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2019-05-06gnu: r-s4vectors: Update to 0.22.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.22.0.
2019-05-06gnu: r-bioccheck: Update to 1.20.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-bioccheck): Update to 1.20.0.
2019-05-06gnu: r-biocstyle: Update to 2.12.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-biocstyle): Update to 2.12.0.
2019-05-06gnu: r-biocviews: Update to 1.52.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-biocviews): Update to 1.52.0.
2019-05-06gnu: r-grohmm: Update to 1.18.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-grohmm): Update to 1.18.0.
2019-05-06gnu: r-shortread: Update to 1.42.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-shortread): Update to 1.42.0.
2019-05-06gnu: r-gostats: Update to 2.50.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-gostats): Update to 2.50.0.
2019-05-06gnu: r-category: Update to 2.50.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-category): Update to 2.50.0.
2019-05-06gnu: r-gseabase: Update to 1.46.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-gseabase): Update to 1.46.0.
2019-05-06gnu: r-rbgl: Update to 1.60.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-rbgl): Update to 1.60.0. [propagated-inputs]: Add r-bh.
2019-05-06gnu: r-annotationforge: Update to 1.26.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-annotationforge): Update to 1.26.0.
2019-05-06gnu: r-dexseq: Update to 1.30.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-dexseq): Update to 1.30.0.
2019-05-06gnu: r-deseq2: Update to 1.24.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-deseq2): Update to 1.24.0.
2019-05-06gnu: r-genefilter: Update to 1.66.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-genefilter): Update to 1.66.0.
2019-05-06gnu: r-preprocesscore: Update to 1.46.0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-preprocesscore): Update to 1.46.0.
2019-05-06gnu: r-rgraphviz: Update to 2.28.0.Ricardo Wurmus
* gnu/packages/graph.scm (r-rgraphviz): Update to 2.28.0.
2019-05-06gnu: r-units: Update to 0.6-3.Ricardo Wurmus
* gnu/packages/cran.scm (r-units): Update to 0.6-3.
2019-05-06gnu: Add r-dqrng.Ricardo Wurmus
* gnu/packages/cran.scm (r-dqrng): New variable.
2019-05-06gnu: Add r-sitmo.Ricardo Wurmus
* gnu/packages/cran.scm (r-sitmo): New variable.
2019-05-06gnu: Add r-clue.Ricardo Wurmus
* gnu/packages/cran.scm (r-clue): New variable.
2019-05-06gnu: Add r-batchtools.Ricardo Wurmus
* gnu/packages/cran.scm (r-batchtools): New variable.
2019-05-06gnu: Add r-blme.Ricardo Wurmus
* gnu/packages/cran.scm (r-blme): New variable.
2019-05-06gnu: Add r-scrime.Ricardo Wurmus
* gnu/packages/cran.scm (r-scrime): New variable.
2019-05-06gnu: Add r-grimport2.Ricardo Wurmus
* gnu/packages/cran.scm (r-grimport2): New variable.
2019-05-06gnu: Add r-rcpphnsw.Ricardo Wurmus
* gnu/packages/cran.scm (r-rcpphnsw): New variable.
2019-05-06gnu: Add r-biocsingular.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-biocsingular): New variable.
2019-05-06gnu: Add r-base64url.Ricardo Wurmus
* gnu/packages/cran.scm (r-base64url): New variable.
2019-05-06guix: Update to Bioconductor 3.9.Ricardo Wurmus
* guix/build-system/r.scm (bioconductor-uri): Use 3.9 archive URL. * guix/import/cran.scm (%bioconductor-version): Update to 3.9.
2019-05-05doc: Fix typo.Miguel
* doc/guix.texi (VM): Add missing dot. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05doc: Fix typo.Miguel
* doc/guix.texi (xfce-desktop-service-type): Fix sentence. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05doc: Fix typo.Miguel
* doc/guix.texi (page-log@files-configuration@CUPS): "Page log" instead of "access log". Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05doc: Fix typos.Miguel
* 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>
2019-05-05doc: Fix typo.Miguel
* doc/guix.texi (rsync-service-type): Add missing sentence. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05doc: Fix typo.Miguel
* doc/guix.texi (openntpd-configuration): Fix spelling issues. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05doc: Fix typos.Miguel
* 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>
2019-05-05installer: Fix typo.Miguel
* gnu/installer/newt/menu.scm (run-menu-page): Add missing space after period. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05Correct email and license info for Brendan Tildesley.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>
2019-05-05gnu: calibre: Update to 3.42.0.Danny Milosavljevic
* gnu/packages/ebook.scm (calibre): Update to 3.42.0. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05gnu: calibre: Shorten long line.Brendan Tildesley
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[build-extra]: Shorten long line. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05gnu: calibre: Install man pages.Brendan Tildesley
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[install-man-pages]: New phase. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05gnu: calibre: Delete various junk from source.Brendan Tildesley
* gnu/packages/ebook.scm (calibre)[source](snippet): Delete various junk from source. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05gnu: calibre: Remove libxrender as an input.Brendan Tildesley
* gnu/packages/ebook.scm (calibre)[inputs]: Remove libxrender. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05gnu: calibre: Unbundle python2-odfpy.Brendan Tildesley
* gnu/packages/ebook.scm (calibre)[snippet]: Remove all of src/odf. [inputs]: Add python2-odfpy. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05gnu: calibre: Remove some comments.Brendan Tildesley
* 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>
2019-05-05gnu: calibre: Enable tests.Brendan Tildesley
* gnu/packages/ebook.scm (calibre): Enable tests. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05gnu: calibre: Disable sqlite test.Brendan Tildesley
* gnu/packages/patches/calibre-remove-test-sqlite.patch: New file. * gnu/packages/ebook.scm (calibre)[source]: Use it. * gnu/local.mk (dist_patch_DATA): Add it. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05gnu: calibre: Disable Qt test.Brendan Tildesley
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[configure]: Disable Qt test. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05gnu: calibre: Disable bs4 test.Brendan Tildesley
* gnu/packages/patches/calibre-remove-test-bs4.patch: New file. * gnu/packages/ebook.scm (calibre)[source]: Use it. * gnu/local.mk (dist_patch_DATA): Add it. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05gnu: calibre: Use "linux.py" to install desktop files.Brendan Tildesley
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[configure]: Modify. [install-mimetypes]: Remove. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05gnu: Add python-soupsieve, python2-soupsieve.Brendan Tildesley
* gnu/packages/python-xyz.scm (python-soupsieve): New variable. (python2-soupsieve): New variable. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
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