;;; Copyright © 2016 Ben Woodcroft <donttrustben@gmail.com>
;;; Copyright © 2016, 2017 Raoul Bonnal <ilpuccio.febo@gmail.com>
;;; Copyright © 2017 Kyle Meyer <kyle@kyleam.com>
-;;; Copyright © 2017, 2018, 2019 Tobias Geerinckx-Rice <me@tobias.gr>
+;;; Copyright © 2017, 2018, 2019, 2020 Tobias Geerinckx-Rice <me@tobias.gr>
;;; Copyright © 2017 Alex Kost <alezost@gmail.com>
;;; Copyright © 2018 Alex Branham <alex.branham@gmail.com>
;;;
#:use-module (gnu packages perl)
#:use-module (gnu packages pkg-config)
#:use-module (gnu packages python)
+ #:use-module (gnu packages python-science)
#:use-module (gnu packages python-xyz)
#:use-module (gnu packages readline)
#:use-module (gnu packages sphinx)
(define-public libxls
(package
(name "libxls")
- (version "1.5.1")
+ (version "1.5.2")
(source
(origin
(method url-fetch)
(uri (string-append "https://github.com/libxls/libxls/releases/download/"
"v" version "/libxls-" version ".tar.gz"))
(sha256
- (base32 "0dam8qgbc5ykzaxmrjhpmfm8lnlcdk6cbpzyaya91qwwa80qbj1v"))))
+ (base32 "1akadsyl10rp101ccjmrxr7933c3v641k377bn74jv6cdkcm4zld"))))
(build-system gnu-build-system)
(home-page "https://github.com/libxls/libxls")
(synopsis "Read binary (.xls) Excel spreadsheet files")
(define-public r-boot
(package
(name "r-boot")
- (version "1.3-23")
+ (version "1.3-24")
(source
(origin
(method url-fetch)
(uri (cran-uri "boot" version))
(sha256
(base32
- "0bx07zbb5nfz2xfgnzbspg7r5vxz4bjdz1ry4d1vk434vlcrxj1h"))))
+ "0yv0l55kjmlfdx1xhgyjdi0bskxhfal74wr5jxaib1qj99nmkm49"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/boot")
(synopsis "Bootstrap functions for R")
(define-public r-mass
(package
(name "r-mass")
- (version "7.3-51.4")
+ (version "7.3-51.5")
(source
(origin
(method url-fetch)
(uri (cran-uri "MASS" version))
(sha256
(base32
- "0x1ckf51y851g0kvbhsgdxb26vfpmbw3xdbcnh3ck7fjm13da4cr"))))
+ "1k0m7pa4gb5apzrrkb5kx5d7bmkm2pl5g15vwb6j067hrqahck26"))))
(properties `((upstream-name . "MASS")))
(build-system r-build-system)
(home-page "http://www.stats.ox.ac.uk/pub/MASS4/")
(define-public r-foreign
(package
(name "r-foreign")
- (version "0.8-72")
+ (version "0.8-74")
(source
(origin
(method url-fetch)
(uri (cran-uri "foreign" version))
(sha256
(base32
- "124c9229is44p2rv7xyh2q86nsfi7vzyyh5n3c5ihziqrp4ig723"))))
+ "047w772msiki85rxxhqkxya37gmw4331l32651rr09dl2vq02pgj"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/foreign")
(synopsis "Read data stored by other statistics software")
(define-public r-nlme
(package
(name "r-nlme")
- (version "3.1-142")
+ (version "3.1-143")
(source
(origin
(method url-fetch)
(uri (cran-uri "nlme" version))
(sha256
- (base32 "0figfb1i22hfkkhzpprmpp723s01r43x725a1ab0pc9gsxqg90nx"))))
+ (base32 "13iixbs2ibldc75rl7rav5n5kx33zwm33xnfw1yvlkpcqf38bd22"))))
(build-system r-build-system)
(propagated-inputs
`(("r-lattice" ,r-lattice)))
(define-public r-survival
(package
(name "r-survival")
- (version "3.1-7")
+ (version "3.1-8")
(source
(origin
(method url-fetch)
(uri (cran-uri "survival" version))
(sha256
(base32
- "1ij77bgfcjx29xkx5bck0sv4ybglpcmzzv9ilkinj8fqhhclbs8p"))))
+ "15fj4y8c107bwq22amx88r5hw7qndlcbr9sapzrpkpr7iqz3kkyf"))))
(build-system r-build-system)
(propagated-inputs
`(("r-matrix" ,r-matrix)))
(define-public r-plyr
(package
(name "r-plyr")
- (version "1.8.4")
+ (version "1.8.5")
(source
(origin
(method url-fetch)
(uri (cran-uri "plyr" version))
(sha256
- (base32 "1igar5pcjqh0jyxv0z3jah8rz617vfa86vw0r5c7c031b7bj5db0"))))
+ (base32 "0x4mbb3rgv1ayxqidw0p9i10khbg51fz5r62vw4il8d7licqq07a"))))
(build-system r-build-system)
- (native-inputs `(("r-rcpp" ,r-rcpp)))
+ (propagated-inputs `(("r-rcpp" ,r-rcpp)))
(home-page "http://had.co.nz/plyr")
(synopsis "Tools for Splitting, Applying and Combining Data")
(description
(define-public r-dbi
(package
(name "r-dbi")
- (version "1.0.0")
+ (version "1.1.0")
(source (origin
(method url-fetch)
(uri (cran-uri "DBI" version))
(sha256
(base32
- "1x8wy2vg2gcgd9bww04qmf0dsn3kp0rfjd8q8j1r2x9zxccg25pz"))))
+ "1r03j9rdcxb9bhxk40dkmy10ikz4yzsxhy3f9k9ix3x577xbfvd9"))))
(build-system r-build-system)
(home-page "https://github.com/rstats-db/DBI")
(synopsis "R database interface")
(define-public r-bh
(package
(name "r-bh")
- (version "1.69.0-1")
+ (version "1.72.0-2")
(source (origin
(method url-fetch)
(uri (cran-uri "BH" version))
(sha256
(base32
- "18mckfwxxv8m8rzaz03mg2h6vhaj7y131h6yasfg0s73nxj47zd0"))))
+ "0y1cxnzdajcdsc9jlaby53253hril65h496wval08qlxsqnfc3ia"))))
(build-system r-build-system)
(home-page "https://github.com/eddelbuettel/bh")
(synopsis "R package providing subset of Boost headers")
(define-public r-mime
(package
(name "r-mime")
- (version "0.7")
+ (version "0.8")
(source (origin
(method url-fetch)
(uri (cran-uri "mime" version))
(sha256
(base32
- "12vpip67ajb90b8p96w43ir7mavrw2i61bwvpfnrlmlj9kj3w20i"))))
+ "18w98prfbivvygiyamsf9yg090kzbnvw2fn9b27823gmis4d08ny"))))
(build-system r-build-system)
(home-page "https://github.com/yihui/mime")
(synopsis "R package to map filenames to MIME types")
(define-public r-testthat
(package
(name "r-testthat")
- (version "2.3.0")
+ (version "2.3.1")
(source (origin
(method url-fetch)
(uri (cran-uri "testthat" version))
(sha256
(base32
- "0qlajfgm3zjrmladwcm0xzw8zp2431zz2asa2w7lpg7zl6ymvz29"))))
+ "0m8xchdpgn9iwj6gb2qw46zr85v9zf1gkbr9nnahmy5sp1s9bbky"))))
(build-system r-build-system)
(propagated-inputs
`(("r-cli" ,r-cli)
(define-public r-data-table
(package
(name "r-data-table")
- (version "1.12.6")
+ (version "1.12.8")
(source (origin
(method url-fetch)
(uri (cran-uri "data.table" version))
(sha256
(base32
- "1kgbnm5gv7ax7qn8irpz7qsry2ci21axga8y7qpkidcqkxkkndn2"))))
+ "1p7rf4v3ysflpgcmy9krkwmcy7z22wb08xm443649waz6lx5z9yk"))))
(build-system r-build-system)
(inputs
`(("zlib" ,zlib)))
(define-public r-rversions
(package
(name "r-rversions")
- (version "2.0.0")
+ (version "2.0.1")
(source (origin
(method url-fetch)
(uri (cran-uri "rversions" version))
(sha256
(base32
- "0mkg9zrjxlbwqzijiysivrs523x48syqj30xdfp88clpkqfk435m"))))
+ "1ic6sxnyya24d5xsxjg3fba73fhya9fhs0kaf66yha6nwxj1zv2i"))))
(build-system r-build-system)
(propagated-inputs
`(("r-curl" ,r-curl)
(define-public r-roxygen2
(package
(name "r-roxygen2")
- (version "7.0.1")
+ (version "7.0.2")
(source (origin
(method url-fetch)
(uri (cran-uri "roxygen2" version))
(sha256
(base32
- "07v7f7may3vr80f4m1w1ll41qdahszycyx4c1yf8pw7asx73d77j"))))
+ "162xag27hwwyadfwm5zpyy15nxwhw2vbhwapx3jmi9cfyryr68sq"))))
(build-system r-build-system)
(propagated-inputs
`(("r-brew" ,r-brew)
(define-public r-plotrix
(package
(name "r-plotrix")
- (version "3.7-6")
+ (version "3.7-7")
(source (origin
(method url-fetch)
(uri (cran-uri "plotrix" version))
(sha256
(base32
- "0ijfjlr7ls5hvfyzdmwab6bx0w3nvp0c8fgynj4355cj8mbzgmc3"))))
+ "1x92mmyfry127zzr6cmcj6kjsc4zhxrrdlr0jcxn3bb0hpdfps54"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/plotrix")
(synopsis "Various plotting functions")
(define-public r-latticeextra
(package
(name "r-latticeextra")
- (version "0.6-28")
+ (version "0.6-29")
(source
(origin
(method url-fetch)
(uri (cran-uri "latticeExtra" version))
(sha256
(base32
- "1hkyqsa7klk5glj9y1hg3rxr5qilqw8h0017zc4c3nps7lr9a1kq"))))
+ "04fzwcqs594rk5qp98yilh3kdh3sw4xf8wld5rp94ggpaqfw7bbc"))))
(properties `((upstream-name . "latticeExtra")))
(build-system r-build-system)
(propagated-inputs
- `(("r-lattice" ,r-lattice)
+ `(("r-jpeg" ,r-jpeg)
+ ("r-lattice" ,r-lattice)
+ ("r-png" ,r-png)
("r-rcolorbrewer" ,r-rcolorbrewer)))
(home-page "http://latticeextra.r-forge.r-project.org/")
(synopsis "Extra graphical utilities based on lattice")
(define-public r-rcpparmadillo
(package
(name "r-rcpparmadillo")
- (version "0.9.800.1.0")
+ (version "0.9.800.3.0")
(source (origin
(method url-fetch)
(uri (cran-uri "RcppArmadillo" version))
(sha256
(base32
- "1frg7y3fb571jf9dp1kkc75x0nxvw8j3qccsrm1brg5l1z2jmlaz"))))
+ "0kpcspg3mafi5kncjfhnbcwimvlf19jvrxilvhbpd20sap473mh3"))))
(properties `((upstream-name . "RcppArmadillo")))
(build-system r-build-system)
;; All needed for vignettes
(define-public r-catools
(package
(name "r-catools")
- (version "1.17.1.2")
+ (version "1.17.1.3")
(source (origin
(method url-fetch)
(uri (cran-uri "caTools" version))
(sha256
(base32
- "0svj31y7h8vimvliygmmbl7pk850qk80k1vn38mlcxsnmcpm9k39"))))
+ "04m7vbydxb1nipday97w29p2miykyzxw572j9lda6jxmmp2kb1yp"))))
(properties `((upstream-name . "caTools")))
(build-system r-build-system)
(propagated-inputs
(define-public r-rmarkdown
(package
(name "r-rmarkdown")
- (version "1.18")
+ (version "2.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "rmarkdown" version))
(sha256
- (base32 "0fykzbb5kjsqc8v6gjcdma7rmq0gailp30qij6plgna4d8nhjw3w"))))
+ (base32 "1bm3n17wa0pf1cq7qmwhbnn02x2pld7zzmmzjcvwy6apanch9fl7"))))
(properties `((upstream-name . "rmarkdown")))
(build-system r-build-system)
(propagated-inputs
(define-public r-rsqlite
(package
(name "r-rsqlite")
- (version "2.1.2")
+ (version "2.1.5")
(source (origin
(method url-fetch)
(uri (cran-uri "RSQLite" version))
(sha256
(base32
- "1inrhap5cs0wry2jbw42fx9wwxb3qdzlpy0ba4f6a29bs8jx9nk6"))))
+ "0b1cjnk9g1lrxy0wajfq744qps7fila0xdh5j9chy1vrrwfiwzl0"))))
(properties `((upstream-name . "RSQLite")))
(build-system r-build-system)
(propagated-inputs
(define-public r-segmented
(package
(name "r-segmented")
- (version "1.0-0")
+ (version "1.1-0")
(source
(origin
(method url-fetch)
(uri (cran-uri "segmented" version))
(sha256
(base32
- "1igsfkffpa60zn6j45lhw1zgr5pz6rjknv2f3sylnx5l9fdwibgf"))))
+ "06cxdrqgnpk5fvbam5i7qa4n71wry0yvlj0jpwbxf267mvpx10fh"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/segmented")
(synopsis "Regression models with breakpoints estimation")
(define-public r-sparsem
(package
(name "r-sparsem")
- (version "1.77")
+ (version "1.78")
(source (origin
(method url-fetch)
(uri (cran-uri "SparseM" version))
(sha256
(base32
- "0p6ljma2h12cq1xmy0cxb48ih8dhxxbnwkqzvx3cckxf2kprycm9"))))
+ "0cmlm0lps3daalvp5jzjnjfys388hgkyc8yw0g5r2351h749xdyn"))))
(properties
`((upstream-name . "SparseM")))
- (inputs
+ (native-inputs
`(("gfortran" ,gfortran)))
(build-system r-build-system)
(home-page "http://www.econ.uiuc.edu/~roger/research/sparse/sparse.html")
(define-public r-dt
(package
(name "r-dt")
- (version "0.10")
+ (version "0.11")
(source (origin
(method url-fetch)
(uri (cran-uri "DT" version))
(sha256
(base32
- "0vwhn1mcwv0hkbxnppf6vip23iiib0szvp1h3prawlkvd74xziiw"))))
+ "09k9s07aah1apc308sj1abvr27mky6fkpl9j6lxl2x55n4immvkg"))))
(properties
`((upstream-name . "DT")))
(build-system r-build-system)
(define-public r-glmnet
(package
(name "r-glmnet")
- (version "3.0-1")
+ (version "3.0-2")
(source
(origin
(method url-fetch)
(uri (cran-uri "glmnet" version))
(sha256
- (base32 "04wa926mnss53p1fhx0mjgxnmwmmqls12sc0sy7w09kbmyqa3fq7"))))
+ (base32 "0b3nnfzp8dxcdkvxr0yvy6d58yk3xg4kz1wqa42bxqppbakmd2gl"))))
(build-system r-build-system)
(native-inputs
`(("gfortran" ,gfortran)))
(define-public r-bigmemory
(package
(name "r-bigmemory")
- (version "4.5.33")
+ (version "4.5.36")
(source
(origin
(method url-fetch)
(uri (cran-uri "bigmemory" version))
(sha256
(base32
- "0ycl9dzm3drpyas625h34rir5bnbjlncxlvawfsfmqwcbmwdjdvj"))))
+ "03pg8mxdc7q0249visjmc8bc3xmwxsfg3i2n6higicj4cfz7zihq"))))
(build-system r-build-system)
(propagated-inputs
`(("r-bh" ,r-bh)
(define-public r-r-utils
(package
(name "r-r-utils")
- (version "2.9.0")
+ (version "2.9.2")
(source (origin
(method url-fetch)
(uri (cran-uri "R.utils" version))
(sha256
(base32
- "1w4zn2db15bggfnh64fbyi2z2sj47rcd4xn53b28dsnkamdcramj"))))
+ "1krj1ny7y43lpm2q8c7swxfdc3ngy2j8knzv71f8bfsgh673nsxc"))))
(properties `((upstream-name . "R.utils")))
(build-system r-build-system)
(propagated-inputs
(define-public r-r-cache
(package
(name "r-r-cache")
- (version "0.13.0")
+ (version "0.14.0")
(source (origin
(method url-fetch)
(uri (cran-uri "R.cache" version))
(sha256
(base32
- "1hf5cb7xvnca5zlh9245b5g62sgsaxwdhiv7x59yld37cydakm6k"))))
+ "1n8n5ihkryrbxv630dwhz4r048nyv676qd3i9f5z5fa04hvlxbqq"))))
(properties `((upstream-name . "R.cache")))
(build-system r-build-system)
(propagated-inputs
(define-public r-preprocesscore
(package
(name "r-preprocesscore")
- (version "1.46.0")
+ (version "1.48.0")
(source
(origin
(method url-fetch)
(uri (bioconductor-uri "preprocessCore" version))
(sha256
(base32
- "0iiyn42hlvmc5vabg5x15mls11124i23sh4qijwk0narh438cqm0"))))
+ "0zrb9hx60vppkg0priczdb301nhq5f0dj8lkc8rcc4xrqqr915qm"))))
(properties
`((upstream-name . "preprocessCore")))
(build-system r-build-system)
(define-public r-robust
(package
(name "r-robust")
- (version "0.4-18.1")
+ (version "0.4-18.2")
(source
(origin
(method url-fetch)
(uri (cran-uri "robust" version))
(sha256
(base32
- "0xs098pfw5zdcdk3rsxkylfl6d2pyp566s5v92bzhgl7h8c90cfy"))))
+ "02x7d6dgx3skiadvx5m3c44b4bhz37ycpfhc25dhhv50y1db6l3k"))))
(build-system r-build-system)
(propagated-inputs
`(("r-fit-models" ,r-fit-models)
(define-public r-quantreg
(package
(name "r-quantreg")
- (version "5.52")
+ (version "5.54")
(source
(origin
(method url-fetch)
(uri (cran-uri "quantreg" version))
(sha256
- (base32 "0rq9as31wiz41lmi9hmdq3gknpcbpwqzfcn065ysjdxzjdb57dcy"))))
+ (base32 "19nh79qrkb75q348nk148l8wqjwnq5jgq29wpzqym5cfv1kjqfvh"))))
(build-system r-build-system)
(native-inputs
`(("gfortran" ,gfortran)))
(define-public r-car
(package
(name "r-car")
- (version "3.0-5")
+ (version "3.0-6")
(source
(origin
(method url-fetch)
(uri (cran-uri "car" version))
(sha256
- (base32 "0w7fm81pn0wqrwzbjyddnrkpjl8gavg7ijh7rab9f21rkgkzgm3y"))))
+ (base32 "0yv5mwaa0ymrbis9590mx0zcj3w6j4drhs6ab13zhx4zc3x1b7b6"))))
(build-system r-build-system)
(propagated-inputs
`(("r-abind" ,r-abind)
(license license:gpl3)))
(define-public r-catterplots
- (let ((commit "40063ec57f9515d231508f135ca0ec769614efb9")
- (revision "2"))
+ (let ((commit "ae17cd5e49ddda4ecfe0eba8a4c21df8c88e72c4")
+ (revision "3"))
(package
(name "r-catterplots")
- (version (string-append "0-" revision "." (string-take commit 9)))
+ (version (git-version "0" revision commit))
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/Gibbsdavidl/CatterPlots.git")
(commit commit)))
- (file-name (string-append name "-" version "-checkout"))
+ (file-name (git-file-name name version))
(sha256
(base32
- "1wl80pgbz8d9kfpffvkh439hlgz2qldm9m75wqjfrgrg8lcjzrxg"))))
+ "0qa8liylffpxgdg8xcgjar5dsvczqhn3akd4w35113hnyg1m4xyg"))))
(build-system r-build-system)
(propagated-inputs
`(("r-png" ,r-png)))