From 295f35dfb9fcc393e7c31b62f80eae8f9e8d3a02 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Sun, 5 May 2019 23:25:43 +0200 Subject: gnu: r-preprocesscore: Update to 1.46.0. * gnu/packages/statistics.scm (r-preprocesscore): Update to 1.46.0. --- gnu/packages/statistics.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index cb0bba5e1a..47b4bccd3d 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -4108,14 +4108,14 @@ hierarchical clustering dendrograms.") (define-public r-preprocesscore (package (name "r-preprocesscore") - (version "1.44.0") + (version "1.46.0") (source (origin (method url-fetch) (uri (bioconductor-uri "preprocessCore" version)) (sha256 (base32 - "0ijyjqi8mxxf350dhvgp36swwww5ag7ac9a6r6ymihc5syjr4w4j")))) + "0iiyn42hlvmc5vabg5x15mls11124i23sh4qijwk0narh438cqm0")))) (properties `((upstream-name . "preprocessCore"))) (build-system r-build-system) -- cgit v1.2.3 From 639334a9628c8d00b8c442be1c8fbb756271d395 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Mon, 6 May 2019 16:11:33 +0200 Subject: gnu: r-checkmate: Update to 1.9.3. * gnu/packages/statistics.scm (r-checkmate): Update to 1.9.3. --- gnu/packages/statistics.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 47b4bccd3d..b73a7abe85 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -2135,14 +2135,14 @@ R version.") (define-public r-checkmate (package (name "r-checkmate") - (version "1.9.1") + (version "1.9.3") (source (origin (method url-fetch) (uri (cran-uri "checkmate" version)) (sha256 (base32 - "1y4ylzn55kpyfpzcx9rxb9413d3ck6hair36ldl0ak61ia5kc75p")))) + "15ccwvmw73c2zz1k10k5zdn8px0rrbnvs1b4nzvlb0iwj7cimhp4")))) (build-system r-build-system) (propagated-inputs `(("r-backports" ,r-backports))) -- cgit v1.2.3 From 9d38b15b2ec3f7f533608dd430aae19b0f5cd329 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Sat, 11 May 2019 12:04:53 +0200 Subject: gnu: r-rversions: Update to 2.0.0. * gnu/packages/statistics.scm (r-rversions): Update to 2.0.0. --- gnu/packages/statistics.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index b73a7abe85..7c5fddb0a0 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -2072,13 +2072,13 @@ jackknifed confidence intervals are available for most estimates.") (define-public r-rversions (package (name "r-rversions") - (version "1.1.0") + (version "2.0.0") (source (origin (method url-fetch) (uri (cran-uri "rversions" version)) (sha256 (base32 - "0g4wvq6m9inhy6ww18lvkhkgarb1m9dp2kdxkkyk5qvldgqa598l")))) + "0mkg9zrjxlbwqzijiysivrs523x48syqj30xdfp88clpkqfk435m")))) (build-system r-build-system) (propagated-inputs `(("r-curl" ,r-curl) -- cgit v1.2.3 From bc4e1114f39b6943a57cd81d406b8aebef3757df Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Sat, 11 May 2019 12:05:00 +0200 Subject: gnu: r-dt: Update to 0.6. * gnu/packages/statistics.scm (r-dt): Update to 0.6. --- gnu/packages/statistics.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 7c5fddb0a0..b5fed64510 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -3161,13 +3161,13 @@ using the multicore functionality of the parallel package.") (define-public r-dt (package (name "r-dt") - (version "0.5") + (version "0.6") (source (origin (method url-fetch) (uri (cran-uri "DT" version)) (sha256 (base32 - "1s5d3sld4l8zygpkvprvlbqa0pm2cv1bm7h7p999wxlap28vnnqf")))) + "05kr88yshq6siarp5q7aapvsr63vx3p0aqablwgifn8m2sfqxmif")))) (properties `((upstream-name . "DT"))) (build-system r-build-system) -- cgit v1.2.3 From 2521bb1d7d76a8bdbaa777cda9c3359bb1216cfe Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Sat, 11 May 2019 12:05:06 +0200 Subject: gnu: r-sfsmisc: Update to 1.1-4. * gnu/packages/statistics.scm (r-sfsmisc): Update to 1.1-4. --- gnu/packages/statistics.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index b5fed64510..8bcc90f126 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -4154,14 +4154,14 @@ existing packages provide.") (define-public r-sfsmisc (package (name "r-sfsmisc") - (version "1.1-3") + (version "1.1-4") (source (origin (method url-fetch) (uri (cran-uri "sfsmisc" version)) (sha256 (base32 - "1y25nnw09qfm66523w1z4q766lv15a6ykvsq30r154n7m7aggvsq")))) + "0zaw617zarmwir8l60riky0z6r1j3mwfnm1f32vqcbljb74akdj4")))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/sfsmisc") (synopsis "Utilities from \"Seminar fuer Statistik\" ETH Zurich") -- cgit v1.2.3 From ee7e2ebf61480f0b33dd3945de0ff2b15bacb1b3 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Sat, 18 May 2019 06:46:56 +0200 Subject: gnu: r-svglite: Update to 1.2.2. * gnu/packages/statistics.scm (r-svglite): Update to 1.2.2. [native-inputs]: Move r-rcpp from here... [propagated-inputs]: ...to here. --- gnu/packages/statistics.scm | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 8bcc90f126..ed5a4b7923 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -1225,19 +1225,19 @@ and to generate base64 encoded string from raster matrix.") (define-public r-svglite (package (name "r-svglite") - (version "1.2.1") + (version "1.2.2") (source (origin (method url-fetch) (uri (cran-uri "svglite" version)) (sha256 (base32 - "1bws3lc4hlhln11zd7lalhiyc43yk6c6vrzy41fkxk1dkjazfx51")))) + "1gwv51wqp6pgm2f9gavsiq65njs77fr49n8y6y9ax60k3a4vvg14")))) (build-system r-build-system) - (native-inputs `(("r-rcpp" ,r-rcpp))) (propagated-inputs `(("r-bh" ,r-bh) - ("r-gdtools" ,r-gdtools))) + ("r-gdtools" ,r-gdtools) + ("r-rcpp" ,r-rcpp))) (home-page "https://github.com/hadley/svglite") (synopsis "SVG graphics device") (description -- cgit v1.2.3 From bf5320aaf58b2695390ed8a58f4ff43f54375e56 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Sat, 18 May 2019 06:47:26 +0200 Subject: gnu: r-nlme: Update to 3.1-140. * gnu/packages/statistics.scm (r-nlme): Update to 3.1-140. --- gnu/packages/statistics.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index ed5a4b7923..e0061ac6e4 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -586,14 +586,14 @@ and operations on them using LAPACK and SuiteSparse.") (define-public r-nlme (package (name "r-nlme") - (version "3.1-139") + (version "3.1-140") (source (origin (method url-fetch) (uri (cran-uri "nlme" version)) (sha256 (base32 - "0fap121c18nbznyzvnqvsdiszg2nbmkas6zhgrz1f8jiv1lzqq04")))) + "0k9x5j34fx093a023da9ny3b3101lbwpmfm27mkvfj950l22z88x")))) (build-system r-build-system) (propagated-inputs `(("r-lattice" ,r-lattice))) -- cgit v1.2.3 From 9a6da53fc7aa37623ee9d336e6992f25e9df0307 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Sat, 18 May 2019 06:47:33 +0200 Subject: gnu: r-dplyr: Update to 0.8.1. * gnu/packages/statistics.scm (r-dplyr): Update to 0.8.1. --- gnu/packages/statistics.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index e0061ac6e4..87d12101cc 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -1695,13 +1695,13 @@ and printing capabilities than traditional data frames.") (define-public r-dplyr (package (name "r-dplyr") - (version "0.8.0.1") + (version "0.8.1") (source (origin (method url-fetch) (uri (cran-uri "dplyr" version)) (sha256 (base32 - "0p6dbjrgqyklc67g53v1a5xdp9x2jpcsdcs6v3djf9d366fqh244")))) + "1nw12hzk1jcac5879nfmf1yp98jpb3i59qkb8sfpk2cd6zqgfgjz")))) (build-system r-build-system) (propagated-inputs `(("r-assertthat" ,r-assertthat) -- cgit v1.2.3 From 7762b5825f09ee5018064b59c1d18947b69907d0 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Sat, 18 May 2019 06:47:39 +0200 Subject: gnu: r-batchjobs: Update to 1.8. * gnu/packages/statistics.scm (r-batchjobs): Update to 1.8. --- gnu/packages/statistics.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 87d12101cc..145d6231e2 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -2201,14 +2201,14 @@ or source files in a key-value fashion.") (define-public r-batchjobs (package (name "r-batchjobs") - (version "1.7") + (version "1.8") (source (origin (method url-fetch) (uri (cran-uri "BatchJobs" version)) (sha256 (base32 - "035658marnw57p4f38g99rwmvmb6hpbq0fhlxp3qbw22zfnnkvs9")))) + "1zz4sspj596pijxlz321g0jy2rg9ki83j6fihbwisjwr66p2vk1m")))) (properties `((upstream-name . "BatchJobs"))) (build-system r-build-system) (propagated-inputs -- cgit v1.2.3 From 179a477cd746c2bd20cbc30e22b09dfcb0d751ec Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Sat, 18 May 2019 06:47:45 +0200 Subject: gnu: r-rcpparmadillo: Update to 0.9.400.3.0. * gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.9.400.3.0. --- gnu/packages/statistics.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 145d6231e2..2e2ce2353c 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -2596,13 +2596,13 @@ well as additional utilities such as panel and axis annotation functions.") (define-public r-rcpparmadillo (package (name "r-rcpparmadillo") - (version "0.9.400.2.0") + (version "0.9.400.3.0") (source (origin (method url-fetch) (uri (cran-uri "RcppArmadillo" version)) (sha256 (base32 - "01bf8jdlzndmqqzw16lpwx7zz1hkykd001dxxd9rzrgmn86f2xvs")))) + "1c0kmp54xgg67hxpqm8bibcxmmwljbdvm9p1d9wzirp83x86v4sn")))) (properties `((upstream-name . "RcppArmadillo"))) (build-system r-build-system) ;; All needed for vignettes -- cgit v1.2.3 From c5f6d1798c0fec4d45cd45dd97437ecd2fd53350 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Sat, 18 May 2019 06:48:03 +0200 Subject: gnu: r-segmented: Update to 0.5-4.0. * gnu/packages/statistics.scm (r-segmented): Update to 0.5-4.0. --- gnu/packages/statistics.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 2e2ce2353c..9136b75308 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -3003,14 +3003,14 @@ statements.") (define-public r-segmented (package (name "r-segmented") - (version "0.5-3.0") + (version "0.5-4.0") (source (origin (method url-fetch) (uri (cran-uri "segmented" version)) (sha256 (base32 - "0nrik5fyq59hwiwjcpbi4p5yfavgfjq6wyrynhkrbm4k6v1g1wlq")))) + "0wa0xjda2j33284jkp5hj1wdjysc5f4paj1s1lcixgawj4ckmxkz")))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/segmented") (synopsis "Regression models with breakpoints estimation") -- cgit v1.2.3 From b1b9212d1a56799027a6b2cd0056f433b12fd633 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Sat, 18 May 2019 06:48:10 +0200 Subject: gnu: r-hexbin: Update to 1.27.3. * gnu/packages/statistics.scm (r-hexbin): Update to 1.27.3. --- gnu/packages/statistics.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 9136b75308..59e44ea50f 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -3776,14 +3776,14 @@ and tidyr provides no margins or aggregation.") (define-public r-hexbin (package (name "r-hexbin") - (version "1.27.2") + (version "1.27.3") (source (origin (method url-fetch) (uri (cran-uri "hexbin" version)) (sha256 (base32 - "0lpfl0015lg5x7lvv9dr302bca22c7fs91pnd896ypgpzqg7pm26")))) + "14f181lw6sj5xhfxbrpyyinsjfl0nzqilq6z80lgrhj2cnkj593y")))) (build-system r-build-system) (propagated-inputs `(("r-lattice" ,r-lattice))) -- cgit v1.2.3 From 89428ef7fb6335e86bd5237362c54388bfb99c91 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Sat, 18 May 2019 06:48:15 +0200 Subject: gnu: r-ggthemes: Update to 4.2.0. * gnu/packages/statistics.scm (r-ggthemes): Update to 4.2.0. --- gnu/packages/statistics.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 59e44ea50f..5b346c6b7c 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -4443,13 +4443,13 @@ data at that region, and avoids over-plotting.") (define-public r-ggthemes (package (name "r-ggthemes") - (version "4.1.1") + (version "4.2.0") (source (origin (method url-fetch) (uri (cran-uri "ggthemes" version)) (sha256 (base32 - "092hks6bxi6al8nclgswnzfmx5wp6n3qf63aqiajca7dx8w8n0m2")))) + "0rrkzfggc1nlda1w1lbqdycx6nawxbkac1szhvkwrqlzh6agxcsv")))) (build-system r-build-system) (propagated-inputs `(("r-ggplot2" ,r-ggplot2) -- cgit v1.2.3 From b02a9602754b5956373aba740aa67d3a2554a25c Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Sat, 18 May 2019 06:48:21 +0200 Subject: gnu: r-robustbase: Update to 0.93-5. * gnu/packages/statistics.scm (r-robustbase): Update to 0.93-5. --- gnu/packages/statistics.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 5b346c6b7c..17c1d0051f 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -4817,14 +4817,14 @@ can be efficiently implemented directly in the R language.") (define-public r-robustbase (package (name "r-robustbase") - (version "0.93-4") + (version "0.93-5") (source (origin (method url-fetch) (uri (cran-uri "robustbase" version)) (sha256 (base32 - "1q56y0iqp7qhavm4xnpzhs64q7l893y7yiq3b20fllpghka077pa")))) + "0mkzbsjl5nihyj7mzks14p6kr3spp44xvygjz4ran11gspdn9rdx")))) (build-system r-build-system) (native-inputs `(("gfortran" ,gfortran))) -- cgit v1.2.3 From b9a7f9c06586e14590949bd7f73943ec94a0adc7 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Sat, 18 May 2019 06:48:27 +0200 Subject: gnu: r-sn: Update to 1.5-4. * gnu/packages/statistics.scm (r-sn): Update to 1.5-4. --- gnu/packages/statistics.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 17c1d0051f..9889d5ff9f 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -5396,14 +5396,14 @@ first and second order derivatives.") (define-public r-sn (package (name "r-sn") - (version "1.5-3") + (version "1.5-4") (source (origin (method url-fetch) (uri (cran-uri "sn" version)) (sha256 (base32 - "10via4lg0vx9pzq350vwhz5wv1dhzxr2l3r6jq99nk37vmyvj8fc")))) + "0x46gxkplxbnhaqbpiav1r4xlv4ib7n57kxmca7scqwj22y7wrs6")))) (build-system r-build-system) (propagated-inputs `(("r-mnormt" ,r-mnormt) -- cgit v1.2.3 From 36ac9edc205fa985146527cccaa001bc4879156f Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Mon, 20 May 2019 15:08:14 +0200 Subject: gnu: r-digest: Update to 0.6.19. * gnu/packages/statistics.scm (r-digest): Update to 0.6.19. --- gnu/packages/statistics.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 9889d5ff9f..42045b5ded 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -802,13 +802,13 @@ effects of different types of color-blindness.") (define-public r-digest (package (name "r-digest") - (version "0.6.18") + (version "0.6.19") (source (origin (method url-fetch) (uri (cran-uri "digest" version)) (sha256 - (base32 "0k3iv0r8wy8w7zchmgrnrqv3bc149075j4817kf0q521vi4f6vbj")))) + (base32 "1x6cbj9qvkk7pxv9xdqibazw3x8psjp6x0m0ildx1jwyb2ymkl98")))) (build-system r-build-system) ;; Vignettes require r-knitr, which requires r-digest, so we have to ;; disable them and the tests. -- cgit v1.2.3 From 87393c796e6d21864e602f26705d0a3b097a17de Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Mon, 20 May 2019 15:08:19 +0200 Subject: gnu: r-knitr: Update to 1.23. * gnu/packages/statistics.scm (r-knitr): Update to 1.23. --- gnu/packages/statistics.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 42045b5ded..fadda8ec43 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -1447,13 +1447,13 @@ emitter (http://pyyaml.org/wiki/LibYAML) for R.") (define-public r-knitr (package (name "r-knitr") - (version "1.22") + (version "1.23") (source (origin (method url-fetch) (uri (cran-uri "knitr" version)) (sha256 (base32 - "1iks80g1cj25rvgyf0y2jc2pmfvsq4sbgdp788w9016bk71wzdcs")))) + "16ba4258c915xydhniw4cw7fvv1vp4cnwd1w49ykx7zw00rznfq6")))) (build-system r-build-system) (propagated-inputs `(("r-evaluate" ,r-evaluate) -- cgit v1.2.3 From ce7a966295d541f4f804e9579ad99aba052c19c4 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Mon, 20 May 2019 15:08:24 +0200 Subject: gnu: r-glmnet: Update to 2.0-18. * gnu/packages/statistics.scm (r-glmnet): Update to 2.0-18. --- gnu/packages/statistics.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index fadda8ec43..f561c54199 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -3237,14 +3237,14 @@ analysis of large sparse or dense matrices.") (define-public r-glmnet (package (name "r-glmnet") - (version "2.0-16") + (version "2.0-18") (source (origin (method url-fetch) (uri (cran-uri "glmnet" version)) (sha256 (base32 - "1brr51z1fzbpyj6myyir4g6dhbp6xwl7nx4xnvrjarnf5y0csk55")))) + "0sr5akaiaab1sdh9c8gfmc4kp9b4vqhd90d9ig0rqpqhp3bykp78")))) (build-system r-build-system) (inputs `(("gfortran" ,gfortran))) -- cgit v1.2.3 From 91650aae6618818ae7d324ed5c46ba23617ec8aa Mon Sep 17 00:00:00 2001 From: Vagrant Cascadian Date: Wed, 22 May 2019 15:29:56 -0700 Subject: gnu: r-robustbase: Fix typo "This package". * gnu/packages/statistics (r-robustbase)[description]: Fix typo. --- gnu/packages/statistics.scm | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index f561c54199..2055fa168b 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -4833,7 +4833,7 @@ can be efficiently implemented directly in the R language.") (home-page "http://robustbase.r-forge.r-project.org/") (synopsis "Basic robust statistics") (description - "This packages allows to analyze data with robust methods such as + "This package allows to analyze data with robust methods such as regression methodology including model selections and multivariate statistics.") (license license:gpl2+))) -- cgit v1.2.3 From 0655fd421e3d25f1a1fad7e0b95ea8ae03daa8ee Mon Sep 17 00:00:00 2001 From: Vagrant Cascadian Date: Wed, 22 May 2019 15:31:03 -0700 Subject: gnu: r-sn: Fix typo "This package". * gnu/packages/ (r-sn)[description]: Fix typo. --- gnu/packages/statistics.scm | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 2055fa168b..277fb2b334 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -5411,7 +5411,7 @@ first and second order derivatives.") (home-page "http://azzalini.stat.unipd.it/SN") (synopsis "The skew-normal and skew-t distributions") (description - "This packages provides functionalities to build and manipulate + "This package provides functionalities to build and manipulate probability distributions of the skew-normal family and some related ones, notably the skew-t family, and provides related statistical methods for data fitting and diagnostics, in the univariate and the -- cgit v1.2.3 From 9d0c291e3e6d226cdfd4cebee0a389ad24fa748f Mon Sep 17 00:00:00 2001 From: Marius Bakke Date: Sun, 12 May 2019 22:56:54 +0200 Subject: gnu: Move Sphinx and friends to (gnu packages sphinx). * gnu/packages/python-xyz.scm (python-sphinxcontrib-websupport, python2-sphinxcontrib-websupport, python-sphinx, python2-sphinx, python-sphinx-gallery, python2-sphinx-gallery, python-sphinx-rtd-theme, python2-sphinx-rtd-theme, python-guzzle-sphinx-theme, python2-guzzle-sphinx-theme, python-sphinxcontrib-newsfeed, python-sphinxcontrib-programoutput, python2-sphinxcontrib-programoutput, python-sphinx-repoze-interface, python2-sphinx-repoze-interface, python-sphinx-cloud-sptheme, python2-sphinx-cloud-sptheme, python-sphinx-alabaster-theme, python2-sphinx-alabaster-theme, python-sphinx-me, python-sphinxcontrib-svg2pdfconverter): Move to ... (gnu): * gnu/packages/sphinx.scm: ... here. New file. * gnu/local.mk (GNU_SYSTEM_MODULES): Adjust accordingly. * gnu/packages/admin.scm, gnu/packages/bioinformatics.scm, gnu/packages/calendar.scm, gnu/packages/cluster.scm, gnu/packages/databases.scm, gnu/packages/dav.scm, gnu/packages/disk.scm, gnu/packages/django.scm, gnu/packages/elf.scm, gnu/packages/emacs-xyz.scm, gnu/packages/emulators.scm, gnu/packages/finance.scm, gnu/packages/image.scm, gnu/packages/libffi.scm, gnu/packages/mail.scm, gnu/packages/mpd.scm, gnu/packages/openstack.scm, gnu/packages/pdf.scm, gnu/packages/python-web.scm, gnu/packages/search.scm, gnu/packages/statistics.scm, gnu/packages/storage.scm, gnu/packages/sync.scm, gnu/packages/terminals.scm, gnu/packages/tls.scm, gnu/packages/web.scm: Adjust module imports. --- gnu/local.mk | 1 + gnu/packages/admin.scm | 1 + gnu/packages/bioinformatics.scm | 1 + gnu/packages/calendar.scm | 1 + gnu/packages/cluster.scm | 2 +- gnu/packages/databases.scm | 1 + gnu/packages/dav.scm | 3 +- gnu/packages/disk.scm | 1 + gnu/packages/django.scm | 1 + gnu/packages/elf.scm | 2 +- gnu/packages/emacs-xyz.scm | 1 + gnu/packages/emulators.scm | 2 +- gnu/packages/finance.scm | 1 + gnu/packages/image.scm | 1 + gnu/packages/libffi.scm | 1 + gnu/packages/mail.scm | 1 + gnu/packages/mpd.scm | 2 +- gnu/packages/openstack.scm | 1 + gnu/packages/pdf.scm | 1 + gnu/packages/python-web.scm | 1 + gnu/packages/python-xyz.scm | 328 +---------------------------------- gnu/packages/search.scm | 1 + gnu/packages/sphinx.scm | 369 ++++++++++++++++++++++++++++++++++++++++ gnu/packages/statistics.scm | 1 + gnu/packages/storage.scm | 1 + gnu/packages/sync.scm | 2 +- gnu/packages/terminals.scm | 1 + gnu/packages/tls.scm | 1 + gnu/packages/web.scm | 9 +- 29 files changed, 402 insertions(+), 337 deletions(-) create mode 100644 gnu/packages/sphinx.scm (limited to 'gnu/packages/statistics.scm') diff --git a/gnu/local.mk b/gnu/local.mk index f8366e6ce2..d0745b0056 100644 --- a/gnu/local.mk +++ b/gnu/local.mk @@ -434,6 +434,7 @@ GNU_SYSTEM_MODULES = \ %D%/packages/smalltalk.scm \ %D%/packages/sml.scm \ %D%/packages/speech.scm \ + %D%/packages/sphinx.scm \ %D%/packages/spice.scm \ %D%/packages/sqlite.scm \ %D%/packages/squirrel.scm \ diff --git a/gnu/packages/admin.scm b/gnu/packages/admin.scm index e509cdd3a8..75380be594 100644 --- a/gnu/packages/admin.scm +++ b/gnu/packages/admin.scm @@ -90,6 +90,7 @@ #:use-module (gnu packages python-web) #:use-module (gnu packages python-xyz) #:use-module (gnu packages qt) + #:use-module (gnu packages sphinx) #:use-module (gnu packages terminals) #:use-module (gnu packages texinfo) #:use-module (gnu packages groff) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 0a30d0921f..8aba7f1c5f 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -110,6 +110,7 @@ #:use-module (gnu packages ruby) #:use-module (gnu packages serialization) #:use-module (gnu packages shells) + #:use-module (gnu packages sphinx) #:use-module (gnu packages statistics) #:use-module (gnu packages swig) #:use-module (gnu packages tbb) diff --git a/gnu/packages/calendar.scm b/gnu/packages/calendar.scm index 2969228ee9..af692e59f2 100644 --- a/gnu/packages/calendar.scm +++ b/gnu/packages/calendar.scm @@ -40,6 +40,7 @@ #:use-module (gnu packages pkg-config) #:use-module (gnu packages python) #:use-module (gnu packages python-xyz) + #:use-module (gnu packages sphinx) #:use-module (gnu packages sqlite) #:use-module (gnu packages time) #:use-module (gnu packages xml) diff --git a/gnu/packages/cluster.scm b/gnu/packages/cluster.scm index 8d6669cd22..3608d67bed 100644 --- a/gnu/packages/cluster.scm +++ b/gnu/packages/cluster.scm @@ -24,7 +24,7 @@ #:use-module (guix packages) #:use-module (gnu packages linux) #:use-module (gnu packages pkg-config) - #:use-module (gnu packages python-xyz) + #:use-module (gnu packages sphinx) #:use-module (gnu packages texinfo) #:use-module (gnu packages tls)) diff --git a/gnu/packages/databases.scm b/gnu/packages/databases.scm index c7acc4281a..8a6e3ab00c 100644 --- a/gnu/packages/databases.scm +++ b/gnu/packages/databases.scm @@ -94,6 +94,7 @@ #:use-module (gnu packages readline) #:use-module (gnu packages ruby) #:use-module (gnu packages serialization) + #:use-module (gnu packages sphinx) #:use-module (gnu packages sqlite) #:use-module (gnu packages tcl) #:use-module (gnu packages terminals) diff --git a/gnu/packages/dav.scm b/gnu/packages/dav.scm index 0bb446bc3c..3b040028a1 100644 --- a/gnu/packages/dav.scm +++ b/gnu/packages/dav.scm @@ -26,7 +26,8 @@ #:use-module (gnu packages check) #:use-module (gnu packages python) #:use-module (gnu packages python-web) - #:use-module (gnu packages python-xyz)) + #:use-module (gnu packages python-xyz) + #:use-module (gnu packages sphinx)) (define-public radicale (package diff --git a/gnu/packages/disk.scm b/gnu/packages/disk.scm index 3211f8dd20..491f7ce881 100644 --- a/gnu/packages/disk.scm +++ b/gnu/packages/disk.scm @@ -57,6 +57,7 @@ #:use-module (gnu packages python) #:use-module (gnu packages python-xyz) #:use-module (gnu packages readline) + #:use-module (gnu packages sphinx) #:use-module (gnu packages sqlite) #:use-module (gnu packages swig) #:use-module (gnu packages vim) diff --git a/gnu/packages/django.scm b/gnu/packages/django.scm index c761a1061b..2ef50bd0f7 100644 --- a/gnu/packages/django.scm +++ b/gnu/packages/django.scm @@ -35,6 +35,7 @@ #:use-module (gnu packages python) #:use-module (gnu packages python-web) #:use-module (gnu packages python-xyz) + #:use-module (gnu packages sphinx) #:use-module (gnu packages time)) (define-public python-django diff --git a/gnu/packages/elf.scm b/gnu/packages/elf.scm index 99f49eb7a7..09be3a75a3 100644 --- a/gnu/packages/elf.scm +++ b/gnu/packages/elf.scm @@ -34,7 +34,7 @@ #:use-module (gnu packages m4) #:use-module (gnu packages pkg-config) #:use-module (gnu packages python) - #:use-module (gnu packages python-xyz) + #:use-module (gnu packages sphinx) #:use-module (gnu packages texinfo) #:use-module (gnu packages xml)) diff --git a/gnu/packages/emacs-xyz.scm b/gnu/packages/emacs-xyz.scm index 0dc14a4898..beb35c8122 100644 --- a/gnu/packages/emacs-xyz.scm +++ b/gnu/packages/emacs-xyz.scm @@ -125,6 +125,7 @@ #:use-module (gnu packages fontutils) #:use-module (gnu packages password-utils) #:use-module (gnu packages pulseaudio) + #:use-module (gnu packages sphinx) #:use-module (gnu packages xdisorg) #:use-module (gnu packages shells) #:use-module (gnu packages sqlite) diff --git a/gnu/packages/emulators.scm b/gnu/packages/emulators.scm index a237b0ee1a..23e5a976ce 100644 --- a/gnu/packages/emulators.scm +++ b/gnu/packages/emulators.scm @@ -65,9 +65,9 @@ #:use-module (gnu packages pkg-config) #:use-module (gnu packages pulseaudio) #:use-module (gnu packages python) - #:use-module (gnu packages python-xyz) #:use-module (gnu packages qt) #:use-module (gnu packages sdl) + #:use-module (gnu packages sphinx) #:use-module (gnu packages sqlite) #:use-module (gnu packages texinfo) #:use-module (gnu packages textutils) diff --git a/gnu/packages/finance.scm b/gnu/packages/finance.scm index 592e353723..e1a1e8ab6f 100644 --- a/gnu/packages/finance.scm +++ b/gnu/packages/finance.scm @@ -63,6 +63,7 @@ #:use-module (gnu packages python-xyz) #:use-module (gnu packages qt) #:use-module (gnu packages readline) + #:use-module (gnu packages sphinx) #:use-module (gnu packages texinfo) #:use-module (gnu packages textutils) #:use-module (gnu packages tls) diff --git a/gnu/packages/image.scm b/gnu/packages/image.scm index a86d0e749f..e3956394cc 100644 --- a/gnu/packages/image.scm +++ b/gnu/packages/image.scm @@ -68,6 +68,7 @@ #:use-module (gnu packages pkg-config) #:use-module (gnu packages python) #:use-module (gnu packages python-xyz) + #:use-module (gnu packages sphinx) #:use-module (gnu packages xml) #:use-module (gnu packages xorg) #:use-module (gnu packages qt) diff --git a/gnu/packages/libffi.scm b/gnu/packages/libffi.scm index f47f7623b4..c1d50ec314 100644 --- a/gnu/packages/libffi.scm +++ b/gnu/packages/libffi.scm @@ -32,6 +32,7 @@ #:use-module (gnu packages python) #:use-module (gnu packages python-xyz) #:use-module (gnu packages ruby) + #:use-module (gnu packages sphinx) #:use-module (guix build-system gnu) #:use-module (guix build-system python) #:use-module (guix build-system ruby)) diff --git a/gnu/packages/mail.scm b/gnu/packages/mail.scm index 1f54c34962..114ef32a9d 100644 --- a/gnu/packages/mail.scm +++ b/gnu/packages/mail.scm @@ -106,6 +106,7 @@ #:use-module (gnu packages serialization) #:use-module (gnu packages samba) #:use-module (gnu packages screen) + #:use-module (gnu packages sphinx) #:use-module (gnu packages sqlite) #:use-module (gnu packages tcl) #:use-module (gnu packages texinfo) diff --git a/gnu/packages/mpd.scm b/gnu/packages/mpd.scm index a6f6819d3e..f631dbd7c6 100644 --- a/gnu/packages/mpd.scm +++ b/gnu/packages/mpd.scm @@ -50,8 +50,8 @@ #:use-module (gnu packages pcre) #:use-module (gnu packages pkg-config) #:use-module (gnu packages python) - #:use-module (gnu packages python-xyz) #:use-module (gnu packages pulseaudio) + #:use-module (gnu packages sphinx) #:use-module (gnu packages sqlite) #:use-module (gnu packages video) #:use-module (gnu packages xiph)) diff --git a/gnu/packages/openstack.scm b/gnu/packages/openstack.scm index 2906a574cf..289b845ebc 100644 --- a/gnu/packages/openstack.scm +++ b/gnu/packages/openstack.scm @@ -28,6 +28,7 @@ #:use-module (gnu packages python-crypto) #:use-module (gnu packages python-web) #:use-module (gnu packages python-xyz) + #:use-module (gnu packages sphinx) #:use-module (gnu packages ssh) #:use-module (gnu packages time) #:use-module (gnu packages tls) diff --git a/gnu/packages/pdf.scm b/gnu/packages/pdf.scm index c1153cc0b7..5c858510eb 100644 --- a/gnu/packages/pdf.scm +++ b/gnu/packages/pdf.scm @@ -74,6 +74,7 @@ #:use-module (gnu packages python-xyz) #:use-module (gnu packages qt) #:use-module (gnu packages sdl) + #:use-module (gnu packages sphinx) #:use-module (gnu packages sqlite) #:use-module (gnu packages tls) #:use-module (gnu packages xdisorg) diff --git a/gnu/packages/python-web.scm b/gnu/packages/python-web.scm index a163014c47..5d37e171e4 100644 --- a/gnu/packages/python-web.scm +++ b/gnu/packages/python-web.scm @@ -62,6 +62,7 @@ #:use-module (gnu packages python) #:use-module (gnu packages python-crypto) #:use-module (gnu packages python-xyz) + #:use-module (gnu packages sphinx) #:use-module (gnu packages tls) #:use-module (gnu packages time) #:use-module (gnu packages web) diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm index e5f9f39694..7e180bf04b 100644 --- a/gnu/packages/python-xyz.scm +++ b/gnu/packages/python-xyz.scm @@ -125,6 +125,7 @@ #:use-module (gnu packages sdl) #:use-module (gnu packages search) #:use-module (gnu packages shells) + #:use-module (gnu packages sphinx) #:use-module (gnu packages ssh) #:use-module (gnu packages terminals) #:use-module (gnu packages tex) @@ -2504,174 +2505,6 @@ reStructuredText.") (define-public python2-pygments (package-with-python2 python-pygments)) -(define-public python-sphinxcontrib-websupport - (package - (name "python-sphinxcontrib-websupport") - (version "1.1.0") - (source (origin - (method url-fetch) - (uri (pypi-uri "sphinxcontrib-websupport" version)) - (sha256 - (base32 - "1ff3ix76xi1y6m99qxhaq5161ix9swwzydilvdya07mgbcvpzr4x")))) - (build-system python-build-system) - (arguments - ;; FIXME: Tests depend on Sphinx, which depends on this. - `(#:tests? #f)) - (home-page "http://sphinx-doc.org/") - (synopsis "Sphinx API for web applications") - (description "This package provides a Python API to easily integrate -Sphinx documentation into your web application. It provides tools to -integrate Sphinx documents in web templates and to handle searches.") - (license license:bsd-3))) - -(define-public python2-sphinxcontrib-websupport - (package-with-python2 python-sphinxcontrib-websupport)) - -(define-public python-sphinx - (package - (name "python-sphinx") - (version "1.7.7") - (source - (origin - (method url-fetch) - (uri (pypi-uri "Sphinx" version)) - (sha256 - (base32 - "0pkkbfj7cl157q550gcs45am5y78ps0h7q6455d64s1zmw01jlvi")))) - (build-system python-build-system) - (arguments - `(#:phases - (modify-phases %standard-phases - (replace 'check - (lambda _ - ;; Requires Internet access. - (delete-file "tests/test_build_linkcheck.py") - (substitute* "tests/test_build_latex.py" - (("@pytest.mark.sphinx\\('latex', testroot='images'\\)") - "@pytest.mark.skip()")) - (when (which "python") - ;; XXX: These tests are broken when using Python2: - ;; . - (delete-file "tests/test_api_translator.py") - (delete-file "tests/test_setup_command.py")) - (invoke "make" "test")))))) - (propagated-inputs - `(("python-imagesize" ,python-imagesize) - ("python-sphinx-alabaster-theme" - ,python-sphinx-alabaster-theme) - ("python-babel" ,python-babel) - ("python-snowballstemmer" ,python-snowballstemmer) - ("python-docutils" ,python-docutils) - ("python-jinja2" ,python-jinja2) - ("python-packaging" ,python-packaging) - ("python-pygments" ,python-pygments) - ("python-requests" ,python-requests) - ("python-six" ,python-six) - ("python-sphinxcontrib-websupport" ,python-sphinxcontrib-websupport))) - (native-inputs - `(("graphviz" ,graphviz) - ("imagemagick" ,imagemagick) ;for "convert" - ("python-html5lib" ,python-html5lib) - ("python-mock" ,python-mock) - ("python-nose" ,python-nose) - ("python-pytest" ,python-pytest))) - (home-page "http://sphinx-doc.org/") - (synopsis "Python documentation generator") - (description "Sphinx is a tool that makes it easy to create documentation -for Python projects or other documents consisting of multiple reStructuredText -sources.") - (license license:bsd-3) - (properties `((python2-variant . ,(delay python2-sphinx)))))) - -(define-public python2-sphinx - (let ((base (package-with-python2 (strip-python2-variant python-sphinx)))) - (package - (inherit base) - (native-inputs `(("python2-mock" ,python2-mock) - ("python2-enum34" ,python2-enum34) - ,@(package-native-inputs base))) - (propagated-inputs `(("python2-pytz" ,python2-pytz) - ("python2-typing" ,python2-typing) - ,@(package-propagated-inputs base)))))) - -(define-public python-sphinx-gallery - (package - (name "python-sphinx-gallery") - (version "0.1.13") - (source (origin - (method url-fetch) - (uri (string-append "https://github.com/sphinx-gallery/sphinx-gallery" - "/archive/v" version ".tar.gz")) - (file-name (string-append name "-" version ".tar.gz")) - (sha256 - (base32 - "03fs99mcb1r7qp0xixqv07vcz98sk21yq19ffdysi0infdcpzfkd")))) - (build-system python-build-system) - (arguments - ;; FIXME: Tests attempt to download , - ;; , and - ;; . - `(#:tests? #f)) - (native-inputs - `(("python-pytest-runner" ,python-pytest-runner))) - (home-page "https://sphinx-gallery.github.io/") - (synopsis "Generate an examples gallery automatically") - (description - "@code{sphinx_gallery} is a Sphinx extension that builds an HTML version -from any set of Python scripts and puts it into an examples gallery.") - (license license:bsd-3))) - -(define-public python2-sphinx-gallery - (package-with-python2 python-sphinx-gallery)) - -(define-public python-sphinx-rtd-theme - (package - (name "python-sphinx-rtd-theme") - (version "0.2.4") - (source - (origin - (method url-fetch) - (uri (pypi-uri "sphinx_rtd_theme" version)) - (sha256 - (base32 - "05rlhjzdyapr2w74jjs7mrm8hi69qskcr5vya9f9drpsys7lpxrd")))) - (build-system python-build-system) - (arguments '(#:tests? #f)) ; No tests. - (propagated-inputs - `(("python-sphinx" ,python-sphinx))) - (home-page "https://github.com/snide/sphinx_rtd_theme/") - (synopsis "ReadTheDocs.org theme for Sphinx") - (description "A theme for Sphinx used by ReadTheDocs.org.") - (license license:expat))) - -(define-public python2-sphinx-rtd-theme - (package-with-python2 python-sphinx-rtd-theme)) - -(define-public python-guzzle-sphinx-theme - (package - (name "python-guzzle-sphinx-theme") - (version "0.7.11") - (source - (origin - (method url-fetch) - (uri (pypi-uri "guzzle_sphinx_theme" version)) - (sha256 - (base32 - "1rnkzrrsbnifn3vsb4pfaia3nlvgvw6ndpxp7lzjrh23qcwid34v")))) - (build-system python-build-system) - (propagated-inputs - `(("python-sphinx" ,python-sphinx))) - (home-page "https://github.com/guzzle/guzzle_sphinx_theme") - (synopsis "Sphinx theme used by Guzzle") - (description "This package provides guzzle_sphinx_theme, a theme for the -Sphinx documentation system, used by @uref{http://docs.guzzlephp.org, Guzzle} -and several other projects.") - (license license:expat))) - -(define-public python2-guzzle-sphinx-theme - (package-with-python2 python-guzzle-sphinx-theme)) - (define-public python-bumpversion (package (name "python-bumpversion") @@ -8068,26 +7901,6 @@ files for use with Python.") (home-page "https://github.com/collective/icalendar") (license license:bsd-2))) -(define-public python-sphinxcontrib-newsfeed - (package - (name "python-sphinxcontrib-newsfeed") - (version "0.1.4") - (source (origin - (method url-fetch) - (uri (pypi-uri "sphinxcontrib-newsfeed" version)) - (sha256 - (base32 - "1d7gam3mn8v4in4p16yn3v10vps7nnaz6ilw99j4klij39dqd37p")))) - (arguments '(#:tests? #f)) ; No tests. - (build-system python-build-system) - (propagated-inputs - `(("python-sphinx" ,python-sphinx))) - (synopsis "News Feed extension for Sphinx") - (description "Sphinxcontrib-newsfeed is an extension for adding a simple -Blog, News or Announcements section to a Sphinx website.") - (home-page "https://bitbucket.org/prometheus/sphinxcontrib-newsfeed") - (license license:bsd-2))) - (define-public python-args (package (name "python-args") @@ -8887,56 +8700,6 @@ programmatically interfacing with your system's $EDITOR.") (define-public python2-editor (package-with-python2 python-editor)) -(define-public python-sphinxcontrib-programoutput - (package - (name "python-sphinxcontrib-programoutput") - (version "0.10") - (source (origin - (method url-fetch) - (uri (pypi-uri "sphinxcontrib-programoutput" version)) - (sha256 - (base32 - "153hhnlbx4688zj9wd64819ps5znc2jlyp5crkgzvn5hxgy99vpx")))) - (build-system python-build-system) - (arguments - ;; FIXME: Many tests are failing and the upstream is gone. - '(#:tests? #f)) - (propagated-inputs - `(("python-sphinx" ,python-sphinx))) - (synopsis "Sphinx extension to include program output") - (description "A Sphinx extension to literally insert the output of arbitrary -commands into documents, helping you to keep your command examples up to date.") - (home-page "https://github.com/lunaryorn/sphinxcontrib-programoutput") - (license license:bsd-2))) - -(define-public python2-sphinxcontrib-programoutput - (package-with-python2 python-sphinxcontrib-programoutput)) - -(define-public python-sphinx-repoze-autointerface - (package - (name "python-sphinx-repoze-autointerface") - (version "0.8") - (source (origin - (method url-fetch) - (uri (pypi-uri "repoze.sphinx.autointerface" version)) - (sha256 - (base32 - "08ycivzf7bh4a1zcyp31hbyqs1b2c9r26raa3vxjwwmbfqr3iw4f")))) - (build-system python-build-system) - (arguments '(#:tests? #f)) ; No tests. - (propagated-inputs - `(("python-sphinx" ,python-sphinx) - ("python-zope-interface" ,python-zope-interface))) - (synopsis "Auto-generate Sphinx API docs from Zope interfaces") - (description "This package defines an extension for the Sphinx documentation -system. The extension allows generation of API documentation by -introspection of @code{zope.interface} instances in code.") - (home-page "https://github.com/repoze/repoze.sphinx.autointerface") - (license license:repoze))) - -(define-public python2-sphinx-repoze-autointerface - (package-with-python2 python-sphinx-repoze-autointerface)) - (define-public python-vobject (package (name "python-vobject") @@ -10926,52 +10689,6 @@ English stemmer.") (define-public python2-snowballstemmer (package-with-python2 python-snowballstemmer)) -(define-public python-sphinx-cloud-sptheme - (package - (name "python-sphinx-cloud-sptheme") - (version "1.8.0") - (source (origin - (method url-fetch) - (uri (pypi-uri "cloud_sptheme" version)) - (sha256 - (base32 - "1dniqb6a39yh786f86c4jn666rwnyi1jvzn4616zhcchb7sfdshd")))) - (build-system python-build-system) - ;; FIXME: The 'pypi' release archive does not contain tests. - (arguments '(#:tests? #f)) - (native-inputs - `(("python-sphinx" ,python-sphinx))) - (home-page "https://bitbucket.org/ecollins/cloud_sptheme") - (synopsis "'Cloud' theme for Sphinx documenter") - (description "This package contains the \"Cloud\" theme for Sphinx and some -related extensions.") - (license license:bsd-3))) - -(define-public python2-sphinx-cloud-sptheme - (package-with-python2 python-sphinx-cloud-sptheme)) - -(define-public python-sphinx-alabaster-theme - (package - (name "python-sphinx-alabaster-theme") - (version "0.7.12") - (source (origin - (method url-fetch) - (uri (pypi-uri "alabaster" version)) - (sha256 - (base32 - "00nwwjj2d2ym4s2kk217x7jkx1hnczc3fvm8yxbqmsp6b0nxfqd6")))) - (build-system python-build-system) - (propagated-inputs - `(("python-pygments" ,python-pygments))) - (home-page "https://alabaster.readthedocs.io/") - (synopsis "Configurable sidebar-enabled Sphinx theme") - (description "Alabaster is a visually (c)lean, responsive, configurable -theme for the Sphinx documentation system. It's the default theme of Sphinx.") - (license license:bsd-3))) - -(define-public python2-sphinx-alabaster-theme - (package-with-python2 python-sphinx-alabaster-theme)) - (define-public python-setproctitle (package (name "python-setproctitle") @@ -12276,30 +11993,6 @@ make common patterns shorter and easier.") (define-public python2-utils (package-with-python2 python-utils)) -(define-public python-sphinx-me - (package - (name "python-sphinx-me") - (version "0.3") - (source - (origin - (method url-fetch) - (uri (pypi-uri "sphinx-me" version)) - (sha256 - (base32 - "06jzgp213zihnvpcy2y5jy3ykid3apc2ncp2pg6a2g05lhiziglq")))) - (build-system python-build-system) - (home-page "https://github.com/stephenmcd/sphinx-me") - (synopsis "Create a Sphinx documentation shell") - (description - "Create a Sphinx documentation shell for your project and include the -README file as the documentation index. It handles extracting the required -meta data such as the project name, author and version from your project for -use in your Sphinx docs.") - (license license:bsd-2))) - -(define-public python2-sphinx-me - (package-with-python2 python-sphinx-me)) - (define-public python-diff-match-patch (package (name "python-diff-match-patch") @@ -15678,25 +15371,6 @@ file-based data structures that are @code{mmap}ped into memory so that many processes may share the same data.") (license license:asl2.0))) -(define-public python-sphinxcontrib-svg2pdfconverter - (package - (name "python-sphinxcontrib-svg2pdfconverter") - (version "0.1.0") - (source (origin - (method url-fetch) - (uri (pypi-uri "sphinxcontrib-svg2pdfconverter" version)) - (sha256 - (base32 - "1abvbgkkii13q8nsb10r0gc5lm0p9iq1iwhfhakn5ifn6asa0183")))) - (build-system python-build-system) - (propagated-inputs - `(("python-sphinx" ,python-sphinx))) - (home-page "https://github.com/missinglinkelectronics/sphinxcontrib-svg2pdfconverter/releases") - (synopsis "Sphinx SVG to PDF converter extension") - (description "A Sphinx extension to convert SVG images to PDF in case the builder does not support -SVG images natively (e.g. LaTeX).") - (license license:bsd-3))) - (define-public python-pylzma (package (name "python-pylzma") diff --git a/gnu/packages/search.scm b/gnu/packages/search.scm index fe51900179..9b2876c359 100644 --- a/gnu/packages/search.scm +++ b/gnu/packages/search.scm @@ -41,6 +41,7 @@ #:use-module (gnu packages python) #:use-module (gnu packages python-web) #:use-module (gnu packages python-xyz) + #:use-module (gnu packages sphinx) #:use-module (gnu packages web) #:use-module (gnu packages xdisorg) #:use-module (gnu packages xml)) diff --git a/gnu/packages/sphinx.scm b/gnu/packages/sphinx.scm new file mode 100644 index 0000000000..28925a0492 --- /dev/null +++ b/gnu/packages/sphinx.scm @@ -0,0 +1,369 @@ +;;; GNU Guix --- Functional package management for GNU +;;; Copyright © 2014 David Thompson +;;; Copyright © 2015, 2017 Ricardo Wurmus +;;; Copyright © 2015, 2016, 2017 Leo Famulari +;;; Copyright © 2016 Hartmut Goebel +;;; Copyright © 2016, 2017, 2018, 2019 Marius Bakke +;;; Copyright © 2017 Danny Milosavljevic +;;; Copyright © 2017, 2018 Tobias Geerinckx-Rice +;;; Copyright © 2017 Frederick M. Muriithi +;;; Copyright © 2017 Christopher Allan Webber +;;; Copyright © 2017 Julien Lepiller +;;; Copyright © 2019 Efraim Flashner +;;; Copyright © 2019 Nicolas Goaziou +;;; +;;; This file is part of GNU Guix. +;;; +;;; GNU Guix is free software; you can redistribute it and/or modify it +;;; under the terms of the GNU General Public License as published by +;;; the Free Software Foundation; either version 3 of the License, or (at +;;; your option) any later version. +;;; +;;; GNU Guix is distributed in the hope that it will be useful, but +;;; WITHOUT ANY WARRANTY; without even the implied warranty of +;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the +;;; GNU General Public License for more details. +;;; +;;; You should have received a copy of the GNU General Public License +;;; along with GNU Guix. If not, see . + +(define-module (gnu packages sphinx) + #:use-module (guix packages) + #:use-module (guix download) + #:use-module (guix build-system python) + #:use-module ((guix licenses) #:prefix license:) + #:use-module (gnu packages) + #:use-module (gnu packages check) + #:use-module (gnu packages graphviz) + #:use-module (gnu packages image) + #:use-module (gnu packages imagemagick) + #:use-module (gnu packages python-web) + #:use-module (gnu packages python-xyz) + #:use-module (gnu packages time)) + +(define-public python-sphinx + (package + (name "python-sphinx") + (version "1.7.7") + (source + (origin + (method url-fetch) + (uri (pypi-uri "Sphinx" version)) + (sha256 + (base32 + "0pkkbfj7cl157q550gcs45am5y78ps0h7q6455d64s1zmw01jlvi")))) + (build-system python-build-system) + (arguments + `(#:phases + (modify-phases %standard-phases + (replace 'check + (lambda _ + ;; Requires Internet access. + (delete-file "tests/test_build_linkcheck.py") + (substitute* "tests/test_build_latex.py" + (("@pytest.mark.sphinx\\('latex', testroot='images'\\)") + "@pytest.mark.skip()")) + (when (which "python") + ;; XXX: These tests are broken when using Python2: + ;; . + (delete-file "tests/test_api_translator.py") + (delete-file "tests/test_setup_command.py")) + (invoke "make" "test")))))) + (propagated-inputs + `(("python-imagesize" ,python-imagesize) + ("python-sphinx-alabaster-theme" + ,python-sphinx-alabaster-theme) + ("python-babel" ,python-babel) + ("python-snowballstemmer" ,python-snowballstemmer) + ("python-docutils" ,python-docutils) + ("python-jinja2" ,python-jinja2) + ("python-packaging" ,python-packaging) + ("python-pygments" ,python-pygments) + ("python-requests" ,python-requests) + ("python-six" ,python-six) + ("python-sphinxcontrib-websupport" ,python-sphinxcontrib-websupport))) + (native-inputs + `(("graphviz" ,graphviz) + ("imagemagick" ,imagemagick) ;for "convert" + ("python-html5lib" ,python-html5lib) + ("python-mock" ,python-mock) + ("python-nose" ,python-nose) + ("python-pytest" ,python-pytest))) + (home-page "http://sphinx-doc.org/") + (synopsis "Python documentation generator") + (description "Sphinx is a tool that makes it easy to create documentation +for Python projects or other documents consisting of multiple reStructuredText +sources.") + (license license:bsd-3) + (properties `((python2-variant . ,(delay python2-sphinx)))))) + +(define-public python2-sphinx + (let ((base (package-with-python2 (strip-python2-variant python-sphinx)))) + (package + (inherit base) + (native-inputs `(("python2-mock" ,python2-mock) + ("python2-enum34" ,python2-enum34) + ,@(package-native-inputs base))) + (propagated-inputs `(("python2-pytz" ,python2-pytz) + ("python2-typing" ,python2-typing) + ,@(package-propagated-inputs base)))))) + +(define-public python-sphinxcontrib-newsfeed + (package + (name "python-sphinxcontrib-newsfeed") + (version "0.1.4") + (source (origin + (method url-fetch) + (uri (pypi-uri "sphinxcontrib-newsfeed" version)) + (sha256 + (base32 + "1d7gam3mn8v4in4p16yn3v10vps7nnaz6ilw99j4klij39dqd37p")))) + (arguments '(#:tests? #f)) ; No tests. + (build-system python-build-system) + (propagated-inputs + `(("python-sphinx" ,python-sphinx))) + (synopsis "News Feed extension for Sphinx") + (description "Sphinxcontrib-newsfeed is an extension for adding a simple +Blog, News or Announcements section to a Sphinx website.") + (home-page "https://bitbucket.org/prometheus/sphinxcontrib-newsfeed") + (license license:bsd-2))) + +(define-public python-sphinxcontrib-programoutput + (package + (name "python-sphinxcontrib-programoutput") + (version "0.10") + (source (origin + (method url-fetch) + (uri (pypi-uri "sphinxcontrib-programoutput" version)) + (sha256 + (base32 + "153hhnlbx4688zj9wd64819ps5znc2jlyp5crkgzvn5hxgy99vpx")))) + (build-system python-build-system) + (arguments + ;; FIXME: Many tests are failing and the upstream is gone. + '(#:tests? #f)) + (propagated-inputs + `(("python-sphinx" ,python-sphinx))) + (synopsis "Sphinx extension to include program output") + (description "A Sphinx extension to literally insert the output of arbitrary +commands into documents, helping you to keep your command examples up to date.") + (home-page "https://github.com/lunaryorn/sphinxcontrib-programoutput") + (license license:bsd-2))) + +(define-public python2-sphinxcontrib-programoutput + (package-with-python2 python-sphinxcontrib-programoutput)) + +(define-public python-sphinxcontrib-svg2pdfconverter + (package + (name "python-sphinxcontrib-svg2pdfconverter") + (version "0.1.0") + (source (origin + (method url-fetch) + (uri (pypi-uri "sphinxcontrib-svg2pdfconverter" version)) + (sha256 + (base32 + "1abvbgkkii13q8nsb10r0gc5lm0p9iq1iwhfhakn5ifn6asa0183")))) + (build-system python-build-system) + (propagated-inputs + `(("python-sphinx" ,python-sphinx))) + (home-page "https://github.com/missinglinkelectronics/sphinxcontrib-svg2pdfconverter/releases") + (synopsis "Sphinx SVG to PDF converter extension") + (description "A Sphinx extension to convert SVG images to PDF in case the builder does not support +SVG images natively (e.g. LaTeX).") + (license license:bsd-3))) + +(define-public python-sphinxcontrib-websupport + (package + (name "python-sphinxcontrib-websupport") + (version "1.1.0") + (source (origin + (method url-fetch) + (uri (pypi-uri "sphinxcontrib-websupport" version)) + (sha256 + (base32 + "1ff3ix76xi1y6m99qxhaq5161ix9swwzydilvdya07mgbcvpzr4x")))) + (build-system python-build-system) + (arguments + ;; FIXME: Tests depend on Sphinx, which depends on this. + `(#:tests? #f)) + (home-page "http://sphinx-doc.org/") + (synopsis "Sphinx API for web applications") + (description "This package provides a Python API to easily integrate +Sphinx documentation into your web application. It provides tools to +integrate Sphinx documents in web templates and to handle searches.") + (license license:bsd-3))) + +(define-public python2-sphinxcontrib-websupport + (package-with-python2 python-sphinxcontrib-websupport)) + +(define-public python-sphinx-gallery + (package + (name "python-sphinx-gallery") + (version "0.1.13") + (source (origin + (method url-fetch) + (uri (string-append "https://github.com/sphinx-gallery/sphinx-gallery" + "/archive/v" version ".tar.gz")) + (file-name (string-append name "-" version ".tar.gz")) + (sha256 + (base32 + "03fs99mcb1r7qp0xixqv07vcz98sk21yq19ffdysi0infdcpzfkd")))) + (build-system python-build-system) + (arguments + ;; FIXME: Tests attempt to download , + ;; , and + ;; . + `(#:tests? #f)) + (native-inputs + `(("python-pytest-runner" ,python-pytest-runner))) + (home-page "https://sphinx-gallery.github.io/") + (synopsis "Generate an examples gallery automatically") + (description + "@code{sphinx_gallery} is a Sphinx extension that builds an HTML version +from any set of Python scripts and puts it into an examples gallery.") + (license license:bsd-3))) + +(define-public python2-sphinx-gallery + (package-with-python2 python-sphinx-gallery)) + +(define-public python-sphinx-me + (package + (name "python-sphinx-me") + (version "0.3") + (source + (origin + (method url-fetch) + (uri (pypi-uri "sphinx-me" version)) + (sha256 + (base32 + "06jzgp213zihnvpcy2y5jy3ykid3apc2ncp2pg6a2g05lhiziglq")))) + (build-system python-build-system) + (home-page "https://github.com/stephenmcd/sphinx-me") + (synopsis "Create a Sphinx documentation shell") + (description + "Create a Sphinx documentation shell for your project and include the +README file as the documentation index. It handles extracting the required +meta data such as the project name, author and version from your project for +use in your Sphinx docs.") + (license license:bsd-2))) + +(define-public python2-sphinx-me + (package-with-python2 python-sphinx-me)) + +(define-public python-sphinx-repoze-autointerface + (package + (name "python-sphinx-repoze-autointerface") + (version "0.8") + (source (origin + (method url-fetch) + (uri (pypi-uri "repoze.sphinx.autointerface" version)) + (sha256 + (base32 + "08ycivzf7bh4a1zcyp31hbyqs1b2c9r26raa3vxjwwmbfqr3iw4f")))) + (build-system python-build-system) + (arguments '(#:tests? #f)) ; No tests. + (propagated-inputs + `(("python-sphinx" ,python-sphinx) + ("python-zope-interface" ,python-zope-interface))) + (synopsis "Auto-generate Sphinx API docs from Zope interfaces") + (description "This package defines an extension for the Sphinx documentation +system. The extension allows generation of API documentation by +introspection of @code{zope.interface} instances in code.") + (home-page "https://github.com/repoze/repoze.sphinx.autointerface") + (license license:repoze))) + +(define-public python2-sphinx-repoze-autointerface + (package-with-python2 python-sphinx-repoze-autointerface)) + +(define-public python-sphinx-alabaster-theme + (package + (name "python-sphinx-alabaster-theme") + (version "0.7.12") + (source (origin + (method url-fetch) + (uri (pypi-uri "alabaster" version)) + (sha256 + (base32 + "00nwwjj2d2ym4s2kk217x7jkx1hnczc3fvm8yxbqmsp6b0nxfqd6")))) + (build-system python-build-system) + (propagated-inputs + `(("python-pygments" ,python-pygments))) + (home-page "https://alabaster.readthedocs.io/") + (synopsis "Configurable sidebar-enabled Sphinx theme") + (description "Alabaster is a visually (c)lean, responsive, configurable +theme for the Sphinx documentation system. It's the default theme of Sphinx.") + (license license:bsd-3))) + +(define-public python2-sphinx-alabaster-theme + (package-with-python2 python-sphinx-alabaster-theme)) + +(define-public python-sphinx-cloud-sptheme + (package + (name "python-sphinx-cloud-sptheme") + (version "1.8.0") + (source (origin + (method url-fetch) + (uri (pypi-uri "cloud_sptheme" version)) + (sha256 + (base32 + "1dniqb6a39yh786f86c4jn666rwnyi1jvzn4616zhcchb7sfdshd")))) + (build-system python-build-system) + ;; FIXME: The 'pypi' release archive does not contain tests. + (arguments '(#:tests? #f)) + (native-inputs + `(("python-sphinx" ,python-sphinx))) + (home-page "https://bitbucket.org/ecollins/cloud_sptheme") + (synopsis "'Cloud' theme for Sphinx documenter") + (description "This package contains the \"Cloud\" theme for Sphinx and some +related extensions.") + (license license:bsd-3))) + +(define-public python2-sphinx-cloud-sptheme + (package-with-python2 python-sphinx-cloud-sptheme)) + +(define-public python-guzzle-sphinx-theme + (package + (name "python-guzzle-sphinx-theme") + (version "0.7.11") + (source + (origin + (method url-fetch) + (uri (pypi-uri "guzzle_sphinx_theme" version)) + (sha256 + (base32 + "1rnkzrrsbnifn3vsb4pfaia3nlvgvw6ndpxp7lzjrh23qcwid34v")))) + (build-system python-build-system) + (propagated-inputs + `(("python-sphinx" ,python-sphinx))) + (home-page "https://github.com/guzzle/guzzle_sphinx_theme") + (synopsis "Sphinx theme used by Guzzle") + (description "This package provides guzzle_sphinx_theme, a theme for the +Sphinx documentation system, used by @uref{http://docs.guzzlephp.org, Guzzle} +and several other projects.") + (license license:expat))) + +(define-public python2-guzzle-sphinx-theme + (package-with-python2 python-guzzle-sphinx-theme)) + +(define-public python-sphinx-rtd-theme + (package + (name "python-sphinx-rtd-theme") + (version "0.2.4") + (source + (origin + (method url-fetch) + (uri (pypi-uri "sphinx_rtd_theme" version)) + (sha256 + (base32 + "05rlhjzdyapr2w74jjs7mrm8hi69qskcr5vya9f9drpsys7lpxrd")))) + (build-system python-build-system) + (arguments '(#:tests? #f)) ; No tests. + (propagated-inputs + `(("python-sphinx" ,python-sphinx))) + (home-page "https://github.com/snide/sphinx_rtd_theme/") + (synopsis "ReadTheDocs.org theme for Sphinx") + (description "A theme for Sphinx used by ReadTheDocs.org.") + (license license:expat))) + +(define-public python2-sphinx-rtd-theme + (package-with-python2 python-sphinx-rtd-theme)) diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 277fb2b334..06f0aa1e75 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -66,6 +66,7 @@ #:use-module (gnu packages python) #:use-module (gnu packages python-xyz) #:use-module (gnu packages readline) + #:use-module (gnu packages sphinx) #:use-module (gnu packages ssh) #:use-module (gnu packages tcl) #:use-module (gnu packages tex) diff --git a/gnu/packages/storage.scm b/gnu/packages/storage.scm index 9e7cd10918..503433be10 100644 --- a/gnu/packages/storage.scm +++ b/gnu/packages/storage.scm @@ -47,6 +47,7 @@ #:use-module (gnu packages pkg-config) #:use-module (gnu packages python) #:use-module (gnu packages python-xyz) + #:use-module (gnu packages sphinx) #:use-module (gnu packages tls) #:use-module (gnu packages web) #:use-module (gnu packages xml)) diff --git a/gnu/packages/sync.scm b/gnu/packages/sync.scm index 136ffec9e7..51ed0317bc 100644 --- a/gnu/packages/sync.scm +++ b/gnu/packages/sync.scm @@ -37,11 +37,11 @@ #:use-module (gnu packages linux) #:use-module (gnu packages lua) #:use-module (gnu packages perl) - #:use-module (gnu packages python-xyz) #:use-module (gnu packages pkg-config) #:use-module (gnu packages qt) #:use-module (gnu packages rsync) #:use-module (gnu packages selinux) + #:use-module (gnu packages sphinx) #:use-module (gnu packages sqlite) #:use-module (gnu packages tls)) diff --git a/gnu/packages/terminals.scm b/gnu/packages/terminals.scm index 88bc992289..84454b2e0e 100644 --- a/gnu/packages/terminals.scm +++ b/gnu/packages/terminals.scm @@ -69,6 +69,7 @@ #:use-module (gnu packages python-xyz) #:use-module (gnu packages qt) #:use-module (gnu packages serialization) + #:use-module (gnu packages sphinx) #:use-module (gnu packages ssh) #:use-module (gnu packages textutils) #:use-module (gnu packages xdisorg) diff --git a/gnu/packages/tls.scm b/gnu/packages/tls.scm index 7642935960..bb82efba5d 100644 --- a/gnu/packages/tls.scm +++ b/gnu/packages/tls.scm @@ -59,6 +59,7 @@ #:use-module (gnu packages python-crypto) #:use-module (gnu packages python-web) #:use-module (gnu packages python-xyz) + #:use-module (gnu packages sphinx) #:use-module (gnu packages texinfo) #:use-module (gnu packages time) #:use-module (gnu packages base) diff --git a/gnu/packages/web.scm b/gnu/packages/web.scm index e5f824d0af..86109ab77a 100644 --- a/gnu/packages/web.scm +++ b/gnu/packages/web.scm @@ -74,6 +74,7 @@ #:use-module (gnu packages docbook) #:use-module (gnu packages autotools) #:use-module (gnu packages compression) + #:use-module (gnu packages curl) #:use-module (gnu packages cyrus-sasl) #:use-module (gnu packages databases) #:use-module (gnu packages bison) @@ -116,13 +117,13 @@ #:use-module (gnu packages pkg-config) #:use-module (gnu packages qt) #:use-module (gnu packages readline) - #:use-module (gnu packages valgrind) - #:use-module (gnu packages xml) - #:use-module (gnu packages curl) + #:use-module (gnu packages sphinx) #:use-module (gnu packages texinfo) #:use-module (gnu packages textutils) #:use-module (gnu packages tls) - #:use-module (gnu packages version-control)) + #:use-module (gnu packages valgrind) + #:use-module (gnu packages version-control) + #:use-module (gnu packages xml)) (define-public httpd (package -- cgit v1.2.3