisation algorithms can be applied stochastically to exploit interesting +regions. GAs can be run sequentially or in parallel, using an explicit +master-slave parallelisation or a coarse-grain islands approach.") + (license license:gpl2+))) + (define-public r-grr (package (name "r-grr") @@ -1153,13 +1375,13 @@ mechanism.") (define-public r-ashr (package (name "r-ashr") - (version "2.2-47") + (version "2.2-54") (source (origin (method url-fetch) (uri (cran-uri "ashr" version)) (sha256 (base32 - "1rqb5j30ylaf1h4l66x4jxyn5inrvhc42d90qd5mgkxsq0ghdlr4")))) + "177xs3apnc6yy6737qqv4z8snf0hkpbghab63hrplbyb9wfssfga")))) (properties `((upstream-name . "ashr"))) (build-system r-build-system) (propagated-inputs @@ -1624,13 +1846,13 @@ particularly easy to create complete web applications using httpuv alone.") (define-public r-jsonlite (package (name "r-jsonlite") - (version "1.7.3") + (version "1.8.0") (source (origin (method url-fetch) (uri (cran-uri "jsonlite" version)) (sha256 (base32 - "0n65x9ifxjssb000g7psgh9pgl374ax2ni1if9kp3sx56rg0n2kj")))) + "0k6dal7gmm19jl5sjsry5gwbnhsbrnn00q3iixig8k6bxgpr463v")))) (build-system r-build-system) (native-inputs (list r-knitr)) @@ -2568,6 +2790,70 @@ from Wes Anderson movies.") in a ggplot2 plot.") (license license:gpl3))) +(define-public r-mbess + (package + (name "r-mbess") + (version "4.9.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "MBESS" version)) + (sha256 + (base32 "0qmyvjx2zn5hlzdbz8c94g8l4707swhn7sq9mxkdqiydmflzv0b5")))) + (properties `((upstream-name . "MBESS"))) + (build-system r-build-system) + (propagated-inputs + (list r-boot r-lavaan r-mass r-mnormt r-nlme r-openmx r-sem r-semtools)) + (home-page "https://www3.nd.edu/~kkelley/site/MBESS.html") + (synopsis "Methods for designing research studies") + (description + "This package implements methods that are useful in designing research +studies and analyzing data, with particular emphasis on methods that are +developed for or used within the behavioral, educational, and social +sciences (broadly defined). That being said, many of the methods implemented +within MBESS are applicable to a wide variety of disciplines. MBESS has a +suite of functions for a variety of related topics, such as effect sizes, +confidence intervals for effect sizes (including standardized effect sizes and +noncentral effect sizes), sample size planning (from the @dfn{accuracy in +parameter estimation} (AIPE), power analytic, equivalence, and minimum-risk +point estimation perspectives), mediation analysis, various properties of +distributions, and a variety of utility functions.") + ;; Either version of the GPL. + (license (list license:gpl2 license:gpl3)))) + +(define-public r-ggtern + (package + (name "r-ggtern") + (version "3.3.5") + (source + (origin + (method url-fetch) + (uri (cran-uri "ggtern" version)) + (sha256 + (base32 "15hhn8msy0l8zbq8ms0zvg1iajn1c28gd77v3hp6dvwwsla8zzbd")))) + (properties `((upstream-name . "ggtern"))) + (build-system r-build-system) + (propagated-inputs + (list r-compositions + r-ggplot2 + r-gridextra + r-gtable + r-hexbin + r-latex2exp + r-lattice + r-mass + r-plyr + r-proto + r-scales)) + (home-page "http://www.ggtern.com") + (synopsis "Extension to ggplot2 for ternary diagrams") + (description + "This package extends the functionality of ggplot2, providing the +capability to plot ternary diagrams for (a subset of) the ggplot2 geometries. +Additionally, ggtern has implemented several new geometries which are +unavailable to the standard ggplot2 release.") + (license license:gpl2))) + (define-public r-tablerdash (package (name "r-tablerdash") @@ -2967,14 +3253,14 @@ component analysis (with robust methods, and parallelized functions).") (define-public r-ape (package (name "r-ape") - (version "5.6-1") + (version "5.6-2") (source (origin (method url-fetch) (uri (cran-uri "ape" version)) (sha256 (base32 - "1xzpq3a4q5hmksc8nl530c9n31fdkj3nigqm1qhd3vkncl1iwh15")))) + "0mqjsh7maczd02iwa4fb896q3kgd9jnlilq7y1yz18ch0c54aqlv")))) (build-system r-build-system) (propagated-inputs (list r-lattice r-nlme r-rcpp)) @@ -3021,13 +3307,13 @@ XML. To learn more about the Abbyy OCR API, see @url{http://ocrsdk.com/}.") (define-public r-colorspace (package (name "r-colorspace") - (version "2.0-2") + (version "2.0-3") (source (origin (method url-fetch) (uri (cran-uri "colorspace" version)) (sha256 - (base32 "0fhq2aykdkxh3r90i8aqjyb37p5api3mjd19ch8mzv99q4pcv4dq")))) + (base32 "0zw52s8g2gxp8i1ax96azxmxqrbhb7aad5px0c1vgr6n9p682mp7")))) (build-system r-build-system) (native-inputs (list r-knitr)) @@ -3043,14 +3329,14 @@ colors are provided.") (define-public r-glue (package (name "r-glue") - (version "1.6.0") + (version "1.6.2") (source (origin (method url-fetch) (uri (cran-uri "glue" version)) (sha256 (base32 - "0f23dgnc7rv81vhmdhmiwk666mqwb602hxzai1hssyn4y9zg7gkp")))) + "1gzxk5jgdh2xq9r7z09xs306ygzf27vhg3pyfl7ck1755gqii9cx")))) (build-system r-build-system) ;; knitr depends on glue, so we can't add knitr here to build the ;; vignettes. @@ -3287,13 +3573,13 @@ value for each cluster in a dendrogram.") (define-public r-rcpp (package (name "r-rcpp") - (version "1.0.8") + (version "1.0.8.2") (source (origin (method url-fetch) (uri (cran-uri "Rcpp" version)) (sha256 - (base32 "1vkqyqly6lzr1h3szaihmayvpjkzscxp4y258vnw8nh4pjb957w7")))) + (base32 "01bvqlbg8qkc9z3gasz1ga5dwlpilknb05ikj79a055718djxgif")))) (build-system r-build-system) (home-page "http://www.rcpp.org") (synopsis "Seamless R and C++ integration") @@ -3311,14 +3597,14 @@ and Francois (2011, JSS), and the book by Eddelbuettel (2013, Springer); see (define-public r-rcppthread (package (name "r-rcppthread") - (version "1.0.0") + (version "2.1.2") (source (origin (method url-fetch) (uri (cran-uri "RcppThread" version)) (sha256 (base32 - "1xfcxrny779kgknlvnc4j02ifprnakndnkhx8bhy50d39vp4hjjl")))) + "0a8767q4p76rfamss1w2vnx4h1229nmwymp1q63li2q5b87wipqp")))) (properties `((upstream-name . "RcppThread"))) (build-system r-build-system) (home-page @@ -3349,6 +3635,27 @@ computing (numerical integration, optimization, etc.) and their integration with @code{Rcpp}.") (license license:gpl2+))) +(define-public r-rcppxptrutils + (package + (name "r-rcppxptrutils") + (version "0.1.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "RcppXPtrUtils" version)) + (sha256 + (base32 "0jh64c46gp99d2nsih14vx34pamc8i7gkmiy2nj94rx3sxq62yh5")))) + (properties `((upstream-name . "RcppXPtrUtils"))) + (build-system r-build-system) + (propagated-inputs (list r-rcpp)) + (home-page "https://github.com/Enchufa2/RcppXPtrUtils") + (synopsis "XPtr add-ons for Rcpp") + (description + "This package provides the means to compile user-supplied C++ functions +with Rcpp and retrieve an @code{XPtr} that can be passed to other C++ +components.") + (license license:expat))) + (define-public r-bindr (package (name "r-bindr") @@ -3476,14 +3783,14 @@ validation and filtering on the values, making options invisible or private.") (define-public r-circlize (package (name "r-circlize") - (version "0.4.13") + (version "0.4.14") (source (origin (method url-fetch) (uri (cran-uri "circlize" version)) (sha256 (base32 - "16rnqlkgzhnm69y70k9fiz8vvwlm5dyng04hlxqvvaxix3wdpfkc")))) + "0b0yqjmbj1s1jg7y6cgyawadlfv0i6xrls8a4qy9qs7hz8zrpvb1")))) (build-system r-build-system) (propagated-inputs (list r-colorspace r-globaloptions r-shape)) @@ -3997,6 +4304,54 @@ T distribution. There is only one exported function, @code{e_trunct}, which should be seen for details.") (license license:expat))) +(define-public r-excelr + (package + (name "r-excelr") + (version "0.4.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "excelR" version)) + (sha256 + (base32 "1pb4sy54zjv5vrh7gjjv7qlpab74km6mfsmfyl0yhmr0jx01hrw0")) + (snippet + '(delete-file "inst/htmlwidgets/lib/jexcel/js/jexcel.min.js")))) + (properties `((upstream-name . "excelR"))) + (build-system r-build-system) + (arguments + `(#:phases + (modify-phases %standard-phases + (add-after 'unpack 'process-javascript + (lambda* (#:key inputs #:allow-other-keys) + (with-directory-excursion "inst/htmlwidgets/lib/jexcel/js/" + (let ((source (assoc-ref inputs "js-jexcel")) + (target "jexcel.min.js")) + (format #true "Processing ~a --> ~a~%" + source target) + (invoke "esbuild" source "--minify" + (string-append "--outfile=" target))))))))) + (native-inputs + `(("esbuild" ,esbuild) + ;; There is no tag for this particular commit, but comparison of the + ;; contents of the JavaScript files point to this commit as the most + ;; likely source. + ("js-jexcel" + ,(origin + (method url-fetch) + (uri (string-append "https://raw.githubusercontent.com/jspreadsheet/ce/" + "8af1960f76e6803bebc5750013d2ebe95354e88a/dist/jexcel.js")) + (sha256 + (base32 + "0y88hsr9d8cpnvdmbm17m328pc4kc5wbcv02kzmhm0bryzhviw7h")))))) + (propagated-inputs (list r-htmlwidgets r-jsonlite)) + (home-page "https://github.com/Swechhya/excelR") + (synopsis "Wrapper of the JavaScript library jExcel") + (description + "This package provides an R interface to the jExcel library to +create web-based interactive tables and spreadsheets compatible with +spreadsheet software.") + (license license:expat))) + (define-public r-extremes (package (name "r-extremes") @@ -4254,14 +4609,14 @@ functions from LINPACK.") (define-public r-fitdistrplus (package (name "r-fitdistrplus") - (version "1.1-6") + (version "1.1-8") (source (origin (method url-fetch) (uri (cran-uri "fitdistrplus" version)) (sha256 (base32 - "1glnbcm1gghzgvzpxcfsmn7dp2f9jqyx39n3ydwp9fx38409khhp")))) + "0nhgjvwya95v6b9khbsgp44lw10xg35w61lmka1v6wq7yh827izk")))) (build-system r-build-system) (propagated-inputs (list r-mass r-survival)) @@ -4283,14 +4638,14 @@ data). Weighted versions of MLE, MME and QME are available.") (define-public r-energy (package (name "r-energy") - (version "1.7-8") + (version "1.7-9") (source (origin (method url-fetch) (uri (cran-uri "energy" version)) (sha256 (base32 - "12a7gy681aq3l55iys044cs6sn1s2l5qihghpdl01cvv0ggfh26y")))) + "1ndssfi0hbnsm5jwrns7m63ppxm221hd6gk0b0wa1a7mk7ny1l38")))) (build-system r-build-system) (propagated-inputs (list r-boot r-gsl r-rcpp)) @@ -4363,14 +4718,14 @@ samples.") (define-public r-cvst (package (name "r-cvst") - (version "0.2-2") + (version "0.2-3") (source (origin (method url-fetch) (uri (cran-uri "CVST" version)) (sha256 (base32 - "05l3yzkfrbds09ah9cdwn2sn4ryhq78lz33ryzrgkv176jc8qjw5")))) + "0bgk0d6w3dyhb5s30idnp6jpb3m8wf3b79wqlg127wwm0cird8pg")))) (properties `((upstream-name . "CVST"))) (build-system r-build-system) (propagated-inputs @@ -4508,14 +4863,14 @@ the Kaplan-Meier and Aalen-Johansen methods.") (define-public r-dimred (package (name "r-dimred") - (version "0.2.4") + (version "0.2.5") (source (origin (method url-fetch) (uri (cran-uri "dimRed" version)) (sha256 (base32 - "1534axd5gcwma3nbglrn0l2an53n3yyya30fqkgb4d8l124ygb7j")))) + "1z8fqdc8mslvfix8ngxs1y2yrvlanp5581hwp2nzldj6mk5kn15b")))) (properties `((upstream-name . "dimRed"))) (build-system r-build-system) (propagated-inputs @@ -4554,14 +4909,14 @@ calendar objects.") (define-public r-magic (package (name "r-magic") - (version "1.5-9") + (version "1.6-0") (source (origin (method url-fetch) (uri (cran-uri "magic" version)) (sha256 (base32 - "0snmdh6vk0p6ar1swsihisinxrx7l8371dri5lk0z24ysgr5w7gs")))) + "1gybia2aq80ldk1d845y5srncfzbbmpqhgl7vfaz7qqqjs6d85j5")))) (build-system r-build-system) (propagated-inputs (list r-abind)) @@ -4629,14 +4984,14 @@ to access PostgreSQL database systems.") (define-public r-linprog (package (name "r-linprog") - (version "0.9-2") + (version "0.9-4") (source (origin (method url-fetch) (uri (cran-uri "linprog" version)) (sha256 (base32 - "1ki14an0pmhs2mnmfjjvdzd76pshiyvi659zf7hqvqwj0viv4dw9")))) + "1d34m2nyk7m6j2dci69bhy5mlw479xax1517j7f14pq7vhpsm9l1")))) (build-system r-build-system) (propagated-inputs (list r-lpsolve)) (home-page "http://linprog.r-forge.r-project.org/") @@ -4680,14 +5035,14 @@ Delaunay triangulation and convex hull computation.") (define-public r-ddalpha (package (name "r-ddalpha") - (version "1.3.11") + (version "1.3.12") (source (origin (method url-fetch) (uri (cran-uri "ddalpha" version)) (sha256 (base32 - "1sdnb47r534nh138zk3a6b2mgi74nvshc7p5m304vjs9jlx4l2y3")))) + "07q6yrs1cqplbwv4wyvq26w4aj04jyajk4qh7vixm6i515cipsil")))) (build-system r-build-system) (propagated-inputs (list r-bh @@ -4714,14 +5069,14 @@ multivariate and 5 functional classification problems are included.") (define-public r-gower (package (name "r-gower") - (version "0.2.2") + (version "1.0.0") (source (origin (method url-fetch) (uri (cran-uri "gower" version)) (sha256 (base32 - "0c9n921wn4hhlvjq96r4nkk96s5788376cbldr7y7bwz348200iz")))) + "0p9qx9aafkdm7wibfwk59jzw6vspsff6zwp84bc40lg0myxbf737")))) (build-system r-build-system) (home-page "https://github.com/markvanderloo/gower") (synopsis "Gower's distance") @@ -4818,14 +5173,14 @@ created using basic graphics.") (define-public r-generics (package (name "r-generics") - (version "0.1.1") + (version "0.1.2") (source (origin (method url-fetch) (uri (cran-uri "generics" version)) (sha256 (base32 - "04hrn6g5m5vi3znrcha3jw2q16lnmm3ygx2jl5aqiahg3azqwix2")))) + "162q9hdsnfcwjj255ahbi6v9vnyynvda7gb75p721y28j5xb7sk3")))) (build-system r-build-system) (home-page "https://github.com/r-lib/generics") (synopsis "Common S3 generics not provided by base R methods") @@ -4838,14 +5193,14 @@ by base R methods related to model fitting.") (define-public r-broom (package (name "r-broom") - (version "0.7.11") + (version "0.7.12") (source (origin (method url-fetch) (uri (cran-uri "broom" version)) (sha256 (base32 - "069fp8lscw59nmsm658w0164cpgfa36xx09s9j7jxisscg99jfcy")))) + "1nbv4a4s8548h2q226xmhyp42higayh95yvllh1rcs264lmw3yh4")))) (build-system r-build-system) (propagated-inputs (list r-backports @@ -4877,14 +5232,14 @@ provides a one-row summary of model-level statistics.") (define-public r-recipes (package (name "r-recipes") - (version "0.1.17") + (version "0.2.0") (source (origin (method url-fetch) (uri (cran-uri "recipes" version)) (sha256 (base32 - "0gbdc5kvbn14s5zrf4vrdjvkfajs00p7vvb433ii0lqnl07bl87d")))) + "1950rvva19ms6xy9d3jx94gzy589qprk115zjjd0ib4qxgip601x")))) (build-system r-build-system) (propagated-inputs (list r-dplyr @@ -4892,6 +5247,7 @@ provides a one-row summary of model-level statistics.") r-generics r-glue r-gower + r-hardhat r-ipred r-lifecycle r-lubridate @@ -4966,6 +5322,31 @@ avoid overlapping text labels. Labels repel away from each other and away from the data points.") (license license:gpl3))) +(define-public r-coro + (package + (name "r-coro") + (version "1.0.2") + (source + (origin + (method url-fetch) + (uri (cran-uri "coro" version)) + (sha256 + (base32 "14irld29dipgfd34y0k351daqg9vqpnpdx8m3pxmqr1aiyj5f5cv")))) + (properties `((upstream-name . "coro"))) + (build-system r-build-system) + (propagated-inputs (list r-rlang)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/r-lib/coro") + (synopsis "Coroutines for R") + (description + "This package provides coroutines for R, a family of functions that can +be suspended and resumed later on. This includes async functions (which +await) and generators (which yield). Async functions are based on the +concurrency framework of the @code{promises} package. Generators are based on +a dependency free iteration protocol defined in @code{coro} and are compatible +with iterators from the @code{reticulate} package.") + (license license:expat))) + (define-public r-corrplot (package (name "r-corrplot") @@ -5037,6 +5418,25 @@ algorithm. The interface of @code{ucminf} is designed for easy interchange with the package @code{optim}.") (license license:gpl2+))) +(define-public r-usedist + (package + (name "r-usedist") + (version "0.4.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "usedist" version)) + (sha256 + (base32 "0ddf1zcalbrn293qmr9kdzz3x16fzc4k1bwb1pjmwnspisqfi8kj")))) + (properties `((upstream-name . "usedist"))) + (build-system r-build-system) + (home-page "https://cran.r-project.org/package=usedist") + (synopsis "Distance matrix utilities") + (description + "This package provides functions to re-arrange, extract, and work with +distances.") + (license license:gpl3))) + (define-public r-useful (package (name "r-useful") @@ -5094,17 +5494,17 @@ Laplace approximation and adaptive Gauss-Hermite quadrature.") (define-public r-jomo (package (name "r-jomo") - (version "2.7-2") + (version "2.7-3") (source (origin (method url-fetch) (uri (cran-uri "jomo" version)) (sha256 (base32 - "1sbcpacxnxbzwa8rr9x2bq7hh0s3sw6yznr90dkp43n6xk5xaqir")))) + "0qq03zspmh8x2c8w882ynsw7wshr9b0fyrpwnqx5yc1xlzrqffcx")))) (build-system r-build-system) (propagated-inputs - (list r-lme4 r-mass r-ordinal r-survival)) + (list r-lme4 r-mass r-ordinal r-survival r-tibble)) (home-page "https://cran.r-project.org/web/packages/jomo/") (synopsis "Multilevel Joint Modelling Multiple Imputation") (description @@ -5632,14 +6032,14 @@ plots in @code{ggplot2}.") (define-public r-cli (package (name "r-cli") - (version "3.1.1") + (version "3.2.0") (source (origin (method url-fetch) (uri (cran-uri "cli" version)) (sha256 (base32 - "1kslrx22djrs3wnf5xyligwy7h4hzsn5awl946x961fn980ydcy8")))) + "0qp8k1afrn6ppwi6d9n05fjgj02196qcsppji3q37ph99msinnnd")))) (build-system r-build-system) (propagated-inputs (list r-glue)) @@ -5719,14 +6119,14 @@ timeout. It can also poll several processes at once.") (define-public r-tsp (package (name "r-tsp") - (version "1.1-11") + (version "1.2-0") (source (origin (method url-fetch) (uri (cran-uri "TSP" version)) (sha256 (base32 - "0gdwxbj2gria7jhsswmfvc32r43sdd63z3lyy21gbvmfcakvb8j9")))) + "022k0972kcxb0w6qhx09l9cif8fmpkpvwddvgxiy60bx343ywzia")))) (properties `((upstream-name . "TSP"))) (build-system r-build-system) (propagated-inputs (list r-foreach)) @@ -5804,14 +6204,14 @@ Markdown documents.") (define-public r-seriation (package (name "r-seriation") - (version "1.3.1") + (version "1.3.3") (source (origin (method url-fetch) (uri (cran-uri "seriation" version)) (sha256 (base32 - "08c37n3xxc4n4vbkw38k3l3hdlmck8drqpl6z274vkgi2sqv8qyf")))) + "1f6hxbrixqaj4vh4svff5pz9ny9h10snrrigk2r9c59amhkgih80")))) (build-system r-build-system) (propagated-inputs (list r-cluster @@ -5836,13 +6236,13 @@ iVAT).") (define-public r-xfun (package (name "r-xfun") - (version "0.29") + (version "0.30") (source (origin (method url-fetch) (uri (cran-uri "xfun" version)) (sha256 - (base32 "1x2f49n3ak85nab937wq6q5sqi1mdlfzwbv8603kxl2k8rxvp1dz")))) + (base32 "1vn0cbskyrk8ww9yx75jni9s684yv4cvbj643lvg0lg00briry7b")))) (build-system r-build-system) ;; knitr itself depends on xfun #; @@ -5937,20 +6337,21 @@ to variables on the left-hand side of the assignment.") (define-public r-pillar (package (name "r-pillar") - (version "1.6.4") + (version "1.7.0") (source (origin (method url-fetch) (uri (cran-uri "pillar" version)) (sha256 (base32 - "17m13rzgwdddwa0n3gpmax6wmfaphbg71l13ffhw5vnxf6i94fh3")))) + "1fqk18vc9ashf12gdqkdi6n1nj5lh324vwhgiib3b2fcb2bghhbq")))) (build-system r-build-system) (propagated-inputs (list r-cli r-crayon r-ellipsis r-fansi + r-glue r-lifecycle r-rlang r-utf8 @@ -6006,14 +6407,14 @@ packages that work with genomic data.") (define-public r-tinytex (package (name "r-tinytex") - (version "0.36") + (version "0.37") (source (origin (method url-fetch) (uri (cran-uri "tinytex" version)) (sha256 (base32 - "0y1vfq89yi302cwdcnassm02dk14j9ivk5vf83fp6rb8h6ww3rk5")))) + "1na8g4z1crq0ia9ba17d0qxaif47jij2z3y14xlxjv7x243k6krg")))) (build-system r-build-system) (propagated-inputs (list r-xfun)) @@ -6275,13 +6676,13 @@ information between package updates.") (define-public r-leaflet (package (name "r-leaflet") - (version "2.0.4.1") + (version "2.1.0") (source (origin (method url-fetch) (uri (cran-uri "leaflet" version)) (sha256 - (base32 "07whi3zkz1lmbqx5ydpiya802ck22ny0s7gskwnx7r8xbwlkiw5h")) + (base32 "0i2ziy3zmya3i0v4ma0b1ymw4mds7di0xjirs452n20z8l31lhhs")) (snippet '(for-each delete-file @@ -7066,14 +7467,14 @@ environment within Shiny.") (define-public r-randomizr (package (name "r-randomizr") - (version "0.20.0") + (version "0.22.0") (source (origin (method url-fetch) (uri (cran-uri "randomizr" version)) (sha256 (base32 - "0dljyfldnardaps3fq6vi5wcs9x6qfaq5apapa78c51lnaa6fn9h")))) + "1grm0h3xkb0pdbbv0gd531g1kn6njp0gcy5fh153rrmajxgd8hhw")))) (properties `((upstream-name . "randomizr"))) (build-system r-build-system) (native-inputs @@ -7478,6 +7879,41 @@ contain lags, diffs and missing values.") ;; Any GPL version. (license license:gpl2+))) +(define-public r-dynutils + (package + (name "r-dynutils") + (version "1.0.9") + (source + (origin + (method url-fetch) + (uri (cran-uri "dynutils" version)) + (sha256 + (base32 "1pcj4igaw1g898xb42kcpzfmqy80xai5ki5bpnkf8hg738wm00qz")))) + (properties `((upstream-name . "dynutils"))) + (build-system r-build-system) + (propagated-inputs + (list r-assertthat + r-crayon + r-desc + r-dplyr + r-magrittr + r-matrix + r-proxyc + r-purrr + r-rcpp + r-remotes + r-stringr + r-tibble)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/dynverse/dynutils") + (synopsis "Common functionality for the dynverse packages") + (description + "This package provides common functionality for the +@url{https://dynverse.org,dynverse} packages. dynverse is created to support +the development, execution, and benchmarking of trajectory inference +methods.") + (license license:expat))) + (define-public r-catdap (package (name "r-catdap") @@ -7527,17 +7963,15 @@ and Eclat.") (define-public r-parsedate (package (name "r-parsedate") - (version "1.2.1") + (version "1.3.0") (source (origin (method url-fetch) (uri (cran-uri "parsedate" version)) (sha256 (base32 - "05l6f1n3dsm383w7jfg3j38klvmzzfvc7qi9zr5ij13rljj8s1vb")))) + "1c2cpsvma3fkx6zp191bpfvf5rmpsr13g8rzqk6ycyb0n7b9k4qy")))) (build-system r-build-system) - (propagated-inputs - (list r-rematch2)) (home-page "https://github.com/gaborcsardi/parsedate") (synopsis "Recognize and parse dates in various formats") @@ -7679,14 +8113,14 @@ simple method for converting between file types.") (define-public r-maptools (package (name "r-maptools") - (version "1.1-2") + (version "1.1-3") (source (origin (method url-fetch) (uri (cran-uri "maptools" version)) (sha256 (base32 - "0fa4a43zax8gn3jdp4ngqav61x4g6l33bg9wzqbngkbjhipck59r")))) + "0ixvh4qbdjjl19ghgbb2r26yksya977q1yzs4yn5wshwm0763xph")))) (build-system r-build-system) (propagated-inputs (list r-foreign r-lattice r-sp)) @@ -7754,14 +8188,14 @@ promises, but with a syntax that is idiomatic R.") (define-public r-dosnow (package (name "r-dosnow") - (version "1.0.19") + (version "1.0.20") (source (origin (method url-fetch) (uri (cran-uri "doSNOW" version)) (sha256 (base32 - "0f07b38cl7s61vwzkyqkzzsic9g4sw9k6ndbxk3g90l4ca0d1ljc")))) + "1f5v0k2w0b2478p6iqa3hn2lwd1x3rzc348n57nd38ka2vnsnz4i")))) (properties `((upstream-name . "doSNOW"))) (build-system r-build-system) (propagated-inputs @@ -7773,20 +8207,41 @@ promises, but with a syntax that is idiomatic R.") using the @code{snow} package.") (license license:gpl2))) +(define-public r-fstcore + (package + (name "r-fstcore") + (version "0.9.8") + (source + (origin + (method url-fetch) + (uri (cran-uri "fstcore" version)) + (sha256 + (base32 "1qicjwsm87wgjm5mxrsgi697fmcfz6wyqcxfgngwxrf8kq4awjsf")))) + (properties `((upstream-name . "fstcore"))) + (build-system r-build-system) + (propagated-inputs (list r-rcpp)) + (home-page "https://www.fstpackage.org/fstcore/") + (synopsis "R bindings to the fstlib library") + (description + "The fstlib library provides multithreaded serialization of compressed +data frames using the fst format. The fst format allows for random access of +stored data and compression with the LZ4 and ZSTD compressors.") + (license license:mpl2.0))) + (define-public r-fst (package (name "r-fst") - (version "0.9.4") + (version "0.9.8") (source (origin (method url-fetch) (uri (cran-uri "fst" version)) (sha256 (base32 - "0vwclzxww8mw9nnpyj29bn71mrr8jjg7ka03979h9rbzw6d9bjrr")))) + "0r96inwrr960m7wmc80603bw2vvvwab225bh9dq3lalwhy4yiis4")))) (properties `((upstream-name . "fst"))) (build-system r-build-system) - (propagated-inputs (list r-rcpp)) + (propagated-inputs (list r-fstcore r-rcpp)) (home-page "http://www.fstpackage.org") (synopsis "Fast serialization of data frames") (description @@ -8041,14 +8496,14 @@ Python's @url{https://github.com/ActiveState/appdirs,Appdirs} to R.") (define-public r-rastervis (package (name "r-rastervis") - (version "0.51.1") + (version "0.51.2") (source (origin (method url-fetch) (uri (cran-uri "rasterVis" version)) (sha256 (base32 - "1mg11njzajx9az6xjghjl2sna6wzs85ga8fhy9w43l2n8icsfbr2")))) + "0kgg6cm7xjqya2d46w0i1i1wjpkb8f99lyqy7rgwa7l9xmwzj5n1")))) (properties `((upstream-name . "rasterVis"))) (build-system r-build-system) (propagated-inputs @@ -8098,14 +8553,14 @@ those searches and pull data into their R sessions.") (define-public r-renv (package (name "r-renv") - (version "0.15.1") + (version "0.15.4") (source (origin (method url-fetch) (uri (cran-uri "renv" version)) (sha256 (base32 - "0nwvdzwyjvqlvkwp1yhhvqm8b9pwimwng99s0m0j63zm9bgwis1n")))) + "0byfs4cydhyqzdrxjv7sa6i30xc7qhnx0qw9d8wwwlzdkv235flf")))) (properties `((upstream-name . "renv"))) (build-system r-build-system) (native-inputs @@ -8215,14 +8670,14 @@ always locate the files relative to your project root.") (define-public r-reticulate (package (name "r-reticulate") - (version "1.23") + (version "1.24") (source (origin (method url-fetch) (uri (cran-uri "reticulate" version)) (sha256 (base32 - "1mindiw7k7pa33hpwrgq0g5808c8qs9hl0351n8z2w9wyczlm87y")))) + "1k0nv43fa9lx44pamxpprnvvmsp15adn5z6hg9siyq0n94hca65r")))) (build-system r-build-system) (inputs (list python)) (propagated-inputs @@ -8264,6 +8719,66 @@ Python to R they are converted back to R types.") file.") (license license:gpl2+))) +(define-public r-billboarder + (package + (name "r-billboarder") + (version "0.3.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "billboarder" version)) + (sha256 + (base32 "189ngvg84rcwhrivxskmjv3srhadvzr4p1v8pf11axyv2qn01b0x")) + (snippet + '(delete-file "inst/htmlwidgets/lib/billboard/billboard.pkgd.min.js")))) + (properties `((upstream-name . "billboarder"))) + (build-system r-build-system) + (arguments + `(#:phases + (modify-phases %standard-phases + (add-after 'unpack 'process-javascript + (lambda* (#:key inputs #:allow-other-keys) + (with-directory-excursion "inst/htmlwidgets/lib/billboard/" + (let ((source (assoc-ref inputs "js-billboard")) + (target "billboard.pkgd.min.js")) + (format #true "Processing ~a --> ~a~%" + source target) + (invoke "esbuild" source "--minify" + (string-append "--outfile=" target))))))))) + (propagated-inputs + (list r-ggplot2 + r-htmltools + r-htmlwidgets + r-jsonlite + r-magrittr + r-rlang + r-scales + r-shiny)) + (native-inputs + `(("r-knitr" ,r-knitr) + ("esbuild" ,esbuild) + ;; It is not ideal to use this concatenated (but not minified) + ;; JavaScript file, as the original source is written in TypeScript. + ;; However, this can still be considered source code as it is readable + ;; and can be modified. + ("js-billboard" + ,(origin + (method url-fetch) + (uri "https://unpkg.com/billboard.js@3.2.0/dist/billboard.js") + (sha256 + (base32 + "1kx5rqmn87pgal2cwmcij2rrnwa0fgcsw6y99m4i0l2sdm0qffv2")))))) + (home-page "https://github.com/dreamRs/billboarder") + (synopsis "Create interactive charts with the JavaScript Billboard library") + (description + "This package provides an @code{htmlwidgets} interface to billboard.js, +a re-usable easy interface JavaScript chart library, based on D3 v4+. Chart +types include line charts, scatterplots, bar/lollipop charts, +histogram/density plots, pie/donut charts and gauge charts. All charts are +interactive, and a proxy method is implemented to smoothly update a chart +without rendering it again in shiny apps.") + (license license:expat))) + (define-public r-ggseqlogo (package (name "r-ggseqlogo") @@ -8623,6 +9138,36 @@ patterned after functions in the Python @code{itertools} module, and others patterned after functions in the snow package.") (license license:gpl2))) +(define-public r-itsadug + (package + (name "r-itsadug") + (version "2.4") + (source + (origin + (method url-fetch) + (uri (cran-uri "itsadug" version)) + (sha256 + (base32 "0759l7hhvj05dp92pz59xwrxjm9s1iwkwrdhs68l0fq57550j70l")))) + (properties `((upstream-name . "itsadug"))) + (build-system r-build-system) + (propagated-inputs (list r-mgcv r-plotfunctions)) + (native-inputs (list r-knitr)) + (home-page "https://cran.r-project.org/package=itsadug") + (synopsis "Interpreting time series and autocorrelated data using GAMMs") + (description + "@dfn{Generalized Additive Mixed Modeling} (GAMM; Lin & Zhang, 1999) as +implemented in the R package @code{mgcv} is a nonlinear regression analysis +which is particularly useful for time course data such as EEG, pupil dilation, +gaze data (eye tracking), and articulography recordings, but also for +behavioral data such as reaction times and response data. As time course +measures are sensitive to autocorrelation problems, GAMMs implements methods +to reduce the autocorrelation problems. This package includes functions for +the evaluation of GAMM models (e.g., model comparisons, determining regions of +significance, inspection of autocorrelational structure in residuals) and +interpreting of GAMMs (e.g., visualization of complex interactions, and +contrasts).") + (license license:gpl2+))) + (define-public r-polynom (package (name "r-polynom") @@ -8642,6 +9187,38 @@ patterned after functions in the snow package.") univariate polynomial manipulations.") (license license:gpl2))) +(define-public r-pupillometryr + (package + (name "r-pupillometryr") + (version "0.0.4") + (source + (origin + (method url-fetch) + (uri (cran-uri "PupillometryR" version)) + (sha256 + (base32 "0yk30sgl2qqa6pva649swq523vh446ifmydildycfvfmlm1h4qza")))) + (properties `((upstream-name . "PupillometryR"))) + (build-system r-build-system) + (propagated-inputs + (list r-data-table + r-dplyr + r-fda + r-ggplot2 + r-itsadug + r-lazyeval + r-mgcv + r-rlang + r-signal + r-tidyr + r-zoo)) + (native-inputs (list r-knitr)) + (home-page "https://cran.r-project.org/package=PupillometryR") + (synopsis "Unified pipeline for pupillometry data") + (description + "This package provides a unified pipeline to clean, prepare, plot, and +run basic analyses on pupillometry experiments.") + (license license:expat))) + (define-public r-gbrd (package (name "r-gbrd") @@ -8714,14 +9291,14 @@ implemented in bibutils.") (define-public r-rdpack (package (name "r-rdpack") - (version "2.1.3") + (version "2.1.4") (source (origin (method url-fetch) (uri (cran-uri "Rdpack" version)) (sha256 (base32 - "1f2m9pxm4s4gkrqh58jznkqj2fcw6f29c1l05k5mmkwsdf3ai0c3")))) + "0r242a352wa7kha0n62ng6ri0qi14hwjknnyjvfcd7mx4qvfwhgv")))) (properties `((upstream-name . "Rdpack"))) (build-system r-build-system) (propagated-inputs @@ -8958,14 +9535,14 @@ other add-on packages.") (define-public r-insight (package (name "r-insight") - (version "0.15.0") + (version "0.16.0") (source (origin (method url-fetch) (uri (cran-uri "insight" version)) (sha256 (base32 - "1vizx515a24v5x4f5mzbigl0wl4gz75hp5gqw8lkijygw71li8fn")))) + "0gcyps0889rys04bj70br5zfvzcqxd55yawykmns17n9hsixfi3r")))) (build-system r-build-system) (native-inputs (list r-knitr)) @@ -9094,14 +9671,14 @@ functions.") (define-public r-flextable (package (name "r-flextable") - (version "0.6.10") + (version "0.7.0") (source (origin (method url-fetch) (uri (cran-uri "flextable" version)) (sha256 (base32 - "01nm0357b0z4dgrplbq9ms63j51n0rgvvxyy068zdsc5p7j3lql2")))) + "15vr5lb87712mymsvv01kz9s1fb54sx5kybsa2x547k5g10dbrbm")))) (build-system r-build-system) (propagated-inputs (list r-base64enc @@ -9337,19 +9914,18 @@ the work.") (define-public r-doby (package (name "r-doby") - (version "4.6.11") + (version "4.6.12") (source (origin (method url-fetch) (uri (cran-uri "doBy" version)) (sha256 (base32 - "1xhjh2d7zfgw8wbcj5yfscvmwbjar1w544ika13da69dydm44j81")))) + "1m60ya4cdickqsj0dc90bv4n47df6qg6n82fikxrkl4yhg7yyn1i")))) (properties `((upstream-name . "doBy"))) (build-system r-build-system) (propagated-inputs (list r-broom - r-curry r-deriv r-dplyr r-ggplot2 @@ -9674,14 +10250,14 @@ visualization and candidate genes around SNPs.") (define-public r-precrec (package (name "r-precrec") - (version "0.12.7") + (version "0.12.9") (source (origin (method url-fetch) (uri (cran-uri "precrec" version)) (sha256 (base32 - "0vwzaqnh9ymrm52dd79bihwqprnygz0d71ay8fv51hdw0zg6saya")))) + "1dfz2rqx2ww2l5r40ahg0qdj3rjrwiwh427mw7j5ynhpcj21j2qm")))) (properties `((upstream-name . "precrec"))) (build-system r-build-system) (propagated-inputs @@ -9929,14 +10505,14 @@ repeated measures data, respectively.") (define-public r-gam (package (name "r-gam") - (version "1.20") + (version "1.20.1") (source (origin (method url-fetch) (uri (cran-uri "gam" version)) (sha256 (base32 - "1zhy2fp7pxac8xp3z3hndhprj4s5gx3305b627vc78bal1ml3swi")))) + "1bbxiqfgi7jc9vw1hspw5q41d69nlw2v6k91zqlvmam5pvxcd1sp")))) (properties `((upstream-name . "gam"))) (build-system r-build-system) (propagated-inputs @@ -10199,14 +10775,14 @@ used to teach mathematics, statistics, computation and modeling.") (define-public r-raster (package (name "r-raster") - (version "3.5-11") + (version "3.5-15") (source (origin (method url-fetch) (uri (cran-uri "raster" version)) (sha256 (base32 - "18v1vflq15915dwa3caf5sp1d1kp8w6plpaqk3z6a3164lwq5i76")))) + "11fnznymwavpph733dayklhcx4phpjgrijfxlaszi122sg2x7ir9")))) (build-system r-build-system) (propagated-inputs (list r-rcpp r-sp r-terra)) @@ -10431,13 +11007,13 @@ distributed on a compute cluster.") (define-public r-abjutils (package (name "r-abjutils") - (version "0.3.1") + (version "0.3.2") (source (origin (method url-fetch) (uri (cran-uri "abjutils" version)) (sha256 - (base32 "18mmlkqsrjfclk8islfjdsp8sbw6dpjj5x45kqilxdiss69gg5zd")))) + (base32 "0lmf4va8qnzwg698i2h4fcwvd6dhsgdkqsfh41aa3wg1flimhsr7")))) (build-system r-build-system) (propagated-inputs (list r-dplyr @@ -10855,14 +11431,14 @@ analysis.") (define-public r-gee (package (name "r-gee") - (version "4.13-20") + (version "4.13-22") (source (origin (method url-fetch) (uri (cran-uri "gee" version)) (sha256 (base32 - "167pzgnmj4cjc41ykps1mfwi6s7y32zxyycn5z17vn4v0pp4q0ak")))) + "1wbwn7bjqz09l6clh43dy3x5qgv9b9wwn7xnfw9fkkrhn6rvc3rw")))) (properties `((upstream-name . "gee"))) (build-system r-build-system) (native-inputs @@ -11334,14 +11910,14 @@ correlation, censored, ordered and multivariate problems.") (define-public r-bayesplot (package (name "r-bayesplot") - (version "1.8.1") + (version "1.9.0") (source (origin (method url-fetch) (uri (cran-uri "bayesplot" version)) (sha256 (base32 - "0aman4273i8hy3z0qay1nrsr7v27m4icm1j6f4w59ylix80l5myq")))) + "0hqy597ang53phxnl084hak35ffqz9lw9hygax7370gpkjws908a")))) (build-system r-build-system) (inputs (list pandoc)) @@ -11352,6 +11928,7 @@ correlation, censored, ordered and multivariate problems.") r-ggplot2 r-ggridges r-glue + r-posterior r-reshape2 r-rlang r-tibble @@ -11369,14 +11946,14 @@ Bayesian modeling.") (define-public r-tmb (package (name "r-tmb") - (version "1.7.22") + (version "1.8.0") (source (origin (method url-fetch) (uri (cran-uri "TMB" version)) (sha256 (base32 - "116k7ffgadhkqq4lckfd4403qvybcls1hcs1ap1b7lkylghjahf2")))) + "158spsz8inxhs3dw6cq2wwkkhvgkfjyyz577s89x08yly7layq2l")))) (properties `((upstream-name . "TMB"))) (build-system r-build-system) (propagated-inputs @@ -11439,14 +12016,14 @@ models.") (define-public r-glmmtmb (package (name "r-glmmtmb") - (version "1.1.2.3") + (version "1.1.3") (source (origin (method url-fetch) (uri (cran-uri "glmmTMB" version)) (sha256 (base32 - "1yfwwz2dhd34vgagg8hi7irkqw8padavbc7337jdiwgk3w01wqsm")))) + "0xdjc3gx0cj098rrjzlsy9cccxzfvn029xh4ycpya4xjhxsykldr")))) (properties `((upstream-name . "glmmTMB"))) (build-system r-build-system) (propagated-inputs @@ -11457,7 +12034,7 @@ models.") r-rcppeigen r-tmb)) (native-inputs - (list r-knitr)) ; for vignettes + (list r-knitr r-rmarkdown)) ; for vignettes (home-page "https://github.com/glmmTMB") (synopsis "Generalized linear mixed models") (description @@ -11553,14 +12130,14 @@ results using @code{ggplot2}.") (define-public r-effectsize (package (name "r-effectsize") - (version "0.6.0") + (version "0.6.0.1") (source (origin (method url-fetch) (uri (cran-uri "effectsize" version)) (sha256 (base32 - "0xhibc868sngkc8v9g385vlhqdqxzy6b4mj1jihjy6wvk9jw266s")))) + "1rhpbhyrv0avinm6dz6v2qw4xxdl9m1wknq1dv2flfxgcz0k9qiz")))) (properties `((upstream-name . "effectsize"))) (build-system r-build-system) (propagated-inputs @@ -11643,6 +12220,42 @@ files to an structured list. Users can manipulate this resulting list with back to file after modifications.") (license license:gpl3))) +(define-public r-gillespiessa2 + (package + (name "r-gillespiessa2") + (version "0.2.8") + (source + (origin + (method url-fetch) + (uri (cran-uri "GillespieSSA2" version)) + (sha256 + (base32 "03ym8qx5yc1a6j9l973lc0rjzs8hiax8fq13j7m1fcb1pvnbvar5")))) + (properties `((upstream-name . "GillespieSSA2"))) + (build-system r-build-system) + (propagated-inputs + (list r-assertthat + r-dplyr + r-dynutils + r-matrix + r-purrr + r-rcpp + r-rcppxptrutils + r-readr + r-rlang + r-stringr + r-tidyr)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/rcannood/GillespieSSA2") + (synopsis "Gillespie's stochastic simulation algorithm") + (description + "This package provides a fast, scalable, and versatile framework for +simulating large systems with Gillespie's @dfn{Stochastic Simulation +Algorithm} (SSA). This package is the spiritual successor to the GillespieSSA +package. Benefits of this package include major speed improvements (>100x), +easier to understand documentation, and many unit tests that try to ensure the +package works as intended.") + (license license:gpl3+))) + (define-public r-gitcreds (package (name "r-gitcreds") @@ -12118,13 +12731,13 @@ and related methods.") (define-public r-rcppgsl (package (name "r-rcppgsl") - (version "0.3.10") + (version "0.3.11") (source (origin (method url-fetch) (uri (cran-uri "RcppGSL" version)) (sha256 - (base32 "0lalz51q31qqy0cr227vc3msi0h47p111lzy4zs93drgl1yhh4l6")))) + (base32 "1a5dms0axlzgpv1z2bhfrb77497h0ch1yslq0gidj14vr4kfm57h")))) (properties `((upstream-name . "RcppGSL"))) (build-system r-build-system) (propagated-inputs @@ -12144,14 +12757,14 @@ the interfaces between R and C++.") (define-public r-mvabund (package (name "r-mvabund") - (version "4.1.12") + (version "4.2.1") (source (origin (method url-fetch) (uri (cran-uri "mvabund" version)) (sha256 (base32 - "107pwv2bwird1a98chcnbld2wqj9prkf4pkncyrrp304zpdkkby1")))) + "01kss9dx4an1ir5zs46jypvhj8sdc8wcs00i1223ai09av4lcsgd")))) (build-system r-build-system) (propagated-inputs (list r-mass r-rcpp r-rcppgsl r-statmod r-tweedie)) @@ -12174,10 +12787,17 @@ analysing multivariate abundance data in community ecology.") (base32 "1k04n6gwk2n8kg0l3yk5j3wrqgkv5f6w04yjpif9y451hx5w7svg")))) (build-system r-build-system) + ;; This is needed for the vignette builder + (arguments + '(#:phases + (modify-phases %standard-phases + (add-after 'unpack 'set-HOME + (lambda _ (setenv "HOME" "/tmp")))))) (propagated-inputs (list r-car r-lme4 r-lmertest r-pbkrtest r-reshape2)) (native-inputs - (list r-knitr)) + (list r-knitr + r-r-rsp)) ;vignette builder (home-page "https://afex.singmann.science/") (synopsis "Analysis of factorial experiments") (description @@ -12304,14 +12924,14 @@ parallel calculations across cluster nodes.") (define-public r-chk (package (name "r-chk") - (version "0.7.0") + (version "0.8.0") (source (origin (method url-fetch) (uri (cran-uri "chk" version)) (sha256 (base32 - "1fxsxgvd08lkb6amjgs4x48dhqr046mmjngjfgy2ya9cl2shd7ls")))) + "10gcv00mgi88vgxr9jrs0ar67crmdcdi4m9g86cm6pg3ly0v097y")))) (properties `((upstream-name . "chk"))) (build-system r-build-system) (propagated-inputs @@ -12551,13 +13171,13 @@ isosurfaces.") (define-public r-ks (package (name "r-ks") - (version "1.13.3") + (version "1.13.4") (source (origin (method url-fetch) (uri (cran-uri "ks" version)) (sha256 - (base32 "0wyfdmhr753vpizns9kl7h7pfnnb16c7m7w9a4bpz62xcvgq1yyy")))) + (base32 "15sm1ys7sk0gn7hr1vik4xrn4jdf837knwk7j8h32lr29w9mh917")))) (build-system r-build-system) (propagated-inputs (list r-fnn @@ -12636,14 +13256,14 @@ University Press, 2007.") (define-public r-circular (package (name "r-circular") - (version "0.4-93") + (version "0.4-94") (source (origin (method url-fetch) (uri (cran-uri "circular" version)) (sha256 (base32 - "0hki85rs8wc5950pjaw28q54rly2napfbcrx3pchlfap6wwy5kkn")))) + "0wanbd6n7g1avvyc7pm0lnkwg868dix2byiz4wm6vmxzm0y47fmr")))) (build-system r-build-system) (propagated-inputs (list r-boot r-mvtnorm)) @@ -12704,14 +13324,14 @@ for evolution along a phylogenetic tree.") (define-public r-fmsb (package (name "r-fmsb") - (version "0.7.2") + (version "0.7.3") (source (origin (method url-fetch) (uri (cran-uri "fmsb" version)) (sha256 (base32 - "1ylwj4385wg7rymx0m3kayyvrbil89wxb7phdl0fvi0xq2krkzhb")))) + "1gi94xr0b1yk9xzwfprfafxi25yic1lcivd66p73n6iqfzdaimbk")))) (build-system r-build-system) (home-page "http://minato.sip21c.org/msb/") (synopsis "Functions for medical statistics book with demographic data") @@ -12788,13 +13408,13 @@ Anderson-Darling Distribution\".") (define-public r-admisc (package (name "r-admisc") - (version "0.22") + (version "0.25") (source (origin (method url-fetch) (uri (cran-uri "admisc" version)) (sha256 - (base32 "1jwz9z3brq4lbnqrkxx40vrn47rknkkj4xfv2gi8kmf1mzc5aqcd")))) + (base32 "0cf8dy0mi3ynm2ic8jp0qi1samyzashwlzz0l64izqqv2s4hpyzp")))) (properties `((upstream-name . "admisc"))) (build-system r-build-system) (home-page "https://github.com/dusadrian/admisc") @@ -12893,14 +13513,14 @@ redundant complex conjugate when the input is real data.") (define-public r-tiff (package (name "r-tiff") - (version "0.1-10") + (version "0.1-11") (source (origin (method url-fetch) (uri (cran-uri "tiff" version)) (sha256 (base32 - "1zha6bzb1rmfl6n2xjkygs9wfi3ah9cjr7a6jzk4zqc5kvl58lak")))) + "0xgc7vyndxxahfhc2qqzmwi56bnfyl0pn72l820jz5sd24aymhxq")))) (build-system r-build-system) (inputs (list libtiff libjpeg-turbo zlib)) @@ -13029,19 +13649,20 @@ maps.") (define-public r-tidytree (package (name "r-tidytree") - (version "0.3.7") + (version "0.3.9") (source (origin (method url-fetch) (uri (cran-uri "tidytree" version)) (sha256 - (base32 "1wp411lf3syf0g1czhx3ksb4mx5d6vaw6ppipv0s0k69ivag45kq")))) + (base32 "1prfv2jy6z4zp4gyi9krzbysipsbnjrkxcccflm4nwsd9i7mshqj")))) (build-system r-build-system) (propagated-inputs (list r-ape r-dplyr r-lazyeval r-magrittr + r-pillar r-rlang r-tibble r-tidyr @@ -13123,14 +13744,14 @@ only sparse real matrices in Matrix package format are supported.") (define-public r-speedglm (package (name "r-speedglm") - (version "0.3-3") + (version "0.3-4") (source (origin (method url-fetch) (uri (cran-uri "speedglm" version)) (sha256 (base32 - "0f37w4lj8dpcg1sfkd7cv6qpdkanmb97mnd8zih2fxzv8bpd0rfh")))) + "1kj662nfkfhvx37jrbvxd4dyjclz5cm3xh50z7s5rbzapiyxn4hs")))) (build-system r-build-system) (propagated-inputs (list r-mass r-matrix)) @@ -13145,14 +13766,14 @@ linear models to large data sets by updating algorithms.") (define-public r-densityclust (package (name "r-densityclust") - (version "0.3") + (version "0.3.2") (source (origin (method url-fetch) (uri (cran-uri "densityClust" version)) (sha256 (base32 - "1zry0vafajzmr37aylglxfvwplhdygbkb9cvzvh8cy0xgnjrnx13")))) + "05x2fi1zdnkrg2nimf8k904j3lpyw0f7nmk6ax5p7x7a98wb2iqs")))) (properties `((upstream-name . "densityClust"))) (build-system r-build-system) (propagated-inputs @@ -13454,13 +14075,13 @@ methods, incorporating one or more trees and trait data.") (define-public r-rnexml (package (name "r-rnexml") - (version "2.4.5") + (version "2.4.6") (source (origin (method url-fetch) (uri (cran-uri "RNeXML" version)) (sha256 (base32 - "1wsl4xq9w5bp3wk69dw57bg0qcw1vs6ajwya4p0w1r00ck5pwrib")))) + "0k56brcg80mvx35hgc5gj8arwba4k7q0075g38qp0qgq9d1b87cs")))) (build-system r-build-system) (propagated-inputs (list r-ape @@ -13469,6 +14090,7 @@ methods, incorporating one or more trees and trait data.") r-lazyeval r-plyr r-reshape2 + r-rlang r-stringi r-stringr r-tidyr @@ -13488,16 +14110,17 @@ and compatibility with @code{ape} objects.") (define-public r-rnifti (package (name "r-rnifti") - (version "1.3.1") + (version "1.4.0") (source (origin (method url-fetch) (uri (cran-uri "RNifti" version)) (sha256 (base32 - "0bz10ar6hrgkvlzh9j2im24kwi3s2nnax668z40a2wj6s5xghqlr")))) + "0kkj9dby85iwnlqb7zwrh1xidlvqip7i1mbgckb5qg4b0a3zgibc")))) (properties `((upstream-name . "RNifti"))) (build-system r-build-system) + (inputs (list zlib)) (propagated-inputs (list r-rcpp)) (home-page "https://github.com/jonclayden/RNifti") (synopsis "Fast R and C++ access to NIfTI images") @@ -13925,14 +14548,14 @@ preparing, executing, and processing HTTP requests.") (define-public r-gmp (package (name "r-gmp") - (version "0.6-2.1") + (version "0.6-4") (source (origin (method url-fetch) (uri (cran-uri "gmp" version)) (sha256 (base32 - "1mj7hy6riaxl9n4q2cnyyjazwad90xbjszk25si968618rih4n64")))) + "0vfhz5cpffcrmq011h7jvy1r6d5pbbpkxj8431bhj5x5h25x7sjn")))) (build-system r-build-system) (arguments '(#:phases @@ -14948,14 +15571,14 @@ port-forwarding to your local computer.") (define-public r-future (package (name "r-future") - (version "1.23.0") + (version "1.24.0") (source (origin (method url-fetch) (uri (cran-uri "future" version)) (sha256 (base32 - "1y5qzpsg0r2dccynyybbb2ngxbl1y3phs1dq2jj3f2bwhc7chsfq")))) + "0xmj17fq9paww796490bmakv6pcvrzk15i8mzhxk1mp9l0mj32vv")))) (build-system r-build-system) (arguments `(#:phases @@ -15190,17 +15813,18 @@ several common set, element and attribute related tasks.") (define-public r-shinyjqui (package (name "r-shinyjqui") - (version "0.4.0") + (version "0.4.1") (source (origin (method url-fetch) (uri (cran-uri "shinyjqui" version)) (sha256 (base32 - "0ins0pmfis34jr0rimsp1k1aw856r3xjdnsvv8lkwqhvp58nzqah")) + "135gwz7syyb6pbn0lkvmq0v1c6r1zivavnqhi1rnzbbzlysi27v1")) (snippet - '(begin - (delete-file "inst/www/shinyjqui.min.js"))))) + '(for-each delete-file + (list "inst/www/shinyjqui.min.js" + "inst/www/jquery.ui.touch-punch.min.js"))))) (properties `((upstream-name . "shinyjqui"))) (build-system r-build-system) (arguments @@ -15208,17 +15832,34 @@ several common set, element and attribute related tasks.") (modify-phases %standard-phases (add-after 'unpack 'process-javascript (lambda* (#:key inputs #:allow-other-keys) - (with-directory-excursion "inst/www/" - (let ((source "shinyjqui.js") - (target "shinyjqui.min.js")) - (format #true "Processing ~a --> ~a~%" - source target) - (invoke "esbuild" source "--minify" - (string-append "--outfile=" target))))))))) + (with-directory-excursion "inst/www" + (let ((mapping + `((,(string-append (assoc-ref inputs "js-jquery.ui.touch-punch") + "/jquery.ui.touch-punch.js") + . "jquery.ui.touch-punch.min.js") + ("shinyjqui.js" + . "shinyjqui.min.js")))) + (for-each (lambda (source target) + (format #true "Processing ~a --> ~a~%" + source target) + (invoke "esbuild" source "--minify" + (string-append "--outfile=" target))) + (map car mapping) + (map cdr mapping))))))))) (propagated-inputs - (list r-htmltools r-htmlwidgets r-jsonlite r-shiny)) + (list r-htmltools r-htmlwidgets r-jsonlite r-rlang r-shiny)) (native-inputs - (list r-knitr esbuild)) + `(("r-knitr" ,r-knitr) + ("esbuild" ,esbuild) + ("js-jquery.ui.touch-punch" + ,(origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/furf/jquery-ui-touch-punch") + (commit "8f7559b6e65cdc3ee3648d5fe76d38c653f87ff5"))) + (sha256 + (base32 + "1lzywp2q9hwx6d5fqjla95vp7ra2lahr5dam7lsqjmch9d98r48q")))))) (home-page "https://github.com/yang-tang/shinyjqui") (synopsis "jQuery UI interactions and effects for Shiny") (description @@ -15226,6 +15867,38 @@ several common set, element and attribute related tasks.") effects from the jQuery UI library.") (license license:expat))) +(define-public r-shinymanager + (package + (name "r-shinymanager") + (version "1.0.400") + (source + (origin + (method url-fetch) + (uri (cran-uri "shinymanager" version)) + (sha256 + (base32 "1np2yp5pn8g9i4jhysfgprmdn13cpw4vaaagrd72rnk2r4hpmyx4")))) + (properties `((upstream-name . "shinymanager"))) + (build-system r-build-system) + (propagated-inputs + (list r-billboarder + r-dbi + r-dt + r-htmltools + r-openssl + r-r-utils + r-r6 + r-rsqlite + r-scrypt + r-shiny)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/datastorm-open/shinymanager") + (synopsis "Authentication management for Shiny applications") + (description + "This package provides simple and secure authentification mechanism for +single Shiny applications. Credentials are stored in an encrypted SQLite +database.") + (license license:gpl3))) + (define-public r-outliers (package (name "r-outliers") @@ -15397,13 +16070,13 @@ such software by imputing dropout events.") (define-public r-gamlss-dist (package (name "r-gamlss-dist") - (version "6.0-1") + (version "6.0-3") (source (origin (method url-fetch) (uri (cran-uri "gamlss.dist" version)) (sha256 - (base32 "0m41n7zf7m0mh1w9ql70wqnzsf2f013ql699im7zmp6fdggb8qxm")))) + (base32 "1gqjr419v8z2ygh0h1xz7bipnsbp820njzwq7z3r9f41rn1ym47c")))) (properties `((upstream-name . "gamlss.dist"))) (build-system r-build-system) (propagated-inputs (list r-mass)) @@ -15641,14 +16314,14 @@ probabilities from a standard bivariate normal CDF.") (define-public r-lavaan (package (name "r-lavaan") - (version "0.6-9") + (version "0.6-10") (source (origin (method url-fetch) (uri (cran-uri "lavaan" version)) (sha256 (base32 - "12hhbwxaiprs9bmclwhhdpv42h4mrl4gj92zq3wk8rb883mw816l")))) + "0dwc8rgrzyrrb0ivx297ln2qbrsxbpn6mdf7laiffhspdpml8sad")))) (build-system r-build-system) (propagated-inputs (list r-mass r-mnormt r-numderiv r-pbivnorm)) @@ -15784,14 +16457,14 @@ graphs.") (define-public r-pbdzmq (package (name "r-pbdzmq") - (version "0.3-6") + (version "0.3-7") (source (origin (method url-fetch) (uri (cran-uri "pbdZMQ" version)) (sha256 (base32 - "0yy3x3l04vx13jbjbvkvsc8jdbf0abndjfknszdx3bi18b2chi4r")))) + "020qy6fq8w8wq0j3bii14ahrlg8wzl0lrnndfr6scmrg9ghjnbfz")))) (properties `((upstream-name . "pbdZMQ"))) (build-system r-build-system) (inputs @@ -16107,14 +16780,14 @@ additional utilities for genomic regions processing.") (define-public r-sets (package (name "r-sets") - (version "1.0-20") + (version "1.0-21") (source (origin (method url-fetch) (uri (cran-uri "sets" version)) (sha256 (base32 - "1mkmqi3n1lh01k47yvkr0dlf4imqdi6d6bglx9bvrjmg816p4jr3")))) + "1h1a03b1850kh5hd3gxbspx2nxqxvk2gb0wm0s60b70qb6zg0csp")))) (properties `((upstream-name . "sets"))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/sets") @@ -16151,14 +16824,14 @@ partition functions are also given.") (define-public r-brobdingnag (package (name "r-brobdingnag") - (version "1.2-6") + (version "1.2-7") (source (origin (method url-fetch) (uri (cran-uri "Brobdingnag" version)) (sha256 (base32 - "1m3ajvcksqfck5l5hj5xiflj4ry6d896ybv4f0xxks8chgnwmv0r")))) + "0hnp5nrpnscykvgrrbgp7987660hcbv92zc2q8lmpnin4ws399vk")))) (properties `((upstream-name . "Brobdingnag"))) (build-system r-build-system) (home-page "https://github.com/RobinHankin/Brobdingnag.git") @@ -16286,14 +16959,14 @@ utilities for sequence data management under the ACNUC system.") (define-public r-units (package (name "r-units") - (version "0.7-2") + (version "0.8-0") (source (origin (method url-fetch) (uri (cran-uri "units" version)) (sha256 (base32 - "1ss0f15h4yqzk488ilsa5d2ibrj3wzwplx4160mn600i8ciy02xr")))) + "06mjprqi06xprj6185k5cmrrdl025x0pd1r6a4x3s74ciq9zwilw")))) (build-system r-build-system) (inputs (list udunits)) @@ -16314,14 +16987,14 @@ classes.") (define-public r-udunits2 (package (name "r-udunits2") - (version "0.13.2") + (version "0.13.2.1") (source (origin (method url-fetch) (uri (cran-uri "udunits2" version)) (sha256 (base32 - "0sarkw5ciafiaq1haam8d8w0cmai63wrw2m4rcbjfa5k0648j07f")))) + "00prsy8m41v1camcsz94d7gm8qab2mdnwl3x0dyhz4r49b02jm4z")))) (properties `((upstream-name . "udunits2"))) (build-system r-build-system) (inputs @@ -16489,14 +17162,14 @@ information about geometries.") (define-public r-sf (package (name "r-sf") - (version "1.0-5") + (version "1.0-7") (source (origin (method url-fetch) (uri (cran-uri "sf" version)) (sha256 (base32 - "1i0s9839m9zffad2aq6zgcpz0d61g68caqh9wxaxaxx7bvx2h319")))) + "0lsl4rh4lbv386hxlsnnwsjb5x1n9d3z0ckjmxakmmrqjjmiywyh")))) (build-system r-build-system) (inputs (list gdal geos proj sqlite zlib)) @@ -16522,13 +17195,13 @@ datum transformations.") (define-public r-spdep (package (name "r-spdep") - (version "1.2-1") + (version "1.2-2") (source (origin (method url-fetch) (uri (cran-uri "spdep" version)) (sha256 (base32 - "1ya39bgmzagrk4k51zd96l4xvnbc2vzmvd0z9qprdfvg9s6pik78")) + "08sya6vy7s87h337g2fanncw6xx9y9z8nxpqalbdxv9vpsc6zx4l")) (snippet '(for-each delete-file '("inst/doc/CO69.html" "inst/doc/CO69.R" @@ -17232,14 +17905,14 @@ interaction search in high-dimensional data.") (define-public r-rttf2pt1 (package (name "r-rttf2pt1") - (version "1.3.9") + (version "1.3.10") (source (origin (method url-fetch) (uri (cran-uri "Rttf2pt1" version)) (sha256 (base32 - "0w9ybqvr4bvpa2dyfkrscg4in0x2dkzmxdn1n6003j1rss7f8rw6")))) + "1fp1y0kxa5xg8w0dplm12wfm8h78az4k6ql1758wwhb3d17np241")))) (properties `((upstream-name . "Rttf2pt1"))) (build-system r-build-system) (home-page "https://github.com/wch/Rttf2pt1") @@ -18318,14 +18991,14 @@ matched.") (define-public r-ggnewscale (package (name "r-ggnewscale") - (version "0.4.5") + (version "0.4.6") (source (origin (method url-fetch) (uri (cran-uri "ggnewscale" version)) (sha256 (base32 - "1hjysfagd2lqy8yivqq9q7l6hbvyq8kasw3zqh5fk9xn18ikc702")))) + "08xqhv6y9m9f2p8q3h0dh7mbpqg3r2i590x2983k69plfa5jxzv3")))) (properties `((upstream-name . "ggnewscale"))) (build-system r-build-system) (propagated-inputs @@ -18364,14 +19037,14 @@ colored by the number of neighboring points. This is useful to visualize the (define-public r-arrow (package (name "r-arrow") - (version "6.0.1") + (version "7.0.0") (source (origin (method url-fetch) (uri (cran-uri "arrow" version)) (sha256 (base32 - "14fghz9xijcrck0c65crvfidgyhgzy9b2apwmg7qrgn2sy09xm0p")))) + "1s9h2aw6iig45nz2rfk13qbp0qydx6cc4r6qs58f9cm9vgwsg76l")))) (properties `((upstream-name . "arrow"))) (build-system r-build-system) (inputs @@ -18379,6 +19052,7 @@ colored by the number of neighboring points. This is useful to visualize the (propagated-inputs (list r-assertthat r-bit64 + r-cpp11 r-purrr r-r6 r-rlang @@ -18450,14 +19124,14 @@ industry for machine learning tasks.") (define-public r-float (package (name "r-float") - (version "0.2-6") + (version "0.2-6.1") (source (origin (method url-fetch) (uri (cran-uri "float" version)) (sha256 (base32 - "1bx5yxkb123001v31jjk7h7f0qissmjydvbil5cj3jvmqkayq1a1")))) + "07b3zaccrybd1vail8hs4kmcn3djqmr72j63h01rkmij2ry8pv8d")))) (properties `((upstream-name . "float"))) (build-system r-build-system) (native-inputs @@ -18546,14 +19220,14 @@ multicore machines.") (define-public r-mcmcpack (package (name "r-mcmcpack") - (version "1.6-0") + (version "1.6-1") (source (origin (method url-fetch) (uri (cran-uri "MCMCpack" version)) (sha256 (base32 - "16zjx8yz29ii75wfxj3p562l657bng8jnwzp2b54s7fiaws4kfdm")))) + "1skanp6czfk83s13dnjrb699m9z6a0r59q0f79fv0k560jc8vbrj")))) (properties `((upstream-name . "MCMCpack"))) (build-system r-build-system) (propagated-inputs @@ -18688,24 +19362,23 @@ batch correction, and data correction.") (define-public r-styler (package (name "r-styler") - (version "1.6.2") + (version "1.7.0") (source (origin (method url-fetch) (uri (cran-uri "styler" version)) (sha256 (base32 - "0p7p2mh4f469drfn5z4wc4xrg06mpnm9wkw76fghclf8m9vcqbx6")))) + "1ki260ga0jrmayhdlx2sl788yp5kkmi4wyl32nmvvyb55sng6j9y")))) (build-system r-build-system) + ;; This is needed by R.cache. (arguments `(#:phases (modify-phases %standard-phases (add-after 'unpack 'set-HOME (lambda _ (setenv "HOME" "/tmp")))))) (propagated-inputs - (list r-backports - r-cli - r-glue + (list r-cli r-magrittr r-purrr r-r-cache @@ -18713,8 +19386,7 @@ batch correction, and data correction.") r-rlang r-rprojroot r-tibble - r-withr - r-xfun)) + r-withr)) (native-inputs (list r-knitr)) (home-page "https://github.com/r-lib/styler") @@ -19008,14 +19680,14 @@ been used in the call to @code{aov}.") (define-public r-dalex (package (name "r-dalex") - (version "2.3.0") + (version "2.4.0") (source (origin (method url-fetch) (uri (cran-uri "DALEX" version)) (sha256 (base32 - "0x8rcl3p1h1dpzgsfnalfjhvv345gg5v0z8dxqwrk6i32xk5wmzb")))) + "1s7r7k5ihdbj69r27vbcs3ghra9s4yqw7cyh2rkm2ry901zq3114")))) (properties `((upstream-name . "DALEX"))) (build-system r-build-system) (propagated-inputs @@ -19179,14 +19851,14 @@ the current document.") (define-public r-xgboost (package (name "r-xgboost") - (version "1.5.0.2") + (version "1.5.2.1") (source (origin (method url-fetch) (uri (cran-uri "xgboost" version)) (sha256 (base32 - "04xbgrrb3aq067hrivslq5f2rd1v95yfv7lkj596ijyqi6ibjl27")))) + "13mi3rmpxhgm4qbm4xcqml9n5d1xyai2k1mi52i8x60jd5m8s319")))) (build-system r-build-system) (propagated-inputs (list r-data-table r-jsonlite r-matrix)) @@ -19594,20 +20266,20 @@ both R code and compiled C/C++/FORTRAN code.") (define-public r-systemfonts (package (name "r-systemfonts") - (version "1.0.3") + (version "1.0.4") (source (origin (method url-fetch) (uri (cran-uri "systemfonts" version)) (sha256 (base32 - "1fmv1ni77ncz6rrm4iv8a7l6pbqnk2ri0yzad2bs943gxbarjz34")))) + "1h44bal845jp7ya8i7ff1kz1n3wklkb00jk6hb9lgwa2p5snqxpg")))) (properties `((upstream-name . "systemfonts"))) (build-system r-build-system) (propagated-inputs (list r-cpp11)) (inputs - (list fontconfig zlib)) + (list fontconfig freetype zlib)) (native-inputs (list pkg-config r-knitr)) (home-page "https://github.com/r-lib/systemfonts") @@ -19648,14 +20320,14 @@ emphasize hidden group structures in networks or focus on specific nodes.") (define-public r-terra (package (name "r-terra") - (version "1.5-12") + (version "1.5-21") (source (origin (method url-fetch) (uri (cran-uri "terra" version)) (sha256 (base32 - "06fcjyzllw6dnzq0a7dc73v7rlpf250dyw41q0vr08y3x17c2p46")))) + "0gzl0ka19jjw0dmaghjk2sgwi78kkz4w3rlfkym62rdarhlfj7h9")))) (properties `((upstream-name . "terra"))) (build-system r-build-system) (inputs @@ -19768,14 +20440,14 @@ in pipelines.") (define-public r-parameters (package (name "r-parameters") - (version "0.16.0") + (version "0.17.0") (source (origin (method url-fetch) (uri (cran-uri "parameters" version)) (sha256 (base32 - "1i295d5nqjr3pvp9vz59wiasrxy9n78q518phcd15sxcjzcj0l27")))) + "0wrhs3rhr62441cghg4nsrlp6r41nf7x5nclzz71v5c0rfn8jh79")))) (properties `((upstream-name . "parameters"))) (build-system r-build-system) (propagated-inputs @@ -19985,12 +20657,12 @@ to ODEs by numerical differencing.") (define-public r-pracma (package (name "r-pracma") - (version "2.3.6") + (version "2.3.8") (source (origin (method url-fetch) (uri (cran-uri "pracma" version)) (sha256 - (base32 "1pmqk7b6c600v6pn0s047p3msl13azwk611zvh05w5f993yq7b0p")))) + (base32 "0r17siivm37k4gp253v9mlg5m7cwqp85h9kk2hbp2wkf81ad80i3")))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/pracma/") (synopsis "Practical numerical math functions") @@ -20046,14 +20718,14 @@ as a boxplot function.") (define-public r-bio3d (package (name "r-bio3d") - (version "2.4-2") + (version "2.4-3") (source (origin (method url-fetch) (uri (cran-uri "bio3d" version)) (sha256 (base32 - "1jvcmpzi9knhxq5jsbhg8slm8hnlx2y8smmwwrbnbyd0rmk5fhci")))) + "0x3apqxbk4lvvcnvvdsyjd9f6qh9f9qgml3ih69hl9ikj06iy0y6")))) (properties `((upstream-name . "bio3d"))) (build-system r-build-system) (inputs (list zlib)) @@ -20422,14 +21094,14 @@ server-side.") (define-public r-sysfonts (package (name "r-sysfonts") - (version "0.8.5") + (version "0.8.8") (source (origin (method url-fetch) (uri (cran-uri "sysfonts" version)) (sha256 (base32 - "1fhf0x5sqx3mv72j9d0clkq1qzqiqxbxn1h808f7ccf0mb04v43y")))) + "1fq5dn4l09sgrbznfz9cakf4vgc3761zwicvqaazh0s8mzbaicpn")))) (properties `((upstream-name . "sysfonts"))) (build-system r-build-system) (inputs @@ -20468,14 +21140,14 @@ package.") (define-public r-showtext (package (name "r-showtext") - (version "0.9-4") + (version "0.9-5") (source (origin (method url-fetch) (uri (cran-uri "showtext" version)) (sha256 (base32 - "1gvj32wrs5q31bmg5dy6n85d0igm3jhkldhdv8kscw0pfrk89y36")))) + "1larnqxn9nanbqiadm35ah5hh89xrzm4fdj9pfc93zzzhlfrvhb3")))) (properties `((upstream-name . "showtext"))) (build-system r-build-system) (inputs @@ -20991,14 +21663,14 @@ See e.g. Gentle (2003) @url{doi:10.1007/b97336}.") (define-public r-lhs (package (name "r-lhs") - (version "1.1.3") + (version "1.1.4") (source (origin (method url-fetch) (uri (cran-uri "lhs" version)) (sha256 (base32 - "1l861h76q5w0nbnbybhgg7hiw7fks677jakyd49n1whwvd48sfz4")))) + "1dim6pw2vjvsk269dff5bzpnyh9rp4qa9gj8y61bd31384q5c92c")))) (properties `((upstream-name . "lhs"))) (build-system r-build-system) (propagated-inputs (list r-rcpp)) @@ -21114,14 +21786,14 @@ models.") (define-public r-gamlss (package (name "r-gamlss") - (version "5.3-4") + (version "5.4-1") (source (origin (method url-fetch) (uri (cran-uri "gamlss" version)) (sha256 (base32 - "06mh00jjxnqwknbv777hawjk0zm81ixrp35fg59mrlqz8y3p2w3j")))) + "0fp9bmgykpqd950bk58dk423iy5r1fm3dy2gw0cwwmgivpq2lx0q")))) (properties `((upstream-name . "gamlss"))) (build-system r-build-system) (propagated-inputs @@ -21447,14 +22119,14 @@ transcription, ...") (define-public r-seewave (package (name "r-seewave") - (version "2.1.8") + (version "2.2.0") (source (origin (method url-fetch) (uri (cran-uri "seewave" version)) (sha256 (base32 - "1szcvryvl4kb3av2pcvl14bz6whl7xrq4wb1ck6w7lfc4mrlirhh")))) + "0bi1l47l3846c18k6h2vrv0xp9xh00n544a578jrndahzrj1hfwl")))) (properties `((upstream-name . "seewave"))) (build-system r-build-system) (inputs @@ -22294,14 +22966,14 @@ API; see the package vignette for details.") (define-public r-actuar (package (name "r-actuar") - (version "3.2-0") + (version "3.2-1") (source (origin (method url-fetch) (uri (cran-uri "actuar" version)) (sha256 (base32 - "015brjjgmkwmjajdjdw8gs02jrd96if425pk9a97d499hzsq3xds")))) + "1avqgkls4xvwgfr6j7g2f7p474rlpi82q5aksw8nzf8wcyp7592f")))) (properties `((upstream-name . "actuar"))) (build-system r-build-system) (propagated-inputs (list r-expint)) @@ -22367,14 +23039,14 @@ number embedded in the file rather than the file extension.") (define-public r-imager (package (name "r-imager") - (version "0.42.11") + (version "0.42.13") (source (origin (method url-fetch) (uri (cran-uri "imager" version)) (sha256 (base32 - "1a1jhmgrpv1d0fk14axj88qvxgb25bqnj65d60g1k985ipzvgy27")))) + "0zygnmxwbbmj5i2l2affzdz90xvsa7b5pbkzkhjbm40is69rh2nr")))) (properties `((upstream-name . "imager"))) (build-system r-build-system) (inputs @@ -22427,14 +23099,14 @@ it may be seen by an animal with less acute vision.") (define-public r-caret (package (name "r-caret") - (version "6.0-90") + (version "6.0-91") (source (origin (method url-fetch) (uri (cran-uri "caret" version)) (sha256 (base32 - "1g36m06hp2fxxwv155bwbqlf97xhcia1lmg3axg6d74kgpns8lg8")))) + "1kbx51cf71z2x19a0jflwnhx5jd9wk9q9203kzdxlqw5izdjvmdz")))) (build-system r-build-system) (propagated-inputs (list r-e1071 @@ -22561,6 +23233,58 @@ and multivariate regression), and analysis of variance tolerance intervals. Visualizations are also available for most of these settings.") (license license:gpl2+))) +;; Keep this in sync with the liblantern package. +(define-public r-torch + (package + (name "r-torch") + (version "0.7.2") + (source + (origin + (method url-fetch) + (uri (cran-uri "torch" version)) + (sha256 + (base32 "163pvl3gyz7l2fmqhgg4k6pw4dmvfir71yp9l5ra2k4zc32lz166")))) + (properties `((upstream-name . "torch"))) + (build-system r-build-system) + (arguments + (list + #:phases + #~(modify-phases %standard-phases + (add-after 'install 'link-libraries + (lambda* (#:key inputs #:allow-other-keys) + (let ((deps (string-append #$output "/site-library/torch/deps"))) + (mkdir-p deps) + (symlink + (search-input-file + inputs "/lib/python3.9/site-packages/torch/lib/libtorch.so") + (string-append deps "/libtorch.so")) + (symlink + (search-input-file + inputs "/lib/liblantern.so") + (string-append deps "/liblantern.so")))))))) + (inputs + (list python-pytorch-for-r-torch + liblantern)) + (propagated-inputs + (list r-bit64 + r-callr + r-cli + r-coro + r-ellipsis + r-magrittr + r-r6 + r-rcpp + r-rlang + r-withr)) + (native-inputs (list r-knitr)) + (home-page "https://torch.mlverse.org/docs") + (synopsis "Tensors and neural networks with GPU acceleration") + (description + "This package provides functionality to define and train neural networks +similar to PyTorch but written entirely in R using the libtorch library. It +also supports low-level tensor operations and GPU acceleration.") + (license license:expat))) + (define-public r-additivitytests (package (name "r-additivitytests") @@ -22880,6 +23604,30 @@ finding peaks in spectra, converting humidity measures.") from PLINK results.") (license license:gpl3))) +(define-public r-gghighlight + (package + (name "r-gghighlight") + (version "0.3.2") + (source + (origin + (method url-fetch) + (uri (cran-uri "gghighlight" version)) + (sha256 + (base32 "0bxgn4srxz1qhawqa8ck57p8hg5ikwfa9ll03zmnn8fb19akwm2v")))) + (properties `((upstream-name . "gghighlight"))) + (build-system r-build-system) + (propagated-inputs + (list r-dplyr r-ggplot2 r-ggrepel r-lifecycle r-purrr r-rlang r-tibble)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/yutannihilation/gghighlight/") + (synopsis "Highlight lines and points in ggplot2") + (description "Suppose we have data that has so many series that it is hard +to identify them by their colors as the differences are so subtle. With +gghighlight we can highlight those lines that match certain criteria. The +result is a usual @code{ggplot} object, so it is fully customizable and can be +used with custom themes and facets.") + (license license:expat))) + (define-public r-ggplot-multistats (package (name "r-ggplot-multistats") @@ -23029,14 +23777,14 @@ automatically show a loader when the output is (re)calculating.") (define-public r-rsvg (package (name "r-rsvg") - (version "2.1.2") + (version "2.2.0") (source (origin (method url-fetch) (uri (cran-uri "rsvg" version)) (sha256 (base32 - "10p6aps2rsvhf4xgngl9x20cf2wqbzhlpjds8biyihvj58c1q8nn")))) + "05mvi1ijnxayyj1f4p8nb56pncmm7x0sbq0d87asv7c7kw765n1a")))) (properties `((upstream-name . "rsvg"))) (build-system r-build-system) (inputs @@ -23540,14 +24288,14 @@ Norwegian, Portuguese, Romanian, Russian, Spanish, Swedish and Turkish.") (define-public r-quanteda (package (name "r-quanteda") - (version "3.2.0") + (version "3.2.1") (source (origin (method url-fetch) (uri (cran-uri "quanteda" version)) (sha256 (base32 - "0q72jsc6zalnl35qq02z9niissnyax4zxzqzpfpjsmgmxpd797mw")))) + "102wlx6481fskgdr5wv467n29f666q0qg9kjm0ivqfg9xsbvza12")))) (properties `((upstream-name . "quanteda"))) (build-system r-build-system) (propagated-inputs @@ -23688,14 +24436,14 @@ be constant or piecewise-constant in time.") (define-public r-ltm (package (name "r-ltm") - (version "1.1-1") + (version "1.2-0") (source (origin (method url-fetch) (uri (cran-uri "ltm" version)) (sha256 (base32 - "1qrgzwx5l58qf5rfp1knxc84r0g943q5sdr3ky74zzwpnmrf2vf7")))) + "0vhgbk6j0z3limsrbjkjkpfn2whiaij5j4jf1gg66mjs9dlylap1")))) (properties `((upstream-name . "ltm"))) (build-system r-build-system) (propagated-inputs @@ -23804,14 +24552,14 @@ package by providing: (define-public r-sem (package (name "r-sem") - (version "3.1-13") + (version "3.1-14") (source (origin (method url-fetch) (uri (cran-uri "sem" version)) (sha256 (base32 - "0r9g4j0w6q4qy9jl9gkjkihml4109ymg3y6zmhyg806q19qryx07")))) + "18m54hjl3w57n4ygnkcy80w0dc9dz1zvavjqh9sl6nqs52f9m246")))) (properties `((upstream-name . "sem"))) (build-system r-build-system) (propagated-inputs @@ -23942,14 +24690,14 @@ Complete access to optimized C functions is made available with (define-public r-openmx (package (name "r-openmx") - (version "2.20.0") + (version "2.20.6") (source (origin (method url-fetch) (uri (cran-uri "OpenMx" version)) (sha256 (base32 - "1flkm5nsvdnqhjayzajv80lsvjbh21v4zbm7ak09051x0giv3shj")))) + "1v969100hllh0lwlxd2gv0k7krrsp9gc07iinx0nn04wkzh0rib5")))) (properties `((upstream-name . "OpenMx"))) (build-system r-build-system) (propagated-inputs @@ -24002,14 +24750,14 @@ importation and recoding.") (define-public r-rockchalk (package (name "r-rockchalk") - (version "1.8.144") + (version "1.8.151") (source (origin (method url-fetch) (uri (cran-uri "rockchalk" version)) (sha256 (base32 - "07dp1n155b9gfvk8l30h6bhjbhbylsjxfzns08mryn4mxj3nqpnb")))) + "17mfaxn3gj0vac5wdmsjj2z2668cszbpvan7hnxp7ic9bvsm1w2y")))) (properties `((upstream-name . "rockchalk"))) (build-system r-build-system) (propagated-inputs @@ -24095,14 +24843,14 @@ network, tree, dendrogram, and Sankey graphs from R using data frames.") (define-public r-qgraph (package (name "r-qgraph") - (version "1.9") + (version "1.9.2") (source (origin (method url-fetch) (uri (cran-uri "qgraph" version)) (sha256 (base32 - "1ahhzp64jdgki5p2wga5mn8a2n1x2zldgpilrpf7hy5l9nf4imz1")))) + "0r225b7rnsv6wz41ij0msmqr1xy0iqxh9dbsvjixbi1hvgv91wds")))) (properties `((upstream-name . "qgraph"))) (build-system r-build-system) (propagated-inputs @@ -24137,14 +24885,14 @@ model estimation. See Epskamp et al. (2012) (define-public r-semplot (package (name "r-semplot") - (version "1.1.2") + (version "1.1.5") (source (origin (method url-fetch) (uri (cran-uri "semPlot" version)) (sha256 (base32 - "0l1v9yi1pv59iwfknw4dh9qskk5y8r347jq1vq13gnfd3bmd71xr")))) + "0d7v9yqc9nhx3hdrp444w1ah66zai3lg5y778m85r7ngh1prxlvc")))) (properties `((upstream-name . "semPlot"))) (build-system r-build-system) (propagated-inputs @@ -24156,7 +24904,6 @@ model estimation. See Epskamp et al. (2012) r-openmx r-plyr r-qgraph - r-regsem r-rockchalk r-sem r-xml)) @@ -24456,14 +25203,14 @@ series/point highlighting.") (define-public r-shinystan (package (name "r-shinystan") - (version "2.5.0") + (version "2.6.0") (source (origin (method url-fetch) (uri (cran-uri "shinystan" version)) (sha256 (base32 - "18alf5kiqw7y2l6m5nxxizwc2znsf9frxfsqhvgcad8hld9cbya5")))) + "0afm703zriyqprz1zvypir80lq2ylfff3qvj5i7p9n365mm8b150")))) (properties `((upstream-name . "shinystan"))) (build-system r-build-system) (propagated-inputs @@ -24476,7 +25223,6 @@ series/point highlighting.") r-gtools r-markdown r-reshape2 - r-rsconnect r-rstan r-shiny r-shinyjs @@ -24990,13 +25736,13 @@ appropriate dog and cat images for many status codes.") (define-public r-latex2exp (package (name "r-latex2exp") - (version "0.5.0") + (version "0.9.4") (source (origin (method url-fetch) (uri (cran-uri "latex2exp" version)) (sha256 (base32 - "0qknpw7zwwbzsbry94j8fn48mq7kq5rc5448g9hybbisain3wfvg")))) + "0zbbrbgg524lpm733j8qsqk5ssg75c51s6dgzb18c6fk8byrx945")))) (build-system r-build-system) (propagated-inputs (list r-stringr r-magrittr)) @@ -25594,14 +26340,14 @@ including means, variances, intervals, and highest density regions.") (define-public r-posterior (package (name "r-posterior") - (version "1.2.0") + (version "1.2.1") (source (origin (method url-fetch) (uri (cran-uri "posterior" version)) (sha256 (base32 - "11j3jgk8mykicqi77a6frn0gck7fx0i6sl6g774sqj44m48ig81b")))) + "1qdg22l868daqg2axr36szl1m9z0rfpgx8zmv1x1xwm1hmlf0mxp")))) (properties `((upstream-name . "posterior"))) (build-system r-build-system) (propagated-inputs @@ -25891,14 +26637,14 @@ counting and recursive k-means partitioning.") (define-public r-hardhat (package (name "r-hardhat") - (version "0.1.6") + (version "0.2.0") (source (origin (method url-fetch) (uri (cran-uri "hardhat" version)) (sha256 (base32 - "07mx8c24gy0xfmip9hb5w29gp10sfnpnilzc1pi0hjadnrqz8mks")))) + "0a4nq93cmps5xy8h0qsv6xyzrbsz9ka4iwkrvb8m8v10wq7wm5wl")))) (properties `((upstream-name . "hardhat"))) (build-system r-build-system) (propagated-inputs @@ -26134,18 +26880,18 @@ you can automate browsers locally or remotely.") (define-public r-conquer (package (name "r-conquer") - (version "1.2.1") + (version "1.2.2") (source (origin (method url-fetch) (uri (cran-uri "conquer" version)) (sha256 (base32 - "0i9g27f52zl2kb2392g0y614drf6s87dqz12aphj889ajq7zjm0k")))) + "1z07p4xcrxvnicwgga7hqvqzcxavwirw828285i0xlnz54rqhsc8")))) (properties `((upstream-name . "conquer"))) (build-system r-build-system) (propagated-inputs - (list r-caret r-matrix r-matrixstats r-rcpp r-rcpparmadillo)) + (list r-matrix r-matrixstats r-rcpp r-rcpparmadillo)) (home-page "https://github.com/XiaoouPan/conquer") (synopsis "Convolution-type smoothed quantile regression") (description @@ -26388,14 +27134,14 @@ package.") (define-public r-spatstat-geom (package (name "r-spatstat-geom") - (version "2.3-1") + (version "2.3-2") (source (origin (method url-fetch) (uri (cran-uri "spatstat.geom" version)) (sha256 (base32 - "1h3ja45in7hnar2gwqp18jkz4rcqi99gllar6jqzlsvdbb85hgpj")))) + "0aihimb4r6hmk3g7764d3b43a0znf9bzmc96i1lkqq9hwabj7151")))) (properties `((upstream-name . "spatstat.geom"))) (build-system r-build-system) (propagated-inputs @@ -26411,14 +27157,14 @@ for the geometry of linear networks.") (define-public r-spatstat-core (package (name "r-spatstat-core") - (version "2.3-2") + (version "2.4-0") (source (origin (method url-fetch) (uri (cran-uri "spatstat.core" version)) (sha256 (base32 - "0g7nj8nf9ywhdbc5irxlry6kzq6bwwbkk9cp22kyv1wigycnskbz")))) + "1dx6fh6l3bqxqfaczm9gxx1sirmdpx8biag462pj9wjqmw9m4j35")))) (properties `((upstream-name . "spatstat.core"))) (build-system r-build-system) (propagated-inputs @@ -26430,6 +27176,7 @@ for the geometry of linear networks.") r-rpart r-spatstat-data r-spatstat-geom + r-spatstat-random r-spatstat-sparse r-spatstat-utils r-tensor)) @@ -26443,14 +27190,14 @@ user-level code from spatstat, except for the code for linear networks.") (define-public r-spatstat-linnet (package (name "r-spatstat-linnet") - (version "2.3-1") + (version "2.3-2") (source (origin (method url-fetch) (uri (cran-uri "spatstat.linnet" version)) (sha256 (base32 - "1hrqa2i6mp7d79jw4h56b8hk9590959s79vh9xcsj6k5vbisd6qi")))) + "0y1py6x0xbw4ad3pjwcspi4ysgfh61f5fd79787zzgyyh2va8y4w")))) (properties `((upstream-name . "spatstat.linnet"))) (build-system r-build-system) @@ -26459,6 +27206,7 @@ user-level code from spatstat, except for the code for linear networks.") r-spatstat-core r-spatstat-data r-spatstat-geom + r-spatstat-random r-spatstat-sparse r-spatstat-utils)) (home-page "http://spatstat.org/") @@ -26468,22 +27216,50 @@ user-level code from spatstat, except for the code for linear networks.") for spatial data on a linear network.") (license license:gpl2+))) +(define-public r-spatstat-random + (package + (name "r-spatstat-random") + (version "2.1-0") + (source + (origin + (method url-fetch) + (uri (cran-uri "spatstat.random" version)) + (sha256 + (base32 "0ggzl64iqf7b6n81ga66wb01sm4rmzrbimv2pmgy047mjnqsnpq4")))) + (properties `((upstream-name . "spatstat.random"))) + (build-system r-build-system) + (propagated-inputs (list r-spatstat-data r-spatstat-geom r-spatstat-utils)) + (home-page "http://spatstat.org/") + (synopsis "Random Generation Functionality for the 'spatstat' Family") + (description + "This package provides functionality for random generation of spatial +data in the spatstat family of packages. It generates random spatial patterns +of points according to many simple rules (complete spatial randomness, +Poisson, binomial, random grid, systematic, cell), randomised alteration of +patterns (thinning, random shift, jittering), simulated realisations of random +point processes (simple sequential inhibition, Matern inhibition models, +Matern cluster process, Neyman-Scott cluster processes, log-Gaussian Cox +processes, product shot noise cluster processes) and simulation of Gibbs point +processes (Metropolis-Hastings birth-death-shift algorithm, alternating Gibbs +sampler).") + (license license:gpl2+))) + (define-public r-spatstat (package (name "r-spatstat") - (version "2.3-0") + (version "2.3-3") (source (origin (method url-fetch) (uri (cran-uri "spatstat" version)) (sha256 (base32 - "01jckks3j39854mhsarzyzn4rj82h1xrnyd2b6fyzizj48vl80ns")))) + "0skk377fw448gvdk6jkcviqbqdjn2vdz19vfk8aiilxax4xba1hr")))) (properties `((upstream-name . "spatstat"))) (build-system r-build-system) (propagated-inputs (list r-spatstat-core r-spatstat-data r-spatstat-geom - r-spatstat-linnet r-spatstat-utils)) + r-spatstat-linnet r-spatstat-random r-spatstat-utils)) (home-page "http://www.spatstat.org") (synopsis "Spatial Point Pattern analysis, model-fitting, simulation, tests") (description @@ -26599,14 +27375,14 @@ aggregation for comparing different implementations in order to provide a (define-public r-rfast (package (name "r-rfast") - (version "2.0.4") + (version "2.0.6") (source (origin (method url-fetch) (uri (cran-uri "Rfast" version)) (sha256 (base32 - "1n9imwkkq14ickp0g34jyha4jkr180xj0ar8xh3hqqi4dvihg6cm")))) + "0zxykq021h57mq0n6giqbx8ncjsdly0arhmaj3fcp3yfcxf4ns9l")))) (properties `((upstream-name . "Rfast"))) (build-system r-build-system) (propagated-inputs @@ -26647,14 +27423,14 @@ model.") (define-public r-clusterr (package (name "r-clusterr") - (version "1.2.5") + (version "1.2.6") (source (origin (method url-fetch) (uri (cran-uri "ClusterR" version)) (sha256 (base32 - "1fsb9pzs1paw1cbyr5a56lfh8h2d50232p6isk0xg5sl110ql7kx")))) + "00mha8madcba83ix4fc04rb7sagfm0lxlh1wvs7dvjdrngps41jr")))) (properties `((upstream-name . "ClusterR"))) (build-system r-build-system) (propagated-inputs @@ -27479,20 +28255,22 @@ Design} (SFD) and to test their quality.") (define-public r-dials (package (name "r-dials") - (version "0.0.10") + (version "0.1.0") (source (origin (method url-fetch) (uri (cran-uri "dials" version)) (sha256 (base32 - "1vhqcfwgic01pkw0i3000fvqq9yxfzsv26c0psfjhxkkdcz8h2px")))) + "02i9ddzi7gk5bwg87x8bpazk89mn102awgxzp9yw85dgbafqsydh")))) (properties `((upstream-name . "dials"))) (build-system r-build-system) (propagated-inputs (list r-dicedesign r-dplyr r-glue + r-hardhat + r-lifecycle r-purrr r-rlang r-scales @@ -27791,19 +28569,21 @@ analysis using @code{dplyr}, @code{ggplot2}, and other Tidy tools.") (define-public r-parsnip (package (name "r-parsnip") - (version "0.1.7") + (version "0.2.0") (source (origin (method url-fetch) (uri (cran-uri "parsnip" version)) (sha256 (base32 - "12chngdzplwkk1c9k8y7cwaqlyy72yamlknp7ksg7g9p3b58f1fb")))) + "0g213c91lzwq9hd22yxkj3igqw04czncnbc4jddnpghp4gpfn1kn")))) (properties `((upstream-name . "parsnip"))) (build-system r-build-system) (propagated-inputs - (list r-dplyr + (list r-cli + r-dplyr r-generics + r-ggplot2 r-globals r-glue r-hardhat @@ -27814,7 +28594,8 @@ analysis using @code{dplyr}, @code{ggplot2}, and other Tidy tools.") r-rlang r-tibble r-tidyr - r-vctrs)) + r-vctrs + r-withr)) (native-inputs (list r-knitr)) (home-page "https://parsnip.tidymodels.org") @@ -28149,14 +28930,14 @@ designs. Broman et al. (2018) <doi:10.1534/genetics.118.301595>.") (define-public r-seqminer (package (name "r-seqminer") - (version "8.2") + (version "8.4") (source (origin (method url-fetch) (uri (cran-uri "seqminer" version)) (sha256 (base32 - "097313x72jr2q6dp8ma33w8kyp3gfw71snf1qx2maxbwwnysk085")))) + "1mbx1hw9dhgry7hhan43g6aiz2lyd5api7wxq3fwajyzjrc6p1g8")))) (build-system r-build-system) (inputs (list zlib)) @@ -28199,14 +28980,14 @@ as allowing spectra with different resolutions.") (define-public r-scattermore (package (name "r-scattermore") - (version "0.7") + (version "0.8") (source (origin (method url-fetch) (uri (cran-uri "scattermore" version)) (sha256 (base32 - "18nzlprmphkvjg946h10h2qq0wbkmv2526p8di6k2xl4gccq0qpk")))) + "1rgqm7r1k7j3h2y4i6d1a2y8fzivfcbmr7dj9d367c0w4vc77pfv")))) (properties `((upstream-name . "scattermore"))) (build-system r-build-system) (propagated-inputs @@ -28449,14 +29230,14 @@ rate speciation and extinction.") (define-public r-calculus (package (name "r-calculus") - (version "0.3.2") + (version "0.3.3") (source (origin (method url-fetch) (uri (cran-uri "calculus" version)) (sha256 (base32 - "1x3bcdd422wqv9gk9r2m8g19qcga220sm5rxdp4bgfc6vlqzzz7y")))) + "1fhvr0l2mqik3d95v0vanafxmiab147g5a87q956g2i945wc5f22")))) (properties `((upstream-name . "calculus"))) (build-system r-build-system) (propagated-inputs @@ -28798,13 +29579,13 @@ performing ordinal regression.") (define-public r-paradox (package (name "r-paradox") - (version "0.7.1") + (version "0.8.0") (source (origin (method url-fetch) (uri (cran-uri "paradox" version)) (sha256 (base32 - "1difp0bzsfxcmbm1snahh3i6417k1a2w4mnjx65p20n2yiclmrgs")))) + "1jfzbpqi1rp3r8hnk37dqwggp48ha5bnilmdz7dwzfdaskssycxa")))) (build-system r-build-system) (propagated-inputs (list r-backports r-checkmate r-data-table r-mlr3misc r-r6)) @@ -28819,19 +29600,20 @@ implemented as @code{R6} classes.") (define-public r-mlr3 (package (name "r-mlr3") - (version "0.13.1") + (version "0.13.3") (source (origin (method url-fetch) (uri (cran-uri "mlr3" version)) (sha256 (base32 - "052685d08cfsrh3r31yn05ngwi6z3fmz26gwiy32z7cpcigz8jjs")))) + "010kl51zsgpc0qv63g1fg9kiw9m0wzqskcr14f1j8b9zi1lwi0bf")))) (build-system r-build-system) (propagated-inputs (list r-r6 r-backports r-checkmate r-data-table + r-evaluate r-future r-future-apply r-lgr @@ -28855,13 +29637,13 @@ computational operations, add-on packages provide additional functionality.") (define-public r-mlr3learners (package (name "r-mlr3learners") - (version "0.5.1") + (version "0.5.2") (source (origin (method url-fetch) (uri (cran-uri "mlr3learners" version)) (sha256 (base32 - "1yc3mrk1b9h1k342wnw7sm4zmcw7w31l5ybh558g88f5hmibdl98")))) + "1d9hcrnj622ynrzg0ii0fkhz2n66ip46yln21jq1pwpwkqwqzv35")))) (build-system r-build-system) (propagated-inputs (list r-checkmate @@ -28882,14 +29664,14 @@ vector machines, and gradient boosting.") (define-public r-bbotk (package (name "r-bbotk") - (version "0.5.0") + (version "0.5.1") (source (origin (method url-fetch) (uri (cran-uri "bbotk" version)) (sha256 (base32 - "15y1w3mi1g91p73786ql1mmqld011757vax17i1vq7zw1s51yzxz")))) + "1171vcs96j8f4n0rjsbbiscs4nxgd4209lr9biy99lvhjvjdsfsm")))) (properties `((upstream-name . "bbotk"))) (build-system r-build-system) (propagated-inputs @@ -28912,13 +29694,13 @@ annealing.") (define-public r-mlr3tuning (package (name "r-mlr3tuning") - (version "0.10.0") + (version "0.12.1") (source (origin (method url-fetch) (uri (cran-uri "mlr3tuning" version)) (sha256 (base32 - "0cqbqp53053v7lvi9ynpr860n8fm9w9842hai5z6xvmgzqdmjiyp")))) + "0qly6bsfazqcf0a7c2a6k3wghczm8v1fxw9pxa76gpw51x2j2ld0")))) (build-system r-build-system) (propagated-inputs (list r-bbotk @@ -29204,14 +29986,14 @@ the font tool-set provided by the @code{systemfonts} package.") (define-public r-ragg (package (name "r-ragg") - (version "1.2.1") + (version "1.2.2") (source (origin (method url-fetch) (uri (cran-uri "ragg" version)) (sha256 (base32 - "08dknkibmmwllycga2cp2732idsi3jfkkl5ghh6r2g2wdli1n2y1")))) + "1q43pwmljsqgrikkh2g1n7bpz9c8py5dnj44cfg3y2br7b4m2q9v")))) (properties `((upstream-name . "ragg"))) (build-system r-build-system) (inputs @@ -29720,30 +30502,26 @@ data you need the @code{pdftools} package.") (define-public r-pdftools (package (name "r-pdftools") - (version "3.0.1") + (version "3.1.1") (source - (origin - (method url-fetch) - (uri (cran-uri "pdftools" version)) - (sha256 - (base32 - "1dcbs5n5y8zi7bbyx491m9ik8kkmjr301x8ms85fmwdfb5a97m8k")))) + (origin + (method url-fetch) + (uri (cran-uri "pdftools" version)) + (sha256 + (base32 + "1lflqf2ypdm4w033vyjykmsy8cl34sp42fzkfgfdhvl2d0xjhl96")))) (properties `((upstream-name . "pdftools"))) (build-system r-build-system) - (inputs - (list zlib poppler)) - (propagated-inputs - (list r-qpdf r-rcpp)) + (inputs (list zlib poppler)) + (propagated-inputs (list r-qpdf r-rcpp)) (native-inputs (list pkg-config)) - (home-page - "https://docs.ropensci.org/pdftools/") - (synopsis - "Text Extraction, Rendering and Converting of PDF Documents") + (home-page "https://docs.ropensci.org/pdftools/") + (synopsis "Text Extraction, Rendering and Converting of PDF Documents") (description - "Utilities based on @code{libpoppler} for extracting text, fonts, -attachments and metadata from a PDF file. Also supports high quality rendering -of PDF documents into PNG, JPEG, TIFF format, or into raw bitmap vectors for -further processing in R.") + "This package provides utilities based on @code{libpoppler} for +extracting text, fonts, attachments and metadata from a PDF file. It also +supports high quality rendering of PDF documents into PNG, JPEG, TIFF format, +or into raw bitmap vectors for further processing in R.") (license license:expat))) (define-public r-antiword @@ -30498,13 +31276,13 @@ reading and writing arbitrary protocol-buffer data in R.") (define-public r-opencpu (package (name "r-opencpu") - (version "2.2.6") + (version "2.2.7") (source (origin (method url-fetch) (uri (cran-uri "opencpu" version)) (sha256 - (base32 "0cmjfhkbk4im3x8aas0q5pivlsxgqixf4f3jiindchki7g9nsw91")))) + (base32 "06jpmk95hm39ib5c75xw0mdrdv9x9zz1qil3m8ysb6pp1xx47jz0")))) (properties `((upstream-name . "opencpu"))) (build-system r-build-system) (inputs @@ -30615,14 +31393,14 @@ package.") (define-public r-qs (package (name "r-qs") - (version "0.25.2") + (version "0.25.3") (source (origin (method url-fetch) (uri (cran-uri "qs" version)) (sha256 (base32 - "1gswppmw8rhd7h50hffhss4c4niz0x54r9sc8pgqzy26vkjqlhpy")))) + "0sxy497v5arjv6lwxng7chkbzrn703waqmgsxv77i7y12ahzdbai")))) (properties `((upstream-name . "qs"))) (build-system r-build-system) (inputs (list zlib)) @@ -30721,14 +31499,14 @@ Tensorflow graphs.") (define-public r-tensorflow (package (name "r-tensorflow") - (version "2.7.0") + (version "2.8.0") (source (origin (method url-fetch) (uri (cran-uri "tensorflow" version)) (sha256 (base32 - "0xgm8jb1hl8564vviqys3aqwzvfbh0d43m154cj07j9spdz306ng")))) + "19ayjvlxmgjais0kx6fj9an1h1i8mh4c9dhah7dj6390p53pgz93")))) (properties `((upstream-name . "tensorflow"))) (build-system r-build-system) (inputs (list tensorflow)) @@ -30752,14 +31530,14 @@ between them.") (define-public r-keras (package (name "r-keras") - (version "2.7.0") + (version "2.8.0") (source (origin (method url-fetch) (uri (cran-uri "keras" version)) (sha256 (base32 - "004z9aajc0b7lw7g68ri7ndabdwbylmnlyvmziljmm29z6fzk8y5")))) + "10zvy4lmhb2sbn0gsm12pf95pxj9bmi8241ap1n6170xsld9phcf")))) (properties `((upstream-name . "keras"))) (build-system r-build-system) (propagated-inputs @@ -31024,14 +31802,14 @@ fully reproducible.") (define-public r-paws-common (package (name "r-paws-common") - (version "0.3.15") + (version "0.3.16") (source (origin (method url-fetch) (uri (cran-uri "paws.common" version)) (sha256 (base32 - "0kj5b4253j4rljkj0ibh21kh9r1yq9idz9vf1f4ag775ivsc2dk5")))) + "0mdbnbjprghiwz4i9abh62l5q6mncz3iq76wxvj7ncinf89kd83w")))) (properties `((upstream-name . "paws.common"))) (build-system r-build-system) (propagated-inputs @@ -31474,14 +32252,14 @@ internally managed by a zoolog thesaurus.") (define-public r-filehash (package (name "r-filehash") - (version "2.4-2") + (version "2.4-3") (source (origin (method url-fetch) (uri (cran-uri "filehash" version)) (sha256 (base32 - "14zv7h5195dmfksgk8qvjgc2qq8253vga6267aa1bqs5bpvmdl5n")))) + "1ga17smgjd4qsnf5a7qk0giwhpc5969ylqj520favs1k6b4y557k")))) (properties `((upstream-name . "filehash"))) (build-system r-build-system) (home-page "http://github.com/rdpeng/filehash") @@ -31659,6 +32437,26 @@ least four days in the calendar year. This package provides functionality to convert dates to MMWR day, week, and year and the reverse.") (license license:gpl2+))) +(define-public r-cccd + (package + (name "r-cccd") + (version "1.5") + (source + (origin + (method url-fetch) + (uri (cran-uri "cccd" version)) + (sha256 + (base32 "0m364zsrgr7mh1yhl2lqxpaf71gzq3y3pp9qgnj4spiy4iadyy7i")))) + (properties `((upstream-name . "cccd"))) + (build-system r-build-system) + (propagated-inputs (list r-deldir r-fnn r-igraph r-proxy)) + (home-page "https://cran.r-project.org/package=cccd") + (synopsis "Class cover catch digraphs") + (description + "This package provides tools to create Class Cover Catch Digraphs, +neighborhood graphs, and relatives.") + (license license:gpl2+))) + (define-public r-crul (package (name "r-crul") @@ -31852,17 +32650,112 @@ query parameters, request body, headers and more. It can be used for unit tests or outside of a testing context.") (license license:expat))) +(define-public r-iotools + (package + (name "r-iotools") + (version "0.3-2") + (source + (origin + (method url-fetch) + (uri (cran-uri "iotools" version)) + (sha256 + (base32 "07q0z0kszm1xx5hfhisfliyrcsxd8dc5mx0a2bwwnv5l1xzmix17")))) + (properties `((upstream-name . "iotools"))) + (build-system r-build-system) + (home-page "https://www.rforge.net/iotools") + (synopsis "I/O tools for streaming") + (description "This package provides basic I/O tools for streaming and data +parsing.") + ;; GPL 2 or GPL 3. + (license license:gpl3))) + +(define-public r-wordspace + (package + (name "r-wordspace") + (version "0.2-7") + (source + (origin + (method url-fetch) + (uri (cran-uri "wordspace" version)) + (sha256 + (base32 "0hrjv5mag7gwl4wj7np248sdyns5i623wl37b11hlgalhbmlypyf")))) + (properties `((upstream-name . "wordspace"))) + (build-system r-build-system) + (propagated-inputs + (list r-cluster r-iotools r-mass r-matrix r-rcpp r-sparsesvd)) + (native-inputs (list r-knitr)) + (home-page "https://wordspace.r-forge.r-project.org/") + (synopsis "Distributional semantic models in R") + (description + "The wordspace package turns R into an interactive laboratory for +empirical research on @dfn{distributional semantic models} (DSM). It consists +of a small set of carefully designed functions, most of which + +@itemize +@item encapsulate non-trivial R operations in a user-friendly manner or +@item provide efficient and memory-lean C implementations of key operations. +@end itemize +") + (license license:gpl3))) + +(define-public r-maxlik + (package + (name "r-maxlik") + (version "1.5-2") + (source + (origin + (method url-fetch) + (uri (cran-uri "maxLik" version)) + (sha256 + (base32 "0pdigfpyiqacj2ydhpn5w1h89dz1ydk0syzs25lsgdi40sz0bvkw")))) + (properties `((upstream-name . "maxLik"))) + (build-system r-build-system) + (propagated-inputs (list r-generics r-misctools r-sandwich)) + (home-page "https://cran.r-project.org/package=maxLik") + (synopsis "Maximum Likelihood Estimation and related tools") + (description + "This package provides functions for @dfn{Maximum Likelihood} (ML) estimation, +non-linear optimization, and related tools. It includes a unified way to call +different optimizers, and classes and methods to handle the results from the +Maximum Likelihood viewpoint. It also includes a number of convenience tools +for testing and developing your own models.") + (license license:gpl2+))) + +(define-public r-misctools + (package + (name "r-misctools") + (version "0.6-26") + (source + (origin + (method url-fetch) + (uri (cran-uri "miscTools" version)) + (sha256 + (base32 "16pwfxpyl0zv3hjxx2kjchkg7p6kbj0s2rrpskj7rkhjr9imlg5y")))) + (properties `((upstream-name . "miscTools"))) + (build-system r-build-system) + (propagated-inputs (list r-digest)) + (home-page "http://www.micEcon.org") + (synopsis "Miscellaneous tools and utilities") + (description + "This package provides miscellaneous small tools and utilities. Many of +them facilitate the work with matrices, e.g. inserting rows or columns, +creating symmetric matrices, or checking for semidefiniteness. Other tools +facilitate the work with regression models, e.g. extracting the standard +errors, obtaining the number of (estimated) parameters, or calculating +R-squared values.") + (license license:gpl2+))) + (define-public r-mockery (package (name "r-mockery") - (version "0.4.2") + (version "0.4.3") (source (origin (method url-fetch) (uri (cran-uri "mockery" version)) (sha256 (base32 - "16zayzi2qdmiy513hvlci9f4p8jwry24006yfzrgmrvf6sf293lq")))) + "0sj77m9vgn4bzb8c8nq93xb9lm8ih8rcb7sfccripraibibg3jcz")))) (properties `((upstream-name . "mockery"))) (build-system r-build-system) (propagated-inputs @@ -31989,17 +32882,17 @@ options for aggregating multi-layer rasters.") (define-public r-bien (package (name "r-bien") - (version "1.2.4") + (version "1.2.5") (source (origin (method url-fetch) (uri (cran-uri "BIEN" version)) (sha256 - (base32 "1dagrs54ciagm2mgqrvxl6k2akahr0qk63ifxqnks7iljm0x1gw6")))) + (base32 "0s98n6zbf48vssd3h63k6kashcxv1kawcb026n0ngsfpc5dv6i48")))) (properties `((upstream-name . "BIEN"))) (build-system r-build-system) (native-inputs - (list r-knitr r-testthat)) + (list r-knitr)) (propagated-inputs (list r-ape r-dbi |