diff options
Diffstat (limited to 'gnu/packages/cran.scm')
| -rw-r--r-- | gnu/packages/cran.scm | 467 |
1 files changed, 262 insertions, 205 deletions
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 9547086bf1..85c527dc32 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -171,13 +171,13 @@ kinematics to varying flight conditions.") (define-public r-aod (package (name "r-aod") - (version "1.3.2") + (version "1.3.3") (source (origin (method url-fetch) (uri (cran-uri "aod" version)) (sha256 - (base32 "0p2i536s0aa54rah1l465g77k2ldn6jm6s25y9vc06mk29xvx1cv")))) + (base32 "0zh8sjzbsq3sjzayv8wa0n1vh654g47xkxklgzxcsy3xpy55w95p")))) (properties `((upstream-name . "aod"))) (build-system r-build-system) (home-page "https://cran.r-project.org/package=aod") @@ -571,14 +571,14 @@ etc.") (define-public r-datawizard (package (name "r-datawizard") - (version "0.9.0") + (version "0.9.1") (source (origin (method url-fetch) (uri (cran-uri "datawizard" version)) (sha256 (base32 - "1w1d18ssd6nbwg2r9gs0779wf33vpl8xivlc79ci5mi4db2m7zsd")))) + "0d01akddrbvdf16rvws3fh4pjl64myxn7is4qv2szm7hp6wjb4p5")))) (properties `((upstream-name . "datawizard"))) (build-system r-build-system) (propagated-inputs @@ -1612,14 +1612,14 @@ bioinformaticians to assemble complex plots for publication.") (define-public r-rticles (package (name "r-rticles") - (version "0.25") + (version "0.26") (source (origin (method url-fetch) (uri (cran-uri "rticles" version)) (sha256 (base32 - "17nggn3zrbi1nj8g8v0hq3sakjvl742vhljdnxw7h6cx3j7123xg")))) + "0v1sji223iifqmq9hakr1wcgzfca52nvmh3vbi6s6d309qc77vkk")))) (properties `((upstream-name . "rticles"))) (build-system r-build-system) (propagated-inputs @@ -2390,26 +2390,23 @@ scale-sensitive information.") (define-public r-ggvenndiagram (package (name "r-ggvenndiagram") - (version "1.2.3") + (version "1.4.9") (source (origin (method url-fetch) (uri (cran-uri "ggVennDiagram" version)) (sha256 (base32 - "083qr0qd3333qmr42v9k0r0sq5842cca83p87h5gikk8v1vljv7j")))) + "1nf4prkpciy1q1ix7chy0ymk5d3dlxxb53c29pg6yjp3py0hiw2h")))) (properties `((upstream-name . "ggVennDiagram"))) (build-system r-build-system) (propagated-inputs - (list r-dplyr + (list r-aplot + r-dplyr + r-forcats r-ggplot2 - r-magrittr - r-plotly - r-purrr - r-rvenn - r-sf r-tibble - r-yulab-utils)) + r-tidyr)) (native-inputs (list r-knitr)) (home-page "https://github.com/gaospecial/ggVennDiagram") (synopsis "Implementention of the Venn diagram using ggplot2") @@ -4204,6 +4201,29 @@ performance evaluation of BSS algorithms, are given. The package is described in Miettinen, Nordhausen and Taskinen (2017) <doi:10.18637/jss.v076.i02>.") (license license:gpl2+))) +(define-public r-job + (package + (name "r-job") + (version "0.3.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "job" version)) + (sha256 + (base32 "0d7pw3q5lqlgmav1vx63y8l6gdav96656bg378wj001rx5gx052h")))) + (properties `((upstream-name . "job"))) + (build-system r-build-system) + (propagated-inputs (list r-digest r-rstudioapi)) + (home-page "https://cran.r-project.org/package=job") + (synopsis "Run code as an RStudio job") + (description + "Call @code{job::job({<code here>})} to run R code as an RStudio job and +keep your console free in the meantime. This allows for a productive workflow +while testing (multiple) long-running chunks of code. It can also be used to +organize results using the RStudio Jobs GUI or to test code in a clean +environment. Two RStudio Addins can be used to run selected code as a job.") + (license license:expat))) + (define-public r-jsonify (package (name "r-jsonify") @@ -4255,13 +4275,13 @@ in systems and applications.") (define-public r-servr (package (name "r-servr") - (version "0.27") + (version "0.28") (source (origin (method url-fetch) (uri (cran-uri "servr" version)) (sha256 (base32 - "1iaqah3896660d609fb6960x3mg17jak3j5akmmli0z4pdb3rhh1")))) + "10nl6aal2kr0k1j7yfpggcxpjxby6z5hhc6wb4nkqhy2w5qi6g26")))) (build-system r-build-system) (propagated-inputs (list r-httpuv r-jsonlite r-mime r-xfun)) @@ -4670,6 +4690,29 @@ calculations, cut up and filter, change key names and values, perform conditionals and comparisons, and more.") (license license:expat))) +(define-public r-safetensors + (package + (name "r-safetensors") + (version "0.1.2") + (source + (origin + (method url-fetch) + (uri (cran-uri "safetensors" version)) + (sha256 + (base32 "0xvg5y2sd7gzcal0qqgxbx8vcvmy50jm0j2ajr8iw3wyy5qpyvkp")))) + (properties `((upstream-name . "safetensors"))) + (build-system r-build-system) + (propagated-inputs (list r-cli r-jsonlite r-r6 r-rlang)) + (home-page "https://github.com/mlverse/safetensors") + (synopsis "Safetensors file format") + (description + "This package provides a file format for storing tensors that is +secure (doesn't allow for code execution), fast and simple to implement. +@code{safetensors} also enables cross language and cross frameworks +compatibility making it an ideal format for storing machine learning model +weights.") + (license license:expat))) + (define-public r-sass (package (name "r-sass") @@ -4822,7 +4865,7 @@ previewing themes in real time.") (define-public r-shiny (package (name "r-shiny") - (version "1.7.4") + (version "1.8.0") (source (origin (method git-fetch) @@ -4832,7 +4875,7 @@ previewing themes in real time.") (file-name (git-file-name name version)) (sha256 (base32 - "0297sbrc7wfj0qfn63yrgs4xkxaxp95ppipdp9pqjg5qhm9k5wbi")) + "0rfrch2147yhp2vkr3198gn1ww00ckzcw4i6rywfl38c6fdw9vr1")) (snippet '(for-each delete-file '("inst/www/shared/bootstrap/js/bootstrap.min.js" @@ -4851,14 +4894,16 @@ previewing themes in real time.") "inst/www/shared/strftime/strftime-min.js"))))) (build-system r-build-system) (arguments - `(#:modules ((guix build r-build-system) + (list + #:modules '((guix build r-build-system) (guix build minify-build-system) (guix build utils) (ice-9 match)) - #:imported-modules (,@%r-build-system-modules - (guix build minify-build-system)) - #:phases - (modify-phases (@ (guix build r-build-system) %standard-phases) + #:imported-modules + `(,@%r-build-system-modules + (guix build minify-build-system)) + #:phases + '(modify-phases (@ (guix build r-build-system) %standard-phases) (add-after 'unpack 'replace-bundled-minified-JavaScript (lambda* (#:key inputs #:allow-other-keys) (let ((replace-file (lambda (old new) @@ -5628,14 +5673,14 @@ and/or higher-resolution databases.") (define-public r-maps (package (name "r-maps") - (version "3.4.1.1") + (version "3.4.2") (source (origin (method url-fetch) (uri (cran-uri "maps" version)) (sha256 (base32 - "06l58919kgks9adwzgfir44q6gnx46j3c7ah9c6d4dn36xsld7fk")))) + "032b8348k8vjhwj0d58v7akjkvfpvqzfva0nl7acyy8pky47prak")))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/maps") (synopsis "Draw geographical maps") @@ -5693,13 +5738,13 @@ coordinates.") (define-public r-gensa (package (name "r-gensa") - (version "1.1.10.1") + (version "1.1.12") (source (origin (method url-fetch) (uri (cran-uri "GenSA" version)) (sha256 (base32 - "16wla8k6ibxy58hhn7qd02k96lc7j6skaj6g5ap6lqmm854ki4wh")))) + "0m5y0hmhcc40d9a24pz5iqw5diip7sn7bih5s01x5dvqqasnx6vk")))) (properties `((upstream-name . "GenSA"))) (build-system r-build-system) (home-page "https://cran.r-project.org/package=GenSA") @@ -6441,14 +6486,14 @@ where the bound function accepts additional arguments.") (define-public r-bindrcpp (package (name "r-bindrcpp") - (version "0.2.2") + (version "0.2.3") (source (origin (method url-fetch) (uri (cran-uri "bindrcpp" version)) (sha256 (base32 - "0rz4ibjdjsxl99ff3ha79z7cnjmilx4rx58fk9kk7ld9xc4hf4s8")))) + "1yn9is89r76ay314s216whr0igych4r78kjz85amhwgfb9wawbb6")))) (build-system r-build-system) (propagated-inputs (list r-bindr r-plogr r-rcpp)) @@ -7221,20 +7266,24 @@ matrices.") (define-public r-rmpi (package (name "r-rmpi") - (version "0.7-1") + (version "0.7-2") (source (origin (method url-fetch) (uri (cran-uri "Rmpi" version)) (sha256 (base32 - "1h9dvlh9mvbc4lhxbv9c8yak3yrq4p7xym92pk5al5wkx9yy5nhp")))) - (properties `((upstream-name . "Rmpi"))) + "1vrf6bakx9i73sdgggpxzl1lxjn68b8pwvmk69d56lnya2gzm4c5")))) + (properties + `((upstream-name . "Rmpi") + (updater-extra-inputs . ("openmpi")))) (build-system r-build-system) (arguments - `(#:configure-flags '("--configure-args=\"--with-Rmpi-type=OPENMPI\"") - #:phases (modify-phases %standard-phases - (add-before 'install 'mpi-setup - ,%openmpi-setup)))) + (list + #:configure-flags '(list "--configure-args=\"--with-Rmpi-type=OPENMPI\"") + #:phases + #~(modify-phases %standard-phases + (add-before 'install 'mpi-setup + #$%openmpi-setup)))) (inputs (list openmpi)) (native-inputs @@ -7388,6 +7437,10 @@ consistency with the base functions in the evd package is provided, so that user can safely interchange most code.") (license license:gpl3))) +;; This package contains minified JavaScript: jExcel CE Spreadsheet, +;; version 3.9.1. It is not clear how to obtain this particular +;; version as there is no tag for 3.9.1. There only is 3.6.1 and +;; 4.2.0 at https://github.com/jspreadsheet/ce. (define-public r-excelr (package (name "r-excelr") @@ -7403,37 +7456,44 @@ can safely interchange most code.") (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")))))) + (list + #:modules + '((guix build r-build-system) + (guix build minify-build-system) + (guix build utils)) + #:imported-modules + `(,@%r-build-system-modules + (guix build minify-build-system)) + #:phases + #~(modify-phases (@ (guix build r-build-system) %standard-phases) + (add-after 'unpack 'process-javascript + (lambda* (#:key inputs #:allow-other-keys) + (with-directory-excursion "inst/htmlwidgets/lib/jexcel/js" + (minify (search-input-file inputs "/dist/jexcel.js") + #:target "jexcel.min.js"))))))) (propagated-inputs (list r-htmlwidgets r-jsonlite)) + (native-inputs + (list 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. + (let* ((commit "8af1960f76e6803bebc5750013d2ebe95354e88a") + (version (git-version "3.9.1" "0" commit))) + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/jspreadsheet/ce") + (commit commit))) + (file-name (git-file-name "jexcel" version)) + (sha256 + (base32 + "1zk0wc4h0vax7zgimhwqq2icrvjr84agm3qv42l16gim7gq7fqfq")))))) (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.") + "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 @@ -7504,6 +7564,32 @@ experiments\" (2011), Annals of Applied Statistics, Vol. 5, No. 3, 1752-1779, by Li, Brown, Huang, and Bickel") (license license:gpl2+))) +(define-public r-inext + (package + (name "r-inext") + (version "3.0.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "iNEXT" version)) + (sha256 + (base32 "1yfvadvdwgby047svj9sjwkm7hhrni2ifn6d2g5bv9djcvi22msh")))) + (properties `((upstream-name . "iNEXT"))) + (build-system r-build-system) + (propagated-inputs (list r-ggplot2 r-rcpp r-reshape2)) + (native-inputs (list r-knitr)) + (home-page "http://chao.stat.nthu.edu.tw/wordpress/software_download/") + (synopsis "Interpolation and extrapolation for species diversity") + (description + "This package provides simple functions to compute and plot two types +(sample-size- and coverage-based) rarefaction and extrapolation curves for +species diversity (Hill numbers) based on individual-based abundance data or +sampling-unit- based incidence data; see Chao and others (2014, Ecological +Monographs) for pertinent theory and methodologies, and Hsieh, Ma and Chao +(2016, Methods in Ecology and Evolution) for an introduction of the R +package.") + (license license:gpl3+))) + (define-public r-inline (package (name "r-inline") @@ -7693,14 +7779,16 @@ functions from LINPACK.") (define-public r-littler (package (name "r-littler") - (version "0.3.18") + (version "0.3.19") (source (origin (method url-fetch) (uri (cran-uri "littler" version)) (sha256 (base32 - "1lp6a62g3yhzr4pv9kynibv7k9pd546w6hifs1aficyxbyg4dgqq")))) - (properties `((upstream-name . "littler"))) + "02b5lfdhajngs2l0fgy47zn7zn68qbx6m41cs5yzzi80qdfapkz1")))) + (properties + `((upstream-name . "littler") + (updater-extra-inputs . ("icu4c" "zlib")))) (build-system r-build-system) (arguments (list @@ -7712,7 +7800,7 @@ functions from LINPACK.") (string-append #$output "/bin"))))))) (inputs (list icu4c zlib)) (native-inputs - (list r-simplermarkdown pkg-config)) + (list r-simplermarkdown)) (home-page "https://github.com/eddelbuettel/littler") (synopsis "R at the command-line via r") (description @@ -8149,14 +8237,14 @@ included in this package.") (define-public r-timedate (package (name "r-timedate") - (version "4022.108") + (version "4032.109") (source (origin (method url-fetch) (uri (cran-uri "timeDate" version)) (sha256 (base32 - "1vyfpz2ac43c0s6a4j4d0xfc430mwgw3syf03xszzggnw97rp555")))) + "0n5rzi3bb1wjpqcgpxcagjy815vy8ksjzpkkjzs3333yljyl2a20")))) (properties `((upstream-name . "timeDate"))) (build-system r-build-system) (home-page "https://www.rmetrics.org") @@ -8482,14 +8570,14 @@ problems as well as resampling based estimators of prediction error.") (define-public r-psych (package (name "r-psych") - (version "2.3.9") + (version "2.3.12") (source (origin (method url-fetch) (uri (cran-uri "psych" version)) (sha256 (base32 - "1c8r42yv7x1vjxz8j2hvkii6jxapffiib2s5vvlsm4hp2qffihh4")))) + "0q8qms180gxk7wlm8li3j5r8rwniqj01xfm00gkvkc8q9djcsm8p")))) (build-system r-build-system) (propagated-inputs (list r-lattice r-mnormt r-nlme)) @@ -8574,14 +8662,14 @@ provides a one-row summary of model-level statistics.") (define-public r-recipes (package (name "r-recipes") - (version "1.0.8") + (version "1.0.9") (source (origin (method url-fetch) (uri (cran-uri "recipes" version)) (sha256 (base32 - "03d0g36svzc64fa2w2kcylsw654px0xjqqrb0znra4bfncj0ilnk")))) + "146p9ij2i4rmzaa5v76lm7z8iaw5wqb47i9cqf4a0q7xsgqvf6hi")))) (build-system r-build-system) (propagated-inputs (list r-cli @@ -8884,14 +8972,14 @@ of the text. All return names of the encodings are iconv-compatible.") (define-public r-ucminf (package (name "r-ucminf") - (version "1.2.0") + (version "1.2.1") (source (origin (method url-fetch) (uri (cran-uri "ucminf" version)) (sha256 (base32 - "1x3d3l500kyqamzfjpz4qc38d6d3sha9av3rpxz0m4dhms28zpas")))) + "10ycpzxx73div9vpzmkhy524yd47kzmpl7ajpm248clsv6ivngpd")))) (build-system r-build-system) (native-inputs (list gfortran)) (home-page "https://cran.r-project.org/web/packages/ucminf/") @@ -9421,14 +9509,14 @@ modeling for empirical income distributions.") (define-public r-vcd (package (name "r-vcd") - (version "1.4-11") + (version "1.4-12") (source (origin (method url-fetch) (uri (cran-uri "vcd" version)) (sha256 (base32 - "0ch9ks25ab4h4fh4y267s0psvc4ndyaplk8ddva2j54yd1ayhm3s")))) + "127dkln826ah5ydp3pmd5bqyns9m9m6yrjnmn7fir4r9al8yycf9")))) (build-system r-build-system) (propagated-inputs (list r-colorspace r-lmtest r-mass)) @@ -9612,14 +9700,14 @@ plotting. a three dimensional point cloud.") (define-public r-ggridges (package (name "r-ggridges") - (version "0.5.4") + (version "0.5.5") (source (origin (method url-fetch) (uri (cran-uri "ggridges" version)) (sha256 (base32 - "0lfqx21g09s3fp74mld47qfx1nnav18xqj37griyqk406hh1rxrb")))) + "18bmbq5pd751hnw8rpvshvapg09630i2pqpwk5a3yhgz4hwa8xvm")))) (build-system r-build-system) (propagated-inputs (list r-ggplot2 r-scales r-withr)) @@ -9811,13 +9899,13 @@ timeout. It can also poll several processes at once.") (define-public r-timeseries (package (name "r-timeseries") - (version "4031.107") + (version "4032.108") (source (origin (method url-fetch) (uri (cran-uri "timeSeries" version)) (sha256 (base32 - "0hmmv8ml2ryw1zkbk55f85ml664as8l0qksj9h1335zn58s6lf44")))) + "1mcx059f9hnzgcxcil7hvgp9hz7gancj4gjgpdlpa4by77nwygpd")))) (properties `((upstream-name . "timeSeries"))) (build-system r-build-system) (propagated-inputs (list r-timedate)) @@ -9952,14 +10040,14 @@ Markdown documents.") (define-public r-seriation (package (name "r-seriation") - (version "1.5.3") + (version "1.5.4") (source (origin (method url-fetch) (uri (cran-uri "seriation" version)) (sha256 (base32 - "1kz1g4dy076bc72hivv26ygbvnjv3li29xxikv1mwanwap4jc2ds")))) + "17rk4674r5knfgqyik9gbz6yj42qv6h79j2prw79glc1ym99qcyj")))) (build-system r-build-system) (propagated-inputs (list r-ca @@ -11596,44 +11684,35 @@ local smoothers and many more.") (define-public r-radiant-data (package (name "r-radiant-data") - (version "1.6.2") + (version "1.6.3") (source (origin (method url-fetch) (uri (cran-uri "radiant.data" version)) (sha256 (base32 - "0227ry366v9kmksa4vyjmhix0jbl894gdc6gckg209wna35fn20p")) + "1nwiw5dps0030f893gs0fixis6xigfr8y8rqhi3l505yx2bsrjbj")) (modules '((guix build utils))) (snippet - '(begin - ;; Delete files that are under CC-NC-SA. - (delete-file-recursively "inst/app/tools/help") - (delete-file "inst/assets/html2canvas/html2canvas.min.js"))))) + '(delete-file "inst/assets/html2canvas/html2canvas.min.js")))) (properties `((upstream-name . "radiant.data"))) (build-system r-build-system) (arguments (list - #:modules '((guix build utils) - (guix build r-build-system) - (srfi srfi-1)) + #:modules + '((guix build r-build-system) + (guix build minify-build-system) + (guix build utils)) + #:imported-modules + `(,@%r-build-system-modules + (guix build minify-build-system)) #:phases - '(modify-phases %standard-phases - (add-after 'unpack 'process-javascript - (lambda* (#:key inputs #:allow-other-keys) - (with-directory-excursion "inst/assets/html2canvas/" - (call-with-values - (lambda () - (unzip2 - `((,(assoc-ref inputs "_") - "html2canvas.min.js")))) - (lambda (sources targets) - (for-each (lambda (source target) - (format #true "Processing ~a --> ~a~%" - source target) - (invoke "esbuild" source "--minify" - (string-append "--outfile=" target))) - sources targets))))))))) + #~(modify-phases (@ (guix build r-build-system) %standard-phases) + (add-after 'unpack 'process-javascript + (lambda* (#:key inputs #:allow-other-keys) + (with-directory-excursion "inst/assets/html2canvas/" + (minify (assoc-ref inputs "_") + #:target "html2canvas.min.js"))))))) (propagated-inputs (list r-arrow r-base64enc @@ -15112,14 +15191,14 @@ both to consistency and asymptotic normality.") (define-public r-dofuture (package (name "r-dofuture") - (version "1.0.0") + (version "1.0.1") (source (origin (method url-fetch) (uri (cran-uri "doFuture" version)) (sha256 (base32 - "1pxwpfmxswbsd1f2ifj9kdq9hi9q0x2wwv2kv0xq178ymmywi2sz")))) + "1avv5kv1c43gmvbh5iwxlwk7yl6prndpcgy0blkwarl3nsgcq4cm")))) (properties `((upstream-name . "doFuture"))) (build-system r-build-system) (arguments @@ -15914,13 +15993,13 @@ multiple-imputation datasets.") (define-public r-mixsqp (package (name "r-mixsqp") - (version "0.3-48") + (version "0.3-54") (source (origin (method url-fetch) (uri (cran-uri "mixsqp" version)) (sha256 (base32 - "02cjg33m5iqziyy0xi11wvbm5qnlgfy51r1dbpjzyhqsrv1dfx48")))) + "13pv3mmz514kl4svxqwyk5b241dy1q52khwdc6rmh712ia8xxl7p")))) (properties `((upstream-name . "mixsqp"))) (build-system r-build-system) (propagated-inputs @@ -15943,14 +16022,14 @@ samples is large and the number of mixture components is not too large.") (define-public r-magick (package (name "r-magick") - (version "2.8.1") + (version "2.8.2") (source (origin (method url-fetch) (uri (cran-uri "magick" version)) (sha256 (base32 - "13j55dwvcqbyqgx0c6vj9knqrz25pc2xz19f22b2gm0p307d3z6q")))) + "15ja7f46f77a67wmzqfaxvhmvvzgb9yj92p2if5di7i61vlmnid1")))) (properties '((updater-extra-inputs . ("imagemagick")))) (build-system r-build-system) @@ -16091,13 +16170,13 @@ were influenced by the drake R package by Will Landau (2018) (define-public r-targets (package (name "r-targets") - (version "1.3.2") + (version "1.4.0") (source (origin (method url-fetch) (uri (cran-uri "targets" version)) (sha256 (base32 - "0zlbq658zxflz2fk9pksbjx3r5dmay4411byl33gkp3rnynvchgh")))) + "0nbvyh1v88lz1fv09ap9p6qw4zw23f1rvmv2f01w1r17z53z7w3c")))) (properties `((upstream-name . "targets"))) (build-system r-build-system) (propagated-inputs (list r-base64url @@ -16267,13 +16346,13 @@ estimation problem.") (define-public r-quickjsr (package (name "r-quickjsr") - (version "1.0.8") + (version "1.0.9") (source (origin (method url-fetch) (uri (cran-uri "QuickJSR" version)) (sha256 (base32 - "10cyi8wja24j68wqmsphsr19h977hr6ffsxf339bfrvwdnigm5vn")))) + "12a0m57kwn2k9j5k6vl8hb10081rydpz9rczc9hccdj9ky9wiv0k")))) (properties `((upstream-name . "QuickJSR"))) (build-system r-build-system) (propagated-inputs (list r-jsonlite r-r6 r-rcpp)) @@ -16428,14 +16507,14 @@ observation.") (define-public r-sandwich (package (name "r-sandwich") - (version "3.0-2") + (version "3.1-0") (source (origin (method url-fetch) (uri (cran-uri "sandwich" version)) (sha256 (base32 - "1d72vwxidsyac9mbyxrm06qds63rzcr82nn4c05466gbajsvcc3f")) + "1yi3l2q63j0vlaqqh1x3bxb0i7v6lrmmbsc6s8gilfahxq2y3c4n")) (modules '((guix build utils))) (snippet '(with-directory-excursion "inst/doc" @@ -16534,14 +16613,14 @@ the differences were not significantly different.") (define-public r-emmeans (package (name "r-emmeans") - (version "1.8.9") + (version "1.9.0") (source (origin (method url-fetch) (uri (cran-uri "emmeans" version)) (sha256 (base32 - "1ipzs88inyif52rbifqwrfv8vwxw8fwq2hb489vgws8xznhz034a")))) + "18gib8ly7kfzdbi3srczrdqvjghf7swp127ksfs1fvs9dzgkkg96")))) (build-system r-build-system) (propagated-inputs (list r-estimability r-mvtnorm r-numderiv)) @@ -16671,14 +16750,14 @@ Bayesian modeling.") (define-public r-tmb (package (name "r-tmb") - (version "1.9.9") + (version "1.9.10") (source (origin (method url-fetch) (uri (cran-uri "TMB" version)) (sha256 (base32 - "0k37xspfk9vqin63ggkm8qlki498h3k3kqg8wa9kff3y1mi8lf84")))) + "1cc34zxn2x88fbh4clgbzia36800i30pdlywbkwc26zm50nsxpwi")))) (properties `((upstream-name . "TMB"))) (build-system r-build-system) (propagated-inputs @@ -16829,14 +16908,14 @@ effects models and Bayesian models.") (define-public r-ggeffects (package (name "r-ggeffects") - (version "1.3.2") + (version "1.3.4") (source (origin (method url-fetch) (uri (cran-uri "ggeffects" version)) (sha256 (base32 - "1wp9q2zqygxg2ibmrwdh614sdxqhj80rx0ixbz8kxld99b37ixl7")))) + "0hxcal1rldi3295hy5n1nzad092gis1cxnjsbbhfrbj3z35aacbs")))) (build-system r-build-system) (propagated-inputs (list r-insight)) @@ -18772,13 +18851,13 @@ maps.") (define-public r-tidytree (package (name "r-tidytree") - (version "0.4.5") + (version "0.4.6") (source (origin (method url-fetch) (uri (cran-uri "tidytree" version)) (sha256 - (base32 "0wllr18ip4vc37pr3qni1vbn68jj6iz5gh1vxdi24438y1gqww6j")))) + (base32 "14i2v6ryqw4cd74n8kz4qwwx730wzx4f0rssg5vgm0vjfsx0kafv")))) (build-system r-build-system) (propagated-inputs (list r-ape @@ -19216,16 +19295,16 @@ Touzet and Varre (2007).") (define-public r-rnaturalearth (package (name "r-rnaturalearth") - (version "0.3.4") + (version "1.0.1") (source (origin (method url-fetch) (uri (cran-uri "rnaturalearth" version)) (sha256 (base32 - "1lqgv2v72jgp3xrxdwh0x644jwd2ixqjqja32r3sj9dfwnpx6b65")))) + "1vfkn4bf77mr2n7dhmnl55ma4cvwy2nazhizmdqd98w2ydl13z3p")))) (properties `((upstream-name . "rnaturalearth"))) (build-system r-build-system) - (propagated-inputs (list r-httr r-jsonlite r-sf r-sp r-terra)) + (propagated-inputs (list r-httr r-jsonlite r-sf r-terra)) (native-inputs (list r-knitr)) (home-page "https://cran.r-project.org/package=rnaturalearth") (synopsis "World map data from Natural Earth") @@ -20840,14 +20919,14 @@ sampling.") (define-public r-protviz (package (name "r-protviz") - (version "0.7.7") + (version "0.7.9") (source (origin (method url-fetch) (uri (cran-uri "protViz" version)) (sha256 (base32 - "18l4aw0fx47w9czw73lxh68aj4ljbfr3z39vakbbx6xp2llyw8b1")))) + "1wsjr4asjsknv8fkfv15xqnl67zfv8d2xmvw1i2l0wflxbps3af7")))) (properties `((upstream-name . "protViz"))) (build-system r-build-system) (propagated-inputs (list r-rcpp)) @@ -21121,14 +21200,14 @@ port-forwarding to your local computer.") (define-public r-future (package (name "r-future") - (version "1.33.0") + (version "1.33.1") (source (origin (method url-fetch) (uri (cran-uri "future" version)) (sha256 (base32 - "0nwk8y3qv2dj41qxrciic6rkpy6lzrhpd5v886zmcjyf6ndyna22")))) + "1xvb7rhwnsi7l735jfrh7ij0l6q6hazwcb2620hvfjwl2kkpk00r")))) (build-system r-build-system) (arguments `(#:phases @@ -21156,14 +21235,14 @@ the local machine to, say, distributed processing on a remote compute cluster.") (define-public r-future-apply (package (name "r-future-apply") - (version "1.11.0") + (version "1.11.1") (source (origin (method url-fetch) (uri (cran-uri "future.apply" version)) (sha256 (base32 - "1s019gdmmv0yr8011vm23p7apznbzfw54z9nmymkxc5mp7730yri")))) + "0zf22vip8w50pywc47xjghca9wkvcsvvfaa2yfaydwwzc3ss3bh2")))) (properties `((upstream-name . "future.apply"))) (build-system r-build-system) (arguments @@ -21564,14 +21643,14 @@ Coefficient Logit Models.") (define-public r-tensora (package (name "r-tensora") - (version "0.36.2") + (version "0.36.2.1") (source (origin (method url-fetch) (uri (cran-uri "tensorA" version)) (sha256 (base32 - "19wwh654qlja4z1n7afjpzsrrm53p8ddysa2vra5mdnkddb4g2cf")))) + "1dvxc4d5c8k3mqkx6bjgfmnb98rrdd1rsazyva76mzvxzrhq4n06")))) (properties `((upstream-name . "tensorA"))) (build-system r-build-system) (home-page "http://www.stat.boogaart.de/tensorA") @@ -21959,14 +22038,14 @@ probabilities from a standard bivariate normal CDF.") (define-public r-lavaan (package (name "r-lavaan") - (version "0.6-16") + (version "0.6-17") (source (origin (method url-fetch) (uri (cran-uri "lavaan" version)) (sha256 (base32 - "150asz3k42ql6k2faldbbzvhnlq5zy94syznc451ns52jdrr5vqx")))) + "1bppbv17b35h48vfci6zplix9zb5isi210za52cs9yyc68g2acwj")))) (build-system r-build-system) (propagated-inputs (list r-mass r-mnormt r-numderiv r-pbivnorm r-quadprog)) @@ -22850,14 +22929,14 @@ high-performance functions are provided here.") (define-public r-s2 (package (name "r-s2") - (version "1.1.5") + (version "1.1.6") (source (origin (method url-fetch) (uri (cran-uri "s2" version)) (sha256 (base32 - "07k9j3sqlqjmcgws2x7accnd5pbqcn8n2pwbviw00sg74sz3xz1v")))) + "0rm0jd5k5w725v1bnn6ix8vic40grdh61y6qdy8jy4lhg1mjx78x")))) (properties `((upstream-name . "s2"))) (build-system r-build-system) (arguments @@ -22891,14 +22970,14 @@ information about geometries.") (define-public r-sf (package (name "r-sf") - (version "1.0-14") + (version "1.0-15") (source (origin (method url-fetch) (uri (cran-uri "sf" version)) (sha256 (base32 - "1xrrqd91601lcd83zzwksb4ampy1j8vf8f6941csk89psm45clwb")))) + "0b9whfi709gjkzslkrkm8ki1yz5az6vrv5b1l2w712sjqy8r47f8")))) (build-system r-build-system) (inputs (list curl @@ -23036,13 +23115,13 @@ also provided to illustrate various methods.") (define-public r-pegas (package (name "r-pegas") - (version "1.2") + (version "1.3") (source (origin (method url-fetch) (uri (cran-uri "pegas" version)) (sha256 - (base32 "0mdd6wwbgln7272am9pk3p5garmkkf3j76lli4hnxsh9gj9z6fcx")))) + (base32 "1j1xrnwi80ycwziwcsb48sfdm2ifdzgsn8clh0ai7rvhknrb4ghh")))) (build-system r-build-system) (propagated-inputs (list r-ape)) @@ -23057,30 +23136,6 @@ population structure (Fst, Amova) and equilibrium (HWE), haplotype networks, minimum spanning tree and network, and median-joining networks.") (license license:gpl2+))) -(define-public r-rmetasim - (package - (name "r-rmetasim") - (version "3.1.14") - (source - (origin - (method url-fetch) - (uri (cran-uri "rmetasim" version)) - (sha256 - (base32 - "0rdkhfgyr97r2d1kd9g8ipb2pn563qxm1y4m9z678q0kqan2ddl0")))) - (build-system r-build-system) - (propagated-inputs - (list r-ade4 r-adegenet r-gtools r-pegas)) - (home-page "https://cran.r-project.org/web/packages/rmetasim") - (synopsis "Individual-based population genetic simulation environment") - (description - "This package provides an interface between R and the metasim simulation -engine. The simulation environment is documented in: Strand, A.(2002), -Metasim 1.0: an individual-based environment for simulating population -genetics of complex population dynamics.") - ;; Any GPL version - (license license:gpl2+))) - (define-public r-genetics (package (name "r-genetics") @@ -23241,14 +23296,14 @@ include (define-public r-haplo-stats (package (name "r-haplo-stats") - (version "1.9.3") + (version "1.9.5") (source (origin (method url-fetch) (uri (cran-uri "haplo.stats" version)) (sha256 (base32 - "1nwxmx3v0085bdr14sr1n4wpipyp1bdq9qhx2gxmx9h3l02glkis")))) + "17h7nxpc5ggxwpc4j4cxf7n0qglc93vhwd4ljwa8ic33x3yab673")))) (properties `((upstream-name . "haplo.stats"))) (build-system r-build-system) (propagated-inputs @@ -23982,14 +24037,14 @@ package.") (define-public r-yulab-utils (package (name "r-yulab-utils") - (version "0.1.0") + (version "0.1.2") (source (origin (method url-fetch) (uri (cran-uri "yulab.utils" version)) (sha256 (base32 - "045s3xg723a8m9cqql74ifqir5k6zl4csdq39vw5im2zgvyajkzg")))) + "0pjm4fnc30kv8xl6akh9y0jpqdsww83558cvyfl4j3xxnafrk8cs")))) (properties `((upstream-name . "yulab.utils"))) (build-system r-build-system) (propagated-inputs @@ -26748,14 +26803,14 @@ emphasize hidden group structures in networks or focus on specific nodes.") (define-public r-terra (package (name "r-terra") - (version "1.7-55") + (version "1.7-65") (source (origin (method url-fetch) (uri (cran-uri "terra" version)) (sha256 (base32 - "1v1if9ypmra02ngg4r8qg1hldmxan8lyyhgq3j969glihpyvs03h")))) + "0m9s5am8l6il1q0skab614cx0qjsb1i9xcv6nm0sdzj7p9lrzkfl")))) (properties `((upstream-name . "terra"))) (build-system r-build-system) (inputs @@ -26786,14 +26841,14 @@ files is supported.") (define-public r-tidygraph (package (name "r-tidygraph") - (version "1.2.3") + (version "1.3.0") (source (origin (method url-fetch) (uri (cran-uri "tidygraph" version)) (sha256 (base32 - "11sn8z7bwv84lqlgnqc36n14nyhv1qdfc0gcs7nmgbl34nqhd75h")))) + "11qlnpn54bdlkh2jcrk807z86vw54jrb6r9za1jkb03x9dqi9cwk")))) (properties `((upstream-name . "tidygraph"))) (build-system r-build-system) (propagated-inputs @@ -26801,6 +26856,7 @@ files is supported.") r-cpp11 r-dplyr r-igraph + r-lifecycle r-magrittr r-pillar r-r6 @@ -29817,13 +29873,13 @@ Visualizations are also available for most of these settings.") (define-public r-torch (package (name "r-torch") - (version "0.11.0") + (version "0.12.0") (source (origin (method url-fetch) (uri (cran-uri "torch" version)) (sha256 - (base32 "04hvr3f4rgnxxc42fiv58kpyld4aagj6ambhw769v3bfz7s2v879")))) + (base32 "024c8szg3xa2zrl5406jx3bmazbjwp2f07ja7m61ja0dr3z7lvbq")))) (properties `((upstream-name . "torch"))) (build-system r-build-system) (arguments @@ -29857,10 +29913,12 @@ Visualizations are also available for most of these settings.") r-desc r-ellipsis r-glue + r-jsonlite r-magrittr r-r6 r-rcpp r-rlang + r-safetensors r-withr)) (native-inputs (list r-knitr)) (home-page "https://torch.mlverse.org/docs") @@ -30299,13 +30357,13 @@ from PLINK results.") (define-public r-gghighlight (package (name "r-gghighlight") - (version "0.4.0") + (version "0.4.1") (source (origin (method url-fetch) (uri (cran-uri "gghighlight" version)) (sha256 - (base32 "0vfcn3gg6j7g20n2z1iwr94jnpqn0zl5j9jfc8bnbsrmz49dzqpd")))) + (base32 "1lsvy9ha4d8zs927h8jbdj5r39xqcy1n6g5prw4awiihdvcv9v66")))) (properties `((upstream-name . "gghighlight"))) (build-system r-build-system) (propagated-inputs @@ -31921,14 +31979,14 @@ and reproducible way.") (define-public r-rsconnect (package (name "r-rsconnect") - (version "1.1.1") + (version "1.2.0") (source (origin (method url-fetch) (uri (cran-uri "rsconnect" version)) (sha256 (base32 - "1v88ary1gbrhmcbr2syq4jh7ln5ldd9b6pdh508bwxnkivqfdg3p")))) + "0g2av3838nnsb51h64ypad0c31gh98zyhib8yf9ffg53ijyqmjs1")))) (properties `((upstream-name . "rsconnect"))) (build-system r-build-system) (propagated-inputs @@ -32966,14 +33024,14 @@ Mean Test, Durbin-Watson statistic etc.") (define-public r-rcdd (package (name "r-rcdd") - (version "1.5-2") + (version "1.6") (source (origin (method url-fetch) (uri (cran-uri "rcdd" version)) (sha256 (base32 - "15dk0805yq2fgla2nafxswwvq2lakvb6kpgwzrag5l0xbrwcvv6q")))) + "0xfvfcjd9gpp6qaalkfkx2f11lyj4sm6n6b763lnk0rrmn6cv2lz")))) (properties `((upstream-name . "rcdd"))) (build-system r-build-system) @@ -33116,14 +33174,14 @@ here.") (define-public r-projpred (package (name "r-projpred") - (version "2.7.0") + (version "2.8.0") (source (origin (method url-fetch) (uri (cran-uri "projpred" version)) (sha256 (base32 - "0dydkvb0znqli4lbncihk8yimsiakvdyra5cx1cakvm73mn37s5r")))) + "1xm1444qv0pkxdf2nacxnb2apx5lar1f3qz4jrxp6xd2xk2xv0xk")))) (properties `((upstream-name . "projpred"))) (build-system r-build-system) (propagated-inputs @@ -36458,11 +36516,11 @@ discovery of differentially expressed genes and markers.") r-uwot))))) (define-public r-seuratdisk - (let ((commit "163f1aade5bac38ed1e9e9c912283a7e74781610") + (let ((commit "877d4e18ab38c686f5db54f8cd290274ccdbe295") (revision "1")) (package (name "r-seuratdisk") - (version (git-version "0.0.0.9019" revision commit)) + (version (git-version "0.0.0.9021" revision commit)) (source (origin (method git-fetch) @@ -36471,7 +36529,7 @@ discovery of differentially expressed genes and markers.") (commit commit))) (file-name (git-file-name name version)) (sha256 - (base32 "1d1v8qi6kknzy5fj6bl8akwy74h5h143i00lyidsnqjbwp9n4qnw")))) + (base32 "0ma9qk95symk95slp8klriqg64d8klqf1634y93ml74icarxw1dm")))) (properties `((upstream-name . "SeuratDisk"))) (build-system r-build-system) (propagated-inputs @@ -36570,17 +36628,15 @@ Maximum Parsimony, distance methods and Hadamard conjugation.") (define-public r-diversitree (package (name "r-diversitree") - (version "0.9-20") + (version "0.10-0") (source (origin (method url-fetch) (uri (cran-uri "diversitree" version)) (sha256 (base32 - "0lm098ysk6np4dy1cifbhd85jd1f1iz4bqhgzlcx7x8qnhh3zc1c")))) + "1xl2swbmgpni2y2divl29xh702b88kxgcswa47g62ny59gh2fdn1")))) (build-system r-build-system) - (native-inputs - (list gfortran)) (inputs (list fftw gsl)) (propagated-inputs (list r-ape r-desolve r-rcpp r-subplex)) @@ -37059,13 +37115,13 @@ implemented as @code{R6} classes.") (define-public r-mlr3 (package (name "r-mlr3") - (version "0.17.0") + (version "0.17.1") (source (origin (method url-fetch) (uri (cran-uri "mlr3" version)) (sha256 (base32 - "1gnn9i33sa2s0s35lhbbjqffjj9m7yhnhh7lyvp7jv9sncw123sa")))) + "0q6px0l0ab3xcrf6ylnw9a3i50mnks3hlgqj424d6bpqdjqyh5s4")))) (build-system r-build-system) (propagated-inputs (list r-backports @@ -37082,6 +37138,7 @@ implemented as @code{R6} classes.") r-paradox r-parallelly r-r6 + r-rhpcblasctl r-uuid)) (home-page "https://mlr3.mlr-org.com/") (synopsis "Machine Learning in R - Next Generation") @@ -37096,13 +37153,13 @@ computational operations, add-on packages provide additional functionality.") (define-public r-mlr3learners (package (name "r-mlr3learners") - (version "0.5.7") + (version "0.5.8") (source (origin (method url-fetch) (uri (cran-uri "mlr3learners" version)) (sha256 (base32 - "0l4f500qa2xfcwd4b81sxx9cvj9j349bl77c9vwi45sfsjk19w8g")))) + "0q44qmd9zfc68jl2zz684rx9744g83vd7z40dck8cdvnnrxcff5g")))) (build-system r-build-system) (propagated-inputs (list r-checkmate @@ -37447,14 +37504,14 @@ the font tool-set provided by the @code{systemfonts} package.") (define-public r-ragg (package (name "r-ragg") - (version "1.2.6") + (version "1.2.7") (source (origin (method url-fetch) (uri (cran-uri "ragg" version)) (sha256 (base32 - "1izpw02b8kq6pm37kvxp9pbd9srvfp5bzfjg27j9hbmm794xq50h")))) + "17qc53scxf02f8hlpyirsjdav4wjh3mk6q04npf82y0j5mk1hynp")))) (properties `((upstream-name . "ragg"))) (build-system r-build-system) (inputs @@ -40605,14 +40662,14 @@ be efficient and easy to use.") (define-public r-ggh4x (package (name "r-ggh4x") - (version "0.2.6") + (version "0.2.7") (source (origin (method url-fetch) (uri (cran-uri "ggh4x" version)) (sha256 (base32 - "0frbkdylyz630y7rjyif0whf74r89ca5bmhk9djcwz8nqfs2jygb")))) + "114xvlpdhnsdnw1g89yls3z80dxcj9fah09kvfddhlwbqbknxjxf")))) (properties `((upstream-name . "ggh4x"))) (build-system r-build-system) (propagated-inputs |