diff options
Diffstat (limited to 'gnu/packages/cran.scm')
| -rw-r--r-- | gnu/packages/cran.scm | 2134 |
1 files changed, 1360 insertions, 774 deletions
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index e82b0270529..acc3273831f 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -147,13 +147,13 @@ the vignette \"AER\" for a package overview.)") (define-public r-afpt (package (name "r-afpt") - (version "1.1.0.3") + (version "1.1.0.4") (source (origin (method url-fetch) (uri (cran-uri "afpt" version)) (sha256 (base32 - "18izncbr3ljckil97xx2w1y0y7qjykp06wm0ap8ismahqvia3xz3")))) + "15pa4p78p6r478l05481lzx6z4ahswj728s1sb3xp3pvn6rv4jfj")))) (properties `((upstream-name . "afpt"))) (build-system r-build-system) (native-inputs (list r-knitr)) @@ -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") @@ -194,14 +194,14 @@ models} (GLMM).") (define-public r-brio (package (name "r-brio") - (version "1.1.3") + (version "1.1.4") (source (origin (method url-fetch) (uri (cran-uri "brio" version)) (sha256 (base32 - "1inwzvlf6zj6gi47gd0byzqv02qajb3l475z8pjvx2b1hm0r1a7a")))) + "1s0q1qk3w3fwf7gn4xfwhf8i8yqqb6z096x6xqsj8av8924z7fqc")))) (properties `((upstream-name . "brio"))) (build-system r-build-system) (home-page "https://github.com/r-lib/brio") @@ -212,6 +212,38 @@ functions always read and write UTF-8 (8-bit Unicode Transformation Format) files and provide more explicit control over line endings.") (license license:expat))) +(define-public r-broom-helpers + (package + (name "r-broom-helpers") + (version "1.14.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "broom.helpers" version)) + (sha256 + (base32 "14vaqxv12yrvqllp8552nx68wk2qfjcy1iy7bajkspgdpwsjzhfd")))) + (properties `((upstream-name . "broom.helpers"))) + (build-system r-build-system) + (propagated-inputs (list r-broom + r-cli + r-dplyr + r-labelled + r-lifecycle + r-purrr + r-rlang + r-stringr + r-tibble + r-tidyr)) + (native-inputs (list r-knitr)) + (home-page "https://larmarange.github.io/broom.helpers/") + (synopsis "Helpers for Model Coefficients Tibbles") + (description + "This package provides suite of functions to work with regression model +@code{broom::tidy()} tibbles. The suite includes functions to group +regression model terms by variable, insert reference and header rows for +categorical variables, add variable labels, and more.") + (license license:gpl3+))) + (define-public r-ca (package (name "r-ca") @@ -255,19 +287,48 @@ 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-caic4 + (package + (name "r-caic4") + (version "1.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "cAIC4" version)) + (sha256 + (base32 "1qg73g0g029wkzpmp0fgvyfz8p1k3x38yqx0404cpb3dxj4n4hcg")))) + (properties `((upstream-name . "cAIC4"))) + (build-system r-build-system) + (propagated-inputs (list r-lme4 + r-matrix + r-mgcv + r-mvtnorm + r-nlme + r-rlrsim)) + (home-page "https://cran.r-project.org/package=cAIC4") + (synopsis "Conditional AIC for lme4 and nlme") + (description + "This package estimates conditional Akaike information in mixed-effect +models. These models are fitted using @code{(g)lmer()} from lme4, +@code{lme()} from nlme, and @code{gamm()} from mgcv. The provided functions +facilitate the computation of the conditional Akaike information for model +evaluation.") + (license license:gpl2+))) + (define-public r-castor (package (name "r-castor") - (version "1.7.11") + (version "1.8.0") (source (origin (method url-fetch) (uri (cran-uri "castor" version)) (sha256 (base32 - "1cxjgwbsacjcc10qdch6pndjxqnk20hhamxqg0lckszvkyb67yn3")))) + "0caw206hndfzypj33w6npvppdc5hhq1q71wriqd0ck9f238rfi3c")))) (properties `((upstream-name . "castor"))) (build-system r-build-system) - (propagated-inputs (list r-matrix r-naturalsort r-rcpp r-rspectra)) + (propagated-inputs (list r-jsonlite r-matrix r-naturalsort r-rcpp + r-rspectra)) (home-page "https://cran.r-project.org/package=castor") (synopsis "Efficient phylogenetics on large trees") (description @@ -388,6 +449,38 @@ for the creation a standard CONSORT diagram. Human effort by supplying text labels on the node can also be achieved.") (license license:expat))) +(define-public r-collapse + (package + (name "r-collapse") + (version "2.0.9") + (source + (origin + (method url-fetch) + (uri (cran-uri "collapse" version)) + (sha256 + (base32 "0c9cz1dqrgd3gss9cr40a3rh014av0w8gfhq35lq1knyik6bhk28")))) + (properties `((upstream-name . "collapse"))) + (build-system r-build-system) + (propagated-inputs (list r-rcpp)) + (native-inputs (list r-knitr)) + (home-page "https://sebkrantz.github.io/collapse/") + (synopsis "Advanced and fast data transformation") + (description + "This is a C/C++ based package for advanced data transformation and +statistical computing in R that is extremely fast, class-agnostic, robust and +programmer friendly. Core functionality includes a rich set of S3 generic +grouped and weighted statistical functions for vectors, matrices and data +frames, which provide efficient low-level vectorizations, @code{OpenMP} +multithreading, and skip missing values by default. These are integrated with +fast grouping and ordering algorithms (also callable from C), and efficient +data manipulation functions. The package also provides a flexible and +rigorous approach to time series and panel data in R. It further includes +fast functions for common statistical procedures, detailed (grouped, weighted) +summary statistics, powerful tools to work with nested data, fast data object +conversions, functions for memory efficient R programming, and helpers to +effectively deal with variable labels, attributes, and missing data.") + (license (list license:gpl2+)))) + (define-public r-collections (package (name "r-collections") @@ -433,13 +526,13 @@ correlations, distance correlations and more.") (define-public r-cplm (package (name "r-cplm") - (version "0.7-11") + (version "0.7-12") (source (origin (method url-fetch) (uri (cran-uri "cplm" version)) (sha256 - (base32 "0pcq5ska1v6kvp8ipw9clczk4w0p10lbxw2xnkhps0wqdrspsqwm")))) + (base32 "1m0b0jksl1y90q4sdhjspby4hafxxdgra8sbicd5rsrwq4hzwyxc")))) (properties `((upstream-name . "cplm"))) (build-system r-build-system) (arguments @@ -507,14 +600,14 @@ 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 @@ -532,13 +625,13 @@ wrangling backend for the packages in the @code{easystats} ecosystem.") (define-public r-dbscan (package (name "r-dbscan") - (version "1.1-11") + (version "1.1-12") (source (origin (method url-fetch) (uri (cran-uri "dbscan" version)) (sha256 - (base32 "0bz66lvvg7290c5260ph92k4r7adgisbx3vml9096qhjwrkqwjgh")))) + (base32 "1snfcf5jy3chh5nmvn7ashhlyv35nkajlfrlk9kzpy4jnfyv3y2n")))) (properties `((upstream-name . "dbscan"))) (build-system r-build-system) (propagated-inputs (list r-rcpp)) @@ -824,16 +917,37 @@ dumbbell charts, the ability to encircle points and coordinate-system-based text annotations.") (license license:agpl3))) +(define-public r-ggbreak + (package + (name "r-ggbreak") + (version "0.1.2") + (source + (origin + (method url-fetch) + (uri (cran-uri "ggbreak" version)) + (sha256 + (base32 "14rx16v66xd0fjlywi89dq9dbw41zn7hpq14wgvf0178cxdp2fw4")))) + (properties `((upstream-name . "ggbreak"))) + (build-system r-build-system) + (propagated-inputs (list r-aplot r-ggfun r-ggplot2 r-ggplotify r-rlang)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/YuLab-SMU/ggbreak") + (synopsis "Set axis break for ggplot2") + (description + "This package provides an implementation of scale functions for setting +axis breaks of a ggplot.") + (license license:artistic2.0))) + (define-public r-ggdist (package (name "r-ggdist") - (version "3.3.0") + (version "3.3.1") (source (origin (method url-fetch) (uri (cran-uri "ggdist" version)) (sha256 - (base32 "0b15b972wrllsvqqn0nc2c81fd9jl618fvqsfi50hjxwwpdach8l")))) + (base32 "0agr1l65s7vimdb88a7n3ahr6pp9ng5zf9mypdic26vhaaifh1b7")))) (properties `((upstream-name . "ggdist"))) (build-system r-build-system) (propagated-inputs (list r-cli @@ -843,6 +957,7 @@ text annotations.") r-glue r-numderiv r-quadprog + r-rcpp r-rlang r-scales r-tibble @@ -881,16 +996,50 @@ samples) are easily visualized.") "Ggfittext is a ggplot2 extension for fitting text into boxes.") (license license:gpl2))) +(define-public r-ggstats + (package + (name "r-ggstats") + (version "0.5.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "ggstats" version)) + (sha256 + (base32 "1jcydapwarl1cxinm80rjmmli8vmlid8alnh6w484bh7nwzmcsic")))) + (properties `((upstream-name . "ggstats"))) + (build-system r-build-system) + (propagated-inputs (list r-broom-helpers + r-cli + r-dplyr + r-forcats + r-ggplot2 + r-lifecycle + r-magrittr + r-patchwork + r-purrr + r-rlang + r-scales + r-stringr + r-tidyr)) + (native-inputs (list r-knitr)) + (home-page "https://larmarange.github.io/ggstats/") + (synopsis "Extension to ggplot2 for plotting stats") + (description + "This package provides new statistics, new geometries and new positions +for ggplot2 and a suite of functions to facilitate the creation of statistical +plots.") + (license license:gpl3+))) + (define-public r-ggstatsplot (package (name "r-ggstatsplot") - (version "0.12.1") + (version "0.12.2") (source (origin (method url-fetch) (uri (cran-uri "ggstatsplot" version)) (sha256 (base32 - "0w24dbz2zc60zpxp2bylj6yk8rwdrkbppkykmip1wrhsbi8663xi")))) + "0nriqsfk48ijkkg06i87zp2frp7yz3c4gfmfgfig6v8mcmj19zwr")))) (properties `((upstream-name . "ggstatsplot"))) (build-system r-build-system) (propagated-inputs (list r-correlation @@ -1360,13 +1509,13 @@ by R (also native code).") (define-public r-proj4 (package (name "r-proj4") - (version "1.0-13") + (version "1.0-14") (source (origin (method url-fetch) (uri (cran-uri "proj4" version)) (sha256 (base32 - "1wvp17x58i614mnrjp0idzfi7s3g7pz41x8cxv05ryi9iz5l0m5c")))) + "1dh059lhw32vn0hxlp6sxb6m8hjdgmm01djq6vfncrhkjbd73mfk")))) (properties `((upstream-name . "proj4"))) (build-system r-build-system) (inputs (list proj-7 zlib)) @@ -1380,6 +1529,35 @@ allows transformation of geographic coordinates from one projection and/or datum to another.") (license license:gpl2))) +(define-public r-rocit + (package + (name "r-rocit") + (version "2.1.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "ROCit" version)) + (sha256 + (base32 "0sd6ckh7k8aqwhzzp3qff6g7d03klbr0mbp403pib3823c8pqa55")))) + (properties `((upstream-name . "ROCit"))) + (build-system r-build-system) + (native-inputs (list r-knitr)) + (home-page "https://cran.r-project.org/package=ROCit") + (synopsis "Performance Assessment of Binary Classifier with Visualization") + (description + "Sensitivity (or recall or true positive rate), false positive rate, +specificity, precision (or positive predictive value), negative predictive +value, misclassification rate, accuracy, F-score---these are popular metrics +for assessing performance of binary classifiers for certain thresholds. These +metrics are calculated at certain threshold values. @dfn{Receiver operating +characteristic} (ROC) curve is a common tool for assessing overall diagnostic +ability of the binary classifier. Unlike depending on a certain threshold, +area under ROC curve (also known as AUC), is a summary statistic about how +well a binary classifier performs overall for the classification task. The +ROCit package provides flexibility to easily evaluate threshold-bound +metrics.") + (license license:gpl3))) + (define-public r-rorcid (package (name "r-rorcid") @@ -1437,14 +1615,14 @@ RUV-I, and RUV-III, along with various supporting algorithms.") (define-public r-waldo (package (name "r-waldo") - (version "0.5.1") + (version "0.5.2") (source (origin (method url-fetch) (uri (cran-uri "waldo" version)) (sha256 (base32 - "0inzdwna22axhjw0jdrk800g7zbkpcs7g1cmdi83r7j4zxn0ggs5")))) + "019fvypq36kwvr2znlr0fd9f2ihb08rgigf6ypdybry5n8daxkc2")))) (properties `((upstream-name . "waldo"))) (build-system r-build-system) (propagated-inputs @@ -1492,14 +1670,14 @@ 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 @@ -1719,14 +1897,14 @@ similar rank-based tests for equal probability distributions due to Neuhauser (define-public r-v8 (package (name "r-v8") - (version "4.4.0") + (version "4.4.1") (source (origin (method url-fetch) (uri (cran-uri "V8" version)) (sha256 (base32 - "0ilg9ihx1mp9zj8023rh3lj875vqy253v9gbn1bw61h2p47w4nv3")))) + "129spn531m9arz7v8vyfsrvc69hg0w39fdnhjxrcrww37l9xcvav")))) (properties `((upstream-name . "V8") (updater-extra-inputs . ("libnode")))) @@ -1761,6 +1939,27 @@ similar rank-based tests for equal probability distributions due to Neuhauser WebAssembly engine.") (license license:expat))) +(define-public r-venn + (package + (name "r-venn") + (version "1.12") + (source + (origin + (method url-fetch) + (uri (cran-uri "venn" version)) + (sha256 + (base32 "07bjv0m21gljdr3sj1z9rp6xhgxspah9j1m3a8rskvlwv6dvd1pd")))) + (properties `((upstream-name . "venn"))) + (build-system r-build-system) + (propagated-inputs (list r-admisc)) + (home-page "https://github.com/dusadrian/venn") + (synopsis "Draw Venn diagrams") + (description + "This package provides a close to zero dependency package to draw and +display Venn diagrams up to 7 sets, and any Boolean union of set +intersections.") + (license license:gpl3+))) + (define-public r-rvenn (package (name "r-rvenn") @@ -1997,13 +2196,13 @@ known as Dynamic Linear Models.") (define-public r-zcompositions (package (name "r-zcompositions") - (version "1.4.1") + (version "1.5.0-1") (source (origin (method url-fetch) (uri (cran-uri "zCompositions" version)) (sha256 (base32 - "1l9hj37x54b4vzbcg2051nfli5rh65llm27hygc2vx7yyi6q75ma")))) + "0sx6i03iyg4jxmjiyzkssz3i6c8nv29wwhbl7yd0wxapwpakmlj8")))) (properties `((upstream-name . "zCompositions"))) (build-system r-build-system) (propagated-inputs @@ -2148,14 +2347,14 @@ variables.") (define-public r-ggpp (package (name "r-ggpp") - (version "0.5.4") + (version "0.5.6") (source (origin (method url-fetch) (uri (cran-uri "ggpp" version)) (sha256 (base32 - "05w74003jp7kprxxbni0plr7ydzyc5hzw8g39kn0qd4p7dksjpwr")))) + "0xnjbxd1lkg85c2hsx7cgxqsqb3dc0pma8jwdlqfgg7d519d60xa")))) (properties `((upstream-name . "ggpp"))) (build-system r-build-system) (propagated-inputs @@ -2270,25 +2469,23 @@ scale-sensitive information.") (define-public r-ggvenndiagram (package (name "r-ggvenndiagram") - (version "1.2.3") + (version "1.5.0") (source (origin (method url-fetch) (uri (cran-uri "ggVennDiagram" version)) (sha256 (base32 - "083qr0qd3333qmr42v9k0r0sq5842cca83p87h5gikk8v1vljv7j")))) + "0ngvvmz2mxh4v98wg3xqpmz1p1cpk3qsdvszcjzb1yhhway211a5")))) (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-venn r-yulab-utils)) (native-inputs (list r-knitr)) (home-page "https://github.com/gaospecial/ggVennDiagram") @@ -2353,13 +2550,13 @@ axis} (SMA), and @dfn{ranged major axis} (RMA).") (define-public r-ggpmisc (package (name "r-ggpmisc") - (version "0.5.4-1") + (version "0.5.5") (source (origin (method url-fetch) (uri (cran-uri "ggpmisc" version)) (sha256 (base32 - "0f6n48vnqnqqd7xhb4mdcwy4h9wz0icnynjigcbzagrrxmi2r64x")))) + "1j49q1fbihxir5q5llqwyga111j3lggifzjk3cvq8lphim4c3jia")))) (build-system r-build-system) (propagated-inputs (list r-confintr @@ -2390,17 +2587,18 @@ respecting the grammar of its graphics paradigm.") (define-public r-ggside (package (name "r-ggside") - (version "0.2.2") + (version "0.2.3") (source (origin (method url-fetch) (uri (cran-uri "ggside" version)) (sha256 (base32 - "1z50z4xpxfpqdz26hja6xw3q403p00cr5qawjxl0qg4jixl7j65p")))) + "0qj564rqxw8fn5h00wwmkvk6p3x60r64gpvxw9yrb5lvcykgsj8q")))) (properties `((upstream-name . "ggside"))) (build-system r-build-system) (propagated-inputs - (list r-ggplot2 + (list r-cli + r-ggplot2 r-glue r-gtable r-rlang @@ -2583,22 +2781,24 @@ available as companion packages.") (define-public r-scales (package (name "r-scales") - (version "1.2.1") + (version "1.3.0") (source (origin (method url-fetch) (uri (cran-uri "scales" version)) (sha256 - (base32 "027daznawr9dy0z9s99lh64i4am691hdir01n7gr7vmgpmnkwiar")))) + (base32 "122qyd88qr8cc8h3k46xpygm00inqpm55zdy0b7535958imhygmk")))) (build-system r-build-system) (propagated-inputs - (list r-farver + (list r-cli + r-farver + r-glue r-labeling r-lifecycle r-munsell + r-r6 r-rcolorbrewer r-rlang - r-r6 r-viridislite)) (home-page "https://github.com/hadley/scales") (synopsis "Scale functions for visualization") @@ -2823,13 +3023,13 @@ control over dimensions and appearance.") (define-public r-philentropy (package (name "r-philentropy") - (version "0.7.0") + (version "0.8.0") (source (origin (method url-fetch) (uri (cran-uri "philentropy" version)) (sha256 (base32 - "1dw46p2bk68hqbc44629lywg5r1mdaz37ahccgmsx07fg8rf4wnf")))) + "0gmycszk86mc9clmxfdrspqh5z0g3cw2cgzaaqngxx38h68x99is")))) (properties `((upstream-name . "philentropy"))) (build-system r-build-system) (propagated-inputs (list r-kernsmooth r-poorman r-rcpp)) @@ -3125,6 +3325,27 @@ functions, including @code{sort}, @code{order}, and @code{match}. The functions are simplified but can be faster or have other advantages.") (license license:gpl3))) +(define-public r-matrixtests + (package + (name "r-matrixtests") + (version "0.2.3") + (source + (origin + (method url-fetch) + (uri (cran-uri "matrixTests" version)) + (sha256 + (base32 "0d7i00cxzszfdnjm8q5b72ildic8nig6fbw7rba6acdnllpp7sza")))) + (properties `((upstream-name . "matrixTests"))) + (build-system r-build-system) + (propagated-inputs (list r-matrixstats)) + (home-page "https://github.com/karoliskoncevicius/matrixTests") + (synopsis "Statistical hypothesis tests on rows and columns of matrices") + (description + "This package offers quick statistical hypothesis testing for matrix +rows/columns. The main goals are speed through vectorization, detailed and +user-friendly output, and compatibility with tests implemented in R.") + (license license:gpl2))) + (define-public r-matrix-utils (package (name "r-matrix-utils") @@ -3149,16 +3370,37 @@ functions are simplified but can be faster or have other advantages.") objects.") (license license:gpl3))) +(define-public r-mblm + (package + (name "r-mblm") + (version "0.12.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "mblm" version)) + (sha256 + (base32 "1fipb3bryaimr30lcxsxrn0ymv24z39swca7s4z7p9xcfg3ban1b")))) + (properties `((upstream-name . "mblm"))) + (build-system r-build-system) + (home-page "https://cran.r-project.org/web/packages/mblm/index.html") + (synopsis "Median-based linear models") + (description + "This package provides linear models based on Theil-Sen single median and +Siegel repeated medians. They are very robust (29 or 50 percent breakdown +point, respectively), and if no outliers are present, the estimators are very +similar to OLS.") + (license license:gpl2+))) + (define-public r-mboost (package (name "r-mboost") - (version "2.9-8") + (version "2.9-9") (source (origin (method url-fetch) (uri (cran-uri "mboost" version)) (sha256 (base32 - "1jyigxi5lzcaa6psc8lyvw2b6ylldqlnps3jlvjrl9zr6336nk6n")))) + "1apcd90xsr9hl5f1szhyibdx61zi4p6s9bvag8bdk2yj4kqq6fmz")))) (build-system r-build-system) (propagated-inputs (list r-lattice @@ -3323,13 +3565,13 @@ read a protected key.") (define-public r-astsa (package (name "r-astsa") - (version "2.0") + (version "2.1") (source (origin (method url-fetch) (uri (cran-uri "astsa" version)) (sha256 - (base32 "0rv4fnz5bbd6f8b6fwa2ljdjq5yx0qi7hcbhrgvrbibl2pzfm7w7")))) + (base32 "0rnbacq5vbnlzfssj13ixgkg0d1wixh2m3dcsi66c63wx65rm3d3")))) (properties `((upstream-name . "astsa"))) (build-system r-build-system) (home-page "https://github.com/nickpoison/astsa/") @@ -3372,13 +3614,13 @@ data types as well.") (define-public r-tgp (package (name "r-tgp") - (version "2.4-21") + (version "2.4-22") (source (origin (method url-fetch) (uri (cran-uri "tgp" version)) (sha256 (base32 - "12ifd7rm3wskhbpnhfvz92z3graxzryq0iy1jiqmdk6bvhxkiww8")))) + "0gpndjq2xiic6fb5187f4hgrqj3477pd83caajnw3yy9wan4vly6")))) (properties `((upstream-name . "tgp"))) (build-system r-build-system) (propagated-inputs (list r-maptree)) @@ -3395,13 +3637,13 @@ noisy black-box functions.") (define-public r-tgstat (package (name "r-tgstat") - (version "2.3.24") + (version "2.3.25") (source (origin (method url-fetch) (uri (cran-uri "tgstat" version)) (sha256 - (base32 "0czd3j7z30jgb03813s0jc0701ypnwpkkq7var6n6f6cj7sdvc0l")))) + (base32 "07hdw3n4l88nr0x2a2qnjich4cfihgd0fk65ar3crgdahjcv9vn4")))) (properties `((upstream-name . "tgstat"))) (build-system r-build-system) (native-inputs (list r-knitr)) @@ -3626,14 +3868,14 @@ sources.") (define-public r-reprex (package (name "r-reprex") - (version "2.0.2") + (version "2.1.0") (source (origin (method url-fetch) (uri (cran-uri "reprex" version)) (sha256 (base32 - "14khx09yzn97xhags48lvym1g37h1l2ymvw6r1jlldhjc7i1cnx8")))) + "0ld90pkw2r7z115xdnyqk4p39vnxrc8jnn57sl4bkpg5frczw38a")))) (build-system r-build-system) (propagated-inputs (list r-callr @@ -3853,13 +4095,13 @@ into a pipeline of data manipulation and visualisation.") (define-public r-morpho (package (name "r-morpho") - (version "2.11") + (version "2.12") (source (origin (method url-fetch) (uri (cran-uri "Morpho" version)) (sha256 (base32 - "1c69n9284chygd375gkir4nk5bjglamhfyk2lz4z3kzy3z25qw50")))) + "1hg1jr0y11v93mqg2kn8n841nbsiffhyyr2kswj7kk664vlpril0")))) (properties `((upstream-name . "Morpho"))) (build-system r-build-system) (propagated-inputs (list r-bezier @@ -3952,13 +4194,13 @@ Zucchini.") (define-public r-httpuv (package (name "r-httpuv") - (version "1.6.12") + (version "1.6.13") (source (origin (method url-fetch) (uri (cran-uri "httpuv" version)) (sha256 (base32 - "0x2y5yjj1ha99dv5c8j6pxm8fqhdcx010jl4rcw2qw20qaqp5ndi")) + "0prvd2mv4rliqm0ldaldd6yjxy04qvxnqyhfxlk2c1lanmxzjvnb")) (modules '((guix build utils))) ;; Cannot unbundle http-parser, because it contains local ;; modifications. @@ -3985,24 +4227,26 @@ particularly easy to create complete web applications using httpuv alone.") (define-public r-httr2 (package (name "r-httr2") - (version "0.2.3") + (version "1.0.0") (source (origin (method url-fetch) (uri (cran-uri "httr2" version)) (sha256 (base32 - "0gabjyv2699p7fb4225jsr2kkbarx1w01kha8ipqzwhjjl13481m")))) + "0jaajfr1hr6bzb1vz2nw2csl2l09kbq619vsq5yrlchcarpjv1fb")))) (properties `((upstream-name . "httr2"))) (build-system r-build-system) (propagated-inputs (list r-cli r-curl r-glue + r-lifecycle r-magrittr r-openssl r-r6 r-rappdirs r-rlang + r-vctrs r-withr)) (native-inputs (list r-knitr)) (home-page "https://httr2.r-lib.org") @@ -4037,6 +4281,29 @@ 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") @@ -4062,13 +4329,13 @@ Notation (JSON) using the rapidjsonr library.") (define-public r-jsonlite (package (name "r-jsonlite") - (version "1.8.7") + (version "1.8.8") (source (origin (method url-fetch) (uri (cran-uri "jsonlite" version)) (sha256 (base32 - "07301wdpf014m8pfr7x3zwaj07pmin0rfax0irljimvj9dwbfhkx")))) + "196an37f118qw43vyfaygh01dirh3hyz84ix8bbs6fsck0b17qkx")))) (build-system r-build-system) (native-inputs (list r-knitr r-r-rsp)) @@ -4088,13 +4355,13 @@ 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)) @@ -4132,13 +4399,13 @@ a list of p-values.") (define-public r-htmltools (package (name "r-htmltools") - (version "0.5.6.1") + (version "0.5.7") (source (origin (method url-fetch) (uri (cran-uri "htmltools" version)) (sha256 (base32 - "0km08kvg0j2h1d0v6wpxf09yjadhp2srjjnmqwcahfyh37w4xf09")))) + "11mkk26pjck6r2w2nv6niy90c6l13g64zi01s3j4jgq634kdic7c")))) (build-system r-build-system) (propagated-inputs (list r-base64enc r-digest r-ellipsis r-fastmap r-rlang)) @@ -4151,13 +4418,13 @@ a list of p-values.") (define-public r-htmlwidgets (package (name "r-htmlwidgets") - (version "1.6.2") + (version "1.6.4") (source (origin (method url-fetch) (uri (cran-uri "htmlwidgets" version)) (sha256 (base32 - "1g0h5dqzr22jyxr6fkxyf8njq3f4wxp7nrwhqw1w5yy0lir1dnkz")))) + "1l0f7bz2icixsrgg5fg8k09mv0nq9vn5ch1fywkaqpa8605qzc3w")))) (build-system r-build-system) (propagated-inputs (list r-htmltools r-jsonlite @@ -4234,13 +4501,13 @@ LaTeX.") (define-public r-curl (package (name "r-curl") - (version "5.1.0") + (version "5.2.0") (source (origin (method url-fetch) (uri (cran-uri "curl" version)) (sha256 (base32 - "15xsxirb5k4pqc8v5kg0i3v1pnhy4wzcljxagp703gc59fl8s8ap")))) + "12gldddkfkdwm6h0lb1pjrcpqc9kmqwfwz18wn9brilzbw8s9nxz")))) (properties `((upstream-name . "curl") (updater-extra-inputs . ("curl")))) @@ -4389,14 +4656,14 @@ rules and utility functions for adaptive GH quadrature.") (define-public r-rstpm2 (package (name "r-rstpm2") - (version "1.6.2") + (version "1.6.3") (source (origin (method url-fetch) (uri (cran-uri "rstpm2" version)) (sha256 (base32 - "1qxd1ffim2nsa16jqnxbq2imhicdhc3z7b55wz549zybdv2whkh6")))) + "07q3n9hv8azwiipggyb6ykhvb8qy10s4nkp5irv76d54fsl7jq2y")))) (properties `((upstream-name . "rstpm2"))) (build-system r-build-system) (propagated-inputs @@ -4405,6 +4672,7 @@ rules and utility functions for adaptive GH quadrature.") r-desolve r-fastghquad r-mgcv + r-mvtnorm r-rcpp r-rcpparmadillo r-survival)) @@ -4481,13 +4749,13 @@ jQuery.") (define-public r-jqr (package (name "r-jqr") - (version "1.3.1") + (version "1.3.3") (source (origin (method url-fetch) (uri (cran-uri "jqr" version)) (sha256 (base32 - "0dlz9wwkgz06mnnmwaq4pr68x7zywp2iczfw0bjpzrgpbzkn2972")))) + "1w6806yx763xb0xaqh8ms20gz4h1y3c2s11lgsq3x8h6bahimn5s")))) (properties `((upstream-name . "jqr"))) (build-system r-build-system) (inputs (list jq)) @@ -4502,17 +4770,40 @@ 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") - (version "0.4.7") + (version "0.4.8") (source (origin (method url-fetch) (uri (cran-uri "sass" version)) (sha256 (base32 - "1vp9qnhkvz4shhvwrwbwcy1xnrgry0rmqxsg96ggv90m6sv0hyki")))) + "0364ndnmlqrga3k4c1hfy1894k5wpm9srf9201g9zb92rlq2kfj2")))) (properties `((upstream-name . "sass"))) (build-system r-build-system) (propagated-inputs @@ -4567,21 +4858,18 @@ expression estimates for all genes.") (define-public r-bslib (package (name "r-bslib") - (version "0.5.1") + (version "0.6.1") (source (origin (method url-fetch) (uri (cran-uri "bslib" version)) (sha256 (base32 - "03phbr6zax3898yvdfqmrs0sjiik4pfn34ksysf95fp348in2xdi")) + "1nrix6i5ailhhlnnv9b2rymvy0c0w3szg9f5r0d5z2fksypka9v4")) (snippet '(for-each delete-file - '("inst/components/dist/accordion/accordion.min.js" - "inst/components/dist/bslibShiny/bslibShiny.min.js" - "inst/components/dist/card/card.min.js" - "inst/components/dist/sidebar/sidebar.min.js" - "inst/components/dist/webComponents/webComponents.min.js" + '("inst/components/dist/components.min.js" + "inst/components/dist/web-components.min.js" "inst/lib/bs-a11y-p/plugins/js/bootstrap-accessibility.min.js" "inst/lib/bs3/assets/javascripts/bootstrap.min.js" "inst/lib/bs4/dist/js/bootstrap.bundle.min.js" @@ -4590,66 +4878,39 @@ expression estimates for all genes.") (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) + (ice-9 match)) + #:imported-modules `(,@%r-build-system-modules + (guix build minify-build-system)) #:phases - #~(modify-phases %standard-phases + #~(modify-phases (@ (guix build r-build-system) %standard-phases) (add-after 'unpack 'process-javascript (lambda* (#:key inputs #:allow-other-keys) - ;; See srcts/build/index.ts - (for-each (lambda (component) - (invoke "esbuild" - "--bundle" "--minify" "--sourcemap" - "--target=es6" ;"--external=:bootstrap" - (string-append - #$(this-package-native-input "typescript-components") - "/srcts/src/components/" component ".ts") - (string-append "--outfile=inst/components/dist/" - component "/" component ".min.js"))) - '("accordion" "bslibShiny" "card" "sidebar")) - ;; XXX: webComponents requires "lit" for type annotations, which - ;; we cannot easily build. (with-directory-excursion "inst/" - (call-with-values - (lambda () - (unzip2 - `(("components/dist/webComponents/webComponents.js" - "components/dist/webComponents/webComponents.min.js")))) - (lambda (sources targets) - (for-each (lambda (source target) - (format #t "Processing ~a --> ~a~%" - source target) - (invoke "esbuild" source "--minify" - (string-append "--outfile=" target))) - sources targets)))) - (with-directory-excursion "inst/lib/" - (call-with-values - (lambda () - (unzip2 - `(("bs-a11y-p/plugins/js/bootstrap-accessibility.js" - "bs-a11y-p/plugins/js/bootstrap-accessibility.min.js") - ("bs-colorpicker/js/bootstrap-colorpicker.js" - "bs-colorpicker/js/bootstrap-colorpicker.min.js") - ("bs3/assets/javascripts/bootstrap.js" - "bs3/assets/javascripts/bootstrap.min.js") - (,(assoc-ref inputs "js-bootstrap4-bundle") - "bs4/dist/js/bootstrap.bundle.min.js") - (,(assoc-ref inputs "js-bootstrap5-bundle") - "bs5/dist/js/bootstrap.bundle.min.js")))) - (lambda (sources targets) - (for-each (lambda (source target) - (format #t "Processing ~a --> ~a~%" - source target) - (invoke "esbuild" source "--minify" - (string-append "--outfile=" target))) - sources targets))))))))) + (for-each (match-lambda + ((source . target) + (minify source #:target target))) + `(("components/dist/components.js" + . "components/dist/components.min.js") + ("components/dist/web-components.js" + . "components/dist/web-components.min.js") + ("lib/bs-a11y-p/plugins/js/bootstrap-accessibility.js" + . "lib/bs-a11y-p/plugins/js/bootstrap-accessibility.min.js") + ("lib/bs3/assets/javascripts/bootstrap.js" + . "lib/bs3/assets/javascripts/bootstrap.min.js") + (,(assoc-ref inputs "js-bootstrap4-bundle") + . "lib/bs4/dist/js/bootstrap.bundle.min.js") + (,(assoc-ref inputs "js-bootstrap5-bundle") + . "lib/bs5/dist/js/bootstrap.bundle.min.js"))))))))) (propagated-inputs (list r-base64enc r-cachem r-htmltools r-jquerylib r-jsonlite + r-lifecycle r-memoise r-mime r-rlang @@ -4666,20 +4927,10 @@ expression estimates for all genes.") ("js-bootstrap5-bundle" ,(origin (method url-fetch) - (uri "https://raw.githubusercontent.com/twbs/bootstrap/v5.2.2/dist/js/bootstrap.bundle.js") - (sha256 - (base32 - "1ibfb1lwwm50did0b4fvxaqc7xyljmp20f3qb1ybdlvcy22mk8bg")))) - ("typescript-components" - ,(origin - (method git-fetch) - (uri (git-reference - (url "https://github.com/rstudio/bslib") - (commit (string-append "v" version)))) - (file-name (git-file-name name version)) + (uri "https://raw.githubusercontent.com/twbs/bootstrap/v5.3.1/dist/js/bootstrap.bundle.js") (sha256 (base32 - "0rvwdn1xg7vwphq0bpa7s81f2d2xyhmy5kb516b0lxvc7qfdypa4")))))) + "1bp0a2fin80hwxvd260r1jk57snsgz74vahid64yb2sgj0rlmj8a")))))) (home-page "https://rstudio.github.io/bslib/") (synopsis "Custom Bootstrap Sass themes for shiny and rmarkdown") (description @@ -4694,7 +4945,7 @@ 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) @@ -4704,7 +4955,7 @@ 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" @@ -4723,14 +4974,16 @@ 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) @@ -4839,6 +5092,42 @@ Shiny apps, using modal dialog boxes, with no need to observe each help button separately.") (license license:gpl3))) +(define-public r-shinymeta + (package + (name "r-shinymeta") + (version "0.2.0.3") + (source + (origin + (method url-fetch) + (uri (cran-uri "shinymeta" version)) + (sha256 + (base32 "1lizg5sjg0f2axr9vk8z4w43lbyim83gd4dzx91dygknv3kgyp89")))) + (properties `((upstream-name . "shinymeta"))) + (build-system r-build-system) + (arguments + (list + #:phases + '(modify-phases %standard-phases + ;; Needed by styler for writing to caches. + (add-after 'unpack 'set-HOME + (lambda _ (setenv "HOME" "/tmp")))))) + (propagated-inputs (list r-callr + r-fastmap + r-fs + r-htmltools + r-rlang + r-shiny + r-sourcetools + r-styler)) + (home-page "https://rstudio.github.io/shinymeta/") + (synopsis "Export domain logic from Shiny using meta-programming") + (description + "This package provides tools for capturing logic in a Shiny app and +exposing it as code that can be run outside of Shiny (e.g., from an R +console). It also provides tools for bundling both the code and results to +the end user.") + (license license:gpl3))) + ;; This package includes minified JavaScript files. When upgrading please ;; check that there are no new minified JavaScript files. (define-public r-shinytree @@ -5128,14 +5417,14 @@ in R and Shiny via the D3 visualization library.") (define-public r-wesanderson (package (name "r-wesanderson") - (version "0.3.6") + (version "0.3.7") (source (origin (method url-fetch) (uri (cran-uri "wesanderson" version)) (sha256 (base32 - "09mr6p2jmqdjq27cz974w5hyxgn929zp9z3inhxqmmh1582fmdi2")))) + "0kjyz5mrkrirg2glf57b0rhxj2fdp1m6q8zx947y0jg1w425cbn9")))) (properties `((upstream-name . "wesanderson"))) (build-system r-build-system) (home-page "https://github.com/karthik/wesanderson") @@ -5359,17 +5648,50 @@ punctuation.") (define-public r-crosstalk (package (name "r-crosstalk") - (version "1.2.0") + (version "1.2.1") (source (origin (method url-fetch) (uri (cran-uri "crosstalk" version)) (sha256 (base32 - "180y7mhpj17axpadwhh7s0qvrpdnag7g977vk256l96d6nmvlds2")))) + "1w8lc3hcd1nlw541880vs3agk2i6bilyapnq9lcs3mfn2s2g0338")) + (snippet + '(for-each delete-file + (list "inst/lib/jquery/jquery.min.js" + "inst/lib/ionrangeslider/js/ion.rangeSlider.min.js" + "inst/lib/selectize/js/selectize.min.js" + "inst/www/js/crosstalk.min.js"))))) (build-system r-build-system) + (arguments + (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) + (add-after 'unpack 'replace-bundled-minified-JavaScript + (lambda* (#:key inputs #:allow-other-keys) + (with-directory-excursion "inst/" + (copy-file (search-input-file inputs + "/share/javascript/selectize.min.js") + "lib/selectize/js/selectize.min.js") + (for-each (match-lambda + ((source . target) + (minify source #:target target))) + `(("lib/jquery/jquery.js" + . "lib/jquery/jquery.min.js") + ("lib/ionrangeslider/js/ion.rangeSlider.js" + . "lib/ionrangeslider/js/ion.rangeSlider.min.js") + ("www/js/crosstalk.js" + . "www/js/crosstalk.min.js"))))))))) (propagated-inputs (list r-htmltools r-jsonlite r-lazyeval r-r6)) + (native-inputs + (list esbuild js-selectize)) (home-page "https://rstudio.github.io/crosstalk/") (synopsis "Inter-widget interactivity for HTML widgets") (description @@ -5467,14 +5789,14 @@ and/or higher-resolution databases.") (define-public r-maps (package (name "r-maps") - (version "3.4.1") + (version "3.4.2") (source (origin (method url-fetch) (uri (cran-uri "maps" version)) (sha256 (base32 - "0034114pdakxcx480b45qy9j4vq1v5ss961ssy92w4nqiqhsb4z6")))) + "032b8348k8vjhwj0d58v7akjkvfpvqzfva0nl7acyy8pky47prak")))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/maps") (synopsis "Draw geographical maps") @@ -5506,18 +5828,18 @@ coordinates.") (define-public r-rgooglemaps (package (name "r-rgooglemaps") - (version "1.4.5.3") + (version "1.5.1") (source (origin (method url-fetch) (uri (cran-uri "RgoogleMaps" version)) (sha256 (base32 - "02v8k0bw70q4qwx4lcdy8p25q7n3ql2ll46lfpqllxa1p26svmfi")))) + "197q5i2sky824dwq0x4hhrpkrsd1b6f9qg06mjlwb89mv4vnrzhl")))) (properties `((upstream-name . "RgoogleMaps"))) (build-system r-build-system) (propagated-inputs - (list r-png r-sp)) + (list r-png)) (home-page "https://cran.r-project.org/web/packages/RgoogleMaps") (synopsis "Use Google Maps in R") (description "This package serves two purposes: @@ -5532,13 +5854,13 @@ 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") @@ -5590,14 +5912,14 @@ files and in-memory raw vectors.") (define-public r-ggmap (package (name "r-ggmap") - (version "3.0.2") + (version "4.0.0") (source (origin (method url-fetch) (uri (cran-uri "ggmap" version)) (sha256 (base32 - "1bnwbk2z31xgxmvq2rawqz7dlbmc0nbhr4d4pmgimjnlbyby6pxs")))) + "1x9lqx0mizqiyxzgg8pgkbi8qmbn2a0zsq5r5riknvh6ghskkrhd")))) (build-system r-build-system) (propagated-inputs (list r-bitops @@ -5612,7 +5934,6 @@ files and in-memory raw vectors.") r-plyr r-png r-purrr - r-rgooglemaps r-rlang r-scales r-stringr @@ -5629,14 +5950,14 @@ including functions for geolocation and routing.") (define-public r-haven (package (name "r-haven") - (version "2.5.3") + (version "2.5.4") (source (origin (method url-fetch) (uri (cran-uri "haven" version)) (sha256 (base32 - "1qxp0hp7clmd70383lsbiijq1i5037zv4haja60czw09mnprjncs")) + "0dd83v3bfs7and9ydx35m8zw0md3wgchwpnvj6yllixa6yxk25cy")) (modules '((guix build utils))) (snippet ;; unvendor readstat @@ -5776,14 +6097,14 @@ colors are provided.") (define-public r-glue (package (name "r-glue") - (version "1.6.2") + (version "1.7.0") (source (origin (method url-fetch) (uri (cran-uri "glue" version)) (sha256 (base32 - "1gzxk5jgdh2xq9r7z09xs306ygzf27vhg3pyfl7ck1755gqii9cx")))) + "1p4699p68k9f8d76bmgx5xabay6xjrcgajckzqxyn6icym8ipx8s")))) (build-system r-build-system) (properties ;; knitr depends on glue, so we can't add knitr here to build the @@ -5939,13 +6260,13 @@ error stream.") (define-public r-pls (package (name "r-pls") - (version "2.8-2") + (version "2.8-3") (source (origin (method url-fetch) (uri (cran-uri "pls" version)) (sha256 - (base32 "1f7j47vyh26mp08730z21ssvia4df7rc8iiy5v3yclndc4wlqhi4")))) + (base32 "1qvbwr567vxywpfsl7cb15lpwxpd04kf01nzk1v8dm4csf6p5sz6")))) (build-system r-build-system) (home-page "https://mevik.net/work/software/pls.html") (synopsis "Partial Least Squares and Principal Component Regression") @@ -5991,23 +6312,16 @@ processes. Most of its code is based on the @code{psutil} Python package.") (define-public r-pkgbuild (package (name "r-pkgbuild") - (version "1.4.2") + (version "1.4.3") (source (origin (method url-fetch) (uri (cran-uri "pkgbuild" version)) (sha256 - (base32 "1ic2zjcz29jbfwmsqsja4jjalzsz9ayac5zjz6nv482lsx2s4d13")))) + (base32 "0rci20gj2x0bgjy51jp8i4gld6arsigj7lhdkpwvdyhadjsyv0qm")))) (build-system r-build-system) (propagated-inputs - (list r-callr - r-cli - r-crayon - r-desc - r-prettyunits - r-processx - r-r6 - r-rprojroot)) + (list r-callr r-cli r-desc r-processx r-r6)) (home-page "https://github.com/r-pkgs/pkgbuild") (synopsis "Find tools needed to build R packages") (description @@ -6019,14 +6333,14 @@ is configured appropriately so R can use them.") (define-public r-pkgload (package (name "r-pkgload") - (version "1.3.3") + (version "1.3.4") (source (origin (method url-fetch) (uri (cran-uri "pkgload" version)) (sha256 (base32 - "0nb9h61l57cb7yzmsmh5q650zdd7nda6cmnd6m5cqyb4hwi832dh")))) + "1ki6k7l7dpb6bncvvcndrv5764jb1adrzs5iaxicakfsija4pc30")))) (build-system r-build-system) (propagated-inputs (list r-cli @@ -6069,13 +6383,13 @@ value for each cluster in a dendrogram.") (define-public r-rcpp (package (name "r-rcpp") - (version "1.0.11") + (version "1.0.12") (source (origin (method url-fetch) (uri (cran-uri "Rcpp" version)) (sha256 - (base32 "0pzssba79z90rax2v02r5m1a6ysljfnvq03r6q2nr72rd0q7qxfz")))) + (base32 "1l1b0q2r6q2bjr4wvj98kp9844fyrsn2ppx339v05vmy8g65jwqc")))) (build-system r-build-system) (home-page "https://www.rcpp.org") (synopsis "Seamless R and C++ integration") @@ -6111,6 +6425,30 @@ and Francois (2011, JSS), and the book by Eddelbuettel (2013, Springer); see performs global optimization by differential evolution.") (license license:gpl2+))) +(define-public r-rcppdist + (package + (name "r-rcppdist") + (version "0.1.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "RcppDist" version)) + (sha256 + (base32 "02g57xwfipdcljv06krhm02dbqn9kfyj2km6rdg0a7vq9prwdz1x")))) + (properties `((upstream-name . "RcppDist"))) + (build-system r-build-system) + (propagated-inputs (list r-rcpp r-rcpparmadillo)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/duckmayr/RcppDist") + (synopsis "Integration of additional probability distributions") + (description + "RcppDist provides a header-only C++ library with functions for +additional statistical distributions that can be called from C++ when writing +code using Rcpp or RcppArmadillo. Functions are available that return a +@code{NumericVector} as well as doubles, and for multivariate or matrix +distributions, Armadillo vectors and matrices.") + (license license:gpl2+))) + (define-public r-rcppml (package (name "r-rcppml") @@ -6135,13 +6473,13 @@ factorization and divisive clustering for large sparse and dense matrices.") (define-public r-rcppspdlog (package (name "r-rcppspdlog") - (version "0.0.14") + (version "0.0.16") (source (origin (method url-fetch) (uri (cran-uri "RcppSpdlog" version)) (sha256 - (base32 "1n63mz2rr63kz3v7mg6n4cvw2lrw1ffk7xvln1j1005argvzvd4c")))) + (base32 "12xryg2mp00nxmpchf0lki43c13c1vsda14pcc4dcfplamwkhlza")))) (properties `((upstream-name . "RcppSpdlog"))) (build-system r-build-system) (propagated-inputs (list r-rcpp)) @@ -6221,6 +6559,27 @@ with Rcpp and retrieve an @code{XPtr} that can be passed to other C++ components.") (license license:expat))) +(define-public r-bb + (package + (name "r-bb") + (version "2019.10-1") + (source + (origin + (method url-fetch) + (uri (cran-uri "BB" version)) + (sha256 + (base32 "0kf9sfsm3n036a8a8gjfpc9qdryvadb019kqjh80n1szdv7bdl04")))) + (properties `((upstream-name . "BB"))) + (build-system r-build-system) + (propagated-inputs (list r-quadprog)) + (home-page "https://publichealth.jhu.edu/") + (synopsis "Solving and optimizing large-scale nonlinear systems") + (description + "This package implements Barzilai-Borwein spectral methods for solving +nonlinear system of equations, and for optimizing nonlinear objective +functions subject to simple constraints.") + (license license:gpl3))) + (define-public r-bindr (package (name "r-bindr") @@ -6243,14 +6602,14 @@ 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)) @@ -6400,13 +6759,13 @@ graphics packages that comes with the base installation.") (define-public r-ctrdata (package (name "r-ctrdata") - (version "1.15.2") + (version "1.16.0") (source (origin (method url-fetch) (uri (cran-uri "ctrdata" version)) (sha256 (base32 - "0rqsz9wq4w0w2q0vha3dh7rwr3mnhp2gc1xb8hi30qk85zghjzml")))) + "13n5c7znlxkwqlv04vd5ynbkbq8f28dzbr3y66966971xnf7yhsm")))) (properties `((upstream-name . "ctrdata"))) (build-system r-build-system) (propagated-inputs @@ -6418,9 +6777,12 @@ graphics packages that comes with the base installation.") r-jsonlite r-lubridate r-nodbi + r-readr r-stringi r-tibble - r-xml2)) + r-v8 + r-xml2 + r-zip)) (native-inputs (list r-r-rsp)) (home-page "https://cran.r-project.org/package=ctrdata") (synopsis "Retrieve and analyze clinical trials in public registers") @@ -6652,14 +7014,14 @@ any subsequent lookup as it keeps the hash table in memory.") (define-public r-ff (package (name "r-ff") - (version "4.0.9") + (version "4.0.12") (source (origin (method url-fetch) (uri (cran-uri "ff" version)) (sha256 (base32 - "0krwxq4985x3n5mzx8i9smwpkd5sifbfgy9z7ikwk84734km683j")))) + "1gs1zf3x0clnim7qlrkhlsjf2xgry5ybqnh8ipa2kzhhk9d3bbq8")))) (build-system r-build-system) (propagated-inputs (list r-bit)) (home-page "https://ff.r-forge.r-project.org/") @@ -6816,14 +7178,14 @@ parallel - each request in a separate fork.") (define-public r-progress (package (name "r-progress") - (version "1.2.2") + (version "1.2.3") (source (origin (method url-fetch) (uri (cran-uri "progress" version)) (sha256 (base32 - "0dgzb362641aqm8xd88iqa8jmpdm43xs0aba0d5kk6fvapnxi95l")))) + "0xljky4ad2jbbcfrcyh48li461pc5b2wk210n4x5rs2di6dhfaza")))) (build-system r-build-system) (propagated-inputs (list r-crayon r-hms r-prettyunits r-r6)) @@ -6839,28 +7201,28 @@ package also provides a C++ API, that works with or without Rcpp.") (define-public r-ggally (package (name "r-ggally") - (version "2.1.2") + (version "2.2.0") (source (origin (method url-fetch) (uri (cran-uri "GGally" version)) (sha256 (base32 - "1r98zgh2grn8330cf26r1c20gl131zm778szvn5wj6q6pwv2yd9h")))) + "1pc0mcxhj3mz8ac6r1sqfxw1wkamikjal54z7pb1mairsr3hpqnw")))) (properties `((upstream-name . "GGally"))) (build-system r-build-system) (inputs (list openssl)) (propagated-inputs (list r-dplyr - r-forcats r-ggplot2 + r-ggstats r-gtable r-lifecycle + r-magrittr r-plyr r-progress r-rcolorbrewer - r-reshape r-rlang r-scales r-tidyr)) @@ -6898,13 +7260,13 @@ most popular ones.") (define-public r-sp (package (name "r-sp") - (version "2.1-1") + (version "2.1-2") (source (origin (method url-fetch) (uri (cran-uri "sp" version)) (sha256 - (base32 "0ns0n4929db2g8wjmg8nscq286df4hxrv7gr4mj8giymm3icsd1d")))) + (base32 "1i8d7sbccnhiw7pkmg89v98abjad45psyxccz1acbq4z5ykb9nxz")))) (build-system r-build-system) (propagated-inputs (list r-lattice)) @@ -6923,13 +7285,13 @@ print, summary, etc.") (define-public r-lambertw (package (name "r-lambertw") - (version "0.6.9") + (version "0.6.9-1") (source (origin (method url-fetch) (uri (cran-uri "LambertW" version)) (sha256 (base32 - "0260sa4w5i4vwxg13g3q0dmairsrbyaijr2gxlppy09nxriccwbr")))) + "19j6vjhywyzmrf7rsrx5kf0hg8cpk1gn8al24q813jzp0vsv9ljj")))) (properties `((upstream-name . "LambertW"))) (build-system r-build-system) (propagated-inputs (list r-ggplot2 @@ -6959,13 +7321,13 @@ do-it-yourself toolkit allows users to define their own Lambert W x (define-public r-lamw (package (name "r-lamw") - (version "2.2.1") + (version "2.2.3") (source (origin (method url-fetch) (uri (cran-uri "lamW" version)) (sha256 (base32 - "1lz8iv6r07lrc9bghdmq5y8bfmlr1hdk1j02ghvmz3d7s3d9p0hz")))) + "0jq3xq2ll4lpj8f5aqwazqlb978nzyk7hln4iwlzrlkkcqc35qm1")))) (properties `((upstream-name . "lamW"))) (build-system r-build-system) (propagated-inputs (list r-rcpp r-rcppparallel)) @@ -7020,20 +7382,24 @@ 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 @@ -7048,13 +7414,13 @@ provides an interactive R manager and worker environment.") (define-public r-rmumps (package (name "r-rmumps") - (version "5.2.1-23") + (version "5.2.1-26") (source (origin (method url-fetch) (uri (cran-uri "rmumps" version)) (sha256 - (base32 "1mypmf9j9fzaldpv56bqng5yhyxfc55hvzd98d1dk6w1m1sncn09")))) + (base32 "16ii9yg20xkxhsqszay42s4cr29k74av5d9d1d28kmpw6cjh2r2c")))) (properties `((upstream-name . "rmumps"))) (build-system r-build-system) (inputs (list zlib)) @@ -7136,6 +7502,61 @@ T distribution. There is only one exported function, @code{e_trunct}, which should be seen for details.") (license license:expat))) +(define-public r-evd + (package + (name "r-evd") + (version "2.3-6.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "evd" version)) + (sha256 + (base32 "0wc95hfj0gwkyghipdrhwd3s6q2agh9x2wy6y7dr6mjw7wnmjb36")))) + (properties `((upstream-name . "evd"))) + (build-system r-build-system) + (home-page "https://cran.r-project.org/package=evd") + (synopsis "Functions for extreme value distributions") + (description + "This package extends simulation, distribution, quantile and density +functions to univariate and multivariate parametric extreme value distributions, +and provides fitting functions which calculate maximum likelihood estimates for +univariate and bivariate maxima models, and for univariate and bivariate +threshold models.") + (license license:gpl3))) + +(define-public r-evmix + (package + (name "r-evmix") + (version "2.12") + (source + (origin + (method url-fetch) + (uri (cran-uri "evmix" version)) + (sha256 + (base32 "02rabc9snci00s1x7h0svfr66lmw1wjcdg0149wc52mnccsdaivf")))) + (properties `((upstream-name . "evmix"))) + (build-system r-build-system) + (propagated-inputs + (list r-gsl + r-mass + r-sparsem)) + (home-page "http://www.math.canterbury.ac.nz/~c.scarrott/evmix.shtml") + (synopsis + "Extreme value threshold estimation and uncertainty quantification") + (description + "This package provides the usual distribution functions, maximum likelihood +inference and model diagnostics for univariate stationary extreme value mixture +models. Also, there are provided kernel density estimation including various +boundary corrected kernel density estimation methods and a wide choice of kernels, +with cross-validation likelihood based bandwidth estimator. Reasonable +consistency with the base functions in the evd package is provided, so that users +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") @@ -7151,37 +7572,44 @@ which should be seen for details.") (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 @@ -7252,6 +7680,32 @@ 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") @@ -7334,14 +7788,14 @@ matrices, a special case of sparse matrices.") (define-public r-bbmle (package (name "r-bbmle") - (version "1.0.25") + (version "1.0.25.1") (source (origin (method url-fetch) (uri (cran-uri "bbmle" version)) (sha256 (base32 - "0mdj21q7k0fp4cj7la14vmcjmp49zqm57g7r6zrwmxpv0acwda46")))) + "02xnfmjr5ax5pc69jkxmygkwvb68flrf1x8pxfw0hk7y37w0qanr")))) (build-system r-build-system) (propagated-inputs (list r-bdsmatrix @@ -7387,14 +7841,14 @@ topics for ecologists (ISBN 978-0-691-12522-0).") (define-public r-lpsolve (package (name "r-lpsolve") - (version "5.6.19") + (version "5.6.20") (source (origin (method url-fetch) (uri (cran-uri "lpSolve" version)) (sha256 (base32 - "06sqjj69gp2ja2hgzfxii00js6pjbmhyp07a9jya5sy6cjgb9ma9")))) + "1nr1vjz6ma42kxbcay4g9j30r9srkbw79f06sdnc68sid2h0dziz")))) (properties `((upstream-name . "lpSolve"))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/lpSolve") @@ -7441,14 +7895,16 @@ 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 @@ -7460,7 +7916,7 @@ 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 @@ -7751,14 +8207,14 @@ these progress updates.") (define-public r-lava (package (name "r-lava") - (version "1.7.2.1") + (version "1.7.3") (source (origin (method url-fetch) (uri (cran-uri "lava" version)) (sha256 (base32 - "0bpg75w0ri1mkf7cw9gbw1fjpy4mh9h48k019y772xjfgrf1yayl")))) + "023av1mz4hr1lqv8cpbx0j1y3c7ljyns35rm838c618b6pqps22f")))) (build-system r-build-system) (propagated-inputs (list r-future-apply r-numderiv r-progressr r-squarem r-survival)) @@ -7897,14 +8353,14 @@ 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") @@ -7968,14 +8424,14 @@ with particular emphasis on making attractive log axis plots.") (define-public r-rmysql (package (name "r-rmysql") - (version "0.10.26") + (version "0.10.27") (source (origin (method url-fetch) (uri (cran-uri "RMySQL" version)) (sha256 (base32 - "0yk3xyj6fwyms4ii80m304xn0zbhayfmrhd1b0x7s7wblch5pfs5")))) + "1axz0pqvpqs028p2j7awmgdwpignl7m3hqd1fv3vkgfrkil5nwzi")))) (properties `((upstream-name . "RMySQL"))) (build-system r-build-system) (inputs @@ -8016,20 +8472,20 @@ similar to finite mixture models.") (define-public r-rpostgresql (package (name "r-rpostgresql") - (version "0.7-5") + (version "0.7-6") (source (origin (method url-fetch) (uri (cran-uri "RPostgreSQL" version)) (sha256 (base32 - "18czy93l9dg321pbvrfmlwrjahpbkiw0sll4pkkqm55xapp02m3b")))) - (properties `((upstream-name . "RPostgreSQL"))) + "0b1dmx5pcd4v1xg25ihxilkga3zdblb1xy896ik5fdkaidq3jn9q")))) + (properties + '((upstream-name . "RPostgreSQL") + (updater-extra-inputs . ("postgresql")))) (build-system r-build-system) - (inputs - (list postgresql)) - (propagated-inputs - (list r-dbi)) + (inputs (list postgresql)) + (propagated-inputs (list r-dbi)) (home-page "https://github.com/tomoakin/RPostgreSQL") (synopsis "R interface to the PostgreSQL database system") (description @@ -8125,14 +8581,14 @@ Delaunay triangulation and convex hull computation.") (define-public r-ddalpha (package (name "r-ddalpha") - (version "1.3.13") + (version "1.3.15") (source (origin (method url-fetch) (uri (cran-uri "ddalpha" version)) (sha256 (base32 - "1bjfgb3lbzhjb5wx9hzp90jppq7vnj59bmd2n9ymi8sh1570m9p4")))) + "1vgyg1c2ir93nsbh4xlm774b6rhx14pyr069dpcl9vwcx2j989qc")))) (build-system r-build-system) (propagated-inputs (list r-bh @@ -8230,14 +8686,14 @@ 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)) @@ -8322,14 +8778,14 @@ 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 @@ -8393,14 +8849,14 @@ for certain use cases.") (define-public r-ggrepel (package (name "r-ggrepel") - (version "0.9.4") + (version "0.9.5") (source (origin (method url-fetch) (uri (cran-uri "ggrepel" version)) (sha256 (base32 - "0gngsx87rcqijdr684bgpnazdlz3vj4brzw0fic0jdsrf1rb9aw1")))) + "1alcrw304bn6c2i64rxxjkzk3il19gq30gyj3sb4blradkjh1rni")))) (build-system r-build-system) (propagated-inputs (list r-ggplot2 r-rcpp r-rlang r-scales r-withr)) @@ -8519,13 +8975,13 @@ functions for: (define-public r-statsexpressions (package (name "r-statsexpressions") - (version "1.5.2") + (version "1.5.3") (source (origin (method url-fetch) (uri (cran-uri "statsExpressions" version)) (sha256 (base32 - "1lqx6wcip0vzlrlhj8yg09009r1r12xg1wxkq93hrlkvya6wm66k")))) + "0ixchra1vjqhnzi4r0db1bmjk3h1xqcqc6pymxdjxz3jqbsmmy7n")))) (properties `((upstream-name . "statsExpressions"))) (build-system r-build-system) (propagated-inputs (list r-afex @@ -8587,13 +9043,13 @@ matrices.") (define-public r-stringdist (package (name "r-stringdist") - (version "0.9.10") + (version "0.9.12") (source (origin (method url-fetch) (uri (cran-uri "stringdist" version)) (sha256 - (base32 "1s3cy2q6l4ppgslwfbfydi5f3kzshfhzkb25gz546n7jgw5jxm3g")))) + (base32 "1i365vwjx8kk47wzry8d3zhzrlv51hn76s2ipk9vi121zx939171")))) (build-system r-build-system) (home-page "https://github.com/markvanderloo/stringdist") (synopsis "Approximate string matching and string distance functions") @@ -8632,14 +9088,14 @@ 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/") @@ -8705,14 +9161,14 @@ response matrices.") (define-public r-ordinal (package (name "r-ordinal") - (version "2022.11-16") + (version "2023.12-4") (source (origin (method url-fetch) (uri (cran-uri "ordinal" version)) (sha256 (base32 - "14yld28vjmvxbwz6mapfri4vrj3nsf9p73fn2z80j6jkz8fsv22l")))) + "18lzpmf36vvc3krk7jqz7naikhrcdyplj2z9y6xgzlnzhgcjln7m")))) (build-system r-build-system) (propagated-inputs (list r-mass r-matrix r-nlme r-numderiv r-ucminf)) @@ -8858,6 +9314,30 @@ distribution with mean equal to @code{mean} and standard deviation equal to functions, as well as a random generation function.") (license license:gpl2))) +(define-public r-truncdist + (package + (name "r-truncdist") + (version "1.0-2") + (source + (origin + (method url-fetch) + (uri (cran-uri "truncdist" version)) + (sha256 + (base32 "02ihw4ixhadwr3sqm6r264i8vpcaz8pn69vkzabd8fwqvn5vcj5q")))) + (properties `((upstream-name . "truncdist"))) + (build-system r-build-system) + (propagated-inputs (list r-evd)) + (home-page "https://cran.r-project.org/package=truncdist") + (synopsis "Truncated random variables") + (description + "This package provides a collection of tools to evaluate probability density +functions, cumulative distribution functions, quantile functions and random +numbers for truncated random variables. These functions are provided to also +compute the expected value and variance. @acronym{Q-Q, quantile–quantile} plots +can be produced. All the probability functions in the stats, stats4 and evd +packages are automatically available for truncation.") + (license license:gpl2+))) + (define-public r-rsolnp (package (name "r-rsolnp") @@ -9145,14 +9625,14 @@ 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)) @@ -9169,13 +9649,13 @@ Analysis with R\" by Michael Friendly and David Meyer (2015).") (define-public r-vcfr (package (name "r-vcfr") - (version "1.14.0") + (version "1.15.0") (source (origin (method url-fetch) (uri (cran-uri "vcfR" version)) (sha256 (base32 - "1jq4c8w9lq03q8x448p620wphslbw4zymfxc42ydl1x7wp9dnxl5")))) + "1yj91cphin232m09wrpj8l27vxblyryh658siakz55hxjs5y85yz")))) (build-system r-build-system) (native-inputs (list r-knitr)) @@ -9207,13 +9687,13 @@ VCF data and familiar R software.") (define-public r-rvcg (package (name "r-rvcg") - (version "0.22.1") + (version "0.22.2") (source (origin (method url-fetch) (uri (cran-uri "Rvcg" version)) (sha256 (base32 - "16rr2kqw7lqb7m01pwn496zf2nr25gm6wcncz44kszjzzmv2xanv")))) + "077p4c16nqi6ayxv1i31cr6sw9fwnxpmfkmrrhzh02khpi2c2jg5")))) (properties `((upstream-name . "Rvcg"))) (build-system r-build-system) (propagated-inputs (list r-rcpp r-rcpparmadillo r-rcppeigen)) @@ -9336,14 +9816,14 @@ 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)) @@ -9401,14 +9881,14 @@ multivariate function estimation using smoothing splines.") (define-public r-cli (package (name "r-cli") - (version "3.6.1") + (version "3.6.2") (source (origin (method url-fetch) (uri (cran-uri "cli" version)) (sha256 (base32 - "0djyl08k7nhlbzgnfx7gq8w00s7c9f66bd11bvi9lzz6qz70cc5y")))) + "0lg131q9l8wpnggc3jlrjl1ri3dw0d1pi4nr1zlnlaqvf7ilj1sc")))) (build-system r-build-system) (home-page "https://github.com/r-lib/cli#readme") (synopsis "Helpers for developing command line interfaces") @@ -9510,13 +9990,13 @@ constants, and control debugging of packages via environment variables.") (define-public r-processx (package (name "r-processx") - (version "3.8.2") + (version "3.8.3") (source (origin (method url-fetch) (uri (cran-uri "processx" version)) (sha256 - (base32 "1kbyhpzcfiqqx9csn0869zbiza6w97vq1j1y01qlph93bfpqf6z9")))) + (base32 "0cfq6pq8rg0vhjfgvf48hfvngbn1g6hv28b6pgxh55xqh8acbn0s")))) (build-system r-build-system) (propagated-inputs (list r-ps r-r6)) @@ -9535,13 +10015,13 @@ timeout. It can also poll several processes at once.") (define-public r-timeseries (package (name "r-timeseries") - (version "4031.107") + (version "4032.109") (source (origin (method url-fetch) (uri (cran-uri "timeSeries" version)) (sha256 (base32 - "0hmmv8ml2ryw1zkbk55f85ml664as8l0qksj9h1335zn58s6lf44")))) + "07vkppp9azbrn0lv1xhi4s3vpy4mglhysp7d250fl08b9rc4f32y")))) (properties `((upstream-name . "timeSeries"))) (build-system r-build-system) (propagated-inputs (list r-timedate)) @@ -9676,14 +10156,14 @@ Markdown documents.") (define-public r-seriation (package (name "r-seriation") - (version "1.5.1") + (version "1.5.4") (source (origin (method url-fetch) (uri (cran-uri "seriation" version)) (sha256 (base32 - "0q52lvcxgiqs1x0vyjrahkj8mdxc9s3514064fsqgwns4s03j1aa")))) + "17rk4674r5knfgqyik9gbz6yj42qv6h79j2prw79glc1ym99qcyj")))) (build-system r-build-system) (propagated-inputs (list r-ca @@ -9711,13 +10191,13 @@ iVAT).") (define-public r-xfun (package (name "r-xfun") - (version "0.40") + (version "0.41") (source (origin (method url-fetch) (uri (cran-uri "xfun" version)) (sha256 - (base32 "1xvngh0kbd87cl39bzmjx5i57pmxik9gw50li8dh42j438cnma8y")))) + (base32 "00ivgr557ja8l33lvawrivfhgj1xbjmdi4dj07zybwa1y6wc6x13")))) (build-system r-build-system) (properties ;; knitr itself depends on xfun @@ -9797,14 +10277,14 @@ estimated from a given sample.") (define-public r-vctrs (package (name "r-vctrs") - (version "0.6.4") + (version "0.6.5") (source (origin (method url-fetch) (uri (cran-uri "vctrs" version)) (sha256 (base32 - "1j01s27ybzn60p17y7k5n5dzsmjqhgjy634sv0dx4977aqiik04a")))) + "00p4r1z4xc05m25y0qa7svr67lbypcfqyp2b0ja9asgx90i7s5j3")))) (build-system r-build-system) (propagated-inputs (list r-cli r-glue r-lifecycle r-rlang)) @@ -9865,13 +10345,13 @@ terminals.") (define-public r-pinfsc50 (package (name "r-pinfsc50") - (version "1.2.0") + (version "1.3.0") (source (origin (method url-fetch) (uri (cran-uri "pinfsc50" version)) (sha256 (base32 - "1547xyxmfb7zi8h9bsm6k67dcw4hpp129xzvmgwfw7r6p4af47zd")))) + "1gs9x328qqvqwx3k4z9jgzq5zb6g8kdz4430n96v7zb78p7jf5lp")))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/pinfsc50/") (synopsis "Genomic data for the plant pathogen Phytophthora infestans") @@ -9906,14 +10386,14 @@ their own grammars and easily expose them in R packages.") (define-public r-uuid (package (name "r-uuid") - (version "1.1-1") + (version "1.2-0") (source (origin (method url-fetch) (uri (cran-uri "uuid" version)) (sha256 (base32 - "05mpmgvrfsbm3s593l1fnx8z345djbvrqp5j00sgbrh6nw72848n")))) + "1z9a4b7hkymkwjq69d00myy5xw8kl9g99f4m2y4lxqqjz0a0lwbk")))) (build-system r-build-system) (home-page "https://www.rforge.net/uuid") (synopsis "Tools for generating and handling of UUIDs") @@ -9925,14 +10405,14 @@ their own grammars and easily expose them in R packages.") (define-public r-tinytex (package (name "r-tinytex") - (version "0.48") + (version "0.49") (source (origin (method url-fetch) (uri (cran-uri "tinytex" version)) (sha256 (base32 - "15bnb4fxdzapgj9ws3rfbcxwdzwbq8h5yy4d1db0m9c1lygrh2qx")))) + "0i9icscy5n6p6w3f4v2z3cznywrrv2l6xyyhb0k1fpa4cpn6j4cl")))) (build-system r-build-system) (propagated-inputs (list r-xfun)) @@ -10007,17 +10487,55 @@ implementation of an approximate nearest neighbor search using hierarchical @acronym{NSW, Navigable Small World} graphs.") (license license:asl2.0))) +(define-public r-nestedcv + (package + (name "r-nestedcv") + (version "0.7.3") + (source + (origin + (method url-fetch) + (uri (cran-uri "nestedcv" version)) + (sha256 + (base32 "1f725r2f00ldp6pdk3ncvwxm4c2asz6rjs6g8afwh6plxwfkcjq8")))) + (properties `((upstream-name . "nestedcv"))) + (build-system r-build-system) + (propagated-inputs (list r-caret + r-data-table + r-doparallel + r-foreach + r-ggplot2 + r-glmnet + r-magrittr + r-matrixstats + r-matrixtests + r-proc + r-rfast + r-rlang)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/myles-lewis/nestedcv") + (synopsis "Nested cross-validation with glmnet and caret") + (description + "This package implements nested cross-validation applied to the +@code{glmnet} and @code{caret} packages. With glmnet this includes +cross-validation of elastic net alpha parameter. A number of feature +selection filter functions (t-test, Wilcoxon test, ANOVA, Pearson/Spearman +correlation, random forest, ReliefF) for feature selection are provided and +can be embedded within the outer loop of the nested CV. Nested CV can be also +be performed with the @code{caret} package giving access to the large number +of prediction methods available in @code{caret}.") + (license license:expat))) + (define-public r-network (package (name "r-network") - (version "1.18.1") + (version "1.18.2") (source (origin (method url-fetch) (uri (cran-uri "network" version)) (sha256 (base32 - "0hyj7h0z6mvf0jq0fb5z9nny4c71pwqjl7w0z864in3754sp03f8")))) + "0yx20v3izm7037cx5swc19966z97w7q9xw4p2p6skfyap4nqjcxz")))) (build-system r-build-system) (propagated-inputs (list r-magrittr r-statnet-common r-tibble)) @@ -10144,14 +10662,14 @@ detect possible inconsistencies.") (define-public r-sna (package (name "r-sna") - (version "2.7-1") + (version "2.7-2") (source (origin (method url-fetch) (uri (cran-uri "sna" version)) (sha256 (base32 - "1qqaazcc8x925bwa9yllwyv98ddpdqgdq026h0ss6vsvq4bz5nk0")))) + "1kd7qxdc8wy8d385yddj6rs0xc6lkn8hpra3wy4r7svzjqk4c8bv")))) (build-system r-build-system) (propagated-inputs (list r-network r-statnet-common)) @@ -10194,14 +10712,14 @@ of these tests are also included.") (define-public r-ttr (package (name "r-ttr") - (version "0.24.3") + (version "0.24.4") (source (origin (method url-fetch) (uri (cran-uri "TTR" version)) (sha256 (base32 - "11xsmbvmxq2j119j2z58bx1fkkb2xlhmzc35z5fbwr3nchrfz6jd")))) + "1102f4i776asqb281mq20ymhzhcp12gn9nr3rm0jzblv6nf2nww9")))) (properties `((upstream-name . "TTR"))) (build-system r-build-system) (propagated-inputs @@ -10242,13 +10760,13 @@ information between package updates.") (define-public r-leaflet (package (name "r-leaflet") - (version "2.2.0") + (version "2.2.1") (source (origin (method url-fetch) (uri (cran-uri "leaflet" version)) (sha256 - (base32 "0k0zplbhmvld6q1id17s827z1230kvnz16c4hlvp6jn9g26yy0dq")) + (base32 "1gfsf7bsmp418zv4gpk5i1xg5vvgqwpdkznnvj5x0mk4rcqk1i81")) (snippet '(for-each delete-file @@ -10426,14 +10944,14 @@ exhaustive search.") (define-public r-splus2r (package (name "r-splus2r") - (version "1.3-3") + (version "1.3-4") (source (origin (method url-fetch) (uri (cran-uri "splus2R" version)) (sha256 (base32 - "035zd22zcpkh74rik9ws6g8al6vjz7jgrqs5si361bzb5n290p3x")))) + "16r13bbijq7lz3c8qn7dnb4h8fc3vbcahyah2zij888p470vqljn")))) (properties `((upstream-name . "splus2R"))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/splus2R/") @@ -10548,14 +11066,14 @@ financial trading strategies.") (define-public r-tseries (package (name "r-tseries") - (version "0.10-54") + (version "0.10-55") (source (origin (method url-fetch) (uri (cran-uri "tseries" version)) (sha256 (base32 - "0a6hnkx1wpw29q5rqq7hi2fal720dx5f62rvc6gxs8lanmik5jn3")))) + "03jb2ij4jyhrbygi0gha549vq262kx1ffjmy12rf0gak0qmq5iwp")))) (build-system r-build-system) (propagated-inputs (list r-jsonlite r-quadprog r-quantmod r-zoo)) @@ -10616,14 +11134,14 @@ Cryer and Kung-Sik Chan.") (define-public r-extradistr (package (name "r-extradistr") - (version "1.9.1") + (version "1.10.0") (source (origin (method url-fetch) (uri (cran-uri "extraDistr" version)) (sha256 (base32 - "1gypnbvdzczl0mvznvy8r7hzsvc5gvdvi2mmzj21cqdw9n63944r")))) + "1ad3xp4axbbid9i9vd4q8iccs3g3917yic2mas37mfwm5in4l9pl")))) (properties `((upstream-name . "extraDistr"))) (build-system r-build-system) (propagated-inputs @@ -10639,13 +11157,13 @@ multivariate distributions.") (define-public r-fbasics (package (name "r-fbasics") - (version "4031.95") + (version "4032.96") (source (origin (method url-fetch) (uri (cran-uri "fBasics" version)) (sha256 (base32 - "1d1pbyidng68fcc6vrm98ybklz6yzrinqc2dhg8q6f1pg3kkx6bj")))) + "14461d6ac8hcn1x3srh45a4s5imafqb0xy8bn5l6d0qwhw4njmg1")))) (properties `((upstream-name . "fBasics"))) (build-system r-build-system) (propagated-inputs @@ -10797,14 +11315,14 @@ sample Robust Rank-Order Distributional Test.") (define-public r-expm (package (name "r-expm") - (version "0.999-7") + (version "0.999-9") (source (origin (method url-fetch) (uri (cran-uri "expm" version)) (sha256 (base32 - "1wd03dcqxyi7kyznfq7107ix1bsp7rwzqqv6w7p37pdq2jwlkwi8")))) + "1m7yiya3hyv6l87qi0vj9s9cmajnig7ah08id9y4yg4dr95278c3")))) (build-system r-build-system) (propagated-inputs (list r-matrix)) (native-inputs (list gfortran)) @@ -10885,14 +11403,14 @@ simple and familiar tools.") (define-public r-phontools (package (name "r-phontools") - (version "0.2-2.1") + (version "0.2-2.2") (source (origin (method url-fetch) (uri (cran-uri "phonTools" version)) (sha256 (base32 - "01i481mhswsys3gpasw9gn6nxkfmi7bz46g5c84m13pg0cv8hxc7")))) + "0r5ylbxvzpa23yys4rxdlglfc5jq997ziw6yf8v9jyavy4p1ppkx")))) (properties `((upstream-name . "phonTools"))) (build-system r-build-system) (home-page "http://www.santiagobarreda.com/rscripts.html") @@ -11254,13 +11772,13 @@ systems.") (define-public r-baseline (package (name "r-baseline") - (version "1.3-4") + (version "1.3-5") (source (origin (method url-fetch) (uri (cran-uri "baseline" version)) (sha256 (base32 - "1kl68zvyi2zd73jy3axrvrymwn4y6l4pd62nz0fciwbgkjhz3yyx")))) + "0l0llb3pi89ixkpvfg5vbvwwv3gzldf0g98rrd3vkm7q26rqmmd2")))) (properties `((upstream-name . "baseline"))) (build-system r-build-system) (propagated-inputs @@ -11282,44 +11800,35 @@ 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 @@ -11419,14 +11928,14 @@ plots) for multivariate and time series-like data.") (define-public r-signal (package (name "r-signal") - (version "0.7-7") + (version "1.8-0") (source (origin (method url-fetch) (uri (cran-uri "signal" version)) (sha256 (base32 - "0qaf39vfmhn3d0bdjqd805ayfkaj48dkmf5dqd47bpk7dp21b837")))) + "1126p631zm0wc4h9ghqai5yb9vklpz676fygb0d0aavs2raaijw9")))) (build-system r-build-system) (propagated-inputs (list r-mass)) (native-inputs (list gfortran)) @@ -11644,14 +12153,14 @@ multivariate plot methods.") (define-public r-fnn (package (name "r-fnn") - (version "1.1.3.2") + (version "1.1.4") (source (origin (method url-fetch) (uri (cran-uri "FNN" version)) (sha256 (base32 - "11qfzqfnf38yrqxr5wyi69cfmnplzj1wrx3il03vp7lphwsa20fp")))) + "09zwlblkb7wkyk6azq2iizv3kj2wdqmjhg0r8zjiy1f692ivakfv")))) (properties `((upstream-name . "FNN"))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/FNN") @@ -11826,14 +12335,14 @@ used.") (define-public r-arules (package (name "r-arules") - (version "1.7-6") + (version "1.7-7") (source (origin (method url-fetch) (uri (cran-uri "arules" version)) (sha256 (base32 - "0syrbh85vzhp9plm95dhq6pfanzbxqm4wcahw3y2d26gvi2nmzwm")))) + "183isw4sy5gv5fxajiy4pm5p3nfd1pffa4h8sisl2nrw2rig9na2")))) (build-system r-build-system) (propagated-inputs (list r-generics r-matrix)) @@ -12100,14 +12609,14 @@ and classification and regression trees.") (define-public r-later (package (name "r-later") - (version "1.3.1") + (version "1.3.2") (source (origin (method url-fetch) (uri (cran-uri "later" version)) (sha256 (base32 - "1b342khxyvm3qnag36p6yr5nlrqbxqabm9f6qfxwxsmry20xdvi3")))) + "07jn5gp4237va5pcq8lvqzyblgij7k2wj9k5wl93q3fd6cyhgxaj")))) (build-system r-build-system) (propagated-inputs (list r-rcpp r-rlang)) @@ -12196,13 +12705,13 @@ methods.") (define-public r-fstcore (package (name "r-fstcore") - (version "0.9.14") + (version "0.9.18") (source (origin (method url-fetch) (uri (cran-uri "fstcore" version)) (sha256 - (base32 "0mhk4l86iypg86l0jjs7szxllcy10h4rh5qy2gsmpmiv003gm3nh")))) + (base32 "00wzpr2i7s9pc3alvn4b8f1wgmfqplpwdif9rh9x8qqnylbixiqq")))) (properties `((upstream-name . "fstcore"))) (build-system r-build-system) (propagated-inputs (list r-rcpp)) @@ -12268,12 +12777,12 @@ clustering, and classification.") (define-public r-snowfall (package (name "r-snowfall") - (version "1.84-6.2") + (version "1.84-6.3") (source (origin (method url-fetch) (uri (cran-uri "snowfall" version)) (sha256 - (base32 "0frmasv04wd47h04zbwaryhiyxllarf3ggpa39p5qicjp6r7lilv")))) + (base32 "0hxip3rzv7slxvif1000avbcid2mjxj1y9mimyvk87h404mr6h96")))) (build-system r-build-system) (propagated-inputs (list r-snow)) @@ -12376,20 +12885,20 @@ JavaScript library) and interact with the igraph package.") (define-public r-data-tree (package (name "r-data-tree") - (version "1.0.0") + (version "1.1.0") (source (origin (method url-fetch) (uri (cran-uri "data.tree" version)) (sha256 (base32 - "0pizmx2312zsym4m42b97q2184bg3hibvbdrblcga05xln84qrs0")))) + "0qxd1g159phc6f18iddjljdg96sh09w63xqawjwbwyhg4blm9ddh")))) (properties `((upstream-name . "data.tree"))) (build-system r-build-system) (propagated-inputs (list r-r6 r-stringi)) (native-inputs - (list r-knitr)) + (list r-knitr r-rmarkdown)) (home-page "https://github.com/gluc/data.tree") (synopsis "General purpose hierarchical data structure") (description @@ -12436,14 +12945,14 @@ automatically translated to the equivalent, but usually much faster, (define-public r-collapsibletree (package (name "r-collapsibletree") - (version "0.1.7") + (version "0.1.8") (source (origin (method url-fetch) (uri (cran-uri "collapsibleTree" version)) (sha256 (base32 - "0b65pbp1wnpsrayqi630ds4r98jvcvynnlp6wxdqrnnr9nzw5343")) + "1i5nmw5w7m8xdgxzim8z8n4w321f42isxbvvajl8ii59pg7drilq")) (snippet '(begin ;; Delete minified JavaScript file @@ -12529,14 +13038,14 @@ Python's @url{https://github.com/ActiveState/appdirs,Appdirs} to R.") (define-public r-rastervis (package (name "r-rastervis") - (version "0.51.5") + (version "0.51.6") (source (origin (method url-fetch) (uri (cran-uri "rasterVis" version)) (sha256 (base32 - "18bsrw629p4pkyhrpjmiyhq73w882bhgpwmkih0gjnw3ywwgx7rs")))) + "12cl201gwah0bn14ji4nbygayd77w5fck9zkcikhrda5s0chvgb1")))) (properties `((upstream-name . "rasterVis"))) (build-system r-build-system) (propagated-inputs @@ -13097,17 +13606,41 @@ packages. It contains also functions for simplifying some clustering analysis steps and provides ggplot2-based elegant data visualization.") (license license:gpl2))) +(define-public r-fancova + (package + (name "r-fancova") + (version "0.6-1") + (source + (origin + (method url-fetch) + (uri (cran-uri "fANCOVA" version)) + (sha256 + (base32 "04mw0blgpwdk6wdg8llrig43psgc0vb42cbimvzbnym8v503dsn3")))) + (properties `((upstream-name . "fANCOVA"))) + (build-system r-build-system) + (home-page "https://cran.r-project.org/package=fANCOVA") + (synopsis "Nonparametric analysis of covariance") + (description + "This package provides a collection of R functions to perform +nonparametric analysis of covariance for regression curves or surfaces. +Testing the equality or parallelism of nonparametric curves or surfaces is +equivalent to analysis of variance (ANOVA) or analysis of covariance (ANCOVA) +for one-sample functional data. Three different testing methods are available +in the package, including one based on L-2 distance, one based on an ANOVA +statistic, and one based on variance estimators.") + (license license:gpl3))) + (define-public r-fansi (package (name "r-fansi") - (version "1.0.5") + (version "1.0.6") (source (origin (method url-fetch) (uri (cran-uri "fansi" version)) (sha256 (base32 - "1xi35schbz42kjwjzhjqj12nd053962mgnk6qd9k5m5zgwsww5n6")))) + "0qqq8gz6sfr5yib4qmvk458qa0ypaz0n7f2ygjnpy2p5vy8cd7ga")))) (build-system r-build-system) (native-inputs (list r-knitr)) ; for vignettes @@ -13142,14 +13675,14 @@ results to the user.") (define-public r-hdf5r (package (name "r-hdf5r") - (version "1.3.8") + (version "1.3.9") (source (origin (method url-fetch) (uri (cran-uri "hdf5r" version)) (sha256 (base32 - "0arhs9z3rhqkb3pkhdgf1kgyhzrgvrrfjj4phijpji2przi82cmm")))) + "1av3pafbfff4wanw9s1iqgwkcdmc5f8c8h3z0byqll9i661kz3pg")))) (build-system r-build-system) (inputs (list hdf5 zlib)) @@ -13294,14 +13827,14 @@ functions.") (define-public r-rjags (package (name "r-rjags") - (version "4-14") + (version "4-15") (source (origin (method url-fetch) (uri (cran-uri "rjags" version)) (sha256 (base32 - "1jz26x49zsjl95whlkjsr8h98j68ajv2gc7qqnxy732r0bvmsfri")))) + "188qxyanny4yb1cq8hrz0y7pjafgvj0vhly0gaw271dam8glrk9m")))) (build-system r-build-system) (propagated-inputs (list r-coda)) @@ -13342,14 +13875,14 @@ implemented in bibutils.") (define-public r-rdpack (package (name "r-rdpack") - (version "2.5") + (version "2.6") (source (origin (method url-fetch) (uri (cran-uri "Rdpack" version)) (sha256 (base32 - "0xy8w3law1dn53f1gv4jd637pwssr928pvgchpbrpsqz8ghv4kad")))) + "02i21i85pb5aim529byjwhmyyz9jd82mi4j26a3kay0pcn6djxba")))) (properties `((upstream-name . "Rdpack"))) (build-system r-build-system) (propagated-inputs @@ -13518,14 +14051,14 @@ and tests them.") (define-public r-overlap (package (name "r-overlap") - (version "0.3.4") + (version "0.3.4.1") (source (origin (method url-fetch) (uri (cran-uri "overlap" version)) (sha256 (base32 - "1arxprhz035ab78ks88n6scwnlwmnb97mlac5gsx90ipb6gkgcyk")))) + "0gr0qaay97js3qs11lpci2d3smwl0jda2gc8fqvbw6lb5fznf4r1")))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/overlap/") (synopsis "Estimates of coefficient of overlapping for animal activity patterns") @@ -13605,14 +14138,14 @@ Decomposition in R (Beaton et al 2014) <doi:10.1016/j.csda.2013.11.006>.") (define-public r-insight (package (name "r-insight") - (version "0.19.6") + (version "0.19.7") (source (origin (method url-fetch) (uri (cran-uri "insight" version)) (sha256 (base32 - "1gnxhszwccmvjarq47p7s09jrkhvd8zkz632ysxz6dgxfpqn9zqh")))) + "01hzwz05zz8kxf8hgmz6i4npxwv12723bkv9jk3hhhghlc9lr9a1")))) (build-system r-build-system) (native-inputs (list r-knitr)) @@ -13819,13 +14352,13 @@ libxlsxwriter.") (define-public r-writexls (package (name "r-writexls") - (version "6.4.0") + (version "6.5.0") (source (origin (method url-fetch) (uri (cran-uri "WriteXLS" version)) (sha256 (base32 - "1dqr98kx930y6mcvb9b39xiwshhs250gkd2vw2v6iil34sl90jv4")))) + "1rkc0r6l7cfz7h83i7gw6g0nlyy347mdh6bj73j0f8mdv3nmwwn4")))) (properties `((upstream-name . "WriteXLS"))) (build-system r-build-system) (inputs (list perl)) @@ -14084,14 +14617,14 @@ the work.") (define-public r-doby (package (name "r-doby") - (version "4.6.19") + (version "4.6.20") (source (origin (method url-fetch) (uri (cran-uri "doBy" version)) (sha256 (base32 - "14hvbhf9zamqkjhr9jd8zjpm9xlc8hwqj04gy6ln32n2hzqqqr6v")))) + "08nsl9xzyi2k7xkwa9mn91fn77ji0z9z5lm388pfdmydbfmpy2ks")))) (properties `((upstream-name . "doBy"))) (build-system r-build-system) (propagated-inputs @@ -14193,14 +14726,14 @@ containing one or more SNPs that evolved under directional selection.") (define-public r-proc (package (name "r-proc") - (version "1.18.4") + (version "1.18.5") (source (origin (method url-fetch) (uri (cran-uri "pROC" version)) (sha256 (base32 - "0lqar1lbm461in4jb9rkdnpccl8lshrhig2qxr892m91mdxym46m")))) + "129cnh3kh9sr42nc7n9f14kr9svi3501834x40njynnzlr0wi4sm")))) (properties `((upstream-name . "pROC"))) (build-system r-build-system) (propagated-inputs @@ -14395,14 +14928,14 @@ from the @code{stats} package (plus some extra parameters).") (define-public r-cmplot (package (name "r-cmplot") - (version "4.4.3") + (version "4.5.0") (source (origin (method url-fetch) (uri (cran-uri "CMplot" version)) (sha256 (base32 - "0mkjpmwpd0izczp8jgfcfxw9i4qv82aj1xyhzsxgdxnjdd7ark66")))) + "1gg3pq55shh9khw5bsrdhk0yqgyr9xhdzqhaqksihka64wsqmhd3")))) (properties `((upstream-name . "CMplot"))) (build-system r-build-system) (home-page "https://github.com/YinLiLin/CMplot") @@ -14506,13 +15039,13 @@ supported classes are those defined in packages @code{network} and (define-public r-interp (package (name "r-interp") - (version "1.1-4") + (version "1.1-5") (source (origin (method url-fetch) (uri (cran-uri "interp" version)) (sha256 (base32 - "01jdwcv25khnma7i0zcynkr5sw0dzb2agqimhrpdg91jh4w5sysg")))) + "082b1sx7m62csqig582syki8ny9vwxk311rh8hp1cmh1l5qhjlhc")))) (properties `((upstream-name . "interp"))) (build-system r-build-system) (propagated-inputs (list r-deldir r-rcpp r-rcppeigen)) @@ -14699,14 +15232,14 @@ repeated measures data, respectively.") (define-public r-gam (package (name "r-gam") - (version "1.22-2") + (version "1.22-3") (source (origin (method url-fetch) (uri (cran-uri "gam" version)) (sha256 (base32 - "1yh2rahcbi2fbsi1yps1l51xxljc7lcs7h729y5vjj4l492pywzy")))) + "153ig136i3dpy87f8v9f5055x94sl74fnrf5ivpa9fc67f76ikb6")))) (properties `((upstream-name . "gam"))) (build-system r-build-system) (propagated-inputs @@ -14774,14 +15307,14 @@ 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 @@ -14867,13 +15400,13 @@ subsequence} (LCS) using a dynamic programming algorithm.") (define-public r-mosaiccore (package (name "r-mosaiccore") - (version "0.9.2.1") + (version "0.9.4.0") (source (origin (method url-fetch) (uri (cran-uri "mosaicCore" version)) (sha256 - (base32 "1yns15yxr6215xf9qsxfvl24a9zvh1chw49n31dql7fy1zr1dkmp")))) + (base32 "0v3xhv6yfk1hc6a40jjgp6vvq102qa1l4n787pfywx6jhzbhamp2")))) (properties `((upstream-name . "mosaicCore"))) (build-system r-build-system) (propagated-inputs @@ -14918,21 +15451,18 @@ haven package.") (define-public r-ggformula (package (name "r-ggformula") - (version "0.10.4") + (version "0.12.0") (source (origin (method url-fetch) (uri (cran-uri "ggformula" version)) (sha256 - (base32 "07d9sq0dqi0g5x9h58icfk1f4hgg1xz4mhbp2z2rxg9qgs74fvdj")))) + (base32 "0vbpivyxms46px3wqkbl1wq199mqdxq94gsiplv4i7lz0lzghsfm")))) (build-system r-build-system) (propagated-inputs - (list r-ggforce - r-ggplot2 + (list r-ggplot2 r-ggridges - r-ggstance r-labelled - r-magrittr r-mosaiccore r-rlang r-scales @@ -14952,13 +15482,13 @@ while providing the intuitive capabilities of @code{r-ggplot2}.") (define-public r-mosaicdata (package (name "r-mosaicdata") - (version "0.20.3") + (version "0.20.4") (source (origin (method url-fetch) (uri (cran-uri "mosaicData" version)) (sha256 - (base32 "1s97yq24z7yhzmx0dpspfadpd8hndyhn7aiw0nslwrhvilhwa409")))) + (base32 "0y6ii234paknak0p8cm5wcjia4s4wh7iixjbbvdgp0w17c05dckh")))) (properties `((upstream-name . "mosaicData"))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/mosaicData/") @@ -14993,13 +15523,13 @@ Processing of very large files is supported.") (define-public r-mosaic (package (name "r-mosaic") - (version "1.8.4.2") + (version "1.9.0") (source (origin (method url-fetch) (uri (cran-uri "mosaic" version)) (sha256 - (base32 "12kpkb7vm54na9hjjkvzw6gm5plx0m6i0l9kihz2r30zanfx5jca")))) + (base32 "1dydqawljv5l9lmhdrhmr7wh3q1c2mnc61gc99jr0jbb1bmls327")))) (build-system r-build-system) (propagated-inputs (list r-dplyr @@ -15012,6 +15542,7 @@ Processing of very large files is supported.") r-mosaicdata r-purrr r-rlang + r-tibble r-tidyr)) (native-inputs (list r-knitr)) @@ -15421,13 +15952,13 @@ emission distributions.") (define-public r-nleqslv (package (name "r-nleqslv") - (version "3.3.4") + (version "3.3.5") (source (origin (method url-fetch) (uri (cran-uri "nleqslv" version)) (sha256 - (base32 "1kqgjgrid0s4f5rr7kcmw2h1zkb5vfvl2nnzrvc5s5fdbd9fg0r7")))) + (base32 "0fjby0qva2lp2i7x752wva0z15xqys9fgrrcfimqszg65wnig60j")))) (build-system r-build-system) (native-inputs (list gfortran)) (home-page "https://cran.r-project.org/web/packages/nleqslv/") @@ -15578,13 +16109,13 @@ 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 @@ -15607,14 +16138,14 @@ 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) @@ -15673,14 +16204,14 @@ analysis.") (define-public r-gee (package (name "r-gee") - (version "4.13-25") + (version "4.13-26") (source (origin (method url-fetch) (uri (cran-uri "gee" version)) (sha256 (base32 - "128f810h88jxz1wdcmqjj3drb69b0rwx38l682i97rzb5wg8hh71")))) + "1323qv2hiinixmwcb8rfvf5qmkffnnq9f1g8kj9amwsimfsm71cs")))) (properties `((upstream-name . "gee"))) (build-system r-build-system) (native-inputs @@ -15721,13 +16252,13 @@ handle data from simple random samples as well as complex surveys.") (define-public r-tarchetypes (package (name "r-tarchetypes") - (version "0.7.9") + (version "0.7.11") (source (origin (method url-fetch) (uri (cran-uri "tarchetypes" version)) (sha256 (base32 - "1889jca7zwav1wwig1a4jr1dxmbcszfriqmhdyg97m2s1c9j0r9p")))) + "1iqrz27n8ndazx97ngqbz5yz5ppyimpbxam30zgdwnnzf963s5ym")))) (properties `((upstream-name . "tarchetypes"))) (build-system r-build-system) (propagated-inputs (list r-digest @@ -15755,13 +16286,13 @@ were influenced by the drake R package by Will Landau (2018) (define-public r-targets (package (name "r-targets") - (version "1.3.2") + (version "1.4.1") (source (origin (method url-fetch) (uri (cran-uri "targets" version)) (sha256 (base32 - "0zlbq658zxflz2fk9pksbjx3r5dmay4411byl33gkp3rnynvchgh")))) + "0kax8nj66jbcp8sbv7zl68hzf4clz5m50fibrcypnzvpamhafw1q")))) (properties `((upstream-name . "targets"))) (build-system r-build-system) (propagated-inputs (list r-base64url @@ -15931,13 +16462,13 @@ estimation problem.") (define-public r-quickjsr (package (name "r-quickjsr") - (version "1.0.7") + (version "1.0.9") (source (origin (method url-fetch) (uri (cran-uri "QuickJSR" version)) (sha256 (base32 - "14wq7qymzrdbg3mhm4gk3vx1dr4yx8di8i2b10as4knnzr1w4q9i")))) + "12a0m57kwn2k9j5k6vl8hb10081rydpz9rczc9hccdj9ky9wiv0k")))) (properties `((upstream-name . "QuickJSR"))) (build-system r-build-system) (propagated-inputs (list r-jsonlite r-r6 r-rcpp)) @@ -16016,13 +16547,13 @@ series.") (define-public r-acceptancesampling (package (name "r-acceptancesampling") - (version "1.0-8") + (version "1.0-10") (source (origin (method url-fetch) (uri (cran-uri "AcceptanceSampling" version)) (sha256 - (base32 "1ja1g0v8qvf7yj81x37wc6i7fkwpc573756jgvazazi8yf1gm12p")))) + (base32 "1sbv2yrvnn0zgdmqvjlmz2vllsg6r9nlmxdgadhymhm9s51gfx65")))) (properties `((upstream-name . "AcceptanceSampling"))) (build-system r-build-system) @@ -16092,14 +16623,14 @@ 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" @@ -16198,14 +16729,14 @@ 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)) @@ -16335,14 +16866,14 @@ Bayesian modeling.") (define-public r-tmb (package (name "r-tmb") - (version "1.9.6") + (version "1.9.10") (source (origin (method url-fetch) (uri (cran-uri "TMB" version)) (sha256 (base32 - "1sh3arsj42gimgpva76p4dd969iwqw3n5wkzn487kl7vk5phdnh0")))) + "1cc34zxn2x88fbh4clgbzia36800i30pdlywbkwc26zm50nsxpwi")))) (properties `((upstream-name . "TMB"))) (build-system r-build-system) (propagated-inputs @@ -16493,14 +17024,14 @@ 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)) @@ -16795,14 +17326,14 @@ user credentials.") (define-public r-gert (package (name "r-gert") - (version "2.0.0") + (version "2.0.1") (source (origin (method url-fetch) (uri (cran-uri "gert" version)) (sha256 (base32 - "14b3bppid65jpzxrc7ddvvyr2qafv08z75v19rvfiv7780vpq53w")))) + "14nh7j0xz1s4ngsd5n3hixr534z843a38y57grwqkkh9g21q9mqf")))) (properties `((upstream-name . "gert"))) (build-system r-build-system) (inputs @@ -17098,13 +17629,13 @@ exact and interval-censored observations.") (define-public r-clustercrit (package (name "r-clustercrit") - (version "1.2.8") + (version "1.3.0") (source (origin (method url-fetch) (uri (cran-uri "clusterCrit" version)) (sha256 (base32 - "10pz1bikdbkm2ky3xnagp0qv60whalavp6j39b4p7d75jj5xcxgk")))) + "0raxlyvr3kr8c8bzjgs7hb9n76m314vzvfiz7c74v6cqpkmh6dkx")))) (properties `((upstream-name . "clusterCrit"))) (build-system r-build-system) (native-inputs (list gfortran)) @@ -17432,13 +17963,13 @@ address a bug.") (define-public r-rcppalgos (package (name "r-rcppalgos") - (version "2.8.2") + (version "2.8.3") (source (origin (method url-fetch) (uri (cran-uri "RcppAlgos" version)) (sha256 (base32 - "1h9kgr8776q7dvc0a2cylixhvk0xw3fq6lpyf15xajbbypxy9bzz")))) + "0ppix426yg8rnh07z2clv634ynvvwmjlsjnsxh3srss6xa8yfrb0")))) (properties `((upstream-name . "RcppAlgos"))) (build-system r-build-system) (inputs (list gmp)) @@ -17545,14 +18076,14 @@ other values.") (define-public r-ncdf4 (package (name "r-ncdf4") - (version "1.21") + (version "1.22") (source (origin (method url-fetch) (uri (cran-uri "ncdf4" version)) (sha256 (base32 - "03dk47xz6qlpky9kkpkkxc472czq542yml3fdg39bic2yggffnig")))) + "040jpcgsb98s6knch0z3f3f5fpmlwks1grpvb9k8s02c9w0a5adr")))) (build-system r-build-system) (inputs (list netcdf zlib)) @@ -17568,6 +18099,28 @@ variables, and files, in either version 3 or 4 format, and manipulate existing netCDF files.") (license license:gpl3+))) +(define-public r-ncmisc + (package + (name "r-ncmisc") + (version "1.2.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "NCmisc" version)) + (sha256 + (base32 "10wzznqa26fxyj6bl979qmq29p3dkr8yap4s70l3mwhhk33zpz16")))) + (properties `((upstream-name . "NCmisc"))) + (build-system r-build-system) + (home-page "https://cran.r-project.org/package=NCmisc") + (synopsis "Functions for creating adaptive functions and scripts") + (description + "This package provides a set of handy functions. It includes a versatile +one line progress bar, one line function timer with detailed output, time delay +function, text histogram, object preview, CRAN package search, simpler package +installer, Linux command install check, a flexible Mode function, top function, +simulation of correlated data, and more.") + (license license:gpl2+))) + (define-public r-biocmanager (package (name "r-biocmanager") @@ -17595,14 +18148,14 @@ Bioconductor packages.") (define-public r-rgl (package (name "r-rgl") - (version "1.2.1") + (version "1.2.8") (source (origin (method url-fetch) (uri (cran-uri "rgl" version)) (sha256 (base32 - "16ybdly3cjm6ibvhfad7d5k6bxaxf33l5s1s766hy9kza8skyani")) + "1x0p2yldg2mjf64xd5dd0bidzgy7b39w7zn18ghan2rdf0wffdg5")) (snippet '(delete-file "inst/htmlwidgets/lib/CanvasMatrix/CanvasMatrix.min.js")))) ;; For OpenGL and X11 support @@ -17656,14 +18209,14 @@ image formats, including PNG, Postscript, SVG, PGF.") (define-public r-multicool (package (name "r-multicool") - (version "0.1-12") + (version "1.0.0") (source (origin (method url-fetch) (uri (cran-uri "multicool" version)) (sha256 (base32 - "0djacq0irfqz4nlnx238kja73yvr1n5qybbfyl6bw1n6qgcjhza8")))) + "0gcic5w3z5yibq75j7jzjv3lmy04rfmxswmw60vxba4xsnbqxc2g")))) (build-system r-build-system) (propagated-inputs (list r-rcpp)) (home-page "https://cran.r-project.org/web/packages/multicool/") @@ -17759,13 +18312,13 @@ validation. It can be run in parallel to save computation time.") (define-public r-ks (package (name "r-ks") - (version "1.14.1") + (version "1.14.2") (source (origin (method url-fetch) (uri (cran-uri "ks" version)) (sha256 - (base32 "0vf7vqaq6bhi4rrggmd56wzxx40j846g66yxvvbnihqjyhxgahs5")))) + (base32 "1jrzh1syq6jdqpp5xmb25hqsk07bpbn6caqhp9mw5zpsdi3k14gi")))) (build-system r-build-system) (propagated-inputs (list r-fnn @@ -17776,7 +18329,6 @@ validation. It can be run in parallel to save computation time.") r-mgcv r-multicool r-mvtnorm - r-plot3d r-pracma)) (home-page "https://www.mvstat.net/tduong/") (synopsis "Kernel smoothing") @@ -18045,13 +18597,13 @@ Tabelow (2007) <DOI:10.18637/jss.v019.i01>.") (define-public r-admisc (package (name "r-admisc") - (version "0.33") + (version "0.34") (source (origin (method url-fetch) (uri (cran-uri "admisc" version)) (sha256 - (base32 "1anvh581jh1mw3yhpbm2dyihs9npi9gd0isgkphw5gr64fivw49r")))) + (base32 "1psvi8hb7j65abw8g4ya9r43r5kd9mcv478pg2d09za0cig8gkzx")))) (properties `((upstream-name . "admisc"))) (build-system r-build-system) (home-page "https://github.com/dusadrian/admisc") @@ -18111,14 +18663,14 @@ classification.") (define-public r-sodium (package (name "r-sodium") - (version "1.3.0") + (version "1.3.1") (source (origin (method url-fetch) (uri (cran-uri "sodium" version)) (sha256 (base32 - "0b10cbzpybbjwhrbdx2ldjg8gb3cgzra533x6rn3d52zy1sqs6l8")))) + "0cbj7mgchi42ri6h1fc24asj7lkcn9n3l0zbabrx89s9zi4im0gx")))) (properties `((upstream-name . "sodium"))) (build-system r-build-system) (inputs @@ -18220,14 +18772,14 @@ redundant complex conjugate when the input is real data.") (define-public r-tiff (package (name "r-tiff") - (version "0.1-11") + (version "0.1-12") (source (origin (method url-fetch) (uri (cran-uri "tiff" version)) (sha256 (base32 - "0xgc7vyndxxahfhc2qqzmwi56bnfyl0pn72l820jz5sd24aymhxq")))) + "0p41irri0nxg9mm06g8jp5zqssv80g5zg0iifrr7ancjkxqww46z")))) (build-system r-build-system) (inputs (list libtiff libjpeg-turbo zlib)) @@ -18414,13 +18966,13 @@ 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 @@ -18858,16 +19410,16 @@ 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") @@ -18999,14 +19551,14 @@ and compatibility with @code{ape} objects.") (define-public r-rnifti (package (name "r-rnifti") - (version "1.5.0") + (version "1.5.1") (source (origin (method url-fetch) (uri (cran-uri "RNifti" version)) (sha256 (base32 - "01g9ylmjirmblgcl1f8kzwfzbpyf4vy2rci1407jx4s3av9xzr1j")))) + "0rbym1svldahd4rlbcfb5s62rigws2w1fa1f1chp504gn340b555")))) (properties `((upstream-name . "RNifti"))) (build-system r-build-system) (inputs (list zlib)) @@ -19042,13 +19594,13 @@ creating color scales and calculating color distances.") (define-public r-ore (package (name "r-ore") - (version "1.7.3.1") + (version "1.7.4.1") (source (origin (method url-fetch) (uri (cran-uri "ore" version)) (sha256 - (base32 "0hlmr4p0ldizdv46myyhlki10qkjdgs44jxp9y61zqcdw360dz95")))) + (base32 "01ayvjyjbarmi7l2jwp7bp4m0k42zy8bvf9rbwynfwmm8mv6vx0j")))) (build-system r-build-system) (home-page "https://github.com/jonclayden/ore") (synopsis "R interface to the Onigmo regular expression library") @@ -19534,14 +20086,14 @@ preparing, executing, and processing HTTP requests.") (define-public r-gmp (package (name "r-gmp") - (version "0.7-2") + (version "0.7-4") (source (origin (method url-fetch) (uri (cran-uri "gmp" version)) (sha256 (base32 - "12rd0j3sawzipfz4xr3ikrxrjabpjp4s3y4ikvk16z8rhjs2i5bw")))) + "069r0m0jwhwaknnd1vmp3pxcbxrnfgsbhw2ivc8rqqfjfw7v9mm7")))) (properties '((updater-extra-inputs . ("gmp")))) (build-system r-build-system) @@ -19558,14 +20110,14 @@ limitations\" using the GNU Multiple Precision library.") (define-public r-rmpfr (package (name "r-rmpfr") - (version "0.9-3") + (version "0.9-4") (source (origin (method url-fetch) (uri (cran-uri "Rmpfr" version)) (sha256 (base32 - "0hgn1ib581s0q5slscakhy858yrqlx8w5gnrn2zgga98iv4vv3c2")))) + "1fx8l42bbipzlaaljp7iwdkgbmb0rcw07vh4py8fycb3dvs9iiyf")))) (properties `((upstream-name . "Rmpfr"))) (build-system r-build-system) (inputs @@ -20014,14 +20566,14 @@ to throw errors if they aren't in the right form.") (define-public r-dotcall64 (package (name "r-dotcall64") - (version "1.1-0") + (version "1.1-1") (source (origin (method url-fetch) (uri (cran-uri "dotCall64" version)) (sha256 (base32 - "1ibh2f2vcv30k1c919diw6qdmhxmvkl83k3396vy3xigbcny711l")))) + "06y9y9m5prjvqlprqpanbamgr6jkw27wj7nnha5ayyn08zbxgf11")))) (properties `((upstream-name . "dotCall64"))) (build-system r-build-system) (native-inputs (list gfortran)) @@ -20482,14 +21034,14 @@ 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)) @@ -20659,14 +21211,14 @@ lasso, adaptive lasso and Ridge regression based on cross-validation.") (define-public r-mcmc (package (name "r-mcmc") - (version "0.9-7") + (version "0.9-8") (source (origin (method url-fetch) (uri (cran-uri "mcmc" version)) (sha256 (base32 - "0q42m8ab7b6bxhns494ksjdss5f3c5m2jjfdlfj6fk1nz7ax7i5p")))) + "19vfh868lr4a491gc2x2b2xs83gldw294zbl4bqsgs2q9c6l81ka")))) (build-system r-build-system) (home-page "https://www.stat.umn.edu/geyer/mcmc/") (synopsis "Markov chain Monte Carlo") @@ -20763,14 +21315,14 @@ 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 @@ -20798,14 +21350,14 @@ 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 @@ -20918,14 +21470,14 @@ using @code{S3}.") (define-public r-capushe (package (name "r-capushe") - (version "1.1.1") + (version "1.1.2") (source (origin (method url-fetch) (uri (cran-uri "capushe" version)) (sha256 (base32 - "1aa76ir1kp67hiz7dr60azyc71yzslshyc640fjh0fpw0sp5kwbc")))) + "1mazsfdiqmhy0ywahqw49qql899ph0l6jllriz2spyp1bs98q9b7")))) (build-system r-build-system) (propagated-inputs (list r-mass)) (home-page "https://cran.r-project.org/web/packages/capushe/index.html") @@ -21206,14 +21758,14 @@ 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") @@ -21253,14 +21805,14 @@ users of rARPACK are advised to switch to the RSpectra package.") (define-public r-compositions (package (name "r-compositions") - (version "2.0-6") + (version "2.0-7") (source (origin (method url-fetch) (uri (cran-uri "compositions" version)) (sha256 (base32 - "0d0wlrwfpjvz02cwrqpg5bnrf8isz359dl9qqxn9yb6czpmp9ls5")))) + "1j1qa0lkb7ywh0q79dklhw4gvkxgvk3qhw3rx9srrlrc7jv22hml")))) (build-system r-build-system) (propagated-inputs (list r-bayesm r-mass r-robustbase r-tensora)) @@ -21601,14 +22153,14 @@ 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)) @@ -21703,14 +22255,14 @@ numbers from ZIP and ZINB distributions.") (define-public r-nor1mix (package (name "r-nor1mix") - (version "1.3-0") + (version "1.3-2") (source (origin (method url-fetch) (uri (cran-uri "nor1mix" version)) (sha256 (base32 - "1817wcvlmxs70vs4db0jkxd7i037744zz8ay3c2a9949z29fxr4w")))) + "0252kqhdsp374isc59pm1c6dmsb16jibpnsp1bpyh4k5mg73cdj6")))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/nor1mix/") (synopsis "Normal (1-d) mixture models") @@ -21744,14 +22296,14 @@ graphs.") (define-public r-pbdzmq (package (name "r-pbdzmq") - (version "0.3-10") + (version "0.3-11") (source (origin (method url-fetch) (uri (cran-uri "pbdZMQ" version)) (sha256 (base32 - "14fi1bcvc77k5qjh0vb5r44p9rzlzrbzbw2c99psnzq2wic018ir")))) + "0ns0fpfsbx28iyxmas691i29sh1gia0bspx0flgj0w3khm6j0zns")))) (properties `((upstream-name . "pbdZMQ"))) (build-system r-build-system) (inputs @@ -22014,14 +22566,14 @@ can be used with function approximation, eligibility traces (Singh & Sutton, (define-public r-lemon (package (name "r-lemon") - (version "0.4.6") + (version "0.4.7") (source (origin (method url-fetch) (uri (cran-uri "lemon" version)) (sha256 (base32 - "0v1kbyk64yzsk92h6yq03kp9alc9632qprznsws61r8firiskim5")))) + "1r33n7bkfhjpyi23j7gsi387qvyazcy9b912dsd3vg2yqir8s26p")))) (build-system r-build-system) (propagated-inputs (list r-ggplot2 @@ -22119,14 +22671,14 @@ for reproducibility. See the vignette and reference manual for examples.") (define-public r-sets (package (name "r-sets") - (version "1.0-24") + (version "1.0-25") (source (origin (method url-fetch) (uri (cran-uri "sets" version)) (sha256 (base32 - "1jfaxdyr3w5p086yh7n6661dipc4rx6ak92hp6gv13j1r7sk6mz7")))) + "1x14q29jjmrs5ldbjc7pxp5pr52j3dw6zr9k5qvz4ycniwhnk92w")))) (properties `((upstream-name . "sets"))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/sets") @@ -22295,14 +22847,14 @@ barplots or heatmaps.") (define-public r-seqinr (package (name "r-seqinr") - (version "4.2-30") + (version "4.2-36") (source (origin (method url-fetch) (uri (cran-uri "seqinr" version)) (sha256 (base32 - "0jzfbzai2r5bprynq337s1a4k66m34p5k9nzzmbyzvk7719zxy7s")))) + "09dj2k5mi6xylsihnwbmdd8f4qg855gyh7yvz9gamam7j6h646lk")))) (build-system r-build-system) (propagated-inputs (list r-ade4 r-segmented)) @@ -22319,14 +22871,14 @@ utilities for sequence data management under the ACNUC system.") (define-public r-units (package (name "r-units") - (version "0.8-4") + (version "0.8-5") (source (origin (method url-fetch) (uri (cran-uri "units" version)) (sha256 (base32 - "1z672lsyrbm8mjv6ni8pa0cxixf9vi249281ym1ayrv13s4s37a9")))) + "1c836qazrs8z9p1xkcfl9gl882i8q7qf2g73l483w18bfspq0pnr")))) (build-system r-build-system) (inputs (list udunits)) @@ -22444,14 +22996,14 @@ sampling.") (define-public r-deldir (package (name "r-deldir") - (version "1.0-9") + (version "2.0-2") (source (origin (method url-fetch) (uri (cran-uri "deldir" version)) (sha256 (base32 - "11q6cz410q8sv0w81fk1px3vx7xmyda5cbsv3m21xr577bn28yhj")))) + "1qzfq47fs3pr0946m53z6cq93pbpkgwwhqkcdgfahxsq1izpigz9")))) (build-system r-build-system) (native-inputs (list gfortran)) (home-page "https://cran.r-project.org/web/packages/deldir") @@ -22468,14 +23020,14 @@ tessellation.") (define-public r-wk (package (name "r-wk") - (version "0.9.0") + (version "0.9.1") (source (origin (method url-fetch) (uri (cran-uri "wk" version)) (sha256 (base32 - "1nmrgdp3swl34kr51hypm3azf8yhcalg5nngp70l56afsbaskyqh")))) + "0yxzyb09by9winspdn0585xhjmdcablb07wx6pf7ahg0q18sz85p")))) (properties `((upstream-name . "wk"))) (build-system r-build-system) (home-page "https://paleolimbot.github.io/wk/") @@ -22492,14 +23044,14 @@ high-performance functions are provided here.") (define-public r-s2 (package (name "r-s2") - (version "1.1.4") + (version "1.1.6") (source (origin (method url-fetch) (uri (cran-uri "s2" version)) (sha256 (base32 - "0k209rx7w47rqgydy8h7ldngxm0b8d8yidhwbgw2rrddx8jlj2xy")))) + "0rm0jd5k5w725v1bnn6ix8vic40grdh61y6qdy8jy4lhg1mjx78x")))) (properties `((upstream-name . "s2"))) (build-system r-build-system) (arguments @@ -22533,14 +23085,14 @@ 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 @@ -22598,13 +23150,13 @@ or raster data cubes) are handled by package stars'.") (define-public r-spdep (package (name "r-spdep") - (version "1.2-8") + (version "1.3-1") (source (origin (method url-fetch) (uri (cran-uri "spdep" version)) (sha256 (base32 - "144idklvyvnzfdnigzyw6wqhxyrfjw8pm7vdmlk5a0yi235v97wd")) + "15jkx3f4c1255kidsqdq4gyi28r4jk3h46fm7jj114ag176jq1in")) (snippet '(for-each delete-file '("inst/doc/CO69.html" "inst/doc/CO69.R" @@ -22678,13 +23230,13 @@ 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)) @@ -22699,30 +23251,6 @@ 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") @@ -22883,14 +23411,14 @@ 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 @@ -23002,14 +23530,14 @@ exact test for Hardy-Weinberg equilibrium.") (define-public r-tdthap (package (name "r-tdthap") - (version "1.2") + (version "1.3") (source (origin (method url-fetch) (uri (cran-uri "tdthap" version)) (sha256 (base32 - "0x67k50vly92b9n5hpqp4hy87kh8r6nzadsj8xzz4lvcmb4vb6mq")))) + "05yj7jwwd0q2yk8gpp44fhh3sknvw3g6p9glj6z6rz46p9xf31kr")))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/tdthap/") (synopsis "TDT tests for extended haplotypes") @@ -23044,13 +23572,13 @@ SELECT or UPDATE queries to an end-point.") (define-public r-bookdown (package (name "r-bookdown") - (version "0.36") + (version "0.37") (source (origin (method url-fetch) (uri (cran-uri "bookdown" version)) (sha256 (base32 - "0c4pj5sg4cnz2b2kpxgr0wk1n1pf7wkn1npm76aghy4yxj29cj4y")) + "18j8ylaq5wnw1c0lif9a002kbymv04pd0i43ahmqkskkv1b13hdk")) ;; TODO: there is one more file to replace: ;; inst/resources/gitbook/js/app.min.js (snippet @@ -23066,32 +23594,28 @@ SELECT or UPDATE queries to an end-point.") (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) + (ice-9 match)) + #:imported-modules `(,@%r-build-system-modules + (guix build minify-build-system)) #:phases - #~(modify-phases %standard-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/resources" (invoke "tar" "-xf" (assoc-ref inputs "js-mathquill") "-C" "/tmp" "--strip-components=2") - (call-with-values - (lambda () - (unzip2 - `((,(search-input-file inputs "/dist/clipboard.js") - "gitbook/js/clipboard.min.js") - (,(search-input-file inputs "/lunr.js") - "gitbook/js/lunr.js") - ("/tmp/mathquill.js" - "mathquill/mathquill.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))))))))) + (for-each (match-lambda + ((source . target) + (minify source #:target target))) + `((,(search-input-file inputs "/dist/clipboard.js") + . "gitbook/js/clipboard.min.js") + (,(search-input-file inputs "/lunr.js") + . "gitbook/js/lunr.js") + ("/tmp/mathquill.js" + . "mathquill/mathquill.min.js"))))))))) (propagated-inputs (list r-htmltools r-jquerylib @@ -23142,14 +23666,14 @@ authoring books and technical documents with R Markdown.") (define-public r-optparse (package (name "r-optparse") - (version "1.7.3") + (version "1.7.4") (source (origin (method url-fetch) (uri (cran-uri "optparse" version)) (sha256 (base32 - "1v87db7fm494dwxvdsnl1m2kj84nplq7pkh0g41najhx0npy31v2")))) + "122x490161f836l7mmd021dpylz50qrqdhjcgvkd8wpsjijxd8lk")))) (build-system r-build-system) (propagated-inputs (list r-getopt)) @@ -23303,20 +23827,32 @@ the corresponding outputs (tables and graphs).") (define-public r-rjava (package (name "r-rjava") - (version "1.0-6") + (version "1.0-10") (source (origin (method url-fetch) (uri (cran-uri "rJava" version)) (sha256 (base32 - "1ijqhvnb8ab38cp9pwdf7zq7xqqlm6x94gkrab2dd98p6d4x1472")))) + "0srrjfqrcp7b6k62qv3d18r97k6kbcz0g4pn2y0rv0f5wlc6i0mm")) + (snippet + '(for-each delete-file + (list "inst/javadoc/jquery/jquery-ui.min.js" + "inst/javadoc/jquery/jszip/dist/jszip.min.js" + "inst/javadoc/jquery/jszip-utils/dist/jszip-utils-ie.min.js" + "inst/javadoc/jquery/jszip-utils/dist/jszip-utils.min.js"))))) (properties `((upstream-name . "rJava"))) (build-system r-build-system) (arguments (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 %standard-phases + #~(modify-phases (@ (guix build r-build-system) %standard-phases) (add-after 'unpack 'set-JAVA_HOME (lambda* (#:key inputs #:allow-other-keys) (let ((jdk (assoc-ref inputs "jdk"))) @@ -23328,11 +23864,27 @@ the corresponding outputs (tables and graphs).") (setenv "JAVA_CPPFLAGS" (string-append "-I" jdk "/include " "-I" jdk "/include/linux")) - (setenv "JAVA_LIBS" (search-input-file inputs "/lib/libjvm.so")))))))) + (setenv "JAVA_LIBS" (search-input-file inputs "/lib/libjvm.so"))))) + (add-after 'unpack 'replace-bundled-minified-JavaScript + (lambda _ + (with-directory-excursion "inst/javadoc" + (for-each (match-lambda + ((source . target) + (minify source #:target target))) + `(("jquery/jquery-ui.js" + . "jquery/jquery-ui.min.js") + ("jquery/jszip/dist/jszip.js" + . "jquery/jszip/dist/jszip.min.js") + ("jquery/jszip-utils/dist/jszip-utils-ie.js" + . "jquery/jszip-utils/dist/jszip-utils-ie.min.js") + ("jquery/jszip-utils/dist/jszip-utils.js" + . "jquery/jszip-utils/dist/jszip-utils.min.js"))))))))) (inputs `(("icu4c" ,icu4c) ("jdk" ,openjdk11 "jdk") ("zlib" ,zlib))) + (native-inputs + (list esbuild)) (home-page "https://www.rforge.net/rJava/") (synopsis "Low-Level R to Java interface") (description @@ -23600,14 +24152,14 @@ package.") (define-public r-yulab-utils (package (name "r-yulab-utils") - (version "0.1.0") + (version "0.1.3") (source (origin (method url-fetch) (uri (cran-uri "yulab.utils" version)) (sha256 (base32 - "045s3xg723a8m9cqql74ifqir5k6zl4csdq39vw5im2zgvyajkzg")))) + "0yh29d28i67z3wyif72lr35ki92rqv6rljdjwj28559f7n864yjv")))) (properties `((upstream-name . "yulab.utils"))) (build-system r-build-system) (propagated-inputs @@ -24096,14 +24648,14 @@ graphics using Vega.") (define-public r-gbm (package (name "r-gbm") - (version "2.1.8.1") + (version "2.1.9") (source (origin (method url-fetch) (uri (cran-uri "gbm" version)) (sha256 (base32 - "02z85d7zp3i5x8r8q005hyw2rx1ck7lw81q7a3lqwraj8l95c94d")))) + "1r5d8mkg4z14l3743h39r35r0qqjx5p40ixdkcc5iyjab0fzm24x")))) (build-system r-build-system) (propagated-inputs (list r-lattice r-survival)) @@ -24685,14 +25237,14 @@ colored by the number of neighboring points. This is useful to visualize the (define-public r-arrow (package (name "r-arrow") - (version "13.0.0.1") + (version "14.0.0.2") (source (origin (method url-fetch) (uri (cran-uri "arrow" version)) (sha256 (base32 - "1h08zx7hvmsib7mi8yn0pk0y2bqqn5scr804ln0g30jwvcjx7w56")))) + "1dwap9lap0hac0bhi8ajz06n9ccjdyfr5s153k1lxfgicqnsaf3i")))) (properties `((upstream-name . "arrow"))) (build-system r-build-system) (inputs @@ -24773,14 +25325,14 @@ industry for machine learning tasks.") (define-public r-float (package (name "r-float") - (version "0.3-1") + (version "0.3-2") (source (origin (method url-fetch) (uri (cran-uri "float" version)) (sha256 (base32 - "0fzb9warfnb7h1krrf2hrxjp3lmpff7sln0r2718iqlhwam9v1zm")))) + "149affr0swb1vqnhkzm5lr4knfsh78ygswy123j1qj823zbhsfi3")))) (properties `((upstream-name . "float"))) (build-system r-build-system) (native-inputs @@ -24833,14 +25385,14 @@ Row} (CSR) format.") (define-public r-text2vec (package (name "r-text2vec") - (version "0.6.3") + (version "0.6.4") (source (origin (method url-fetch) (uri (cran-uri "text2vec" version)) (sha256 (base32 - "1hi7ydb7xkgbff4lwnnz1biyl8m90w16hn3x5rrzvscvm53sj4y7")))) + "0sjlvp4zhzwc0ai7626fpw3ws8xv0xhl8gv8mrk24lrpk5nhin2h")))) (properties `((upstream-name . "text2vec"))) (build-system r-build-system) (propagated-inputs @@ -24942,14 +25494,14 @@ provides tools to compute this metric.") (define-public r-lintr (package (name "r-lintr") - (version "3.1.0") + (version "3.1.1") (source (origin (method url-fetch) (uri (cran-uri "lintr" version)) (sha256 (base32 - "1kb3jrzh1vn1fpj6phm2ni542yjgbbjmzgkn8w7khmh1sd9mj7pp")))) + "07c7h30nh1529wba8xkyg2sapj6r7jjckrxyzhrg2ssfwzs4dwdw")))) (properties `((upstream-name . "lintr"))) (build-system r-build-system) (propagated-inputs @@ -25259,14 +25811,14 @@ dimensional low-discrepancy sequence.") (define-public r-dqrng (package (name "r-dqrng") - (version "0.3.1") + (version "0.3.2") (source (origin (method url-fetch) (uri (cran-uri "dqrng" version)) (sha256 (base32 - "0vmrbnix05a9h1bc4b7d999qkzkk63i1arzyblyhmvydv4m8cc72")))) + "171y7487flla0vqxmzvf9nls7vn046vplcgzvyiva3d418hwl0nd")))) (build-system r-build-system) (propagated-inputs (list r-bh r-rcpp r-sitmo)) @@ -25329,14 +25881,14 @@ feature effects. Key functions are: (define-public r-ibreakdown (package (name "r-ibreakdown") - (version "2.0.1") + (version "2.1.2") (source (origin (method url-fetch) (uri (cran-uri "iBreakDown" version)) (sha256 (base32 - "00jzrndb3ahsv6ihp2pvs732n9cc944m83vdinrl9v1pxd82prkh")))) + "1qacvfzknchfm27mhl7a357fnb6lzjkj4vh8lch5aljz82sdmdaf")))) (properties `((upstream-name . "iBreakDown"))) (build-system r-build-system) (propagated-inputs (list r-ggplot2)) @@ -25355,14 +25907,14 @@ classification and regression models.") (define-public r-dae (package (name "r-dae") - (version "3.2.19") + (version "3.2.21") (source (origin (method url-fetch) (uri (cran-uri "dae" version)) (sha256 (base32 - "18cvxj2qjfqdp7gxpl93185f9c7q0fcxnc63h9car1y9dgwqsild")))) + "0j47d4r4mpkfaz29h7iiijmzi7fj7nysg8pd9c79h160h1lww9yx")))) (build-system r-build-system) (arguments '(#:phases @@ -25622,14 +26174,14 @@ the current document.") (define-public r-xgboost (package (name "r-xgboost") - (version "1.7.5.1") + (version "1.7.6.1") (source (origin (method url-fetch) (uri (cran-uri "xgboost" version)) (sha256 (base32 - "1g35r6qh4ivgbbvsdysiyy4c9gh396k3wdwz7scfb13g40zq7h2f")))) + "0q1x7ldvjankaf0gqcqiyiy514c5jascggfq6qrfyn3sravdcggj")))) (build-system r-build-system) (propagated-inputs (list r-data-table r-jsonlite r-matrix)) @@ -25763,6 +26315,26 @@ using a lasso (L1) penalty. Facilities are provided for estimates along a path of values for the regularization parameter.") (license license:gpl2))) +(define-public r-glassofast + (package + (name "r-glassofast") + (version "1.0.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "glassoFast" version)) + (sha256 + (base32 "0nyvmmrw6cr5j1mkf1qv6hn3q24kyn6gn48q6r7az4vn1m141hzz")))) + (properties `((upstream-name . "glassoFast"))) + (build-system r-build-system) + (native-inputs (list gfortran)) + (home-page "https://cran.r-project.org/package=glassoFast") + (synopsis "Fast graphical LASSO") + (description + "This package provides a fast and improved implementation of the +graphical LASSO.") + (license license:gpl3+))) + (define-public r-gldex (package (name "r-gldex") @@ -25998,14 +26570,14 @@ computed using the L1 (Manhattan, taxicab) metric.") (define-public r-leiden (package (name "r-leiden") - (version "0.4.3") + (version "0.4.3.1") (source (origin (method url-fetch) (uri (cran-uri "leiden" version)) (sha256 (base32 - "0f09k3mhb0di2cz1q95y6qd3rqh7xdybn0dpnd4ifqhfhr5lnika")))) + "1qihzjrwcb09aga27frcdrdv4dp0g295dbrk07fqykbjlb7vpv59")))) (properties `((upstream-name . "leiden"))) (build-system r-build-system) (propagated-inputs @@ -26061,14 +26633,14 @@ on graphs of millions of nodes (as long as they can fit in memory).") (define-public r-patchwork (package (name "r-patchwork") - (version "1.1.3") + (version "1.2.0") (source (origin (method url-fetch) (uri (cran-uri "patchwork" version)) (sha256 (base32 - "07npkbalfl2d9aix02m2srxgmd8ymar6v0x65ighg3nq9d7l4xp9")))) + "18b83gsv8idi5d062m9dvb46r7kxda97sa72pzllshhcaq9ylcfc")))) (build-system r-build-system) (propagated-inputs (list r-cli r-ggplot2 r-gtable r-rlang)) @@ -26213,13 +26785,13 @@ function and interfaces to external frameworks.") (define-public r-covr (package (name "r-covr") - (version "3.6.3") + (version "3.6.4") (source (origin (method url-fetch) (uri (cran-uri "covr" version)) (sha256 - (base32 "17m2zzgfghr7gzcdgim21vsl12nd4714867dcp9xfb6ili31ikn0")) + (base32 "0al6n4gnnvgxk968skqnajpqpqyl6kpam3fmn782kihhcl1h8qib")) (modules '((guix build utils))) ;; TODO: still need to replace highlight.js/highlight.pack.js (snippet @@ -26340,14 +26912,14 @@ be used further by e.g. graphic devices.") (define-public r-graphlayouts (package (name "r-graphlayouts") - (version "1.0.1") + (version "1.0.2") (source (origin (method url-fetch) (uri (cran-uri "graphlayouts" version)) (sha256 (base32 - "0x777ixw2vvj1z3dams0zmyk25v7cdm4sx8v6knlb2mfkkg2gcyk")))) + "1mg0j9kcjp8dbpd8fy9vr5f35pz41v18vxc7q4pyl986pj859jam")))) (properties `((upstream-name . "graphlayouts"))) (build-system r-build-system) (propagated-inputs @@ -26366,14 +26938,14 @@ 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 @@ -26404,14 +26976,14 @@ 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 @@ -26419,6 +26991,7 @@ files is supported.") r-cpp11 r-dplyr r-igraph + r-lifecycle r-magrittr r-pillar r-r6 @@ -26466,14 +27039,14 @@ cell RNA-seq experiments.") (define-public r-assertr (package (name "r-assertr") - (version "3.0.0") + (version "3.0.1") (source (origin (method url-fetch) (uri (cran-uri "assertr" version)) (sha256 (base32 - "1wi3mz968clvwqg6mbm32zhj4vyfskklk72b4028cjsfdry6bpfp")))) + "0g7h88kkls6v1nfzbar40y56yv3lkqb7vrcy63xqgc99zcf8k4bc")))) (build-system r-build-system) (propagated-inputs (list r-dplyr r-mass r-rlang)) @@ -26491,14 +27064,14 @@ in pipelines.") (define-public r-parameters (package (name "r-parameters") - (version "0.21.2") + (version "0.21.3") (source (origin (method url-fetch) (uri (cran-uri "parameters" version)) (sha256 (base32 - "05ryyyibnm69hq1xa84r9n2gr1s1ifds70z4awmib2ch62098m43")))) + "091zpyq37v7xjicj4h4r4fqhrrc7d3hicgbdznsjn85sw4d7q595")))) (properties `((upstream-name . "parameters"))) (build-system r-build-system) (propagated-inputs @@ -26576,14 +27149,14 @@ atmospheric physics.") (define-public r-lifecycle (package (name "r-lifecycle") - (version "1.0.3") + (version "1.0.4") (source (origin (method url-fetch) (uri (cran-uri "lifecycle" version)) (sha256 (base32 - "1hk9mblhap429fk77qpgc4hv0j91q5wpahi0y76w118m471zsnb4")))) + "1k4ibf2x90xgmzaq47vf9wrsh6a2fp2lg1l8bq89632bx33x795d")))) (build-system r-build-system) (propagated-inputs (list r-cli r-glue r-rlang)) @@ -26656,13 +27229,13 @@ programming problems.") (define-public r-desolve (package (name "r-desolve") - (version "1.38") + (version "1.40") (source (origin (method url-fetch) (uri (cran-uri "deSolve" version)) (sha256 - (base32 "0sc933g0jx25b7fm5bl6is95mn4fn1sf8cgb6qzhlmmf8rfgxd50")))) + (base32 "1vq0yli1pkk3z92x1jgm4z19zwwhnwqdxvj4k2dmcnw7nrmsw2cc")))) (properties `((upstream-name . "deSolve"))) (build-system r-build-system) (native-inputs @@ -26685,13 +27258,13 @@ to ODEs by numerical differencing.") (define-public r-pmcmrplus (package (name "r-pmcmrplus") - (version "1.9.8") + (version "1.9.10") (source (origin (method url-fetch) (uri (cran-uri "PMCMRplus" version)) (sha256 - (base32 "1wqx5nikhpjsqnn7lgb2zy949sxmq7n3phlaix70as0zky534scg")))) + (base32 "0w0zxlq80n673zlrfw46qzidwshc6rxsqka6pahbr816zabzi0yq")))) (properties `((upstream-name . "PMCMRplus"))) (build-system r-build-system) (inputs (list gmp)) @@ -26714,12 +27287,12 @@ to ODEs by numerical differencing.") (define-public r-pracma (package (name "r-pracma") - (version "2.4.2") + (version "2.4.4") (source (origin (method url-fetch) (uri (cran-uri "pracma" version)) (sha256 - (base32 "05lwx2yx7f45cr5amzbjv3b2p6ibspjxl0aglq2dga6rvxzk6l0x")))) + (base32 "0zxsqr7f4pcr1nmbbzliihyldv091ykzajv1mbdrkycp46pz6khs")))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/pracma/") (synopsis "Practical numerical math functions") @@ -27003,14 +27576,14 @@ long-term reliability under stochastic load profiles.") (define-public r-rglpk (package (name "r-rglpk") - (version "0.6-5") + (version "0.6-5.1") (source (origin (method url-fetch) (uri (cran-uri "Rglpk" version)) (sha256 (base32 - "18bwnpb8645vf233andr411shzp1sm3i7bn848sgxswgb80grvxa")))) + "1jdnkjzwbqmyg7fsay4rhscchg69gyhk9f73mlbfzpz9hz2bha75")))) (properties `((upstream-name . "Rglpk"))) (build-system r-build-system) (propagated-inputs @@ -27102,14 +27675,14 @@ cell free DNA} (cfDNA).") (define-public r-rintrojs (package (name "r-rintrojs") - (version "0.3.3") + (version "0.3.4") (source (origin (method url-fetch) (uri (cran-uri "rintrojs" version)) (sha256 (base32 - "1fy5lz9d9njs4yrnwrrn0n1fn0chccgi1gzn4qz4g6adr3v35rgw")) + "12944h3h6131l916bsz6vmccq8pvq831b52s3wb1hpwygqfj0a6l")) (snippet '(delete-file "inst/javascript/introjs/intro.min.js")))) (properties `((upstream-name . "rintrojs"))) @@ -27483,14 +28056,14 @@ with style and various functions to supplement the tcltk package") (define-public r-accrual (package (name "r-accrual") - (version "1.3") + (version "1.4") (source (origin (method url-fetch) (uri (cran-uri "accrual" version)) (sha256 (base32 - "11clm9s5c5518nmp6hd6pjnp0s28y92b2i2x0xgj4j5g816p4j3z")))) + "0dygp8xar6dqx822ghjqvi8c597xjb7bqn57475fs4nw5zz709lk")))) (properties `((upstream-name . "accrual"))) (build-system r-build-system) (propagated-inputs @@ -27937,14 +28510,14 @@ the align-and-count method.") (define-public r-filelock (package (name "r-filelock") - (version "1.0.2") + (version "1.0.3") (source (origin (method url-fetch) (uri (cran-uri "filelock" version)) (sha256 (base32 - "00ql5fw1hidpfnm0szaavf43ahmsnvdbi8i5lr1nrcc90yaiaadc")))) + "0dqi0w92zq1f9542ma2nk5gkqzfmd4jlf34vysb4vv7mag20xk9d")))) (properties `((upstream-name . "filelock"))) (build-system r-build-system) (home-page "https://github.com/r-lib/filelock") @@ -28200,14 +28773,14 @@ provided as well.") (define-public r-tuner (package (name "r-tuner") - (version "1.4.5") + (version "1.4.6") (source (origin (method url-fetch) (uri (cran-uri "tuneR" version)) (sha256 (base32 - "1ysjn8mclrjp4qr4m45qanm20gpdbikmgzfrcn2a0phfz8nhvlpm")))) + "1l270rk1m3967fvgpshrbd71l7ns74wdhivbmavayk68dnsiyi65")))) (properties `((upstream-name . "tuneR"))) (build-system r-build-system) (propagated-inputs (list r-signal)) @@ -28721,14 +29294,14 @@ be conducted. A graphical user interface is also provided.") (define-public r-actcd (package (name "r-actcd") - (version "1.2-0") + (version "1.3-0") (source (origin (method url-fetch) (uri (cran-uri "ACTCD" version)) (sha256 (base32 - "0mzjxxr2zfdidw8ibh6w8mvpkw3q3nvngqi05g9ind26ckvk053p")))) + "1a0gsznca5fv7i29xpcns4rkas5q88wv01rxvd4j66n64gw0ri4j")))) (properties `((upstream-name . "ACTCD"))) (build-system r-build-system) (propagated-inputs @@ -29127,14 +29700,14 @@ API; see the package vignette for details.") (define-public r-actuar (package (name "r-actuar") - (version "3.3-3") + (version "3.3-4") (source (origin (method url-fetch) (uri (cran-uri "actuar" version)) (sha256 (base32 - "0ji5p19vqnr3i3vfrql2qndhzcjnr57jrh0szil6gaz6bm56afc4")))) + "06693w4cwcchi0z64vgg7khc4k4209nw6m2x441nwix4x6rk1zjs")))) (properties `((upstream-name . "actuar"))) (build-system r-build-system) (propagated-inputs (list r-expint)) @@ -29435,13 +30008,13 @@ 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 @@ -29475,10 +30048,12 @@ 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") @@ -29917,13 +30492,13 @@ 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 @@ -30562,14 +31137,14 @@ and Euclidean distance is particularly fast.") (define-public r-isocodes (package (name "r-isocodes") - (version "2022.09.29") + (version "2023.12.07") (source (origin (method url-fetch) (uri (cran-uri "ISOcodes" version)) (sha256 (base32 - "1rag5mb3bbyxp8n32rhfyy752cy9hh5j80lp9xljj70scvglzbjb")))) + "03nrcv1hh12yyqql03cr94kk3hnpynvrm4kv3plmdli2b3n1yqvk")))) (properties `((upstream-name . "ISOcodes"))) (build-system r-build-system) (home-page "https://cran.r-project.org/package=ISOcodes") @@ -30606,18 +31181,20 @@ analysis and natural language processing.") (define-public r-spacyr (package (name "r-spacyr") - (version "1.2.1") + (version "1.3.0") (source (origin (method url-fetch) (uri (cran-uri "spacyr" version)) (sha256 (base32 - "1b2ccgwsiqkvp7w37x8k7699c676q16vfrybkrfvyczyhki4s6nw")))) + "1z4nx8phrc0l73xic2lkff03a54kjw343425h5mm2afz6zidcmf4")))) (properties `((upstream-name . "spacyr"))) (build-system r-build-system) (propagated-inputs (list r-data-table r-reticulate)) + (native-inputs + (list r-r-rsp)) (home-page "https://spacyr.quanteda.io") (synopsis "R wrapper for the spaCy NLP library") (description @@ -30691,18 +31268,19 @@ machine learning, visually representing text and text analyses, and more.") (define-public r-topicmodels (package (name "r-topicmodels") - (version "0.2-14") + (version "0.2-16") (source (origin (method url-fetch) (uri (cran-uri "topicmodels" version)) (sha256 (base32 - "1jaw9fjcl5ac0l57lack9gswqx2wzid1gkwsksyr4dlpxbw0zm5c")))) - (properties `((upstream-name . "topicmodels"))) + "01g9avk0ldqnz15n8112vad31c1n7r6rih5dh6x3383vvmjrqp0d")))) + (properties + '((upstream-name . "topicmodels") + (updater-extra-inputs . ("gsl")))) (build-system r-build-system) - (inputs - (list gsl)) + (inputs (list gsl)) (propagated-inputs (list r-modeltools r-slam r-tm)) (home-page "https://cran.r-project.org/package=topicmodels") @@ -30717,14 +31295,14 @@ Gibbs sampling by Xuan-Hieu Phan and co-authors.") (define-public r-stm (package (name "r-stm") - (version "1.3.6.1") + (version "1.3.7") (source (origin (method url-fetch) (uri (cran-uri "stm" version)) (sha256 (base32 - "0izf68s8n6jlzksnn2md0apb4b8gm6513r0aa45yrm71gb0v29yc")))) + "0cvv6q5r55iqk327rav25dymvnn77rj8chmgkbkwd0c1dpqf4x5q")))) (properties `((upstream-name . "stm"))) (build-system r-build-system) (propagated-inputs @@ -30774,14 +31352,14 @@ errors; tetrachoric and biserial correlations are special cases.") (define-public r-msm (package (name "r-msm") - (version "1.7") + (version "1.7.1") (source (origin (method url-fetch) (uri (cran-uri "msm" version)) (sha256 (base32 - "1c0dvmrjxx551n207fq4yjr56rdchaf1zzldxx4rx4b6g7jgi2bz")))) + "0nvqgx74rwx061vgmhvc872bwq8smccm2n8r51s37vbfjqmphd6i")))) (properties `((upstream-name . "msm"))) (build-system r-build-system) (propagated-inputs @@ -30990,14 +31568,14 @@ perform @dfn{exploratory mediation} (XMed).") (define-public r-stanheaders (package (name "r-stanheaders") - (version "2.26.28") + (version "2.32.5") (source (origin (method url-fetch) (uri (cran-uri "StanHeaders" version)) (sha256 (base32 - "1s1xgvn5c1vjikm1dx9g0qm2k8m24clylgp7zssmfhx6sfb8v2lk")))) + "0wqps6xy2xypxsg3p3grdiw67a0xla3vh9x9hcf2ln03yhgkn4jl")))) (properties `((upstream-name . "StanHeaders"))) (build-system r-build-system) (inputs (list pandoc)) @@ -31056,14 +31634,14 @@ Complete access to optimized C functions is made available with (define-public r-openmx (package (name "r-openmx") - (version "2.21.8") + (version "2.21.11") (source (origin (method url-fetch) (uri (cran-uri "OpenMx" version)) (sha256 (base32 - "1vvlb9q3w6i6g7kf0r5jnrlmdxskh3rbfss90icand046rl37qdz")))) + "1k3i82higil43w4pryg1ghpswa8vxmc28dcv60gvkmmjrnwp098m")))) (properties `((upstream-name . "OpenMx"))) (build-system r-build-system) (propagated-inputs @@ -31077,7 +31655,7 @@ Complete access to optimized C functions is made available with r-rcppparallel r-rpf r-stanheaders)) - (native-inputs (list r-knitr gfortran)) + (native-inputs (list gfortran r-knitr)) (home-page "http://openmx.ssri.psu.edu") (synopsis "Extended structural equation modelling") (description @@ -31256,14 +31834,14 @@ network, tree, dendrogram, and Sankey graphs from R using data frames.") (define-public r-qgraph (package (name "r-qgraph") - (version "1.9.5") + (version "1.9.8") (source (origin (method url-fetch) (uri (cran-uri "qgraph" version)) (sha256 (base32 - "1mi19bjx83zb42wmgb716a3l4gvwch3rmybdqmm8k3dl8xr2qnjc")))) + "1m019j5nxc0184p0r2zgdn457g555nxsp2s08maa053nydj1va0l")))) (properties `((upstream-name . "qgraph"))) (build-system r-build-system) (propagated-inputs @@ -31537,14 +32115,14 @@ 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 @@ -31748,15 +32326,17 @@ techniques to average Bayesian predictive distributions.") (define-public r-rstan (package (name "r-rstan") - (version "2.32.3") + (version "2.32.5") (source (origin (method url-fetch) (uri (cran-uri "rstan" version)) (sha256 (base32 - "17alp92kj9mnlkzplk7zd83sv2zi2h7yc44fx5f7nz3dpwd9x7d2")))) - (properties `((upstream-name . "rstan"))) + "0m655pf0lrhqh2mzylximd2vch9wy252k4zwyfqn1sfwmx642dva")))) + (properties + '((upstream-name . "rstan") + (updater-extra-native-inputs . ("tzdata-for-tests")))) (build-system r-build-system) (arguments `(#:phases @@ -31866,14 +32446,14 @@ trend test.") (define-public r-keyring (package (name "r-keyring") - (version "1.3.1") + (version "1.3.2") (source (origin (method url-fetch) (uri (cran-uri "keyring" version)) (sha256 (base32 - "113rjhihqfhxdihnf6nwqbsknlnm8pqyhvnyxx624gyajl9mn3a7")))) + "0mps6q7yayx5l78vlq567pndlsjk71izd65znz3lj4dfbh0qq046")))) (properties `((upstream-name . "keyring"))) (build-system r-build-system) (propagated-inputs @@ -31923,13 +32503,13 @@ climate data.") (define-public r-rlecuyer (package (name "r-rlecuyer") - (version "0.3-7") + (version "0.3-8") (source (origin (method url-fetch) (uri (cran-uri "rlecuyer" version)) (sha256 (base32 - "0g5z26wsbv3wzrc3gl1z97qxdk5m2pvfg3f5zqkz98wzh1z49b35")))) + "1jbm5h8zbsx1yw148piw9p0rj9a7cm0ywgidrzi5ylrp6dad7gk6")))) (properties `((upstream-name . "rlecuyer"))) (build-system r-build-system) (home-page @@ -32270,14 +32850,14 @@ argon2 algorithm.") (define-public r-getpass (package (name "r-getpass") - (version "0.2-2") + (version "0.2-4") (source (origin (method url-fetch) (uri (cran-uri "getPass" version)) (sha256 (base32 - "03ydafhh0sk3rcnpr3paajyji64x2ddp6p814p9mvbmyrblcgzcc")))) + "0a0q9v29z49s1iprs5di01wlflxj74sbizwsrzjfc538nkwfpnqm")))) (properties `((upstream-name . "getPass"))) (build-system r-build-system) (propagated-inputs @@ -32582,14 +33162,14 @@ 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) @@ -32732,14 +33312,14 @@ 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 @@ -33142,18 +33722,20 @@ input.") (define-public r-lightgbm (package (name "r-lightgbm") - (version "3.3.5") + (version "4.2.0") (source (origin (method url-fetch) (uri (cran-uri "lightgbm" version)) (sha256 (base32 - "1bnzggia48jkd1ffdzhznmbk76dw3mab65i7rmg967zcflapv7rh")))) + "0c0q597agzdaimy0q1mssdpm0pw4yvqq9w6n8syvgz1g5q0mcwqi")))) (properties `((upstream-name . "lightgbm"))) (build-system r-build-system) (propagated-inputs (list r-data-table r-jsonlite r-matrix r-r6)) + (native-inputs + (list r-knitr)) (home-page "https://github.com/Microsoft/LightGBM") (synopsis "Light gradient boosting machine") (description @@ -33430,13 +34012,13 @@ doi.org/10.1007/s10115-013-0679-x} for details.") (define-public r-memisc (package (name "r-memisc") - (version "0.99.31.6") + (version "0.99.31.7") (source (origin (method url-fetch) (uri (cran-uri "memisc" version)) (sha256 (base32 - "0vnrq6lkqzba76222fsw9hp0sasq65r43iyc23nw6q3fzi7nncsj")))) + "0drn923y8bwwwk2csa7l9b3fd06zfrfgi3b0pn7b23aja1c1h0xl")))) (properties `((upstream-name . "memisc"))) (build-system r-build-system) (propagated-inputs (list r-data-table r-jsonlite r-lattice r-mass r-yaml)) @@ -33715,14 +34297,14 @@ matrix calculations that are common in statistics, such as quadratic forms.") (define-public r-spatstat-data (package (name "r-spatstat-data") - (version "3.0-3") + (version "3.0-4") (source (origin (method url-fetch) (uri (cran-uri "spatstat.data" version)) (sha256 (base32 - "0fxd266rza07s73fj1n4rd4i7x1bv1ll36iikxzjhnlh3vjc0hkn")))) + "1s0ns5nhgigfn3d9rdy3f4ymnwj1w71v26iphkhwxddm9qzk80yi")))) (properties `((upstream-name . "spatstat.data"))) (build-system r-build-system) (propagated-inputs @@ -33823,13 +34405,13 @@ for spatial data on a linear network.") (define-public r-spatstat-random (package (name "r-spatstat-random") - (version "3.2-1") + (version "3.2-2") (source (origin (method url-fetch) (uri (cran-uri "spatstat.random" version)) (sha256 - (base32 "1p1imyqrpvdhsc24pq3mvdg9n29h6q8zlawdyahqiymynyp22m4j")))) + (base32 "01rsh7z9prsdrqlbc2761sf54w24z7jzj64ijfzy8l5ca56fxij8")))) (properties `((upstream-name . "spatstat.random"))) (build-system r-build-system) (propagated-inputs (list r-spatstat-data r-spatstat-geom r-spatstat-utils)) @@ -33882,14 +34464,14 @@ formal inference.") (define-public r-gaston (package (name "r-gaston") - (version "1.5.9") + (version "1.6") (source (origin (method url-fetch) (uri (cran-uri "gaston" version)) (sha256 (base32 - "1f4pr5s4p4rw1smvsh2gwjxp7hh43j1fpadl286ma9i62kirpyq7")))) + "1knjyw2dsarljj2zsqp3hi6hk6m90sfqp2l535h3arj70l3rq9x4")))) (properties `((upstream-name . "gaston"))) (build-system r-build-system) (inputs (list zlib)) @@ -33908,14 +34490,14 @@ for linear mixed models (AIREML).") (define-public r-cpp11 (package (name "r-cpp11") - (version "0.4.6") + (version "0.4.7") (source (origin (method url-fetch) (uri (cran-uri "cpp11" version)) (sha256 (base32 - "1csmj1cl07lsbrg8qp26cs0lx1p0zi7alanmi83rhcqxcxa6kifi")))) + "0i234s1g1vc6m2sqxia5r1gaca05znjv4bff5dj74fach9k147c0")))) (properties `((upstream-name . "cpp11"))) (build-system r-build-system) (native-inputs (list r-knitr)) @@ -33980,14 +34562,14 @@ aggregation for comparing different implementations in order to provide a (define-public r-rfast (package (name "r-rfast") - (version "2.0.9") + (version "2.1.0") (source (origin (method url-fetch) (uri (cran-uri "Rfast" version)) (sha256 (base32 - "12jl5kqjn571zcqh4n351d7nx86b3jh46ds8krqz92f0z6fjmkzz")))) + "1zqq4k85i0nbzndkh0iiq3k83ly0mpl3pn4wkka6qxfvk6n6rr7r")))) (properties `((upstream-name . "Rfast"))) (build-system r-build-system) (propagated-inputs @@ -34028,14 +34610,14 @@ model.") (define-public r-clusterr (package (name "r-clusterr") - (version "1.3.1") + (version "1.3.2") (source (origin (method url-fetch) (uri (cran-uri "ClusterR" version)) (sha256 (base32 - "1xn0zkgjagfnqagk2yllaa6j8rlxq2f4pn3yqj4gff90bc0cv3kf")))) + "1bs1sl3yy90zx4ni0lhvdivzfas6i4v9203m59njvk5df9x82ffp")))) (properties `((upstream-name . "ClusterR"))) (build-system r-build-system) (propagated-inputs @@ -34709,14 +35291,14 @@ model.") (define-public r-igraph (package (name "r-igraph") - (version "1.5.1") + (version "1.6.0") (source (origin (method url-fetch) (uri (cran-uri "igraph" version)) (sha256 (base32 - "0jmii8kzs7hpf3xmlbfb8d21q79z7ramc18zcjamsjmdfwg0mndd")))) + "1f1v8pv3slmjw11w6a97885114whw6ykky3jviwj1rrqzcvwq3j1")))) (build-system r-build-system) (native-inputs (list gfortran r-knitr)) @@ -34871,14 +35453,14 @@ and regression metrics (e.g., RMSE).") (define-public r-warp (package (name "r-warp") - (version "0.2.0") + (version "0.2.1") (source (origin (method url-fetch) (uri (cran-uri "warp" version)) (sha256 (base32 - "0s0acddc5h14245hi1faycxp0fyvw6nlgaz2df7da4fpyd2f638f")))) + "1gj65kgs7x63f6y2vnv13k293b52k4afbmdlcam635h9vs8da2h2")))) (properties `((upstream-name . "warp"))) (build-system r-build-system) (native-inputs (list r-knitr)) @@ -35004,14 +35586,14 @@ different types of resampling objects (e.g. bootstrap, cross-validation).") (define-public r-dicedesign (package (name "r-dicedesign") - (version "1.9") + (version "1.10") (source (origin (method url-fetch) (uri (cran-uri "DiceDesign" version)) (sha256 (base32 - "1a8ixa65xgyfri03cviic8qi2plbhdyz8m02bwif8w94w0q3ghlk")))) + "0gf76f4jy8lbmw045q3ncs4ly07clh6gdfbmlnyk45wcgch3nm06")))) (properties `((upstream-name . "DiceDesign"))) (build-system r-build-system) (home-page "http://dice.emse.fr/") @@ -35744,14 +36326,14 @@ covariate (usually group indicator) and the scores.") (define-public r-qtl (package (name "r-qtl") - (version "1.60") + (version "1.66") (source (origin (method url-fetch) (uri (cran-uri "qtl" version)) (sha256 (base32 - "1bfqb5rz1qxrq8876d13m8zfsn88xn9xsymjkzvd8xka5kz5v7lf")))) + "10fnc3ms97rdqsqxz5jpvg2cmrwmz69wjxxs3h65r1yhy94pssnl")))) (build-system r-build-system) (home-page "https://rqtl.org/") (synopsis "R package for analyzing QTL experiments in genetics") @@ -35767,12 +36349,12 @@ genome scans.") (define-public r-qtl2 (package (name "r-qtl2") - (version "0.32") + (version "0.34") (source (origin (method url-fetch) (uri (cran-uri "qtl2" version)) (sha256 - (base32 "1sbkflnb6s8k8fwkhs7pg1s9jw13jd3y5a15xrqmy391bm5s26rn")))) + (base32 "1h3wim850b2xk09z9vgnyfp20k7vg94zf7szcrlw5nf1w9gn4wzy")))) (build-system r-build-system) (propagated-inputs (list r-data-table @@ -35793,14 +36375,14 @@ designs. Broman et al. (2018) <doi:10.1534/genetics.118.301595>.") (define-public r-seqminer (package (name "r-seqminer") - (version "9.1") + (version "9.3") (source (origin (method url-fetch) (uri (cran-uri "seqminer" version)) (sha256 (base32 - "0vdprasxy4dc9p5k43xgcmi0q50iapgcam43qzbh1kr0vi6fgqkr")))) + "07dig3ydybmi55qy1zpkxpw568midgc1bzdl3k36734yqnsp2sjs")))) (build-system r-build-system) (inputs (list zlib)) @@ -35866,14 +36448,14 @@ data to rasters. It speeds up plotting of data with millions of points.") (define-public r-seuratobject (package (name "r-seuratobject") - (version "5.0.0") + (version "5.0.1") (source (origin (method url-fetch) (uri (cran-uri "SeuratObject" version)) (sha256 (base32 - "0wlr53cswq7a7zzzzkif82iy4xrrd2afz093b265kjlq4qxmzn9d")))) + "0hgrymldcqja40prr23gwx1c7lvwjjwcla3dld6x8wzkzqh1gkjs")))) (properties `((upstream-name . "SeuratObject"))) (build-system r-build-system) (propagated-inputs @@ -35932,21 +36514,23 @@ other R users.") (define-public r-seurat (package (name "r-seurat") - (version "4.4.0") + (version "5.0.1") (source (origin (method url-fetch) (uri (cran-uri "Seurat" version)) (sha256 (base32 - "1pdlvjh5xs1fyj2zic98sfz9zazbb45qywfqnhfzqb34jyaxy5qg")))) + "038mqnavn3gxxx41yzq0q7gfnnx15dizryv8l374zwavpqsb84q7")))) (properties `((upstream-name . "Seurat"))) (build-system r-build-system) (propagated-inputs (list r-cluster r-cowplot + r-fastdummies r-fitdistrplus r-future r-future-apply + r-generics r-ggplot2 r-ggrepel r-ggridges @@ -35957,6 +36541,7 @@ other R users.") r-jsonlite r-kernsmooth r-leiden + r-lifecycle r-lmtest r-mass r-matrix @@ -35973,10 +36558,12 @@ other R users.") r-rcpp r-rcppannoy r-rcppeigen + r-rcpphnsw r-rcppprogress r-reticulate r-rlang r-rocr + r-rspectra r-rtsne r-scales r-scattermore @@ -36067,11 +36654,11 @@ 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) @@ -36080,7 +36667,7 @@ 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 @@ -36179,17 +36766,15 @@ 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)) @@ -36583,13 +37168,13 @@ package also supersedes the package @code{BBmisc}.") (define-public r-mlr3pipelines (package (name "r-mlr3pipelines") - (version "0.5.0-1") + (version "0.5.0-2") (source (origin (method url-fetch) (uri (cran-uri "mlr3pipelines" version)) (sha256 (base32 - "1pn6zi1qy4ql7zkkzmx52b5l9agppr1rlv3pdnm1dy8y0yc7imhd")))) + "0iv09qmr1gpipcylw8mp1y7kqjljy8p5sx466l1wxfaqkf7kw15j")))) (build-system r-build-system) (propagated-inputs (list r-backports @@ -36668,13 +37253,13 @@ implemented as @code{R6} classes.") (define-public r-mlr3 (package (name "r-mlr3") - (version "0.16.1") + (version "0.17.2") (source (origin (method url-fetch) (uri (cran-uri "mlr3" version)) (sha256 (base32 - "09klavihc2j6wsd9m2ycppl2ir85z5cxlxl9h6ay9skacylk559n")))) + "0kcny3wxc7qc2538hxxdzs9bw4pq55s4abhlnpf1r13b2gkns323")))) (build-system r-build-system) (propagated-inputs (list r-backports @@ -36691,6 +37276,7 @@ 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") @@ -36705,13 +37291,13 @@ computational operations, add-on packages provide additional functionality.") (define-public r-mlr3learners (package (name "r-mlr3learners") - (version "0.5.6") + (version "0.5.8") (source (origin (method url-fetch) (uri (cran-uri "mlr3learners" version)) (sha256 (base32 - "1m0psjqcl2pfy73wmc29vyz122v0kqmws6d0dgl7wsy1csfjsjm2")))) + "0q44qmd9zfc68jl2zz684rx9744g83vd7z40dck8cdvnnrxcff5g")))) (build-system r-build-system) (propagated-inputs (list r-checkmate @@ -36732,14 +37318,14 @@ vector machines, and gradient boosting.") (define-public r-bbotk (package (name "r-bbotk") - (version "0.7.2") + (version "0.7.3") (source (origin (method url-fetch) (uri (cran-uri "bbotk" version)) (sha256 (base32 - "1gw0rkbiv93ifl9110r9sr0p9g4vg7qc11mznmmjq0a5vzmqgpm9")))) + "1ddr5w7n68d3imcrm0ipgk1waml8zj4szi566dmmiqvlpzpgdr3p")))) (properties `((upstream-name . "bbotk"))) (build-system r-build-system) (propagated-inputs @@ -36762,13 +37348,13 @@ annealing.") (define-public r-mlr3tuning (package (name "r-mlr3tuning") - (version "0.19.0") + (version "0.19.2") (source (origin (method url-fetch) (uri (cran-uri "mlr3tuning" version)) (sha256 (base32 - "1iz7izmkx11jma95305wq8aapi4dmqg20flgxxvdvrfy6hf98k33")))) + "1d27m6yzwr7chpf19q6mwpj2fyz9vv8k6nbg8z9615hmbp96lan5")))) (build-system r-build-system) (propagated-inputs (list r-bbotk @@ -36993,14 +37579,14 @@ chunks.") (define-public r-clustree (package (name "r-clustree") - (version "0.5.0") + (version "0.5.1") (source (origin (method url-fetch) (uri (cran-uri "clustree" version)) (sha256 (base32 - "1haam13aifak8fladyxwa0gz56anj1zfczfjgs07gbw90kf6azx8")))) + "05yizn8hcf4nsibypxahp2mz64sy10vli776mi0d2gvfb5p4kwmm")))) (properties `((upstream-name . "clustree"))) (build-system r-build-system) (propagated-inputs @@ -37056,14 +37642,14 @@ 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 @@ -37619,13 +38205,13 @@ data you need the @code{pdftools} package.") (define-public r-pbdmpi (package (name "r-pbdmpi") - (version "0.5-0") + (version "0.5-1") (source (origin (method url-fetch) (uri (cran-uri "pbdMPI" version)) (sha256 (base32 - "0wfx33jhdrwp97chsp9v8z2yf49shycvky8dwl9pgwqd9l69aw7x")))) + "047pxra6n3pacyqg5qdg8dbz32s8bq8z9dyi5rvs0ax76vr1v8v4")))) (properties `((upstream-name . "pbdMPI"))) (build-system r-build-system) (arguments @@ -38018,14 +38604,14 @@ variability than the Poisson, but less than the negative binomial.") (define-public r-rjsonio (package (name "r-rjsonio") - (version "1.3-1.8") + (version "1.3-1.9") (source (origin (method url-fetch) (uri (cran-uri "RJSONIO" version)) (sha256 (base32 - "1xak6n15ck7rj9swxk99vpjly1naxgz9gj6zjmib2lkq7inmgw7n")))) + "1kiy36hjzh5if5npqv5mdvkr5pdfg3ibj178gr0kz1r81i5h6wzi")))) (properties `((upstream-name . "RJSONIO"))) (build-system r-build-system) (home-page "https://cran.r-project.org/package=RJSONIO") @@ -38323,14 +38909,14 @@ time zone manipulations.") (define-public r-vroom (package (name "r-vroom") - (version "1.6.4") + (version "1.6.5") (source (origin (method url-fetch) (uri (cran-uri "vroom" version)) (sha256 (base32 - "0kg25b3drfv4dgvciwsv6wgw6v0lf1maigyhllw9hh114rmzjild")))) + "0qapkgn5k9g07l48scgln8y1k6fkkzsq5la5fjfh9if9b0ga5p3v")))) (properties `((upstream-name . "vroom"))) (build-system r-build-system) (propagated-inputs @@ -38409,13 +38995,13 @@ with well defined variance functions).") (define-public r-webutils (package (name "r-webutils") - (version "1.1") + (version "1.2.0") (source (origin (method url-fetch) (uri (cran-uri "webutils" version)) (sha256 - (base32 "16a6ds0fnb6y8i1r9ba1hf1ydb53am57s070b3hi5jmrs84b9qik")))) + (base32 "0g3zrbwiyq9z0chc66dr8gndqs0xdqkc49bpisbb7ns3g0fkl92i")))) (properties `((upstream-name . "webutils"))) (build-system r-build-system) (propagated-inputs @@ -38574,14 +39160,14 @@ the @code{raster} package that is suitable for extracting raster values using (define-public r-stringfish (package (name "r-stringfish") - (version "0.15.8") + (version "0.16.0") (source (origin (method url-fetch) (uri (cran-uri "stringfish" version)) (sha256 (base32 - "16w3i3d7jw2s1hzxr3mngrh7yjxvhswqdlpjw5g4z25i84lixcnz")))) + "14vrg6mkwwgw1klgpvjn7936yfxav55rainz71xjjih2j21vq21n")))) (properties `((upstream-name . "stringfish"))) (build-system r-build-system) (propagated-inputs @@ -38622,14 +39208,14 @@ package.") (define-public r-qs (package (name "r-qs") - (version "0.25.5") + (version "0.25.7") (source (origin (method url-fetch) (uri (cran-uri "qs" version)) (sha256 (base32 - "0k0688fz95xwb4s9fjgnnif3kzbisxgfgbfad07gpzd0123ki1rz")))) + "0a0jay9p2k0ahf08s94dr1w66qhbgzs87vkaanwkd4j6lvijncz7")))) (properties `((upstream-name . "qs"))) (build-system r-build-system) (arguments @@ -39070,14 +39656,14 @@ fully reproducible.") (define-public r-paws-common (package (name "r-paws-common") - (version "0.6.2") + (version "0.7.0") (source (origin (method url-fetch) (uri (cran-uri "paws.common" version)) (sha256 (base32 - "1jgls5fks9s8m616qs6b7hvv0wf7nhzajyds15hnlasqwg387h3d")))) + "05rld34brjc32p9f9cbqyyh208rh9idnyih33cpw7bz7bfyicnqm")))) (properties `((upstream-name . "paws.common"))) (build-system r-build-system) (propagated-inputs @@ -39101,14 +39687,14 @@ Service (S3).") (define-public r-paws-customer-engagement (package (name "r-paws-customer-engagement") - (version "0.4.0") + (version "0.5.0") (source (origin (method url-fetch) (uri (cran-uri "paws.customer.engagement" version)) (sha256 (base32 - "0skfya3m9i36dd0jqvnnc72k1h3lb4s3fjkvg7na6aq6xgpjh4jv")))) + "1380waqavwga17fvdzfpag4snzynkykh3pnia5bi73476y7myj5h")))) (properties `((upstream-name . "paws.customer.engagement"))) (build-system r-build-system) @@ -39125,14 +39711,14 @@ service, and more.") (define-public r-paws-cost-management (package (name "r-paws-cost-management") - (version "0.4.0") + (version "0.5.0") (source (origin (method url-fetch) (uri (cran-uri "paws.cost.management" version)) (sha256 (base32 - "1j9zi73y9ng5m6wlws4crfv4j6b8qxk1m9g1hd286g4gg852g80y")))) + "1fvxird0kmwhj930j7hm95h34c0vsf8p0lh6qrnz9d9i689fiw92")))) (properties `((upstream-name . "paws.cost.management"))) (build-system r-build-system) @@ -39149,13 +39735,13 @@ more.") (define-public r-paws-developer-tools (package (name "r-paws-developer-tools") - (version "0.4.0") + (version "0.5.0") (source (origin (method url-fetch) (uri (cran-uri "paws.developer.tools" version)) (sha256 - (base32 "13i5yi23xsrks1dsw0k3cqzr2gqj8p23yajb3a7drim6d4rpsaxl")))) + (base32 "177q7x8l9asyidpc7j20xwpyk0bd9x9m20cy4qzlnnmr14anyvjm")))) (properties `((upstream-name . "paws.developer.tools"))) (build-system r-build-system) (propagated-inputs @@ -39171,13 +39757,13 @@ deployment, and more.") (define-public r-paws-end-user-computing (package (name "r-paws-end-user-computing") - (version "0.4.0") + (version "0.5.0") (source (origin (method url-fetch) (uri (cran-uri "paws.end.user.computing" version)) (sha256 - (base32 "0v3ng20vrp5cvpbgipwwpvyhi995n2rp8jls0kklkrjax41x62cn")))) + (base32 "0qz5kps9819yfqjdqjmv7wx70ll7xayfxmd5dc867k14i41f91cm")))) (properties `((upstream-name . "paws.end.user.computing"))) (build-system r-build-system) (propagated-inputs @@ -39193,14 +39779,14 @@ and more.") (define-public r-paws-application-integration (package (name "r-paws-application-integration") - (version "0.4.0") + (version "0.5.0") (source (origin (method url-fetch) (uri (cran-uri "paws.application.integration" version)) (sha256 (base32 - "0hilnczvamdv3bi1v6hdki05h8qqh0wlgvh5ilh09113005fpz98")))) + "1sgzp0yr1jsmbyzyk26m762rhpxb89wrwqqvrrw3xr1ib0cg06ah")))) (properties `((upstream-name . "paws.application.integration"))) (build-system r-build-system) @@ -39217,14 +39803,14 @@ Simple Notification Service (SNS) publish/subscribe messaging, and more.") (define-public r-paws-security-identity (package (name "r-paws-security-identity") - (version "0.4.0") + (version "0.5.0") (source (origin (method url-fetch) (uri (cran-uri "paws.security.identity" version)) (sha256 (base32 - "081339201j19y8y28h0dhr876ii82zpfyqddc21lvmg27z53hj4x")))) + "01gh761ykc4h81whn649bm28b01njqm1kjqkn9l4n7hhnalddy06")))) (properties `((upstream-name . "paws.security.identity"))) (build-system r-build-system) @@ -39242,14 +39828,14 @@ more.") (define-public r-paws-analytics (package (name "r-paws-analytics") - (version "0.4.0") + (version "0.5.0") (source (origin (method url-fetch) (uri (cran-uri "paws.analytics" version)) (sha256 (base32 - "1x7ix8x0ks357b7gf2skixsd0najjbn8hnq7p6a354p5h7bz39b4")))) + "07nwa39mn749a9rqb683wf19kd8si7ksws87annbldmd57r072l8")))) (properties `((upstream-name . "paws.analytics"))) (build-system r-build-system) @@ -39266,14 +39852,14 @@ Elasticsearch search engine, and more.") (define-public r-paws-machine-learning (package (name "r-paws-machine-learning") - (version "0.4.0") + (version "0.5.0") (source (origin (method url-fetch) (uri (cran-uri "paws.machine.learning" version)) (sha256 (base32 - "0cwmriprwrz446q4d5ljkpvwdhmamnl98g1ks6p35vbjiv4imk21")))) + "0zcw758xsw2360571dj215gyd1amaxx07i58h1r6r5zys940lxis")))) (properties `((upstream-name . "paws.machine.learning"))) (build-system r-build-system) @@ -39290,14 +39876,14 @@ natural language processing, speech recognition, translation, and more.") (define-public r-paws-management (package (name "r-paws-management") - (version "0.4.0") + (version "0.5.0") (source (origin (method url-fetch) (uri (cran-uri "paws.management" version)) (sha256 (base32 - "0lp8s4caxppwxsra6ijcz1dzkmnznwrrs92y87387vq53y3icc6m")))) + "0k40lrgxx91bijj3648zsgj55x120mhmx8dyx3hm2yvh2k96ks7h")))) (properties `((upstream-name . "paws.management"))) (build-system r-build-system) @@ -39314,14 +39900,14 @@ monitoring, Auto Scaling for automatically scaling resources, and more.") (define-public r-paws-networking (package (name "r-paws-networking") - (version "0.4.0") + (version "0.5.0") (source (origin (method url-fetch) (uri (cran-uri "paws.networking" version)) (sha256 (base32 - "1imq29nxy5hxz2vlijdj2jl0lllvm3plb3jwpvsx1wlcvhpz0in3")))) + "0qs6bp0vlbazxir9jmdcnazh90yrvhrw6k9046id73hw1j7h5zaf")))) (properties `((upstream-name . "paws.networking"))) (build-system r-build-system) @@ -39338,14 +39924,14 @@ CloudFront content delivery, load balancing, and more.") (define-public r-paws-database (package (name "r-paws-database") - (version "0.4.0") + (version "0.5.0") (source (origin (method url-fetch) (uri (cran-uri "paws.database" version)) (sha256 (base32 - "1rnjjdb4l7a943cawkkzfjkg8shy2vy5d9mcl2p5ms191lw056bn")))) + "0nlkbnyxd3znmvqxqb3w43sznacmikq32d9fihyc1dx7ghvmf61z")))) (properties `((upstream-name . "paws.database"))) (build-system r-build-system) (propagated-inputs @@ -39362,14 +39948,14 @@ database, and more.") (define-public r-paws-storage (package (name "r-paws-storage") - (version "0.4.0") + (version "0.5.0") (source (origin (method url-fetch) (uri (cran-uri "paws.storage" version)) (sha256 (base32 - "0yr99328rwm6i95xhp4yds6dzfvrvbr7ys2hy17iqbyij958j0m4")))) + "0v2g1shv9m4h2fz2lvjad479g3nmxc92wlyrxj4s7fifzzs2pd97")))) (properties `((upstream-name . "paws.storage"))) (build-system r-build-system) (propagated-inputs @@ -39384,14 +39970,14 @@ services, including Simple Storage Service (S3).") (define-public r-paws-compute (package (name "r-paws-compute") - (version "0.4.0") + (version "0.5.0") (source (origin (method url-fetch) (uri (cran-uri "paws.compute" version)) (sha256 (base32 - "0q0xikrq7095l8fhii2jyjxfbihhnlm7nzzbspfqdh8xbr7g4kld")))) + "1vsxwzqgk0004nmfy79pd0zc208fczay95p7h16mzqgds9586ma1")))) (properties `((upstream-name . "paws.compute"))) (build-system r-build-system) (propagated-inputs @@ -39407,14 +39993,14 @@ functions-as-a-service, containers, batch processing, and more.") (define-public r-paws (package (name "r-paws") - (version "0.4.0") + (version "0.5.0") (source (origin (method url-fetch) (uri (cran-uri "paws" version)) (sha256 (base32 - "1l9pjmfnhqgzxghxz22fbqc43x9am6d21f982p2sykxv271yclhf")))) + "1dwk1fnsrykvgz4l3hiapcqvvajwr3kmwxl3gza07nh573j8439h")))) (properties `((upstream-name . "paws"))) (build-system r-build-system) (propagated-inputs @@ -39930,13 +40516,13 @@ tests or outside of a testing context.") (define-public r-iotools (package (name "r-iotools") - (version "0.3-2") + (version "0.3-5") (source (origin (method url-fetch) (uri (cran-uri "iotools" version)) (sha256 - (base32 "07q0z0kszm1xx5hfhisfliyrcsxd8dc5mx0a2bwwnv5l1xzmix17")))) + (base32 "12xlf31aawj5sxanb2m63r665a9x5v87q4ig8qkvaygpdg51gycw")))) (properties `((upstream-name . "iotools"))) (build-system r-build-system) (home-page "https://www.rforge.net/iotools") @@ -40134,17 +40720,17 @@ formatting and delivering log messages with low overhead.") (define-public r-fasterize (package (name "r-fasterize") - (version "1.0.4") + (version "1.0.5") (source (origin (method url-fetch) (uri (cran-uri "fasterize" version)) (sha256 - (base32 "1ckxi2iyxdahhgbliblcrkzziblfagzr54srjk27yp1lcgivvvs4")))) + (base32 "1d63q77hfbn2ly8cwsik4gaavdhidpi7idf7qj2y5bi9xhd10kyl")))) (properties `((upstream-name . "fasterize"))) (build-system r-build-system) (propagated-inputs - (list r-raster r-rcpp r-rcpparmadillo r-sp)) + (list r-raster r-rcpp r-rcpparmadillo r-wk)) (native-inputs (list r-knitr)) (home-page "https://github.com/ecohealthalliance/fasterize") (synopsis "Fast Polygon to Raster Conversion") @@ -40214,14 +40800,14 @@ 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 @@ -40381,16 +40967,16 @@ API.") (define-public r-spacetime (package (name "r-spacetime") - (version "1.3-0") + (version "1.3-1") (source (origin (method url-fetch) (uri (cran-uri "spacetime" version)) (sha256 (base32 - "06slxywh94g4k7dxnfs9g5yjvwjk2lxwydrjwawg0mgkqsjh569f")))) + "1kr12pbi6hqns30kqy4jv5pcm3lgfcfyc2gwaak1jbg894csahhr")))) (properties `((upstream-name . "spacetime"))) (build-system r-build-system) - (propagated-inputs (list r-lattice r-sp r-zoo r-xts r-intervals)) + (propagated-inputs (list r-intervals r-lattice r-sp r-xts r-zoo)) (native-inputs (list r-knitr)) (home-page "https://github.com/edzer/spacetime/") (synopsis "Classes and methods for spatio-temporal data") |