diff options
Diffstat (limited to 'gnu/packages/cran.scm')
-rw-r--r-- | gnu/packages/cran.scm | 352 |
1 files changed, 246 insertions, 106 deletions
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 407e64ae05..fb053074a1 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -1,5 +1,5 @@ ;;; GNU Guix --- Functional package management for GNU -;;; Copyright © 2015-2023 Ricardo Wurmus <rekado@elephly.net> +;;; Copyright © 2015-2024 Ricardo Wurmus <rekado@elephly.net> ;;; Copyright © 2015 Andreas Enge <andreas@enge.fr> ;;; Copyright © 2015, 2016 Pjotr Prins <pjotr.guix@thebird.nl> ;;; Copyright © 2016, 2017 Ben Woodcroft <donttrustben@gmail.com> @@ -116,6 +116,25 @@ #:use-module (gnu packages xml) #:use-module (gnu packages xorg)) +(define-public r-abbreviate + (package + (name "r-abbreviate") + (version "0.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "abbreviate" version)) + (sha256 + (base32 "1cvjdbi17qz8gr5898zchm5fyz4n51z66lwps25v8a9mhwab8imi")))) + (properties `((upstream-name . "abbreviate"))) + (build-system r-build-system) + (home-page "https://github.com/sigbertklinke/abbreviate") + (synopsis "Readable string abbreviation") + (description + "This package abbreviates strings to a specified minimum number of +characters, such that the strings remain unique (if they originally were).") + (license license:gpl3))) + (define-public r-aer (package (name "r-aer") @@ -192,6 +211,50 @@ estimating equations} (GEE) or @dfn{generalized linear mixed effect models} (GLMM).") (license license:gpl2+))) +(define-public r-asioheaders + (package + (name "r-asioheaders") + (version "1.22.1-2") + (source + (origin + (method url-fetch) + (uri (cran-uri "AsioHeaders" version)) + (sha256 + (base32 "192qxayrpvi02wrqq2h5cjc92aaxrsgw7z32r8qk5imqg3mc0a8n")))) + (properties `((upstream-name . "AsioHeaders"))) + (build-system r-build-system) + (home-page "https://github.com/eddelbuettel/asioheaders") + (synopsis "Asio C++ header files") + (description + "Asio is a cross-platform C++ library for network and low-level I/O +programming that provides developers with a consistent asynchronous model +using a modern C++ approach. It is also included in Boost but requires +linking when used with Boost. Standalone it can be used header-only (provided +a recent compiler). Asio is written and maintained by Christopher +M. Kohlhoff, and released under the Boost Software License', Version 1.0.") + (license license:boost1.0))) + +(define-public r-box + (package + (name "r-box") + (version "1.2.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "box" version)) + (sha256 + (base32 "00g5ik3f6260m38jl8k4s8nycmy7mzdwr7qslrl66phpg84xzmln")))) + (properties `((upstream-name . "box"))) + (build-system r-build-system) + (native-inputs (list r-knitr)) + (home-page "https://klmr.me/box/") + (synopsis "Write reusable, composable and modular R code") + (description + "This package provides a modern module system for R. Organize code into +hierarchical, composable, reusable modules, and use it effortlessly across +projects via a flexible, declarative dependency loading syntax.") + (license license:expat))) + (define-public r-brio (package (name "r-brio") @@ -391,6 +454,27 @@ match datasets quickly. It also contains functions for various cosmological calculations.") (license license:gpl3))) +(define-public r-cetcolor + (package + (name "r-cetcolor") + (version "0.2.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "cetcolor" version)) + (sha256 + (base32 "0kygdcr9ldanr0z4qpygwh0padki7s2ad0j6myky601g4228z79q")))) + (properties `((upstream-name . "cetcolor"))) + (build-system r-build-system) + (native-inputs (list r-knitr)) + (home-page "https://github.com/coatless-rpkg/cetcolor") + (synopsis "CET perceptually uniform color maps") + (description + "This package provides a collection of perceptually uniform color maps +made by Peter Kovesi (2015) \"Good Colour Maps: How to Design Them\" +<arXiv:1509.03700> at the Centre for Exploration Targeting (CET).") + (license license:cc-by-sa4.0))) + ;; The package sources include multiple non-minified JavaScript files and the ;; v5.1.0 variant of d3.js. The d3.js file is not minified. (define-public r-chromomap @@ -453,13 +537,13 @@ labels on the node can also be achieved.") (define-public r-collapse (package (name "r-collapse") - (version "2.0.9") + (version "2.0.10") (source (origin (method url-fetch) (uri (cran-uri "collapse" version)) (sha256 - (base32 "0c9cz1dqrgd3gss9cr40a3rh014av0w8gfhq35lq1knyik6bhk28")))) + (base32 "0xary3xlkkhb3izbwzsk5q660hi00srkv95c0r36isr5bgsirfr1")))) (properties `((upstream-name . "collapse"))) (build-system r-build-system) (propagated-inputs (list r-rcpp)) @@ -1898,14 +1982,14 @@ similar rank-based tests for equal probability distributions due to Neuhauser (define-public r-v8 (package (name "r-v8") - (version "4.4.1") + (version "4.4.2") (source (origin (method url-fetch) (uri (cran-uri "V8" version)) (sha256 (base32 - "129spn531m9arz7v8vyfsrvc69hg0w39fdnhjxrcrww37l9xcvav")))) + "0w4n794l4f7hwwjr83112zf3cjx72q6ak0fn45qm6pqg8brkbg77")))) (properties `((upstream-name . "V8") (updater-extra-inputs . ("libnode")))) @@ -2470,14 +2554,14 @@ scale-sensitive information.") (define-public r-ggvenndiagram (package (name "r-ggvenndiagram") - (version "1.5.0") + (version "1.5.2") (source (origin (method url-fetch) (uri (cran-uri "ggVennDiagram" version)) (sha256 (base32 - "0ngvvmz2mxh4v98wg3xqpmz1p1cpk3qsdvszcjzb1yhhway211a5")))) + "0hzjbpd3f3zn169s5nvnv7b4wlrwdn3r0pk0vgkdnhchl75g0qni")))) (properties `((upstream-name . "ggVennDiagram"))) (build-system r-build-system) (propagated-inputs @@ -3700,13 +3784,13 @@ noisy black-box functions.") (define-public r-tgstat (package (name "r-tgstat") - (version "2.3.25") + (version "2.3.27") (source (origin (method url-fetch) (uri (cran-uri "tgstat" version)) (sha256 - (base32 "07hdw3n4l88nr0x2a2qnjich4cfihgd0fk65ar3crgdahjcv9vn4")))) + (base32 "0scljimskda5hinkb4y5va9c9qlqwf6k6zrm20bjk133710qsscb")))) (properties `((upstream-name . "tgstat"))) (build-system r-build-system) (native-inputs (list r-knitr)) @@ -3820,13 +3904,13 @@ cross-platform graphical user interface toolkit} widget.") (define-public r-rvest (package (name "r-rvest") - (version "1.0.3") + (version "1.0.4") (source (origin (method url-fetch) (uri (cran-uri "rvest" version)) (sha256 - (base32 "07hws9infwchy19smrcd9m6c0jii0bdn335yxqk3ramgj5ryyrd4")))) + (base32 "19lw0jk8d8x88z247hz761gwbx9f5n3yqnv63mn7pkwl55mpqw3x")))) (build-system r-build-system) (propagated-inputs (list r-cli @@ -3837,7 +3921,6 @@ cross-platform graphical user interface toolkit} widget.") r-rlang r-selectr r-tibble - r-withr r-xml2)) (native-inputs (list r-knitr)) @@ -3849,6 +3932,25 @@ designed to work with @code{magrittr} to make it easy to express common web scraping tasks, inspired by libraries like @code{BeautifulSoup}.") (license license:gpl3))) +(define-public r-secretbase + (package + (name "r-secretbase") + (version "0.2.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "secretbase" version)) + (sha256 + (base32 "1z0ddzdimma8rgd47fn5mma09d5c7vrl5b7gdlvfk8l047yihyb6")))) + (properties `((upstream-name . "secretbase"))) + (build-system r-build-system) + (home-page "https://shikokuchuo.net/secretbase/") + (synopsis "Cryptographic Hash and Extendable-Output Functions") + (description + "This package provides implementations of the SHA-3 cryptographic hash +and SHAKE256 extendable-output functions (XOF).") + (license license:gpl3+))) + (define-public r-selectr (package (name "r-selectr") @@ -3988,17 +4090,17 @@ same time tries to group instances from the same class together.") (define-public r-callr (package (name "r-callr") - (version "3.7.3") + (version "3.7.5") (source (origin (method url-fetch) (uri (cran-uri "callr" version)) (sha256 (base32 - "0knh5yxhxwjz96kbjrq524w4j8cac10k6mghhmblq79s0zgzwysn")))) + "0b277fvjglnqrjmsm4ilhqrp9sjag0r9mxls2h9v1m94ff7ix88q")))) (build-system r-build-system) (propagated-inputs - (list r-r6 r-processx)) + (list r-processx r-r6)) (home-page "https://github.com/r-lib/callr#readme") (synopsis "Call R from R") (description @@ -6771,14 +6873,14 @@ validation and filtering on the values, making options invisible or private.") (define-public r-circlize (package (name "r-circlize") - (version "0.4.15") + (version "0.4.16") (source (origin (method url-fetch) (uri (cran-uri "circlize" version)) (sha256 (base32 - "1iswb7dy08as3pbzxvhx5qlsbnwvp79nwg8m158nfz7y2d9xa0nn")))) + "0rqbcmmp4h1jjl0y59bzn6k8kywjdqwvp0ajkqxd21j9f33k5p0n")))) (build-system r-build-system) (propagated-inputs (list r-colorspace r-globaloptions r-shape)) @@ -7266,14 +7368,14 @@ package also provides a C++ API, that works with or without Rcpp.") (define-public r-ggally (package (name "r-ggally") - (version "2.2.0") + (version "2.2.1") (source (origin (method url-fetch) (uri (cran-uri "GGally" version)) (sha256 (base32 - "1pc0mcxhj3mz8ac6r1sqfxw1wkamikjal54z7pb1mairsr3hpqnw")))) + "1il6yphqxcyj1039imi8pn6ygyni24daz8ljxxp3z9inb5k2dcwb")))) (properties `((upstream-name . "GGally"))) (build-system r-build-system) (inputs @@ -8893,14 +8995,14 @@ provides a one-row summary of model-level statistics.") (define-public r-recipes (package (name "r-recipes") - (version "1.0.9") + (version "1.0.10") (source (origin (method url-fetch) (uri (cran-uri "recipes" version)) (sha256 (base32 - "146p9ij2i4rmzaa5v76lm7z8iaw5wqb47i9cqf4a0q7xsgqvf6hi")))) + "1m4v9j7by0w5avqljmwck1jsgjgwc8rsby0affa5zii3xkvvvifg")))) (build-system r-build-system) (propagated-inputs (list r-cli @@ -9509,14 +9611,14 @@ acceptance regions, log-ratio plots and Q-Q plots.") (define-public r-sm (package (name "r-sm") - (version "2.2-5.7.1") + (version "2.2-6.0") (source (origin (method url-fetch) (uri (cran-uri "sm" version)) (sha256 (base32 - "0mql7rlm8wkdwmx1lv7pscdk9ibvsdpfdv8bpaz1hv2gn4pc637a")))) + "0q8xav1alammiyiw2p8y0qq94ag5rln910jry8q3sb2p38ly79i7")))) (build-system r-build-system) (native-inputs (list gfortran)) (home-page "http://www.stats.gla.ac.uk/~adrian/sm/") @@ -10776,17 +10878,17 @@ software developed by the Statnet Project.") (define-public r-statcheck (package (name "r-statcheck") - (version "1.4.0") + (version "1.5.0") (source (origin (method url-fetch) (uri (cran-uri "statcheck" version)) (sha256 (base32 - "1hibrynbgsym4hma8isby8kwb8gab9d4bx7m43qj4zayrl6b8scx")))) + "0gsr068if5k8124x1cbm48720l9qvnfmdg6rmh7rwh6jvxxgknd7")))) (build-system r-build-system) (propagated-inputs - (list r-ggplot2 r-plyr r-rlang r-rmarkdown)) + (list r-ggplot2 r-plyr r-rlang r-rmarkdown r-stringi)) (home-page "https://cran.r-project.org/web/packages/statcheck/") (synopsis "Extract statistics from articles and recompute p-values") (description "This package can automatically extract statistical @@ -11080,14 +11182,14 @@ exhaustive search.") (define-public r-splus2r (package (name "r-splus2r") - (version "1.3-4") + (version "1.3-5") (source (origin (method url-fetch) (uri (cran-uri "splus2R" version)) (sha256 (base32 - "16r13bbijq7lz3c8qn7dnb4h8fc3vbcahyah2zij888p470vqljn")))) + "097bpzazw5ryb6izbmz2sdlghn3qvh7c7wsnn0j08j65f9bfmc77")))) (properties `((upstream-name . "splus2R"))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/splus2R/") @@ -11182,14 +11284,14 @@ Fisher's method), and Sidak correction.") (define-public r-quantmod (package (name "r-quantmod") - (version "0.4.25") + (version "0.4.26") (source (origin (method url-fetch) (uri (cran-uri "quantmod" version)) (sha256 (base32 - "0cjvz6hd4q0fd87d54wxfaka3awi9jzj8a7x72jawkdxbza9c61z")))) + "165vp2ygry8ibcpxjbyfvfrjbv98syln12kkyzci2ygp84r5sv1r")))) (build-system r-build-system) (propagated-inputs (list r-curl r-jsonlite r-ttr r-xts r-zoo)) @@ -14201,14 +14303,14 @@ or missing responses.") (define-public r-acdm (package (name "r-acdm") - (version "1.0.4.2") + (version "1.0.4.3") (source (origin (method url-fetch) (uri (cran-uri "ACDm" version)) (sha256 (base32 - "00i33b76gqllyc6ywwwrgyjvxfspqb3jf52b9sjaazlfwgn5xyjf")))) + "0g89827az5mnllp6l71znbvwxzygb8nvnmsv6x052w2ajhd16v7v")))) (properties `((upstream-name . "ACDm"))) (build-system r-build-system) (propagated-inputs @@ -15365,14 +15467,14 @@ and coverage methods to tune the choice of threshold.") (define-public r-ggnetwork (package (name "r-ggnetwork") - (version "0.5.12") + (version "0.5.13") (source (origin (method url-fetch) (uri (cran-uri "ggnetwork" version)) (sha256 (base32 - "1kg9354f39asq5baryh3zzzdl54g75mn1pxdr3pws9d2q5i8cdkl")))) + "0ipxw6j36n0hfn0nsimw8jbjszvm1d0hadwg4zirvn6v36npwabc")))) (properties `((upstream-name . "ggnetwork"))) (build-system r-build-system) (propagated-inputs @@ -16320,14 +16422,14 @@ samples is large and the number of mixture components is not too large.") (define-public r-magick (package (name "r-magick") - (version "2.8.2") + (version "2.8.3") (source (origin (method url-fetch) (uri (cran-uri "magick" version)) (sha256 (base32 - "15ja7f46f77a67wmzqfaxvhmvvzgb9yj92p2if5di7i61vlmnid1")))) + "0yf08ns5qgqi2bzvxvawip521ji2rgvvfrhj747zb6ci5qnm4awk")))) (properties '((updater-extra-inputs . ("imagemagick")))) (build-system r-build-system) @@ -16468,13 +16570,13 @@ were influenced by the drake R package by Will Landau (2018) (define-public r-targets (package (name "r-targets") - (version "1.4.1") + (version "1.5.1") (source (origin (method url-fetch) (uri (cran-uri "targets" version)) (sha256 (base32 - "0kax8nj66jbcp8sbv7zl68hzf4clz5m50fibrcypnzvpamhafw1q")))) + "1g21cp0p5jdghr61w9q3y73jm2k248z4apn7rlxqm6m18i4x7zsb")))) (properties `((upstream-name . "targets"))) (build-system r-build-system) (propagated-inputs (list r-base64url @@ -16485,8 +16587,10 @@ were influenced by the drake R package by Will Landau (2018) r-digest r-igraph r-knitr + r-ps r-r6 r-rlang + r-secretbase r-tibble r-tidyselect r-vctrs @@ -17012,14 +17116,14 @@ correlation, censored, ordered and multivariate problems.") (define-public r-bayesplot (package (name "r-bayesplot") - (version "1.11.0") + (version "1.11.1") (source (origin (method url-fetch) (uri (cran-uri "bayesplot" version)) (sha256 (base32 - "0wpy1angkq513nc22fqmxsxm0y7dkvjzycy0z5s96j0z9jmb6q6n")))) + "0c1q1znp9vd0w6l35xa208bgiwr5f2w8j2c97v6ml4z0j5rycwag")))) (build-system r-build-system) (inputs (list pandoc)) @@ -17153,14 +17257,14 @@ differentiation.") (define-public r-bayestestr (package (name "r-bayestestr") - (version "0.13.1") + (version "0.13.2") (source (origin (method url-fetch) (uri (cran-uri "bayestestR" version)) (sha256 (base32 - "0mmnifi3j29qlsj917wbdqpgpk05x3cc7111k842gsv7y34h4ir7")))) + "15xnmjay0s9kgaj25z43cxky4qcjn3gv8yd1x548jzbxzxxma07n")))) (properties `((upstream-name . "bayestestR"))) (build-system r-build-system) (propagated-inputs @@ -17180,14 +17284,14 @@ ROPE percentage and pd).") (define-public r-performance (package (name "r-performance") - (version "0.10.8") + (version "0.10.9") (source (origin (method url-fetch) (uri (cran-uri "performance" version)) (sha256 (base32 - "0zvj0bzbqcy35jcg1s6b1wqbz7rbajzvjm74aks4j6iq4grh4d2j")))) + "1qi08vwh08ndmjyx5vcpwf20j1dkj8998vz7zy26fhp1kf9dlkfw")))) (build-system r-build-system) (propagated-inputs (list r-bayestestr r-datawizard r-insight)) @@ -17542,14 +17646,14 @@ User credentials are shared with command line git through the (define-public r-usethis (package (name "r-usethis") - (version "2.2.2") + (version "2.2.3") (source (origin (method url-fetch) (uri (cran-uri "usethis" version)) (sha256 (base32 - "0imy9izchr9xzc5wrr91ydfr4jifv8lsqx712zkx0vxfi6kw3n6r")))) + "1cyy1k5iansg63ziph4w76kzl59dgmam7m2wp6sz9d93bjcrh34d")))) (build-system r-build-system) (propagated-inputs (list r-cli @@ -19756,14 +19860,14 @@ and compatibility with @code{ape} objects.") (define-public r-rnifti (package (name "r-rnifti") - (version "1.5.1") + (version "1.6.0") (source (origin (method url-fetch) (uri (cran-uri "RNifti" version)) (sha256 (base32 - "0rbym1svldahd4rlbcfb5s62rigws2w1fa1f1chp504gn340b555")))) + "0spsdkqvlkk7xn6wz6778gc6cc7dnfcwpz91q8wdzxgcbgxdy0yv")))) (properties `((upstream-name . "RNifti"))) (build-system r-build-system) (inputs (list zlib)) @@ -20279,7 +20383,7 @@ preparing, executing, and processing HTTP requests.") r-rapidjsonr r-rlang r-tibble)) - (home-page "https://github.com/rstats-db/bigrquery") + (home-page "https://github.com/r-dbi/bigrquery") (synopsis "R interface to Google's BigQuery API") (description "This package provides an R interface to Google's BigQuery database.") @@ -21209,13 +21313,13 @@ profiling R code.") (define-public r-prospectr (package (name "r-prospectr") - (version "0.2.6") + (version "0.2.7") (source (origin (method url-fetch) (uri (cran-uri "prospectr" version)) (sha256 (base32 - "1p53hcgcs2p09zhc2n7byjzrgvcgz6w7q00mlsn4kmnz7l4p7rrm")))) + "0hg2afw5aixx0xdwwr6g0wi8sksn7r21hz8diyqxg2345rwnzbg4")))) (properties `((upstream-name . "prospectr"))) (build-system r-build-system) (propagated-inputs @@ -21225,6 +21329,8 @@ profiling R code.") r-mathjaxr r-rcpp r-rcpparmadillo)) + (native-inputs + (list r-knitr)) (home-page "https://github.com/l-ramirez-lopez/prospectr") (synopsis "Functions for processing and sample selection of spectroscopic data") (description @@ -21489,14 +21595,14 @@ them in distributed compute environments.") (define-public r-parallelly (package (name "r-parallelly") - (version "1.36.0") + (version "1.37.0") (source (origin (method url-fetch) (uri (cran-uri "parallelly" version)) (sha256 (base32 - "123w89hmd7fn7lmdsl044npidvf7472h1ascvf7swjllan8s5h5r")))) + "19zrfiakg5xg51r9va4r976b4lnnsj5nsk6i6srxsl227q45xra1")))) (properties `((upstream-name . "parallelly"))) (build-system r-build-system) (home-page "https://github.com/HenrikBengtsson/parallelly") @@ -22851,13 +22957,13 @@ additional utilities for genomic regions processing.") (define-public r-setrng (package (name "r-setrng") - (version "2022.4-1") + (version "2024.2-1") (source (origin (method url-fetch) (uri (cran-uri "setRNG" version)) (sha256 (base32 - "09089vr5x8snwxh38kdhgpjl3jl7zrk056f6f9a2jg5lsrmnxh31")))) + "0h2wbpsi07c48h72zjglvp9b58hq3j77289sah32qg6vnw41pcp3")))) (properties `((upstream-name . "setRNG"))) (build-system r-build-system) (home-page "https://distr.r-forge.r-project.org/") @@ -23070,6 +23176,29 @@ visualization of biological sequence (DNA and protein) data. It also includes utilities for sequence data management under the ACNUC system.") (license license:gpl2+))) +(define-public r-unigd + (package + (name "r-unigd") + (version "0.1.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "unigd" version)) + (sha256 + (base32 "0519v2p4jzfpilai022blvyxi56kfdidafwjpa1g6lnmwmpk4isq")))) + (properties `((upstream-name . "unigd"))) + (build-system r-build-system) + (inputs (list cairo fontconfig freetype libpng zlib)) + (propagated-inputs (list r-cpp11 r-systemfonts)) + (native-inputs (list r-knitr pkg-config)) + (home-page "https://github.com/nx10/unigd") + (synopsis "Universal graphics device") + (description + "This package provides a unified R graphics backend. Render R graphics +fast and easy to many common file formats. It provides a thread safe C +interface for asynchronous rendering of R graphics.") + (license license:gpl2+))) + (define-public r-units (package (name "r-units") @@ -23865,6 +23994,27 @@ releases/download/v0.10.1/mathquill-0.10.1.tgz") authoring books and technical documents with R Markdown.") (license license:gpl3))) +(define-public r-options + (package + (name "r-options") + (version "0.1.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "options" version)) + (sha256 + (base32 "0pprbp2pxvgh120f8dahswws44gpdm4f4nlq3h3nvqrlhnspwnb8")))) + (properties `((upstream-name . "options"))) + (build-system r-build-system) + (native-inputs (list r-knitr)) + (home-page "https://dgkf.github.io/options/") + (synopsis "Simple, consistent package options") + (description + "This package provides simple mechanisms for defining and interpreting +package options. It provides helpers for interpreting environment variables, +global options, defining default values and more.") + (license license:expat))) + (define-public r-optparse (package (name "r-optparse") @@ -24502,14 +24652,14 @@ sets of URLs.") (define-public r-ggforce (package (name "r-ggforce") - (version "0.4.1") + (version "0.4.2") (source (origin (method url-fetch) (uri (cran-uri "ggforce" version)) (sha256 (base32 - "0wqq8l7lq96k4w0vq12jcg7clvgia8s35jjbqq1s0py4cgxijhml")))) + "1a2i1rl27yqh8kxjpphwcv05p19l2aw07q9gxl4x8iv8xpkb0if1")))) (build-system r-build-system) (propagated-inputs (list r-cli @@ -24539,13 +24689,13 @@ that fills this gap.") (define-public r-eulerr (package (name "r-eulerr") - (version "7.0.0") + (version "7.0.1") (source (origin (method url-fetch) (uri (cran-uri "eulerr" version)) (sha256 (base32 - "16a84a2xgv1iqsir0hzn6qclljni4f3prpycb7qpp06vrd0yn8lw")))) + "1c8yf94ga4h6rf89fyajxfsaq5z6dx1z2840371vxj7kwj9slg3c")))) (properties `((upstream-name . "eulerr"))) (build-system r-build-system) (propagated-inputs @@ -26913,44 +27063,32 @@ dataset-specific factors.") (define-public r-harmony (package (name "r-harmony") - (version "0.1") + (version "1.2.0") (source (origin - (method git-fetch) - (uri (git-reference - (url "https://github.com/immunogenomics/harmony") - (commit version))) - (file-name (git-file-name name version)) + (method url-fetch) + (uri (cran-uri "harmony" version)) (sha256 - (base32 - "05r401q09rbr6fqhb9mbd95082cjdi3nag1cv6zn96xkr0f6imq9")) - (modules '((guix build utils))) - (snippet - '(begin - (for-each delete-file '("config.status" "configure")) - #t)))) + (base32 "1df7bb9ba3m0c44fhmh8cs4hlkh4fffjwm8rz7l87lf5pdy7sg56")))) + (properties `((upstream-name . "harmony"))) (build-system r-build-system) - (propagated-inputs - (list r-cowplot - r-dplyr - r-ggplot2 - r-irlba - r-matrix - r-rcpp - r-rcpparmadillo - r-rcppprogress - r-rlang - r-tibble - r-tidyr)) - (native-inputs - (list autoconf)) - (home-page "https://github.com/immunogenomics/harmony") + (propagated-inputs (list r-cowplot + r-dplyr + r-ggplot2 + r-matrix + r-rcpp + r-rcpparmadillo + r-rcppprogress + r-rhpcblasctl + r-rlang + r-tibble)) + (native-inputs (list r-knitr)) + (home-page "https://cran.r-project.org/web/packages/harmony/index.html") (synopsis "Integration of single cell sequencing data") (description "This package provides an implementation of the Harmony algorithm for -single cell integration, described in Korsunsky et al -@url{doi.org/10.1101/461954}. The package includes a standalone Harmony -function and interfaces to external frameworks.") +single cell integration. This package includes a standalone Harmony function +and interfaces to external frameworks.") (license license:gpl3))) (define-public r-covr @@ -28729,13 +28867,13 @@ columns, ad allows for quick addition of extra columns to a filematrix.") (define-public r-filesstrings (package (name "r-filesstrings") - (version "3.3.0") + (version "3.4.0") (source (origin (method url-fetch) (uri (cran-uri "filesstrings" version)) (sha256 (base32 - "0srmshjhj5yx5d81pmvr8rr1cqh8v0wsxn04bfm146yfq2pvy52h")))) + "0p5vgrzbvipja9lgarygqphnr1z8vy9kl9n83jnfyvf0gp4ansl2")))) (properties `((upstream-name . "filesstrings"))) (build-system r-build-system) (propagated-inputs (list r-checkmate @@ -29953,14 +30091,14 @@ number embedded in the file rather than the file extension.") (define-public r-imager (package (name "r-imager") - (version "0.45.2") + (version "0.45.8") (source (origin (method url-fetch) (uri (cran-uri "imager" version)) (sha256 (base32 - "0mmzp55j1svlaa0lfmmaz8hijlkbk0wkv2craxhc6gyx0g5qp129")))) + "0vrv7m9b9w8xjqa9w17xvrmpl403476zr0l9wqdp9ir6ssvnaf2f")))) (properties `((upstream-name . "imager"))) (build-system r-build-system) (inputs @@ -31317,14 +31455,14 @@ and Euclidean distance is particularly fast.") (define-public r-isocodes (package (name "r-isocodes") - (version "2023.12.07") + (version "2024.02.12") (source (origin (method url-fetch) (uri (cran-uri "ISOcodes" version)) (sha256 (base32 - "03nrcv1hh12yyqql03cr94kk3hnpynvrm4kv3plmdli2b3n1yqvk")))) + "1rp2gasiggqfaqbag8wqz1rlhlajpji2klx0rgzms21lh28ppjq2")))) (properties `((upstream-name . "ISOcodes"))) (build-system r-build-system) (home-page "https://cran.r-project.org/package=ISOcodes") @@ -32125,14 +32263,14 @@ well as Ravand and Robitzsch (2015).") (define-public r-tam (package (name "r-tam") - (version "4.1-4") + (version "4.2-21") (source (origin (method url-fetch) (uri (cran-uri "TAM" version)) (sha256 (base32 - "0b81d0g4j94yrfzj019jffxrk1aw24iscddp60kjbkrl5p7qy38g")))) + "0s6mygm3sypjd393f7hsxslqwqp2s1hihb5iv8z8dhc95vj845qd")))) (properties `((upstream-name . "TAM"))) (build-system r-build-system) (propagated-inputs @@ -33241,7 +33379,8 @@ filter.") (uri (cran-uri "sglOptim" version)) (sha256 (base32 - "15bkkvgp9v9vsp65wps48g3c2fa0fj1025hbrziywq14j7wayyjr")))) + "15bkkvgp9v9vsp65wps48g3c2fa0fj1025hbrziywq14j7wayyjr")) + (patches (search-patches "r-sgloptim.patch")))) (properties `((upstream-name . "sglOptim"))) (build-system r-build-system) @@ -35463,14 +35602,14 @@ model.") (define-public r-igraph (package (name "r-igraph") - (version "2.0.1.1") + (version "2.0.2") (source (origin (method url-fetch) (uri (cran-uri "igraph" version)) (sha256 (base32 - "0rl8yklm7fpyjsgvjnljp6ldyj393qizi2sd5hsvmbm78h5c9dhv")))) + "0kfc9blyy54cz0m4mdzzwgvn0rkil49kdk438411mx62g2vxby9l")))) (properties `((upstream-name . "igraph") (updater-extra-native-inputs . ("which")))) @@ -35486,7 +35625,8 @@ model.") r-magrittr r-matrix r-pkgconfig - r-rlang)) + r-rlang + r-vctrs)) (home-page "https://igraph.org") (synopsis "Network analysis and visualization") (description @@ -35499,14 +35639,14 @@ more.") (define-public r-workflows (package (name "r-workflows") - (version "1.1.3") + (version "1.1.4") (source (origin (method url-fetch) (uri (cran-uri "workflows" version)) (sha256 (base32 - "10a1my6glvc32zxrar1ir699lwav7iz2ji4s6g9iprjndf3nm8ms")))) + "120xfm12w8pfqjbmmzsyc01qnffbb1n514dgw9v9gmqdy5l70i6s")))) (properties `((upstream-name . "workflows"))) (build-system r-build-system) (propagated-inputs @@ -36160,14 +36300,14 @@ analysis using @code{dplyr}, @code{ggplot2}, and other Tidy tools.") (define-public r-parsnip (package (name "r-parsnip") - (version "1.1.1") + (version "1.2.0") (source (origin (method url-fetch) (uri (cran-uri "parsnip" version)) (sha256 (base32 - "1j0bkmv2m4rxmnpq3rqha5jccjxai11m5392hb4dgzni7in36h92")))) + "1wggqsvfl2kg8hx9ci6g0fsm2dw9lw6fs7kfy7sdqx6qd7r8bak0")))) (properties `((upstream-name . "parsnip"))) (build-system r-build-system) (propagated-inputs |