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23127 Commits

Author SHA1 Message Date
Julien Lepiller 3bedac5057
gnu: Add cat-avatar-generator. 
* gnu/packages/web.scm (cat-avatar-generator): New variable.
 2018-02-14 23:15:16 +01:00
Tobias Geerinckx-Rice f2ba6fc8bb
gnu: yadifa: Update to 2.3.8. 
* gnu/packages/dns.scm (yadifa): Update to 2.3.8.
 2018-02-14 20:39:53 +01:00
Marius Bakke 1bd08a268a
gnu: strace: Update to 4.21. 
* gnu/packages/linux.scm (strace): Update to 4.21.
[source](uri): Releases are now served from GitHub.
 2018-02-14 20:23:19 +01:00
Marius Bakke 1a46a6d02d
gnu: fio: Update to 3.4. 
* gnu/packages/benchmark.scm (fio): Update to 3.4.
 2018-02-14 20:23:19 +01:00
Oleg Pykhalov ac07b94ab5
gnu: Add emacs-scratch-el. 
* gnu/packages/emacs.scm (emacs-scratch-el): New public variable.
 2018-02-14 15:54:26 +03:00
Mark H Weaver 5fe9ba59ba
gnu: magit: Do not set 'magit-git-executable' to absolute file name. 
Fixes <https://bugs.gnu.org/30434>.
Reported by Ricardo Wurmus <rekado@elephly.net>.

* gnu/packages/emacs.scm (magit)[arguments]: Do not modify the default value
of 'magit-git-executable'.  Remove "#:modules" and "#:imported-modules".
 2018-02-14 03:48:20 -05:00
Mark H Weaver c5971d473d
gnu: icecat: Add more fixes from upstream mozilla-esr52. 
* gnu/packages/gnuzilla.scm (icecat)[source]: Add selected fixes from the
upstream mozilla-esr52 repository.
 2018-02-13 19:53:35 -05:00
Marius Bakke 4af55f7657
gnu: freeipmi: Update to 1.6.1. 
* gnu/packages/freeipmi.scm (freeipmi): Update to 1.6.1.
 2018-02-13 23:52:39 +01:00
Danny Milosavljevic a32f9b59ab
system: make-u-boot-package: Install configuration file. 
* gnu/packages/bootloaders.scm (make-u-boot-package): Install configuration
file.
 2018-02-13 23:23:25 +01:00
Marius Bakke b2b2ba40c3
gnu: efivar: Update to 34. 
* gnu/packages/linux.scm (efivar): Update to 34.
[arguments]: Add CC_FOR_BUILD=gcc to #:make-flags.
 2018-02-13 23:02:03 +01:00
Marius Bakke 8b114e5bd9
gnu: feh: Update to 2.23.2. 
* gnu/packages/image-viewers.scm (feh): Update to 2.23.2.
 2018-02-13 23:02:03 +01:00
Ben Woodcroft 119c09c219
gnu: vsearch: Update to 2.7.0. 
* gnu/packages/bioinformatics.scm (vsearch): Update to 2.7.0.
 2018-02-14 07:43:19 +10:00
Efraim Flashner 34a7b7d713
gnu: libdvdnav@4: Remove variable. 
* gnu/packages/video.scm (libdvdnav@4): Remove variable.
 2018-02-13 22:56:51 +02:00
Efraim Flashner 0976ea38b1
gnu: libdvdnav: Update to 6.0.0. 
* gnu/packages/video.scm (libdvdnav): Update to 6.0.0.
 2018-02-13 22:56:50 +02:00
Efraim Flashner 3c9deb0b11
gnu: libdvdread: Update to 6.0.0. 
* gnu/packages/video.scm (libdvdread): Update to 6.0.0.
 2018-02-13 22:56:50 +02:00
Efraim Flashner 975c715a41
gnu: x265: Update to 2.6. 
* gnu/packages/video.scm (x265): Update to 2.6.
 2018-02-13 22:56:48 +02:00
Efraim Flashner 1373ce7ce0
gnu: ffmpeg: Update to 3.4.2. 
* gnu/packages/video.scm (ffmpeg): Update to 3.4.2.
 2018-02-13 22:56:44 +02:00
Leo Famulari 5c4fd60416
gnu: python-icalendar: Update to 4.0.1. 
* gnu/packages/python.scm (python-icalendar): Update to 4.0.1.
 2018-02-13 14:33:22 -05:00
Mark H Weaver acff6aa004
gnu: linux-libre: Update to 4.15.3. 
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.15.3.
(%linux-libre-hash): Update hash.
 2018-02-13 13:08:30 -05:00
Mark H Weaver 146be91dda
gnu: linux-libre@4.14: Update to 4.14.19. 
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.19.
(%linux-libre-4.14-hash): Update hash.
 2018-02-13 13:07:48 -05:00
Mark H Weaver 47b731b372
gnu: linux-libre@4.9: Update to 4.9.81. 
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.81.
 2018-02-13 13:06:28 -05:00
Ricardo Wurmus 117c83bdc7
gnu: r-htmltable: Update to 1.11.2. 
* gnu/packages/web.scm (r-htmltable): Update to 1.11.2.
[propagated-inputs]: Remove r-dplyr and r-tidyr.
 2018-02-13 16:18:45 +01:00
Ricardo Wurmus 7d358f33d8
gnu: r-htmlwidgets: Update to 1.0. 
* gnu/packages/web.scm (r-htmlwidgets): Update to 1.0.
 2018-02-13 16:18:45 +01:00
Ricardo Wurmus 1ee14481d2
gnu: r-lubridate: Update to 1.7.2. 
* gnu/packages/statistics.scm (r-lubridate): Update to 1.7.2.
 2018-02-13 16:18:45 +01:00
Ricardo Wurmus 4ff5fc6fa0
gnu: r-ranger: Update to 0.9.0. 
* gnu/packages/statistics.scm (r-ranger): Update to 0.9.0.
 2018-02-13 16:18:45 +01:00
Ricardo Wurmus f9ee1741f9
gnu: r-lme4: Update to 1.1-15. 
* gnu/packages/statistics.scm (r-lme4): Update to 1.1-15.
 2018-02-13 16:18:45 +01:00
Ricardo Wurmus 45ec40818b
gnu: r-quantreg: Update to 5.35. 
* gnu/packages/statistics.scm (r-quantreg): Update to 5.35.
 2018-02-13 16:18:45 +01:00
Ricardo Wurmus 725673ad6f
gnu: r-rcppeigen: Update to 0.3.3.4.0. 
* gnu/packages/statistics.scm (r-rcppeigen): Update to 0.3.3.4.0.
 2018-02-13 16:18:45 +01:00
Ricardo Wurmus c71cd58240
gnu: r-pbapply: Update to 1.3-4. 
* gnu/packages/statistics.scm (r-pbapply): Update to 1.3-4.
 2018-02-13 16:18:45 +01:00
Ricardo Wurmus f66a34fcc4
gnu: r-vgam: Update to 1.0-5. 
* gnu/packages/statistics.scm (r-vgam): Update to 1.0-5.
 2018-02-13 16:18:45 +01:00
Ricardo Wurmus 09da3d4403
gnu: r-fpc: Update to 2.1-11. 
* gnu/packages/statistics.scm (r-fpc): Update to 2.1-11.
 2018-02-13 16:18:45 +01:00
Ricardo Wurmus 23fb604725
gnu: r-pcapp: Update to 1.9-73. 
* gnu/packages/statistics.scm (r-pcapp): Update to 1.9-73.
 2018-02-13 16:18:45 +01:00
Ricardo Wurmus fe394eac82
gnu: r-zoo: Update to 1.8-1. 
* gnu/packages/statistics.scm (r-zoo): Update to 1.8-1.
 2018-02-13 16:18:45 +01:00
Ricardo Wurmus b216fdf21f
gnu: r-hmisc: Update to 4.1-1. 
* gnu/packages/statistics.scm (r-hmisc): Update to 4.1-1.
 2018-02-13 16:18:45 +01:00
Ricardo Wurmus c4f148ab0a
gnu: r-tidyr: Update to 0.8.0. 
* gnu/packages/statistics.scm (r-tidyr): Update to 0.8.0.
 2018-02-13 16:18:44 +01:00
Ricardo Wurmus be8db0a0ab
gnu: r-viridislite: Update to 0.3.0. 
* gnu/packages/statistics.scm (r-viridislite): Update to 0.3.0.
 2018-02-13 16:18:44 +01:00
Ricardo Wurmus 9604af890d
gnu: r-viridis: Update to 0.5.0. 
* gnu/packages/statistics.scm (r-viridis): Update to 0.5.0.
 2018-02-13 16:18:44 +01:00
Ricardo Wurmus a46c71924c
gnu: r-matrixstats: Update to 0.53.1. 
* gnu/packages/statistics.scm (r-matrixstats): Update to 0.53.1.
 2018-02-13 16:18:44 +01:00
Ricardo Wurmus e04b71a83b
gnu: r-mvtnorm: Update to 1.0-7. 
* gnu/packages/statistics.scm (r-mvtnorm): Update to 1.0-7.
 2018-02-13 16:18:44 +01:00
Ricardo Wurmus f7d7dd41f1
gnu: r-r-rsp: Update to 0.42.0. 
* gnu/packages/statistics.scm (r-r-rsp): Update to 0.42.0.
[propagated-inputs]: Add r-digest.
 2018-02-13 16:18:44 +01:00
Ricardo Wurmus 2cd6bb5da4
gnu: r-r-cache: Update to 0.13.0. 
* gnu/packages/statistics.scm (r-r-cache): Update to 0.13.0.
 2018-02-13 16:18:44 +01:00
Ricardo Wurmus 48237fde89
gnu: r-bigmemory: Update to 4.5.33. 
* gnu/packages/statistics.scm (r-bigmemory): Update to 4.5.33.
 2018-02-13 16:18:44 +01:00
Ricardo Wurmus a566b3f9e6
gnu: r-synchronicity: Update to 1.3.2. 
* gnu/packages/statistics.scm (r-synchronicity): Update to 1.3.2.
[propagated-inputs]: Add r-uuid.
 2018-02-13 16:18:44 +01:00
Ricardo Wurmus 8ff6853c13
gnu: r-irlba: Update to 2.3.2. 
* gnu/packages/statistics.scm (r-irlba): Update to 2.3.2.
 2018-02-13 16:18:44 +01:00
Ricardo Wurmus a63117c8ae
gnu: r-dt: Update to 0.4. 
* gnu/packages/statistics.scm (r-dt): Update to 0.4.
[propagated-inputs]: Add r-crosstalk.
 2018-02-13 16:18:44 +01:00
Ricardo Wurmus 1324f85b43
gnu: r-rprojroot: Update to 1.3-2. 
* gnu/packages/statistics.scm (r-rprojroot): Update to 1.3-2.
 2018-02-13 16:18:44 +01:00
Ricardo Wurmus edab1c049b
gnu: r-hms: Update to 0.4.1. 
* gnu/packages/statistics.scm (r-hms): Update to 0.4.1.
 2018-02-13 16:18:44 +01:00
Ricardo Wurmus 80f72101b4
gnu: r-withr: Update to 2.1.1. 
* gnu/packages/statistics.scm (r-withr): Update to 2.1.1.
[propagated-inputs]: Remove r-lattice.
 2018-02-13 16:18:44 +01:00
Ricardo Wurmus ecba783c29
gnu: r-git2r: Update to 0.21.0. 
* gnu/packages/statistics.scm (r-git2r): Update to 0.21.0.
 2018-02-13 16:18:44 +01:00
Ricardo Wurmus 9fb6e62ef5
gnu: r-openssl: Update to 1.0. 
* gnu/packages/statistics.scm (r-openssl): Update to 1.0.
 2018-02-13 16:18:44 +01:00
Ricardo Wurmus 78e03a761c
gnu: r-xml2: Update to 1.2.0. 
* gnu/packages/statistics.scm (r-xml2): Update to 1.2.0.
[native-inputs]: Add pkg-config.
[propagated-inputs]: Remove r-bh.
[inputs]: Add zlib.
 2018-02-13 16:18:43 +01:00
Ricardo Wurmus 2afbaab56c
gnu: r-chron: Update to 2.3-52. 
* gnu/packages/statistics.scm (r-chron): Update to 2.3-52.
 2018-02-13 16:18:43 +01:00
Ricardo Wurmus 172b63e436
gnu: r-dbplyr: Update to 1.2.0. 
* gnu/packages/statistics.scm (r-dbplyr): Update to 1.2.0.
[propagated-inputs]: Add r-tidyselect.
 2018-02-13 16:18:43 +01:00
Ricardo Wurmus 59b62f197d
gnu: r-tibble: Update to 1.4.2. 
* gnu/packages/statistics.scm (r-tibble): Update to 1.4.2.
[propagated-inputs]: Add r-cli, r-crayon, and r-pillar; remove r-rcpp.
 2018-02-13 16:18:43 +01:00
Ricardo Wurmus 7387d35228
gnu: r-rlang: Update to 0.1.6. 
* gnu/packages/statistics.scm (r-rlang): Update to 0.1.6.
 2018-02-13 16:18:43 +01:00
Ricardo Wurmus c36ac74005
gnu: r-microbenchmark: Update to 1.4-4. 
* gnu/packages/statistics.scm (r-microbenchmark): Update to 1.4-4.
[propagated-inputs]: Remove r-ggplot2.
 2018-02-13 16:18:43 +01:00
Ricardo Wurmus ab3330e174
gnu: r-knitr: Update to 1.19. 
* gnu/packages/statistics.scm (r-knitr): Update to 1.19.
[propagated-inputs]: Remove r-digest.
 2018-02-13 16:18:43 +01:00
Ricardo Wurmus d222070ad4
gnu: r-estimability: Update to 1.3. 
* gnu/packages/statistics.scm (r-estimability): Update to 1.3.
 2018-02-13 16:18:43 +01:00
Ricardo Wurmus 71d2f03be3
gnu: r-digest: Update to 0.6.15. 
* gnu/packages/statistics.scm (r-digest): Update to 0.6.15.
 2018-02-13 16:18:43 +01:00
Ricardo Wurmus ff1197c86e
gnu: r-rpart: Update to 4.1-12. 
* gnu/packages/statistics.scm (r-rpart): Update to 4.1-12.
 2018-02-13 16:18:43 +01:00
Ricardo Wurmus 6aa4be9c3c
gnu: r-mgcv: Update to 1.8-23. 
* gnu/packages/statistics.scm (r-mgcv): Update to 1.8-23.
 2018-02-13 16:18:43 +01:00
Ricardo Wurmus 4c9264c1b9
gnu: r-mass: Update to 7.3-48. 
* gnu/packages/statistics.scm (r-mass): Update to 7.3-48.
 2018-02-13 16:18:43 +01:00
Ricardo Wurmus 97bf74076c
gnu: r-gprofiler: Update to 0.6.3. 
* gnu/packages/bioinformatics.scm (r-gprofiler): Update to 0.6.3.
 2018-02-13 16:18:43 +01:00
Ricardo Wurmus 169942368f
gnu: r-ensembldb: Update to 2.2.1. 
* gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.2.1.
 2018-02-13 16:18:43 +01:00
Ricardo Wurmus 34d077b8bc
gnu: r-gage: Update to 2.28.2. 
* gnu/packages/bioinformatics.scm (r-gage): Update to 2.28.2.
 2018-02-13 16:18:43 +01:00
Ricardo Wurmus f5f9442703
gnu: r-keggrest: Update to 1.18.1. 
* gnu/packages/bioinformatics.scm (r-keggrest): Update to 1.18.1.
 2018-02-13 16:18:43 +01:00
Ricardo Wurmus 26e3e28cc9
gnu: r-seurat: Update to 2.2.0. 
* gnu/packages/bioinformatics.scm (r-seurat): Update to 2.2.0.
[propagated-inputs]: Remove r-ggjoy; add r-rcppeigen and r-ggridges.
 2018-02-13 16:18:42 +01:00
Ricardo Wurmus 53f0dea9d7
gnu: r-msnbase: Update to 2.4.2. 
* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.4.2.
 2018-02-13 16:18:42 +01:00
Ricardo Wurmus b1f2753627
gnu: r-methylkit: Update to 1.4.1. 
* gnu/packages/bioinformatics.scm (r-methylkit): Update to 1.4.1.
 2018-02-13 16:18:42 +01:00
Ricardo Wurmus 5ef76bc28c
gnu: r-gkmsvm: Update to 0.79.0. 
* gnu/packages/bioinformatics.scm (r-gkmsvm): Update to 0.79.0.
 2018-02-13 16:18:42 +01:00
Ricardo Wurmus 0b24dc95b5
gnu: r-wgcna: Update to 1.62. 
* gnu/packages/bioinformatics.scm (r-wgcna): Update to 1.62.
 2018-02-13 16:18:42 +01:00
Ricardo Wurmus e1129446ec
gnu: r-genomation: Update to 1.11.3. 
* gnu/packages/bioinformatics.scm (r-genomation): Update to 1.11.3.
 2018-02-13 16:18:42 +01:00
Ricardo Wurmus 0b18856532
gnu: r-genomicfeatures: Update to 1.30.3. 
* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.30.3.
 2018-02-13 16:18:42 +01:00
Ricardo Wurmus 99b3236e65
gnu: r-rtracklayer: Update to 1.38.3. 
* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.38.3.
 2018-02-13 16:18:42 +01:00
Ricardo Wurmus c37b361e44
gnu: r-summarizedexperiment: Update to 1.8.1. 
* gnu/packages/bioinformatics.scm (r-summarizedexperiment): Update to 1.8.1.
 2018-02-13 16:18:42 +01:00
Ricardo Wurmus 373430672d
gnu: r-biomart: Update to 2.34.2. 
* gnu/packages/bioinformatics.scm (r-biomart): Update to 2.34.2.
 2018-02-13 16:18:42 +01:00
Ricardo Wurmus 024f19c68b
gnu: r-genomicranges: Update to 1.30.1. 
* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.30.1.
 2018-02-13 16:18:42 +01:00
Ricardo Wurmus 0674657908
gnu: r-limma: Update to 3.34.8. 
* gnu/packages/bioinformatics.scm (r-limma): Update to 3.34.8.
 2018-02-13 16:18:42 +01:00
Ricardo Wurmus 5fb1fee67b
gnu: r-variantannotation: Update to 1.24.5. 
* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.24.5.
 2018-02-13 16:18:42 +01:00
Ricardo Wurmus d22abe1e5d
gnu: r-edger: Update to 3.20.8. 
* gnu/packages/bioinformatics.scm (r-edger): Update to 3.20.8.
 2018-02-13 16:18:42 +01:00
Ricardo Wurmus 66ae706c24
gnu: r-bookdown: Update to 0.6. 
* gnu/packages/bioinformatics.scm (r-bookdown): Update to 0.6.
[propagated-inputs]: Add r-xfun and ghc-pandoc.
 2018-02-13 16:18:42 +01:00
Ricardo Wurmus 2e9da3390c
gnu: r-vegan: Update to 2.4-6. 
* gnu/packages/bioinformatics.scm (r-vegan): Update to 2.4-6.
 2018-02-13 16:18:41 +01:00
Ricardo Wurmus 0f001b3c5a
gnu: r-drr: Update to 0.0.3. 
* gnu/packages/cran.scm (r-drr): Update to 0.0.3.
 2018-02-13 16:18:41 +01:00
Ricardo Wurmus 92e4534ca8
gnu: r-lava: Update to 1.6. 
* gnu/packages/cran.scm (r-lava): Update to 1.6.
[propagated-inputs]: Add r-squarem.
 2018-02-13 16:18:41 +01:00
Ricardo Wurmus 093acd0de1
gnu: r-sp: Update to 1.2-7. 
* gnu/packages/cran.scm (r-sp): Update to 1.2-7.
 2018-02-13 16:18:41 +01:00
Ricardo Wurmus de1c0332d9
gnu: r-proxy: Update to 0.4-21. 
* gnu/packages/cran.scm (r-proxy): Update to 0.4-21.
 2018-02-13 16:18:41 +01:00
Ricardo Wurmus e30b878ec8
gnu: r-hexbin: Update to 1.27.2. 
* gnu/packages/statistics.scm (r-hexbin): Update to 1.27.2.
 2018-02-13 16:18:41 +01:00
Ricardo Wurmus 64fe220cbe
gnu: r-dendextend: Update to 1.7.0. 
* gnu/packages/cran.scm (r-dendextend): Update to 1.7.0.
 2018-02-13 16:18:41 +01:00
Ricardo Wurmus cb471b7eaa
gnu: r-ddalpha: Update to 1.3.1.1. 
* gnu/packages/cran.scm (r-ddalpha): Update to 1.3.1.1.
 2018-02-13 16:18:41 +01:00
Ricardo Wurmus 1d13426bed
gnu: r-recipes: Update to 0.1.2. 
* gnu/packages/cran.scm (r-recipes): Update to 0.1.2.
 2018-02-13 16:18:41 +01:00
Ricardo Wurmus 637584253f
gnu: r-pracma: Update to 2.1.4. 
* gnu/packages/maths.scm (r-pracma): Update to 2.1.4.
 2018-02-13 16:18:41 +01:00
Ricardo Wurmus 1c7919251a
gnu: Add r-uuid. 
* gnu/packages/cran.scm (r-uuid): New variable.
 2018-02-13 16:18:41 +01:00
Ricardo Wurmus c555ccabcf
gnu: Add r-pillar. 
* gnu/packages/cran.scm (r-pillar): New variable.
 2018-02-13 16:18:41 +01:00
Ricardo Wurmus f244296822
gnu: Add r-utf8. 
* gnu/packages/cran.scm (r-utf8): New variable.
 2018-02-13 16:18:41 +01:00
Ricardo Wurmus c5f033e0f6
gnu: Add r-squarem. 
* gnu/packages/cran.scm (r-squarem): New variable.
 2018-02-13 16:18:41 +01:00
Ricardo Wurmus fe5b889365
gnu: r-shape: Update to 1.4.4. 
* gnu/packages/cran.scm (r-shape): Update to 1.4.4.
 2018-02-13 16:18:41 +01:00
Ricardo Wurmus 33d8699da5
gnu: r-rcpp: Update to 0.12.15. 
* gnu/packages/cran.scm (r-rcpp): Update to 0.12.15.
 2018-02-13 16:18:41 +01:00
Ricardo Wurmus f6d2b45ca8
gnu: Add r-xfun. 
* gnu/packages/cran.scm (r-xfun): New variable.
 2018-02-13 16:18:41 +01:00
Leo Famulari 77737e0354
gnu: unzip: Mitigate CVE-2018-1000035. 
* gnu/packages/compression.scm (unzip)[replacement]: New field.
(unzip/fixed): New variable.
 2018-02-13 09:51:07 -05:00
Ricardo Wurmus ad5de226e7
gnu: Add ghc-megaparsec. 
* gnu/packages/haskell.scm (ghc-megaparsec): New variable.
 2018-02-13 13:37:41 +01:00