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30814 Commits

Author SHA1 Message Date
Ricardo Wurmus cb9f404187
gnu: r-tinytex: Update to 0.5. 
* gnu/packages/cran.scm (r-tinytex): Update to 0.5.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 1d310349bb
gnu: r-xts: Update to 0.10-2. 
* gnu/packages/cran.scm (r-xts): Update to 0.10-2.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 2ab8cbcd1f
gnu: r-stringdist: Update to 0.9.4.7. 
* gnu/packages/cran.scm (r-stringdist): Update to 0.9.4.7.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 9ee81a36aa
gnu: r-prodlim: Update to 2018.04.18. 
* gnu/packages/cran.scm (r-prodlim): Update to 2018.04.18.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 3e00e3a885
gnu: r-lava: Update to 1.6.1. 
* gnu/packages/cran.scm (r-lava): Update to 1.6.1.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 9ebfdcd36c
gnu: r-rmpi: Update to 0.6-7. 
* gnu/packages/cran.scm (r-rmpi): Update to 0.6-7.
[native-inputs]: Add pkg-config.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus cf0da489ff
gnu: r-globaloptions: Update to 0.0.13. 
* gnu/packages/cran.scm (r-globaloptions): Update to 0.0.13.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 9f17c0560f
gnu: r-bindrcpp: Update to 0.2.2. 
* gnu/packages/cran.scm (r-bindrcpp): Update to 0.2.2.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus eb575e95fb
gnu: r-bindr: Update to 0.1.1. 
* gnu/packages/cran.scm (r-bindr): Update to 0.1.1.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus dfd7299957
gnu: r-rcpp: Update to 0.12.16. 
* gnu/packages/cran.scm (r-rcpp): Update to 0.12.16.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 0e94780446
gnu: r-plogr: Update to 0.2.0. 
* gnu/packages/cran.scm (r-plogr): Update to 0.2.0.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 1d612cefc8
gnu: r-readxl: Update to 1.1.0. 
* gnu/packages/cran.scm (r-readxl): Update to 1.1.0.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 41e8bd77f3
gnu: r-selectr: Update to 0.4-1. 
* gnu/packages/cran.scm (r-selectr): Update to 0.4-1.
[propagated-inputs]: Add r-r6.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus aeca5f0c5b
gnu: r-scran: Update to 1.6.9. 
* gnu/packages/bioinformatics.scm (r-scran): Update to 1.6.9.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 80323c3c13
gnu: r-hitc: Update to 1.22.1. 
* gnu/packages/bioinformatics.scm (r-hitc): Update to 1.22.1.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus b6d7deca55
gnu: r-ldblock: Update to 1.8.1. 
* gnu/packages/bioinformatics.scm (r-ldblock): Update to 1.8.1.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus fb1dcfac46
gnu: r-erma: Update to 0.10.1. 
* gnu/packages/bioinformatics.scm (r-erma): Update to 0.10.1.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 8defca1d94
gnu: r-gprofiler: Update to 0.6.6. 
* gnu/packages/bioinformatics.scm (r-gprofiler): Update to 0.6.6.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus fc6d3e2606
gnu: r-ggbio: Update to 1.26.1. 
* gnu/packages/bioinformatics.scm (r-ggbio): Update to 1.26.1.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 0bd5c7b859
gnu: r-genomicalignments: Update to 1.14.2. 
* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.14.2.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 4207770218
gnu: r-dexseq: Update to 1.24.4. 
* gnu/packages/bioinformatics.scm (r-dexseq): Update to 1.24.4.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 3db5d04ccc
gnu: r-vegan: Update to 2.5-1. 
* gnu/packages/bioinformatics.scm (r-vegan): Update to 2.5-1.
[propagated-inputs]: Add r-knitr.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 2ef5ab8749
gnu: r-mapproj: Update to 1.2.6. 
* gnu/packages/geo.scm (r-mapproj): Update to 1.2.6.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 5895f238d7
gnu: r-maps: Update to 3.3.0. 
* gnu/packages/geo.scm (r-maps): Update to 3.3.0.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 8cf7b28ffe
gnu: r-igraph: Update to 1.2.1. 
* gnu/packages/graph.scm (r-igraph): Update to 1.2.1.
[inputs]: Add glpk and zlib.
[propagated-inputs]: Remove r-irlba.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 2bcf5fd337
gnu: r-subplex: Update to 1.5-4. 
* gnu/packages/maths.scm (r-subplex): Update to 1.5-4.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 61c868e1f5
gnu: r-shinydashboard: Update to 0.7.0. 
* gnu/packages/web.scm (r-shinydashboard): Update to 0.7.0.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 4fe0efddfe
gnu: r-htmlwidgets: Update to 1.2. 
* gnu/packages/web.scm (r-htmlwidgets): Update to 1.2.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 75a40e89d9
gnu: r-lme4: Update to 1.1-17. 
* gnu/packages/statistics.scm (r-lme4): Update to 1.1-17.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 30d76d442a
gnu: r-futile-options: Update to 1.0.1. 
* gnu/packages/statistics.scm (r-futile-options): Update to 1.0.1.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 4184649940
gnu: r-xml: Update to . 
* gnu/packages/statistics.scm (r-xml): Update to .
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus ff91ed7d56
gnu: r-rsqlite: Update to 2.1.0. 
* gnu/packages/statistics.scm (r-rsqlite): Update to 2.1.0.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 1aa2ad5b32
gnu: r-survival: Update to 2.42-3. 
* gnu/packages/statistics.scm (r-survival): Update to 2.42-3.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus 6fa9cf1abb
gnu: r-nlme: Update to 3.1-137. 
* gnu/packages/statistics.scm (r-nlme): Update to 3.1-137.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus ac6672d539
gnu: r-cluster: Update to 2.0.7-1. 
* gnu/packages/statistics.scm (r-cluster): Update to 2.0.7-1.
 2018-04-21 23:07:52 +02:00
Ricardo Wurmus c43ea99b39
gnu: r-minimal: Update to 3.4.4. 
* gnu/packages/statistics.scm (r-minimal): Update to 3.4.4.
 2018-04-21 23:07:52 +02:00
Efraim Flashner 785f40dfbc
gnu: spindle: Limit supported systems. 
* gnu/packages/admin.scm (spindle)[supported-system]: New field.
 2018-04-21 23:25:42 +03:00
Efraim Flashner c80629e7c2
gnu: freefall: Fix compilation error. 
* gnu/packages/linux.scm (freefall)[arguments]: Add make-flag to set
CC=gcc.
 2018-04-21 23:04:25 +03:00
Tomáš Čech 841f833171
gnu: python-onetimepass: Make python-six a propagated input. 
* gnu/packages/python.scm (python-onetimepass)[inputs]: Move python-six from
here...
[propagated-inputs]: ...to here.
 2018-04-21 17:37:12 +02:00
Mark H Weaver 0ccb104354
gnu: go-github-com-vitrun-qart-qr: Remove duplicate 'description' field. 
* gnu/packages/syncthing.scm (go-github-com-vitrun-qart-qr)[description]:
Remove duplicate 'description' field.
 2018-04-21 05:29:53 -04:00
Mark H Weaver 6b2752526b
gnu: uget: Remove duplicate 'native-inputs' field. 
* gnu/packages/bittorrent.scm (uget)[native-inputs]: Remove duplicate
field initializer.
 2018-04-21 05:29:42 -04:00
Mark H Weaver 3fe49e5015
gnu: linux-libre@4.9: Update to 4.9.95. 
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.95.
 2018-04-21 03:02:57 -04:00
Tomáš Čech 9a58840235
gnu: Add osc. 
* gnu/packages/build-tools.scm (osc): New variable.
 2018-04-21 08:40:40 +02:00
Tomáš Čech 2f69121808
gnu: Add python-m2crypto, python2-m2crypto. 
* gnu/packages/python-crypto.scm (python-m2crypto): New variable.
(python2-m2crypto): New variable.
 2018-04-21 08:40:40 +02:00
Tomáš Čech c596461187
gnu: Add python2-urlgrabber. 
* gnu/packages/python-web (python2-urlgrabber): New variable.
 2018-04-21 08:40:40 +02:00
Tomáš Čech 15ed90b960
gnu: Add python-onetimepass. 
* gnu/packages/python.scm (python-onetimepass): New variable.
 2018-04-21 08:33:34 +02:00
Mark H Weaver b5178b3254
gnu: perl: Hack the replacement perl to think it is version 5.26.1. 
Fixes <https://bugs.gnu.org/31216>.

This is a followup to commits 217b8c2e06,
44b98b0002, and
35fbe194c3da264859a5addc661b9fbc2dc8ecc7.

Complications arise when grafting perl unless the version of the replacement
perl matches that of the original.  So, here we add 'perl/fixed', which is
built from the perl-5.26.2 source but hacked to believe it is version 5.26.1.

* gnu/packages/perl.scm (perl)[replacement]: Use perl/fixed, not perl-5.26.2.
(perl-5.26.2): Remove compatibility symlinks.
(perl/fixed): New variable.
 2018-04-21 01:17:44 -04:00
Mark H Weaver 5618193694
gnu: perl: Add more compatibility symlinks to the replacement perl. 
Fixes <https://bugs.gnu.org/31216>.
Reported by Julien Lepiller <julien@lepiller.eu>.

* gnu/packages/perl.scm (perl-5.26.2)[arguments]: Rename the
'workaround-grafting-version-bug' phase to 'install-compatibility-symlinks'.
Install symlinks in $out/lib/perl5/site_perl/5.26.1 and $out/bin/perl5.26.1,
in addition to $out/lib/perl5/5.26.1.  Simplify the code a bit.
 2018-04-20 23:29:14 -04:00
Arun Isaac b02b6f32a5
gnu: texlive-bin: Patch texlua shebangs. 
* gnu/packages/tex.scm (texlive-bin)[arguments]: Patch texlua shebangs in
postint phase.
 2018-04-21 00:19:33 +05:30
Arun Isaac a9fda571c3
gnu: texlive-bin: Use ghostscript executable "gs" in ps2eps. 
* gnu/packages/tex.scm (texlive-bin)[arguments]: Add fix-unix-detection phase.
Replace system* with invoke in postint phase.
 2018-04-21 00:19:15 +05:30