diff options
Diffstat (limited to 'gnu/packages/statistics.scm')
| -rw-r--r-- | gnu/packages/statistics.scm | 153 |
1 files changed, 40 insertions, 113 deletions
diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index b4de0e812b..6083ac18ee 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -66,6 +66,7 @@ #: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) @@ -567,14 +568,14 @@ also flexible enough to handle most nonstandard requirements.") (define-public r-matrix (package (name "r-matrix") - (version "1.2-17") + (version "1.2-18") (source (origin (method url-fetch) (uri (cran-uri "Matrix" version)) (sha256 (base32 - "1k1zf92ycqr7fz44w7bp1p354ww7jg0wm23ybb8dzmbg37qfchyv")))) + "06b1rc1vq65b271f2wpzhqkvhng8hwwnvjflzxkng50i52603zzp")))) (properties `((upstream-name . "Matrix"))) (build-system r-build-system) (propagated-inputs @@ -692,14 +693,14 @@ analysis.") (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))) @@ -803,13 +804,13 @@ effects of different types of color-blindness.") (define-public r-digest (package (name "r-digest") - (version "0.6.22") + (version "0.6.23") (source (origin (method url-fetch) (uri (cran-uri "digest" version)) (sha256 - (base32 "1qav52y1qmkg9j2g48mrl6bbjwhs0fs9dl55xb62lfkrihkappqh")))) + (base32 "18h5s8vkdcz2vhpsx6g3ig00zalrihr03skn95zw3lr2y56pafmp")))) (build-system r-build-system) ;; Vignettes require r-knitr, which requires r-digest, so we have to ;; disable them and the tests. @@ -848,30 +849,6 @@ functions of regression coefficients, and @code{epredict} methods that handle non-estimable cases correctly.") (license license:gpl2+))) -(define-public r-pheatmap - (package - (name "r-pheatmap") - (version "1.0.12") - (source - (origin - (method url-fetch) - (uri (cran-uri "pheatmap" version)) - (sha256 - (base32 - "1hdh74az3vyzz6dqa311rhxdm74n46lyr03p862kn80p0kp9d7ap")))) - (build-system r-build-system) - (propagated-inputs - `(("r-gtable" ,r-gtable) - ("r-rcolorbrewer" ,r-rcolorbrewer) - ("r-scales" ,r-scales))) - (home-page - "https://cran.r-project.org/web/packages/pheatmap") - (synopsis "Pretty heatmaps") - (description - "This package provides an implementation of heatmaps that offers more -control over dimensions and appearance.") - (license license:gpl2+))) - (define-public r-labeling (package (name "r-labeling") @@ -1108,32 +1085,6 @@ the input of another.") using just two functions: melt and dcast (or acast).") (license license:expat))) -(define-public r-scales - (package - (name "r-scales") - (version "1.0.0") - (source - (origin - (method url-fetch) - (uri (cran-uri "scales" version)) - (sha256 - (base32 "0353dkh3d7x78463c6ds80hcml59lrqwr8rlv82a8dnkxla4l7qc")))) - (build-system r-build-system) - (propagated-inputs - `(("r-labeling" ,r-labeling) - ("r-munsell" ,r-munsell) - ("r-rcolorbrewer" ,r-rcolorbrewer) - ("r-rcpp" ,r-rcpp) - ("r-r6" ,r-r6) - ("r-viridislite" ,r-viridislite))) - (home-page "https://github.com/hadley/scales") - (synopsis "Scale functions for visualization") - (description - "This package provides graphical scales that map data to aesthetics, and -provides methods for automatically determining breaks and labels for axes and -legends.") - (license license:expat))) - (define-public r-ggplot2 (package (name "r-ggplot2") @@ -1604,13 +1555,13 @@ R packages that praise their users.") (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) @@ -1656,13 +1607,13 @@ defined in different packages.") (define-public r-rlang (package (name "r-rlang") - (version "0.4.1") + (version "0.4.2") (source (origin (method url-fetch) (uri (cran-uri "rlang" version)) (sha256 (base32 - "122hhc7pdri8wkjmk37y71m4h1gmdzaqcfdizfdjg1bhy935i10k")))) + "0fczcp17kaz3s4p0nd4126bppwl20vpxfybhsndpcky9h75wklgv")))) (build-system r-build-system) (home-page "http://rlang.tidyverse.org") (synopsis "Functions for base types, core R and Tidyverse features") @@ -2081,13 +2032,13 @@ jackknifed confidence intervals are available for most estimates.") (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) @@ -2309,13 +2260,13 @@ tables, autolinks and strikethrough text.") (define-public r-roxygen2 (package (name "r-roxygen2") - (version "7.0.0") + (version "7.0.2") (source (origin (method url-fetch) (uri (cran-uri "roxygen2" version)) (sha256 (base32 - "13sani3y9ql56cvja8pfjpwsbq8pismc52ns1cq1zgi0jycgqja5")))) + "162xag27hwwyadfwm5zpyy15nxwhw2vbhwapx3jmi9cfyryr68sq")))) (build-system r-build-system) (propagated-inputs `(("r-brew" ,r-brew) @@ -2665,13 +2616,13 @@ vectors.") (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 @@ -2711,13 +2662,13 @@ certain criterion, e.g., it contains a certain regular file.") (define-public r-rmarkdown (package (name "r-rmarkdown") - (version "1.17") + (version "1.18") (source (origin (method url-fetch) (uri (cran-uri "rmarkdown" version)) (sha256 - (base32 "18dj6nr1m79pv1pv9w2n0rhiidwqjb2w8w1rnpcwijwbz4i8d3k2")))) + (base32 "0fykzbb5kjsqc8v6gjcdma7rmq0gailp30qij6plgna4d8nhjw3w")))) (properties `((upstream-name . "rmarkdown"))) (build-system r-build-system) (propagated-inputs @@ -2826,13 +2777,13 @@ a column in data frame.") (define-public r-rsqlite (package (name "r-rsqlite") - (version "2.1.2") + (version "2.1.3") (source (origin (method url-fetch) (uri (cran-uri "RSQLite" version)) (sha256 (base32 - "1inrhap5cs0wry2jbw42fx9wwxb3qdzlpy0ba4f6a29bs8jx9nk6")))) + "0c5s67s8w4q6p57rnh14n4gcmymyardg8lhnrdlimmjcfawj15h7")))) (properties `((upstream-name . "RSQLite"))) (build-system r-build-system) (propagated-inputs @@ -3256,14 +3207,13 @@ analysis of large sparse or dense matrices.") (define-public r-glmnet (package (name "r-glmnet") - (version "3.0") + (version "3.0-1") (source (origin (method url-fetch) (uri (cran-uri "glmnet" version)) (sha256 - (base32 - "1fwspkxbsx7jy5h8zcdl0q8xsbj7svjjbcmg5lfpxdsgyyww46v7")))) + (base32 "04wa926mnss53p1fhx0mjgxnmwmmqls12sc0sy7w09kbmyqa3fq7")))) (build-system r-build-system) (native-inputs `(("gfortran" ,gfortran))) @@ -3383,14 +3333,14 @@ Stochastic Neighbor Embedding using a Barnes-Hut implementation.") (define-public r-e1071 (package (name "r-e1071") - (version "1.7-2") + (version "1.7-3") (source (origin (method url-fetch) (uri (cran-uri "e1071" version)) (sha256 (base32 - "0lipj692rjjw8rrhqh2k9i5dh8y2sjrw9q53rwm32irhx2f2j73j")))) + "0pf2pjb590z0jikgv1037xcp7dq06mg3dzmyffjw6gk7dd9blbdv")))) (build-system r-build-system) (propagated-inputs `(("r-class" ,r-class))) @@ -4884,14 +4834,14 @@ analysis} (PCA) by projection pursuit.") (define-public r-rrcov (package (name "r-rrcov") - (version "1.4-7") + (version "1.4-9") (source (origin (method url-fetch) (uri (cran-uri "rrcov" version)) (sha256 (base32 - "14zjyqcdiqx6js99nx5s8hmyx564ixy2d8s6i7wa50xmx368rl6b")))) + "11zvxidlb1pr2j5dzvmbjqdgsmmicsq8ppjf5wcfykfyf2fkcmz7")))) (build-system r-build-system) (propagated-inputs `(("r-cluster" ,r-cluster) @@ -5020,14 +4970,13 @@ groupings.") (define-public r-vgam (package (name "r-vgam") - (version "1.1-1") + (version "1.1-2") (source (origin (method url-fetch) (uri (cran-uri "VGAM" version)) (sha256 - (base32 - "0lnsqx3q3k0c7sj8gj0n6shn2fyxwrh8xph8h1r1i23ybbb2n6fy")))) + (base32 "0kyan3a4ys2xbg9kf167cyf1gk7g963id62cjm2ij4i7y4wi61zq")))) (properties `((upstream-name . "VGAM"))) (build-system r-build-system) (inputs @@ -5088,14 +5037,14 @@ based on an interface to Fortran implementations by M. J. D. Powell.") (define-public r-rcppeigen (package (name "r-rcppeigen") - (version "0.3.3.5.0") + (version "0.3.3.7.0") (source (origin (method url-fetch) (uri (cran-uri "RcppEigen" version)) (sha256 (base32 - "01bz41c29591ybzqn4z88ss036ai3anh9figryvmfpqcfwbszip5")))) + "1b78qcjim0n9klgkr82n794d6bj9r9f33g0kcsszsns2hir65sk2")))) (properties `((upstream-name . "RcppEigen"))) (build-system r-build-system) (propagated-inputs @@ -5268,14 +5217,13 @@ bootstrap test for generalized linear mixed models.") (define-public r-cardata (package (name "r-cardata") - (version "3.0-2") + (version "3.0-3") (source (origin (method url-fetch) (uri (cran-uri "carData" version)) (sha256 - (base32 - "152lfgaspgx6x2wzdb5p3zv6r87a0d2pg10h6fjmdr613kzlwp1v")))) + (base32 "0cg2yxzn0pdjqykr60my1fzpfkqac21fll5hv3m9w5c9sayq8swq")))) (properties `((upstream-name . "carData"))) (build-system r-build-system) (home-page "https://r-forge.r-project.org/projects/car/") @@ -5288,14 +5236,13 @@ Companion to Applied Regression, Third Edition, Sage.") (define-public r-car (package (name "r-car") - (version "3.0-4") + (version "3.0-5") (source (origin (method url-fetch) (uri (cran-uri "car" version)) (sha256 - (base32 - "1mhfxrb62yanaz36f4n38p9hhnqbs5b19k0864w4ja1ccgh3nl3f")))) + (base32 "0w7fm81pn0wqrwzbjyddnrkpjl8gavg7ijh7rab9f21rkgkzgm3y")))) (build-system r-build-system) (propagated-inputs `(("r-abind" ,r-abind) @@ -5709,20 +5656,20 @@ inferring an appropriate positioning method.") (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))) @@ -5764,26 +5711,6 @@ table made by the command @code{show256Colors()}. You can also set the colors to any arbitrary string. In this case, it is up to you to set valid values.") (license license:gpl3+))) -(define-public r-txtplot - (package - (name "r-txtplot") - (version "1.0-3") - (source - (origin - (method url-fetch) - (uri (cran-uri "txtplot" version)) - (sha256 - (base32 - "1949ab1bzvysdb79g8x1gaknj0ih3d6g63pv9512h5m5l3a6c31h")))) - (build-system r-build-system) - (home-page "https://cran.r-project.org/web/packages/txtplot/") - (synopsis "Text-based plotting") - (description "This package provides functions to produce rudimentary ASCII -graphics directly in the terminal window. This package provides a basic -plotting function (and equivalents of curve, density, acf and barplot) as well -as a boxplot function.") - (license license:lgpl3+))) - (define-public python-rpy2 ;; We need to take this changeset instead of the RELEASE_3_0_4 tag, because ;; it fixes a regression when using ggplot 3.2.0. |