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Author SHA1 Message Date
Ricardo Wurmus b05caf7080
gnu: r-classint: Update to 0.4-3. 
* gnu/packages/cran.scm (r-classint): Update to 0.4-3.
[native-inputs]: Add r-knitr.
 2020-04-14 16:41:00 +02:00
Ricardo Wurmus 43594ac04a
gnu: r-lemon: Update to 0.4.4. 
* gnu/packages/cran.scm (r-lemon): Update to 0.4.4.
[propagated-inputs]: Add r-rlang.
 2020-04-14 16:40:59 +02:00
Ricardo Wurmus e1e73f6b0e
gnu: r-compositions: Update to 1.40-5. 
* gnu/packages/cran.scm (r-compositions): Update to 1.40-5.
 2020-04-14 16:40:59 +02:00
Ricardo Wurmus 96cda4517d
gnu: r-lmertest: Update to 3.1-2. 
* gnu/packages/cran.scm (r-lmertest): Update to 3.1-2.
 2020-04-14 16:40:59 +02:00
Ricardo Wurmus 708ef6247f
gnu: r-usethis: Update to 1.6.0. 
* gnu/packages/cran.scm (r-usethis): Update to 1.6.0.
[propagated-inputs]: Remove r-clisymbols; add r-cli and r-rematch2.
 2020-04-14 16:40:59 +02:00
Ricardo Wurmus 10ce5ca824
gnu: r-fs: Update to 1.4.1. 
* gnu/packages/cran.scm (r-fs): Update to 1.4.1.
 2020-04-14 16:40:59 +02:00
Ricardo Wurmus dceb9a702b
gnu: r-effectsize: Update to 0.3.0. 
* gnu/packages/cran.scm (r-effectsize): Update to 0.3.0.
[native-inputs]: Add r-knitr.
 2020-04-14 16:40:59 +02:00
Ricardo Wurmus 50df1d7b37
gnu: r-multcomp: Update to 1.4-13. 
* gnu/packages/cran.scm (r-multcomp): Update to 1.4-13.
 2020-04-14 16:40:59 +02:00
Ricardo Wurmus 4bfa2b2536
gnu: r-survey: Update to 4.0. 
* gnu/packages/cran.scm (r-survey): Update to 4.0.
 2020-04-14 16:40:59 +02:00
Ricardo Wurmus 7ab2b36ffb
gnu: r-sjmisc: Update to 2.8.4. 
* gnu/packages/cran.scm (r-sjmisc): Update to 2.8.4.
[native-inputs]: Add r-knitr.
 2020-04-14 16:40:59 +02:00
Ricardo Wurmus 3552a8dfe4
gnu: r-arules: Update to 1.6-5. 
* gnu/packages/cran.scm (r-arules): Update to 1.6-5.
 2020-04-14 16:40:59 +02:00
Ricardo Wurmus 3343ec5262
gnu: r-xfun: Update to 0.13. 
* gnu/packages/cran.scm (r-xfun): Update to 0.13.
[native-inputs]: Add comment about not adding r-knitr.
 2020-04-14 16:40:59 +02:00
Ricardo Wurmus f14664aa5f
gnu: r-rcpp: Update to 1.0.4.6. 
* gnu/packages/cran.scm (r-rcpp): Update to 1.0.4.6.
 2020-04-14 16:40:59 +02:00
Ricardo Wurmus 2e47488c72
gnu: r-lubridate: Update to 1.7.8. 
* gnu/packages/statistics.scm (r-lubridate): Update to 1.7.8.
[propagated-inputs]: Remove r-stringr; add r-generics.
[native-inputs]: Add r-knitr.
 2020-04-14 16:40:59 +02:00
Ricardo Wurmus b493e5aba8
gnu: r-cairo: Update to 1.5-12. 
* gnu/packages/statistics.scm (r-cairo): Update to 1.5-12.
 2020-04-14 16:40:58 +02:00
Ricardo Wurmus ec2b99c1f0
gnu: r-lme4: Update to 1.1-23. 
* gnu/packages/statistics.scm (r-lme4): Update to 1.1-23.
[native-inputs]: Add r-knitr.
[propagated-inputs]: Add r-statmod.
 2020-04-14 16:40:58 +02:00
Ricardo Wurmus 91108903bc
gnu: r-mclust: Update to 5.4.6. 
* gnu/packages/statistics.scm (r-mclust): Update to 5.4.6.
[native-inputs]: Add r-knitr.
 2020-04-14 16:40:58 +02:00
Ricardo Wurmus e470b9fa99
gnu: r-sfsmisc: Update to 1.1-6. 
* gnu/packages/statistics.scm (r-sfsmisc): Update to 1.1-6.
 2020-04-14 16:40:58 +02:00
Ricardo Wurmus 28e1e573cb
gnu: r-plotly: Update to 4.9.2.1. 
* gnu/packages/statistics.scm (r-plotly): Update to 4.9.2.1.
 2020-04-14 16:40:58 +02:00
Ricardo Wurmus 5269899aac
gnu: r-devtools: Update to 2.3.0. 
* gnu/packages/statistics.scm (r-devtools): Update to 2.3.0.
[native-inputs]: Add r-knitr.
 2020-04-14 16:40:58 +02:00
Ricardo Wurmus f3310342ac
gnu: r-backports: Update to 1.1.6. 
* gnu/packages/statistics.scm (r-backports): Update to 1.1.6.
 2020-04-14 16:40:58 +02:00
Ricardo Wurmus 1f08818752
gnu: r-xml2: Update to 1.3.1. 
* gnu/packages/statistics.scm (r-xml2): Update to 1.3.1.
 2020-04-14 16:40:58 +02:00
Ricardo Wurmus e872949f0d
gnu: r-gdtools: Update to 0.2.2. 
* gnu/packages/statistics.scm (r-gdtools): Update to 0.2.2.
 2020-04-14 16:40:58 +02:00
Ricardo Wurmus 3805ce3dba
gnu: r-reshape2: Update to 1.4.4. 
* gnu/packages/statistics.scm (r-reshape2): Update to 1.4.4.
 2020-04-14 16:40:58 +02:00
Ricardo Wurmus e78c54e7c6
gnu: r-survival: Update to 3.1-12. 
* gnu/packages/statistics.scm (r-survival): Update to 3.1-12.
 2020-04-14 16:40:58 +02:00
Ricardo Wurmus 14fd16ff83
gnu: r-nlme: Update to 3.1-147. 
* gnu/packages/statistics.scm (r-nlme): Update to 3.1-147.
 2020-04-14 16:40:58 +02:00
Jan (janneke) Nieuwenhuizen 22a98cda38
gnu: Add rkdeveloptool. 
* gnu/packages/hardware.scm (rkdeveloptool): New variable.
 2020-04-14 16:21:36 +02:00
Ludovic Courtès bd4c345ef7
doc: Improve anchor collection. 
This allows us to catch "operating_002dsystem-1", for instance.

* doc/build.scm (syntax-highlighted-html)[build](anchor-id->key): Drop
"-1" & co. from ID.
 2020-04-14 16:01:53 +02:00
Ludovic Courtès 4487e42cba
doc: Avoid invalid 'match' pattern in 'syntax-highlighted-html'. 
This is a followup to da9deba13d.

Last-minute modification of the 'match' pattern would lead to an error:

  "multiple ellipsis patterns not allowed at same level"

* doc/build.scm (syntax-highlighted-html)[build](collect-anchors):
Add 'worthy-entry?' procedure and use it instead of the unsupported
pattern for ('dt ...).
 2020-04-14 16:01:45 +02:00
Ludovic Courtès f37789a523
doc: Emit hyperlinks in HTML output for @lisp snippets. 
This makes it easier to jump to the definition of a procedure or
variable when looking at a code snippet.  There can be false-positive
because scoping rules are ignored, for example, but it should be a good
approximation.

* doc/build.scm (syntax-highlighted-html)[build](highlights->sxml*): Add
'anchors' parameter.  Add clause for ('symbol text).
(syntax-highlight): Add 'anchors' parameter.  Wrap body in named let and
use it in recursive calls.  Pass ANCHORS to 'highlights->sxml*'.
(underscore-decode, anchor-id->key, collect-anchors, html?): New procedures.
(process-file): Add 'anchors' parameter. and honor it.
Rewrite mono-node and multi-node HTML files separately.
 2020-04-14 16:01:39 +02:00
Ludovic Courtès 1ae7a9251b
weather: Delete duplicate entries coming from '--manifest'. 
* guix/scripts/weather.scm (load-manifest): Call 'delete-duplicates'.
 2020-04-14 16:01:05 +02:00
Ludovic Courtès bab1f340b3
maint: Ensure substitutes are available for '%default-xorg-modules'. 
* etc/release-manifest.scm (%system-packages): Append
%DEFAULT-XORG-MODULES.
 2020-04-14 16:01:05 +02:00
Ludovic Courtès 8e8d984fd6
maint: Actually check for the availablility of system packages. 
* etc/release-manifest.scm (%system-manifest): New variable.
<top level>: Add it in 'concatenate-manifests' call.
 2020-04-14 16:01:05 +02:00
Pierre Neidhardt 53c05faf18
gnu: Add moptilities. 
* gnu/packages/lisp-xyz.scm (cl-moptilities, sbcl-moptilities): New variables.
 2020-04-14 15:49:58 +02:00
Paul Garlick c0b158dff7
gnu: Add perl-authen-passphrase. 
* gnu/packages/perl.scm (perl-authen-passphrase): New variable.
 2020-04-14 14:41:40 +01:00
Paul Garlick 602fc1e5fa
gnu: Add perl-digest-md4. 
* gnu/packages/perl.scm (perl-digest-md4): New variable.
 2020-04-14 14:41:39 +01:00
Paul Garlick 77cf8b2c60
gnu: Add perl-crypt-des. 
* gnu/packages/perl.scm (perl-crypt-des): New variable.
 2020-04-14 14:41:38 +01:00
Paul Garlick 2aa17cef57
gnu: Add perl-crypt-cbc. 
* gnu/packages/perl.scm (perl-crypt-cbc): New variable.
 2020-04-14 14:41:37 +01:00
Paul Garlick ca6b80c7f9
gnu: Add perl-crypt-mysql. 
* gnu/packages/perl.scm (perl-crypt-mysql): New variable.
 2020-04-14 14:41:36 +01:00
Paul Garlick 5b660f9f32
gnu: Add perl-crypt-passwdmd5. 
* gnu/packages/perl.scm (perl-crypt-passwdmd5): New variable.
 2020-04-14 14:41:35 +01:00
Paul Garlick 61078f0f94
gnu: Add perl-crypt-unixcrypt_xs. 
* gnu/packages/perl.scm (perl-crypt-unixcrypt_xs): New variable.
 2020-04-14 14:41:26 +01:00
Pierre Neidhardt 7cb4c5211f
gnu: sbcl-cl-str: Update to 0.17. 
* gnu/packages/lisp-xyz.scm (sbcl-cl-str): Update to 0.17.
 2020-04-14 15:09:20 +02:00
Pierre Neidhardt df95189db6
gnu: Add cl-change-case. 
* gnu/packages/lisp-xyz.scm (cl-change-case, sbcl-cl-change-case): New
  variables.
 2020-04-14 15:09:20 +02:00
Florian Pelz 0ad60b2a89
installer: Only load uvesafb kernel module when needed. 
This is a follow-up to commit 557e6820a7.

* gnu/system/install.scm (uvesafb-shepherd-service): Check
that /dev/fb0 is not already present.
 2020-04-14 13:05:57 +00:00
Danny Milosavljevic 45c54093d5
gnu: xen: Update to 4.13.0. 
* gnu/packages/virtualization.scm (xen): Update to 4.13.0.
 2020-04-14 14:40:03 +02:00
Ricardo Wurmus fba62f8e92
gnu: pigx-chipseq: Update to 0.0.42. 
* gnu/packages/bioinformatics.scm (pigx-chipseq): Update to 0.0.42.
 2020-04-14 14:07:57 +02:00
Ludovic Courtès 2b29219370
nls: Update. 2020-04-14 13:01:58 +02:00
Ludovic Courtès 893651af3e
installer: Open manual in the selected language on tty2. 
Fixes <https://bugs.gnu.org/40624>.
Reported by Florian Pelz <pelzflorian@pelzflorian.de>.

Regression introduced in b5c2d93d7a.

* gnu/installer.scm (apply-locale): Remove 'lambda' around
'stop-service' and 'start-service' calls.
 2020-04-14 13:01:58 +02:00
Danny Milosavljevic 6177320d78
gnu: xen: Fix build failure. 
* gnu/packages/virtualization.scm (xen)[arguments]<#:phases>[set-environment-up]:
Use CPATH instead of C_INCLUDE_PATH, CPLUS_INCLUDE_PATH.
 2020-04-14 12:04:17 +02:00
Guillaume Le Vaillant acaeaa0a29
gnu: sbcl-ironclad: Update to 0.49. 
* gnu/packages/lisp-xyz.scm (sbcl-ironclad): Update to 0.49.
  [inputs]: Add trivial-garbage.
 2020-04-14 11:26:37 +02:00