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43714 Commits

Author SHA1 Message Date
Ricardo Wurmus bc0e5bc12e
gnu: r-xvector: Update to 0.24.0. 
* gnu/packages/bioinformatics.scm (r-xvector): Update to 0.24.0.
 2019-05-06 00:14:32 +02:00
Ricardo Wurmus 5fadf39280
gnu: r-limma: Update to 3.40.0. 
* gnu/packages/bioinformatics.scm (r-limma): Update to 3.40.0.
 2019-05-06 00:14:32 +02:00
Ricardo Wurmus 0d094ad9ab
gnu: r-variantannotation: Update to 1.30.0. 
* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.30.0.
[propagated-inputs]: Add r-rhtslib.
 2019-05-06 00:14:32 +02:00
Ricardo Wurmus 1e3f53a489
gnu: r-edger: Update to 3.26.0. 
* gnu/packages/bioinformatics.scm (r-edger): Update to 3.26.0.
 2019-05-06 00:14:32 +02:00
Ricardo Wurmus 6dc05d0a86
gnu: r-genomeinfodb: Update to 1.20.0. 
* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.20.0.
 2019-05-06 00:14:32 +02:00
Ricardo Wurmus 38142114b7
gnu: r-iranges: Update to 2.18.0. 
* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.18.0.
 2019-05-06 00:14:32 +02:00
Ricardo Wurmus 192ddab3e5
gnu: r-s4vectors: Update to 0.22.0. 
* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.22.0.
 2019-05-06 00:14:31 +02:00
Ricardo Wurmus 8bdf7d55be
gnu: r-bioccheck: Update to 1.20.0. 
* gnu/packages/bioinformatics.scm (r-bioccheck): Update to 1.20.0.
 2019-05-06 00:14:31 +02:00
Ricardo Wurmus e01b72d225
gnu: r-biocstyle: Update to 2.12.0. 
* gnu/packages/bioinformatics.scm (r-biocstyle): Update to 2.12.0.
 2019-05-06 00:14:31 +02:00
Ricardo Wurmus 440af6482a
gnu: r-biocviews: Update to 1.52.0. 
* gnu/packages/bioinformatics.scm (r-biocviews): Update to 1.52.0.
 2019-05-06 00:14:31 +02:00
Ricardo Wurmus ce52cab000
gnu: r-grohmm: Update to 1.18.0. 
* gnu/packages/bioinformatics.scm (r-grohmm): Update to 1.18.0.
 2019-05-06 00:14:31 +02:00
Ricardo Wurmus 49f30903f0
gnu: r-shortread: Update to 1.42.0. 
* gnu/packages/bioinformatics.scm (r-shortread): Update to 1.42.0.
 2019-05-06 00:14:31 +02:00
Ricardo Wurmus fe40f55094
gnu: r-gostats: Update to 2.50.0. 
* gnu/packages/bioinformatics.scm (r-gostats): Update to 2.50.0.
 2019-05-06 00:14:30 +02:00
Ricardo Wurmus 4d88dbe6eb
gnu: r-category: Update to 2.50.0. 
* gnu/packages/bioinformatics.scm (r-category): Update to 2.50.0.
 2019-05-06 00:14:30 +02:00
Ricardo Wurmus 08d2a26d47
gnu: r-gseabase: Update to 1.46.0. 
* gnu/packages/bioinformatics.scm (r-gseabase): Update to 1.46.0.
 2019-05-06 00:14:30 +02:00
Ricardo Wurmus aa51a241c5
gnu: r-rbgl: Update to 1.60.0. 
* gnu/packages/bioinformatics.scm (r-rbgl): Update to 1.60.0.
[propagated-inputs]: Add r-bh.
 2019-05-06 00:14:30 +02:00
Ricardo Wurmus 7f737246d8
gnu: r-annotationforge: Update to 1.26.0. 
* gnu/packages/bioinformatics.scm (r-annotationforge): Update to 1.26.0.
 2019-05-06 00:14:30 +02:00
Ricardo Wurmus 0a58282de7
gnu: r-dexseq: Update to 1.30.0. 
* gnu/packages/bioinformatics.scm (r-dexseq): Update to 1.30.0.
 2019-05-06 00:14:30 +02:00
Ricardo Wurmus 9a39193d45
gnu: r-deseq2: Update to 1.24.0. 
* gnu/packages/bioinformatics.scm (r-deseq2): Update to 1.24.0.
 2019-05-06 00:14:30 +02:00
Ricardo Wurmus 0183163d1e
gnu: r-genefilter: Update to 1.66.0. 
* gnu/packages/bioinformatics.scm (r-genefilter): Update to 1.66.0.
 2019-05-06 00:14:29 +02:00
Ricardo Wurmus 295f35dfb9
gnu: r-preprocesscore: Update to 1.46.0. 
* gnu/packages/statistics.scm (r-preprocesscore): Update to 1.46.0.
 2019-05-06 00:14:29 +02:00
Ricardo Wurmus 52b4703c08
gnu: r-rgraphviz: Update to 2.28.0. 
* gnu/packages/graph.scm (r-rgraphviz): Update to 2.28.0.
 2019-05-06 00:14:29 +02:00
Ricardo Wurmus 3b13b6d777
gnu: r-units: Update to 0.6-3. 
* gnu/packages/cran.scm (r-units): Update to 0.6-3.
 2019-05-06 00:14:29 +02:00
Ricardo Wurmus 3961b3b900
gnu: Add r-dqrng. 
* gnu/packages/cran.scm (r-dqrng): New variable.
 2019-05-06 00:14:29 +02:00
Ricardo Wurmus b8d6dffbdd
gnu: Add r-sitmo. 
* gnu/packages/cran.scm (r-sitmo): New variable.
 2019-05-06 00:14:29 +02:00
Ricardo Wurmus 0c8960df13
gnu: Add r-clue. 
* gnu/packages/cran.scm (r-clue): New variable.
 2019-05-06 00:14:29 +02:00
Ricardo Wurmus be23c491cb
gnu: Add r-batchtools. 
* gnu/packages/cran.scm (r-batchtools): New variable.
 2019-05-06 00:14:28 +02:00
Ricardo Wurmus 04bf86ba9f
gnu: Add r-blme. 
* gnu/packages/cran.scm (r-blme): New variable.
 2019-05-06 00:14:28 +02:00
Ricardo Wurmus 2b9d4f5866
gnu: Add r-scrime. 
* gnu/packages/cran.scm (r-scrime): New variable.
 2019-05-06 00:14:28 +02:00
Ricardo Wurmus 78735b9f34
gnu: Add r-grimport2. 
* gnu/packages/cran.scm (r-grimport2): New variable.
 2019-05-06 00:14:28 +02:00
Ricardo Wurmus 8128189976
gnu: Add r-rcpphnsw. 
* gnu/packages/cran.scm (r-rcpphnsw): New variable.
 2019-05-06 00:14:28 +02:00
Ricardo Wurmus 993912905d
gnu: Add r-biocsingular. 
* gnu/packages/bioconductor.scm (r-biocsingular): New variable.
 2019-05-06 00:14:28 +02:00
Ricardo Wurmus 72032c9d5f
gnu: Add r-base64url. 
* gnu/packages/cran.scm (r-base64url): New variable.
 2019-05-06 00:14:27 +02:00
Ricardo Wurmus 6490cd31cc
guix: Update to Bioconductor 3.9. 
* guix/build-system/r.scm (bioconductor-uri): Use 3.9 archive URL.
* guix/import/cran.scm (%bioconductor-version): Update to 3.9.
 2019-05-06 00:14:27 +02:00
Miguel 123e424e95
doc: Fix typo. 
* doc/guix.texi (VM): Add missing dot.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-05 17:28:34 +02:00
Miguel 65e2a3bba0
doc: Fix typo. 
* doc/guix.texi (xfce-desktop-service-type): Fix sentence.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-05 17:24:03 +02:00
Miguel 5f026c1d52
doc: Fix typo. 
* doc/guix.texi (page-log@files-configuration@CUPS): "Page log" instead of
"access log".

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-05 17:23:42 +02:00
Miguel f096071266
doc: Fix typos. 
* doc/guix.texi (set-xorg-configuration): Add missing @code tag.
(error-log@files-configuration@CUPS): "Error log" instead of "access log".

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-05 17:23:04 +02:00
Miguel dd357acd93
doc: Fix typo. 
* doc/guix.texi (rsync-service-type): Add missing sentence.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-05 17:22:24 +02:00
Miguel 24f2d488f2
doc: Fix typo. 
* doc/guix.texi (openntpd-configuration): Fix spelling issues.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-05 17:22:08 +02:00
Miguel 890f4d29cc
doc: Fix typos. 
* doc/guix.texi (rakudo-build-system, libvirt-configuration,
pam-krb5): Missing period between sentences.
(gnu services vpn): Fix server spelling.
(agetty-configuration): Add missing subject in the sentence.
(udev-service): Fix markup for Scheme procedures.
({gnome,xfce,mate}-desktop-service): Add missing colon after default.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-05 17:21:48 +02:00
Miguel 28b26eca45
installer: Fix typo. 
* gnu/installer/newt/menu.scm (run-menu-page): Add missing space after
period.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-05 17:21:18 +02:00
Brendan Tildesley dcfa0acd7b
Correct email and license info for Brendan Tildesley. 
* gnu/packages/audio.scm: Correct email and license info.
* gnu/packages/ebook.scm: Correct email and license info.
* gnu/packages/fonts.scm: Correct email and license info.
* gnu/packages/freedesktop.scm: Correct email and license info.
* gnu/packages/gnome.scm: Correct email and license info.
* gnu/packages/linux.scm: Correct email and license info.
* gnu/packages/lxde.scm: Correct email and license info.
* gnu/packages/python-web.scm: Correct email and license info.
* gnu/packages/python-xyz.scm: Correct email and license info.
* gnu/packages/python.scm: Correct email and license info.
* gnu/packages/video.scm: Correct email and license info.
* gnu/packages/web.scm: Correct email and license info.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-05 17:16:51 +02:00
Danny Milosavljevic ee3ce0d71d
gnu: calibre: Update to 3.42.0. 
* gnu/packages/ebook.scm (calibre): Update to 3.42.0.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-05 14:44:21 +02:00
Brendan Tildesley 421c5e92f9
gnu: calibre: Shorten long line. 
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[build-extra]: Shorten long line.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-05 14:44:21 +02:00
Brendan Tildesley d6dfe8b634
gnu: calibre: Install man pages. 
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[install-man-pages]:
New phase.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-05 14:44:21 +02:00
Brendan Tildesley f3f017dbf0
gnu: calibre: Delete various junk from source. 
* gnu/packages/ebook.scm (calibre)[source](snippet): Delete various junk from
source.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-05 14:44:21 +02:00
Brendan Tildesley 62a97dc0fb
gnu: calibre: Remove libxrender as an input. 
* gnu/packages/ebook.scm (calibre)[inputs]: Remove libxrender.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-05 14:44:21 +02:00
Brendan Tildesley 68435a7f55
gnu: calibre: Unbundle python2-odfpy. 
* gnu/packages/ebook.scm (calibre)[snippet]: Remove all of src/odf.
[inputs]: Add python2-odfpy.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-05 14:44:21 +02:00
Brendan Tildesley 7312a7d073
gnu: calibre: Remove some comments. 
* gnu/packages/ebook.scm (calibre): There is no unrar in Guix currently, and
  pdftohtml is in poppler, so we can remove this comment.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2019-05-05 14:44:21 +02:00