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-rw-r--r--gnu/packages/statistics.scm144
1 files changed, 73 insertions, 71 deletions
diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index eb5e5b4b76..f27f2229f7 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -75,6 +75,7 @@
#:use-module (gnu packages time)
#:use-module (gnu packages tls)
#:use-module (gnu packages base)
+ #:use-module (gnu packages version-control)
#:use-module (gnu packages web)
#:use-module (gnu packages xml)
#:use-module (gnu packages xorg)
@@ -319,9 +320,8 @@ as.POSIXct(if (\"\" != Sys.getenv(\"SOURCE_DATE_EPOCH\")) {\
("perl" ,perl)
("pkg-config" ,pkg-config)
("texinfo" ,texinfo) ; for building HTML manuals
- ("texlive" ,(texlive-union (list texlive-fonts-amsfonts
- texlive-fonts-ec
- texlive-latex-amsfonts
+ ("texlive" ,(texlive-union (list texlive-fonts-ec
+ texlive-amsfonts
texlive-latex-base
texlive-latex-fancyvrb
texlive-latex-graphics
@@ -397,14 +397,14 @@ available, greatly increasing its breadth and scope.")
(define-public r-boot
(package
(name "r-boot")
- (version "1.3-22")
+ (version "1.3-23")
(source
(origin
(method url-fetch)
(uri (cran-uri "boot" version))
(sha256
(base32
- "1z2dig1mi76b3b9ck6qlkh07l3hs478gaf70db5nv8x7w2qhq7yg"))))
+ "0bx07zbb5nfz2xfgnzbspg7r5vxz4bjdz1ry4d1vk434vlcrxj1h"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/boot")
(synopsis "Bootstrap functions for R")
@@ -502,14 +502,14 @@ code for possible problems.")
(define-public r-foreign
(package
(name "r-foreign")
- (version "0.8-71")
+ (version "0.8-72")
(source
(origin
(method url-fetch)
(uri (cran-uri "foreign" version))
(sha256
(base32
- "1mv04w3ycz0ymsszn8aa87k6k5sb8mg8lhf1b8w4zpfrphpkkliv"))))
+ "124c9229is44p2rv7xyh2q86nsfi7vzyyh5n3c5ihziqrp4ig723"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/foreign")
(synopsis "Read data stored by other statistics software")
@@ -588,14 +588,14 @@ and operations on them using LAPACK and SuiteSparse.")
(define-public r-nlme
(package
(name "r-nlme")
- (version "3.1-140")
+ (version "3.1-141")
(source
(origin
(method url-fetch)
(uri (cran-uri "nlme" version))
(sha256
(base32
- "0k9x5j34fx093a023da9ny3b3101lbwpmfm27mkvfj950l22z88x"))))
+ "0ml00g79bimjcl0sgn6h55l5b4gfmnsnc1vvmivggn0318k4c04i"))))
(build-system r-build-system)
(propagated-inputs
`(("r-lattice" ,r-lattice)))
@@ -804,13 +804,13 @@ effects of different types of color-blindness.")
(define-public r-digest
(package
(name "r-digest")
- (version "0.6.19")
+ (version "0.6.20")
(source
(origin
(method url-fetch)
(uri (cran-uri "digest" version))
(sha256
- (base32 "1x6cbj9qvkk7pxv9xdqibazw3x8psjp6x0m0ildx1jwyb2ymkl98"))))
+ (base32 "1irhk2jaj9cg57cxprgyn1if06x121xwcxh1fzzn3148bl5lnrq5"))))
(build-system r-build-system)
;; Vignettes require r-knitr, which requires r-digest, so we have to
;; disable them and the tests.
@@ -1603,18 +1603,19 @@ R packages that praise their users.")
(define-public r-testthat
(package
(name "r-testthat")
- (version "2.1.1")
+ (version "2.2.1")
(source (origin
(method url-fetch)
(uri (cran-uri "testthat" version))
(sha256
(base32
- "03jgr0hlr77yp0aib4v30yjyjrjsa8dczr02yk21m93vl25vqvkp"))))
+ "0y0bvggm4pzkzp6xn7b8cf3ybqp9ijxkhhyp3z49a9iipc90bvk7"))))
(build-system r-build-system)
(propagated-inputs
`(("r-cli" ,r-cli)
("r-crayon" ,r-crayon)
("r-digest" ,r-digest)
+ ("r-evaluate" ,r-evaluate)
("r-magrittr" ,r-magrittr)
("r-praise" ,r-praise)
("r-r6" ,r-r6)
@@ -1696,13 +1697,13 @@ and printing capabilities than traditional data frames.")
(define-public r-dplyr
(package
(name "r-dplyr")
- (version "0.8.1")
+ (version "0.8.3")
(source (origin
(method url-fetch)
(uri (cran-uri "dplyr" version))
(sha256
(base32
- "1nw12hzk1jcac5879nfmf1yp98jpb3i59qkb8sfpk2cd6zqgfgjz"))))
+ "032c89wa04g9rih9shyvwl3il0bsrv3xk489x6867sk9bb3amd38"))))
(build-system r-build-system)
(propagated-inputs
`(("r-assertthat" ,r-assertthat)
@@ -1979,13 +1980,13 @@ inference for statistical models.")
(define-public r-coda
(package
(name "r-coda")
- (version "0.19-2")
+ (version "0.19-3")
(source (origin
(method url-fetch)
(uri (cran-uri "coda" version))
(sha256
(base32
- "03fs3sdrrym3is92dgpa6ydk3m63gaihwy7bva4k0wm2hxm7x2k7"))))
+ "1mn50bshky968gn4nf6vnkaa768fnvm1xmhkms7szwdw9341zpyk"))))
(build-system r-build-system)
(propagated-inputs
`(("r-lattice" ,r-lattice)))
@@ -2021,14 +2022,14 @@ and environmental data in the framework of Euclidean exploratory methods.")
(define-public r-xml2
(package
(name "r-xml2")
- (version "1.2.0")
+ (version "1.2.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "xml2" version))
(sha256
(base32
- "154lmksfiwkhnlmryas25mjhfg6k4mmnnk7bbb29mnn5x5pr2yha"))))
+ "0186d7r36xw1z9f8ajz35a0dz4ch6hmrjl9536yc7vq78v4vn5an"))))
(build-system r-build-system)
(inputs
`(("libxml2" ,libxml2)
@@ -2136,14 +2137,14 @@ R version.")
(define-public r-checkmate
(package
(name "r-checkmate")
- (version "1.9.3")
+ (version "1.9.4")
(source
(origin
(method url-fetch)
(uri (cran-uri "checkmate" version))
(sha256
(base32
- "15ccwvmw73c2zz1k10k5zdn8px0rrbnvs1b4nzvlb0iwj7cimhp4"))))
+ "08ddpgs4mv5d5y4j054pm8drmxkn7yvhfpbghwxlizjpnxa5g8ps"))))
(build-system r-build-system)
(propagated-inputs
`(("r-backports" ,r-backports)))
@@ -2333,14 +2334,14 @@ collation, and NAMESPACE files.")
(define-public r-openssl
(package
(name "r-openssl")
- (version "1.4")
+ (version "1.4.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "openssl" version))
(sha256
(base32
- "0mh4xwb9wnn5j2n1zzmjldqjqv2nn4wdidiixxciaqrqsi0l9834"))))
+ "1ihz2qi33lhngl19xdanq0pbmfaacy63794mg8ll7z2lab3yryzp"))))
(build-system r-build-system)
(inputs
`(("libressl" ,libressl)))
@@ -2366,13 +2367,13 @@ integers.")
(define-public r-httr
(package
(name "r-httr")
- (version "1.4.0")
+ (version "1.4.1")
(source (origin
(method url-fetch)
(uri (cran-uri "httr" version))
(sha256
(base32
- "0j6vknwyvkjpjsxwch4q02aik4dnm3h4l0wc7dgzc555bm1g2cyn"))))
+ "0mp1il13q6n49n2hv1p2p8x6avjan6dr5az19ql4hb78pc3pwp37"))))
(build-system r-build-system)
(propagated-inputs
`(("r-curl" ,r-curl)
@@ -2392,20 +2393,16 @@ functions make it easy to control additional request components.")
(define-public r-git2r
(package
(name "r-git2r")
- (version "0.25.2")
+ (version "0.26.1")
(source (origin
(method url-fetch)
(uri (cran-uri "git2r" version))
(sha256
(base32
- "15kpvz6ry2r8ii5hzinjwkggc5kgmkbcpsdwzahsf8gha52w80p0"))))
+ "0dbl845sahv2i641ncaf06w06djravwc5wknp9syzx0ad8l0kmhk"))))
(build-system r-build-system)
- ;; This R package contains modified sources of libgit2. This modified
- ;; version of libgit2 is built as the package is built. Hence libgit2 is
- ;; not among the inputs of this package.
(inputs
- `(("libssh2" ,libssh2) ; for SSH transport
- ("openssl" ,openssl)
+ `(("libgit2" ,libgit2)
("zlib" ,zlib)))
(native-inputs
`(("pkg-config" ,pkg-config)))
@@ -2438,13 +2435,13 @@ informative error messages when it's not available.")
(define-public r-devtools
(package
(name "r-devtools")
- (version "2.0.2")
+ (version "2.1.0")
(source (origin
(method url-fetch)
(uri (cran-uri "devtools" version))
(sha256
(base32
- "028pppj39ng7q17k27531s8k00lmw982vz5krn74n9b8f2azm8lr"))))
+ "0393v7nr22gr5g9afgrhq4ab3lwbqy6fd3shnmlhdpqam5357xy1"))))
(build-system r-build-system)
(propagated-inputs
`(("r-callr" ,r-callr)
@@ -2457,9 +2454,11 @@ informative error messages when it's not available.")
("r-pkgbuild" ,r-pkgbuild)
("r-pkgload" ,r-pkgload)
("r-rcmdcheck" ,r-rcmdcheck)
+ ("r-roxygen2" ,r-roxygen2)
("r-remotes" ,r-remotes)
("r-rstudioapi" ,r-rstudioapi)
("r-sessioninfo" ,r-sessioninfo)
+ ("r-testthat" ,r-testthat)
("r-usethis" ,r-usethis)
("r-withr" ,r-withr)))
(home-page "https://github.com/hadley/devtools")
@@ -2490,18 +2489,19 @@ were originally a part of the r-devtools package.")
(define-public r-hms
(package
(name "r-hms")
- (version "0.4.2")
+ (version "0.5.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "hms" version))
(sha256
(base32
- "1g6hslk3z0xga38r71irxq802wskg6nv804mp8y9f7i2wfrj0y55"))))
+ "06snfqdczr0x0nbp7qnvwhlp2pw0wx9c2y3xb4gr1wrvbik74y58"))))
(build-system r-build-system)
(propagated-inputs
`(("r-rlang" ,r-rlang)
- ("r-pkgconfig" ,r-pkgconfig)))
+ ("r-pkgconfig" ,r-pkgconfig)
+ ("r-vctrs" ,r-vctrs)))
(home-page "https://github.com/rstats-db/hms")
(synopsis "Pretty time of day")
(description
@@ -2597,13 +2597,13 @@ well as additional utilities such as panel and axis annotation functions.")
(define-public r-rcpparmadillo
(package
(name "r-rcpparmadillo")
- (version "0.9.500.2.0")
+ (version "0.9.600.4.0")
(source (origin
(method url-fetch)
(uri (cran-uri "RcppArmadillo" version))
(sha256
(base32
- "1lyvpb7n54ijlqns29qiixqr39334knf67cnixvlic58945glrhv"))))
+ "07jg2667xyhmp1fbcdi5nnhmkk81da76s9rlswfq4k2sjsmbfmr0"))))
(properties `((upstream-name . "RcppArmadillo")))
(build-system r-build-system)
;; All needed for vignettes
@@ -2695,14 +2695,14 @@ certain criterion, e.g., it contains a certain regular file.")
(define-public r-rmarkdown
(package
(name "r-rmarkdown")
- (version "1.13")
+ (version "1.14")
(source
(origin
(method url-fetch)
(uri (cran-uri "rmarkdown" version))
(sha256
(base32
- "1vv3b8nlw8ra19492rjg3na42lwh3xr5a2jy2ia81fvvs846pywn"))))
+ "0qfw5rkvwqpgix32g6qy9xrr50awmm146aqbm836xravih2b2dpn"))))
(properties `((upstream-name . "rmarkdown")))
(build-system r-build-system)
(propagated-inputs
@@ -2788,17 +2788,18 @@ that package, other packages are unaffected.")
(define-public r-blob
(package
(name "r-blob")
- (version "1.1.1")
+ (version "1.2.0")
(source (origin
(method url-fetch)
(uri (cran-uri "blob" version))
(sha256
(base32
- "0lsg91hk508dd95ivig2lwg62qafwnarjw68110kx63cfk4zkjxc"))))
+ "08z071jzac4gasgfgab0y5g3ilfmlw08ln813wphxg07hsiczw8s"))))
(build-system r-build-system)
(propagated-inputs
`(("r-prettyunits" ,r-prettyunits)
- ("r-tibble" ,r-tibble)))
+ ("r-rlang" ,r-rlang)
+ ("r-vctrs" ,r-vctrs)))
(home-page "https://github.com/hadley/blob")
(synopsis "Simple S3 Class for representing vectors of binary data")
(description "Raw vectors in R are useful for storing a single binary
@@ -2810,13 +2811,13 @@ a column in data frame.")
(define-public r-rsqlite
(package
(name "r-rsqlite")
- (version "2.1.1")
+ (version "2.1.2")
(source (origin
(method url-fetch)
(uri (cran-uri "RSQLite" version))
(sha256
(base32
- "1giwk4335sc6yhj3rs8h070g1mwy38kyqyqv6vcfxvskykj7vp6z"))))
+ "1inrhap5cs0wry2jbw42fx9wwxb3qdzlpy0ba4f6a29bs8jx9nk6"))))
(properties `((upstream-name . "RSQLite")))
(build-system r-build-system)
(propagated-inputs
@@ -3069,14 +3070,14 @@ standard R subsetting and Kronecker products.")
(define-public r-iterators
(package
(name "r-iterators")
- (version "1.0.10")
+ (version "1.0.12")
(source
(origin
(method url-fetch)
(uri (cran-uri "iterators" version))
(sha256
(base32
- "1s3iykfvccpnzs73z90rx18qvbvgw2dgl4nfcrvm5m1850qb5qd9"))))
+ "0jwzxaa3jm1xzgfv5pn0xqkk7rhm0xwvgn85w7xaw8xx1vb33gwn"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/iterators")
(synopsis "Iterator construct for R")
@@ -3089,14 +3090,14 @@ data.")
(define-public r-foreach
(package
(name "r-foreach")
- (version "1.4.4")
+ (version "1.4.7")
(source
(origin
(method url-fetch)
(uri (cran-uri "foreach" version))
(sha256
(base32
- "0j2yj0rn0d5nbzz9nq5rqqgnxhp9pbd92q4klsarl2xpsn8119y0"))))
+ "0q7iyniw5iri4hl57bhil3r69s5wnaijzn0q0x4h3z42245jqqwm"))))
(build-system r-build-system)
(propagated-inputs
`(("r-codetools" ,r-codetools)
@@ -3117,14 +3118,14 @@ parallel.")
(define-public r-doparallel
(package
(name "r-doparallel")
- (version "1.0.14")
+ (version "1.0.15")
(source
(origin
(method url-fetch)
(uri (cran-uri "doParallel" version))
(sha256
(base32
- "01qjs4iw9f1kgymcypj0m2s4pvgqhxaycpli0fb8lq3dc0vpzfyb"))))
+ "0vnqbha3gig3awbfvsfx3ni5jir398md1n7xmsb8jihnjsk7xbbi"))))
(properties `((upstream-name . "doParallel")))
(build-system r-build-system)
(propagated-inputs
@@ -3140,14 +3141,14 @@ using the parallel package.")
(define-public r-domc
(package
(name "r-domc")
- (version "1.3.5")
+ (version "1.3.6")
(source
(origin
(method url-fetch)
(uri (cran-uri "doMC" version))
(sha256
(base32
- "1vfrykvfvsyq12mypd266867ml1dcwc3rj5k9c3wrn5bddcm88kr"))))
+ "1cn9gxavhvjswip8pwvkpi7q6wpzdllcsdjabga8akf55nggqxr9"))))
(properties `((upstream-name . "doMC")))
(build-system r-build-system)
(propagated-inputs
@@ -3163,13 +3164,13 @@ using the multicore functionality of the parallel package.")
(define-public r-dt
(package
(name "r-dt")
- (version "0.7")
+ (version "0.8")
(source (origin
(method url-fetch)
(uri (cran-uri "DT" version))
(sha256
(base32
- "0b6ywgzk9b35y5f69zwfz3vv7qwqqj3xsmy0xymf7nfcvrqg3qqx"))))
+ "08cfmv3d5awvd9h8648bvidcg2ak5pvl2p6vqwqwy1l82ia506ch"))))
(properties
`((upstream-name . "DT")))
(build-system r-build-system)
@@ -3177,6 +3178,7 @@ using the multicore functionality of the parallel package.")
`(("r-crosstalk" ,r-crosstalk)
("r-htmltools" ,r-htmltools)
("r-htmlwidgets" ,r-htmlwidgets)
+ ("r-jsonlite" ,r-jsonlite)
("r-magrittr" ,r-magrittr)
("r-promises" ,r-promises)))
(home-page "http://rstudio.github.io/DT")
@@ -3315,14 +3317,14 @@ package registries.")
(define-public r-rngtools
(package
(name "r-rngtools")
- (version "1.3.1.1")
+ (version "1.4")
(source
(origin
(method url-fetch)
(uri (cran-uri "rngtools" version))
(sha256
(base32
- "0k1nlcxggflq0043m15dfclnqnzchkpw2ik7jk82h4dqwvysiqcr"))))
+ "1kivj594bn774lbn29ws2rmzy2km99sza0j3jqvhal6hwmk27a9s"))))
(build-system r-build-system)
(propagated-inputs
`(("r-digest" ,r-digest)
@@ -4566,19 +4568,19 @@ Farebrother's algorithm or Liu et al.'s algorithm.")
(define-public r-cowplot
(package
(name "r-cowplot")
- (version "0.9.4")
+ (version "1.0.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "cowplot" version))
(sha256
(base32
- "0yvalwalvyddyqk0q66y8361nxlh2cvp3ssazax9g5q89lghjmzv"))))
+ "19cqdhgfyr1wj0fz0c5ly8f0aiy9sfgzq6lzb78hkx0hdp2agybh"))))
(build-system r-build-system)
(propagated-inputs
`(("r-ggplot2" ,r-ggplot2)
("r-gtable" ,r-gtable)
- ("r-plyr" ,r-plyr)
+ ("r-rlang" ,r-rlang)
("r-scales" ,r-scales)))
(home-page "https://github.com/wilkelab/cowplot")
(synopsis "Streamlined plot theme and plot annotations for ggplot2")
@@ -4640,14 +4642,14 @@ regression.")
(define-public r-fastica
(package
(name "r-fastica")
- (version "1.2-1")
+ (version "1.2-2")
(source
(origin
(method url-fetch)
(uri (cran-uri "fastICA" version))
(sha256
(base32
- "108z2ymby5y4h8l4l2krqwm28rya93gq09yylgilnm3afvfrfabg"))))
+ "1zpijqcipm0aa3rxj0mys06lskqy4dbppjpxr1aby0j16y9ka8ij"))))
(properties `((upstream-name . "fastICA")))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/fastICA")
@@ -4749,14 +4751,14 @@ models, generalized linear models and model-based clustering.")
(define-public r-mclust
(package
(name "r-mclust")
- (version "5.4.4")
+ (version "5.4.5")
(source
(origin
(method url-fetch)
(uri (cran-uri "mclust" version))
(sha256
(base32
- "039ymr57bq5327gypizw0v2qb81j6bkqhjdh8yj23qa5sh51phyc"))))
+ "0whandnda1fnjn5k3hgxdbp3b0xr7nlzy1j37saqb536h8q9dwkm"))))
(build-system r-build-system)
(native-inputs
`(("gfortran" ,gfortran)))
@@ -4919,14 +4921,14 @@ generally.")
(define-public r-robust
(package
(name "r-robust")
- (version "0.4-18")
+ (version "0.4-18.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "robust" version))
(sha256
(base32
- "1b7qh1aff500nd6dh4y2ipmjgdiq8991shflb63pc39vpc0ny6g4"))))
+ "0xs098pfw5zdcdk3rsxkylfl6d2pyp566s5v92bzhgl7h8c90cfy"))))
(build-system r-build-system)
(propagated-inputs
`(("r-fit-models" ,r-fit-models)
@@ -5025,14 +5027,14 @@ VGLMs can be loosely thought of as multivariate generalised linear models.")
(define-public r-pbapply
(package
(name "r-pbapply")
- (version "1.4-0")
+ (version "1.4-1")
(source
(origin
(method url-fetch)
(uri (cran-uri "pbapply" version))
(sha256
(base32
- "0bn7a9ni36xy5acnrl9ky3gd1k8jr5kxgazzh3pzd1q6bri1nx7k"))))
+ "1bbws9n90cqnnp5k58hp852jwmm6513jnhn4vzhl9f8x314k6qxk"))))
(build-system r-build-system)
(home-page "https://github.com/psolymos/pbapply")
(synopsis "Adding progress bar to apply functions")
@@ -5138,14 +5140,14 @@ using modular prediction and response module classes.")
(define-public r-quantreg
(package
(name "r-quantreg")
- (version "5.41")
+ (version "5.42.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "quantreg" version))
(sha256
(base32
- "110ax3ngn6i94h7iw7ha67kfsmj94hycp7lk62nmyvkp34vpfykh"))))
+ "1aycnghci329yqw63kybv7sfjjx5whq3xs7xzic4wsaj7j4b1hjc"))))
(build-system r-build-system)
(native-inputs
`(("gfortran" ,gfortran)))
generated by cgit v1.2.3 (git 2.45.0) at 2024-11-26 23:45:18 +0000