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45426 commits

Author SHA1 Message Date
Vagrant Cascadian
bc685e1ca3
gnu: diffoscope: Add support for zstd compression. 
* gnu/packages/diffoscope (diffoscope)[native-inputs]: Add zstd.
  [arguments]: Add add-known-tools phase with support for zstd.
 2019-12-15 13:01:10 -08:00
Brett Gilio
5487ddac22
gnu: emacs-find-file-in-project: Update to 5.7.7. 
* gnu/packages/emacs-xyz.scm (emacs-find-file-in-project): Update to 5.7.7.
[arguments]: Modify tests to use ert.
 2019-12-15 14:58:18 -06:00
Brett Gilio
317cc18180
gnu: emacs-elfeed: Update to 3.3.0. 
* gnu/packages/emacs-xyz.scm (emacs-elfeed): Update to 3.3.0.
 2019-12-15 14:44:35 -06:00
Brett Gilio
e3c4fcaae3
gnu: emacs-org-trello: Update to 0.8.1. 
* gnu/packages/emacs-xyz.scm (emacs-org-trello): Update to 0.8.1.
 2019-12-15 14:33:08 -06:00
Brett Gilio
503f9aadc4
gnu: emacs-jedi: Update to 0.2.8. 
* gnu/packages/emacs-xyz.scm (emacs-jedi): Update to 0.2.8.
 2019-12-15 14:32:48 -06:00
Brett Gilio
0da921dce7
gnu: emacs-ob-ipython: Update to 20180224. 
* gnu/packages/emacs-xyz.scm (emacs-ob-ipython): Update to 20180224.
 2019-12-15 14:15:52 -06:00
Brett Gilio
1bd94e3a65
gnu: emacs-rich-minority: Update to 1.0.3. 
* gnu/packages/emacs-xyz.scm (emacs-rich-minority): Update to 1.0.3.
 2019-12-15 14:11:39 -06:00
Brett Gilio
44e7222bf7
gnu: emacs-paren-face: Update to 1.0.4. 
* gnu/packages/emacs-xyz.scm (emacs-paren-face): Update to 1.0.4.
 2019-12-15 14:09:25 -06:00
Brett Gilio
6694b67f4f
gnu: emacs-undercover: Update to 0.6.1. 
* gnu/packages/emacs-xyz.scm (emacs-undercover): Update to 0.6.1.
 2019-12-15 14:07:26 -06:00
Brett Gilio
12bf15ffe4
gnu: emacs-fill-column-indicator: Update to 1.90. 
* gnu/packages/emacs-xyz.scm (emacs-fill-column-indicator): Update to 1.90.
 2019-12-15 14:00:06 -06:00
Brett Gilio
00895524ec
gnu: emacs-direnv: Update to 2.0.0. 
* gnu/packages/emacs-xyz.scm (emacs-direnv): Update to 2.0.0.
 2019-12-15 13:52:58 -06:00
Brett Gilio
b425426236
gnu: emacs-async: Update to 1.9.4. 
* gnu/packages/emacs-xyz.scm (emacs-async): Update to 1.9.4.
 2019-12-15 13:50:19 -06:00
Brett Gilio
9a27551b39
gnu: emacs-doom-modeline: Update to 2.8.2. 
* gnu/packages/emacs-xyz.scm (emacs-doom-modeline): Update to 2.8.2.
 2019-12-15 13:43:46 -06:00
Vagrant Cascadian
6a65185ee4
gnu: diffoscope: Update to 133. 
* gnu/packages/diffoscope (diffoscope): Update to 133.
 2019-12-15 10:19:04 -08:00
Carlo Zancanaro
514001e9ce
gnu: abcl: Update to 1.6.0. 
* gnu/packages/java.scm (abcl): Update to 1.6.0.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2019-12-15 18:44:43 +02:00
Mathieu Othacehe
a13116b60c
gnu: texinfo: Add missing include. 
* gnu/packages/texinfo.scm (info-reader): Fix missing include, introduced by
f5d670606354728a453b8cc962c4f85516007d13.
 2019-12-15 17:11:18 +01:00
Pierre Neidhardt
97115892b9
gnu: Add theorafile. 
* gnu/packages/video.scm (theorafile): New variable.
 2019-12-15 16:21:19 +01:00
Mathieu Othacehe
614a1e3fa2
gnu: info-reader: Fix cross-compilation. 
* gnu/packages/texinfo.scm (info-reader)[arguments]: Add keep-only-info-reader
phase to inherited texinfo package phases, so that fix-cross-configure phase
is preserved.
 2019-12-15 15:48:15 +01:00
Ricardo Wurmus
6e10ac0780
gnu: r-destiny: Update to 3.0.0. 
* gnu/packages/bioconductor.scm (r-destiny): Update to 3.0.0.
[propagated-inputs]: Add r-ggplot-multistats, r-irlba, r-knn-covertree,
r-pcamethods, r-rcpphnsw, r-rspectra, r-singlecellexperiment, r-tidyr, and
r-tidyselect; remove r-igraph.
 2019-12-15 15:39:13 +01:00
Ricardo Wurmus
b4ee414880
gnu: r-siggenes: Update to 1.60.0. 
* gnu/packages/bioconductor.scm (r-siggenes): Update to 1.60.0.
 2019-12-15 15:39:13 +01:00
Ricardo Wurmus
4efdac562b
gnu: r-bumphunter: Update to 1.28.0. 
* gnu/packages/bioconductor.scm (r-bumphunter): Update to 1.28.0.
 2019-12-15 15:39:13 +01:00
Ricardo Wurmus
dfd4287cba
gnu: r-minfi: Update to 1.32.0. 
* gnu/packages/bioconductor.scm (r-minfi): Update to 1.32.0.
 2019-12-15 15:39:13 +01:00
Ricardo Wurmus
b57cffb974
gnu: r-methylumi: Update to 2.32.0. 
* gnu/packages/bioconductor.scm (r-methylumi): Update to 2.32.0.
 2019-12-15 15:39:13 +01:00
Ricardo Wurmus
8f7bc872e1
gnu: r-lumi: Update to 2.38.0. 
* gnu/packages/bioconductor.scm (r-lumi): Update to 2.38.0.
 2019-12-15 15:39:13 +01:00
Ricardo Wurmus
a2877d6970
gnu: r-linnorm: Update to 2.10.0. 
* gnu/packages/bioconductor.scm (r-linnorm): Update to 2.10.0.
 2019-12-15 15:39:12 +01:00
Ricardo Wurmus
1b890c3231
gnu: r-ioniser: Update to 2.10.0. 
* gnu/packages/bioconductor.scm (r-ioniser): Update to 2.10.0.
 2019-12-15 15:39:12 +01:00
Ricardo Wurmus
a18f325e0a
gnu: r-triform: Update to 1.28.0. 
* gnu/packages/bioconductor.scm (r-triform): Update to 1.28.0.
 2019-12-15 15:39:12 +01:00
Ricardo Wurmus
9b72bbf784
gnu: r-varianttools: Update to 1.28.0. 
* gnu/packages/bioconductor.scm (r-varianttools): Update to 1.28.0.
 2019-12-15 15:39:12 +01:00
Ricardo Wurmus
9f218627d6
gnu: r-heatplus: Update to 2.32.0. 
* gnu/packages/bioconductor.scm (r-heatplus): Update to 2.32.0.
 2019-12-15 15:39:12 +01:00
Ricardo Wurmus
c245ec3d49
gnu: r-gosemsim: Update to 2.12.0. 
* gnu/packages/bioconductor.scm (r-gosemsim): Update to 2.12.0.
 2019-12-15 15:39:12 +01:00
Ricardo Wurmus
5ed767521c
gnu: r-anota: Update to 1.34.0. 
* gnu/packages/bioconductor.scm (r-anota): Update to 1.34.0.
 2019-12-15 15:39:12 +01:00
Ricardo Wurmus
869965df1c
gnu: r-sigpathway: Update to 1.54.0. 
* gnu/packages/bioconductor.scm (r-sigpathway): Update to 1.54.0.
 2019-12-15 15:39:12 +01:00
Ricardo Wurmus
b4e1268c7b
gnu: r-fgsea: Update to 1.12.0. 
* gnu/packages/bioconductor.scm (r-fgsea): Update to 1.12.0.
 2019-12-15 15:39:12 +01:00
Ricardo Wurmus
166b3c2da6
gnu: r-dose: Update to 3.12.0. 
* gnu/packages/bioconductor.scm (r-dose): Update to 3.12.0.
 2019-12-15 15:39:12 +01:00
Ricardo Wurmus
0654a9bc3b
gnu: r-enrichplot: Update to 1.6.0. 
* gnu/packages/bioconductor.scm (r-enrichplot): Update to 1.6.0.
[propagated-inputs]: Remove r-upsetr.
 2019-12-15 15:39:11 +01:00
Ricardo Wurmus
08c01b7e0e
gnu: r-clusterprofiler: Update to 3.14.0. 
* gnu/packages/bioconductor.scm (r-clusterprofiler): Update to 3.14.0.
 2019-12-15 15:39:11 +01:00
Ricardo Wurmus
6374984a20
gnu: r-mlinterfaces: Update to 1.66.0. 
* gnu/packages/bioconductor.scm (r-mlinterfaces): Update to 1.66.0.
 2019-12-15 15:39:11 +01:00
Ricardo Wurmus
fc4a9dd579
gnu: r-annaffy: Update to 1.58.0. 
* gnu/packages/bioconductor.scm (r-annaffy): Update to 1.58.0.
 2019-12-15 15:39:11 +01:00
Ricardo Wurmus
4ed18ddc0f
gnu: r-a4core: Update to 1.34.0. 
* gnu/packages/bioconductor.scm (r-a4core): Update to 1.34.0.
 2019-12-15 15:39:11 +01:00
Ricardo Wurmus
102b982cbe
gnu: r-a4classif: Update to 1.34.0. 
* gnu/packages/bioconductor.scm (r-a4classif): Update to 1.34.0.
 2019-12-15 15:39:11 +01:00
Ricardo Wurmus
d6859c7c9b
gnu: r-a4preproc: Update to 1.34.0. 
* gnu/packages/bioconductor.scm (r-a4preproc): Update to 1.34.0.
 2019-12-15 15:39:11 +01:00
Ricardo Wurmus
977a7802c1
gnu: r-a4reporting: Update to 1.34.0. 
* gnu/packages/bioconductor.scm (r-a4reporting): Update to 1.34.0.
 2019-12-15 15:39:11 +01:00
Ricardo Wurmus
85c945aa97
gnu: r-a4base: Update to 1.34.0. 
* gnu/packages/bioconductor.scm (r-a4base): Update to 1.34.0.
 2019-12-15 15:39:11 +01:00
Ricardo Wurmus
344eb4c404
gnu: r-a4: Update to 1.34.0. 
* gnu/packages/bioconductor.scm (r-a4): Update to 1.34.0.
 2019-12-15 15:39:11 +01:00
Ricardo Wurmus
aef4b34669
gnu: r-abseqr: Update to 1.4.0. 
* gnu/packages/bioconductor.scm (r-abseqr): Update to 1.4.0.
 2019-12-15 15:39:10 +01:00
Ricardo Wurmus
32b471f4a7
gnu: r-bacon: Update to 1.14.0. 
* gnu/packages/bioconductor.scm (r-bacon): Update to 1.14.0.
 2019-12-15 15:39:10 +01:00
Ricardo Wurmus
6dfe5056c9
gnu: r-rgadem: Update to 2.34.0. 
* gnu/packages/bioconductor.scm (r-rgadem): Update to 2.34.0.
 2019-12-15 15:39:10 +01:00
Ricardo Wurmus
35a1b3ec4c
gnu: r-motiv: Update to 1.42.0. 
* gnu/packages/bioconductor.scm (r-motiv): Update to 1.42.0.
[propagated-inputs]: Add r-genomicranges.
 2019-12-15 15:39:10 +01:00
Ricardo Wurmus
dda936ca9a
gnu: r-motifstack: Update to 1.30.0. 
* gnu/packages/bioconductor.scm (r-motifstack): Update to 1.30.0.
[propagated-inputs]: Add r-ggplot2.
 2019-12-15 15:39:10 +01:00
Ricardo Wurmus
e89f16e646
gnu: r-genomicscores: Update to 1.10.0. 
* gnu/packages/bioconductor.scm (r-genomicscores): Update to 1.10.0.
 2019-12-15 15:39:10 +01:00