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-rw-r--r--gnu/packages/bioinformatics.scm4
1 files changed, 2 insertions, 2 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 08b72ceeb0..faaf68e4fa 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -4279,13 +4279,13 @@ files.")
(define-public r-summarizedexperiment
(package
(name "r-summarizedexperiment")
- (version "1.0.1")
+ (version "1.0.2")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "SummarizedExperiment" version))
(sha256
(base32
- "0w1dwp99p6i7sc3cn0ir3dr8ksgxwjf16675h5i8n6gbv4rl9lz6"))))
+ "1gpmh1mi70m5k5qnyjs1h0qn8ajrzalzic7k3762xchxsmmdvxn4"))))
(properties
`((upstream-name . "SummarizedExperiment")))
(build-system r-build-system)
123, and twolame. 2018-09-20gnu: gstreamer: Update to 1.14.3.Marius Bakke * gnu/packages/gstreamer.scm (gstreamer, gst-plugins-base, gst-plugins-good, gst-plugins-bad, gst-plugins-ugly, gst-libav, python-gst): Update to 1.14.3. 2018-08-19Merge branch 'staging'Marius Bakke 2018-08-18gnu: gst-plugins-base: Don't build with Opus for 32-bit systems.Leo Famulari Fixes <https://bugs.gnu.org/32360> and <https://bugs.gnu.org/32466>. * gnu/packages/gstreamer.scm (gst-plugins-base)[inputs]: Exclude opus when building for 32-bit systems. Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr> 2018-07-22gnu: gst-libav: Delete bundled ffmpeg.Marius Bakke * gnu/packages/gstreamer.scm (gst-libav)[source](modules, snippet): New fields. [arguments]: Remove #:phases. 2018-07-22gnu: gstreamer: Update to 1.14.2.Marius Bakke * gnu/packages/gstreamer.scm (gstreamer, gst-plugins-base, gst-plugins-good, gst-plugins-bad, gst-plugins-ugly, gst-libav, python-gst): Update to 1.14.2. 2018-05-22gnu: gstreamer: Update to 4.14.1.Mark H Weaver * gnu/packages/gstreamer.scm (gstreamer, gst-plugins-base, gst-plugins-good) (gst-plugins-bad, gst-plugins-ugly, gst-libav, python-gst): Update to 4.14.1. 2018-05-17Merge branch 'master' into core-updatesMark H Weaver 2018-05-12gnu: gst-plugins-ugly: Remove libmad from the build environment.Leo Famulari Libmad is not used by gst-plugins-ugly since 1.12.0. * gnu/packages/gstreamer.scm (gst-plugins-ugly)[inputs]: Remove libmad. 2018-04-30Merge branch 'master' into core-updatesMark H Weaver 2018-04-30Merge branch 'master' into core-updatesMark H Weaver 2018-04-25Merge branch 'master' into stagingMarius Bakke 2018-04-23gnu: gstreamer: Downgrade to 1.12.5.Marius Bakke * gnu/packages/gstreamer.scm (gstreamer, gst-plugins-base, gst-plugins-good, gst-plugins-bad, gst-plugins-ugly, gst-libav, python-gst): Downgrade to 1.12.5. 2018-04-23gnu: ffmpeg: Update to 4.0.Rutger Helling * gnu/packages/video.scm (ffmpeg): Update to 4.0. * gnu/packages/video.scm (ffmpeg@3.4): New variable. * gnu/packages/video.scm (ffmpeg-git): Remove variable. * gnu/packages/video.scm (mpv)[inputs]: Build with ffmpeg instead of ffmpeg-git. * gnu/packages/gstreamer.scm (gst-libav)[inputs]: Build with ffmpeg@3.4 instead of ffmpeg. * gnu/packages/messaging.scm (qtox)[inputs]: Build with ffmpeg@3.4 instead of ffmpeg. * gnu/packages/emulators.scm (dolphin-emu)[inputs]: Build with ffmpeg@3.4 instead of ffmpeg. * gnu/packages/gnunet.scm (libextractor)[inputs]: Build with ffmpeg@3.4 instead of ffmpeg. 2018-04-16Merge branch 'master' into stagingMarius Bakke 2018-04-10Merge branch 'master' into core-updatesMark H Weaver 2018-04-05gnu: python-gst: Update to 1.12.5.Tobias Geerinckx-Rice * gnu/packages/gstreamer.scm (python-gst): Update to 1.12.5. 2018-03-22gnu: gstreamer: Update to 1.14.0.Marius Bakke * gnu/packages/gstreamer.scm (gstreamer, gst-plugins-good, gst-plugins-bad, gst-plugins-ugly, gst-libav, python-gst): Update to 1.14.0. (gst-plugins-base): Likewise. [inputs]: Move ORC ... [propagated-inputs]: ... here. Add GLIB. 2018-03-20gnu: orc: Return #t from all phases.Mark H Weaver * gnu/packages/gstreamer.scm (orc)[arguments]: Return #t from the 'disable-faulty-test' phase. 2018-02-26gnu: Use HTTPS for supported freedesktop.org home pages.Tobias Geerinckx-Rice * gnu/packages/fontutils.scm (fontconfig)[home-page]: Use HTTPS. * gnu/packages/freedesktop.scm (python-pyxdg, accountsservice) (modem-manager, telepathy-mission-control, telepathy-mission-control) (colord-gtk, desktop-file-utils)[home-page]: Likewise. * gnu/packages/ghostscript.scm (libspectre)[home-page]: Likewise. * gnu/packages/glib.scm (dbus, dbus-glib, telepathy-glib)[home-page]: Likewise. * gnu/packages/gnome.scm (shared-mime-info, hicolor-icon-theme) (libxklavier, colord, upower)[home-page]: Likewise. * gnu/packages/gstreamer.scm (orc, python-gst)[home-page]: Likewise. * gnu/packages/libcanberra.scm (sound-theme-freedesktop)[home-page]: Likewise. * gnu/packages/libreoffice.scm (libexttextcat)[home-page]: Likewise. * gnu/packages/polkit.scm (polkit-gnome, polkit-gnome)[home-page]: Likewise. * gnu/packages/pulseaudio.scm (pavucontrol)[home-page]: Likewise. * gnu/packages/python.scm (python-dbus)[home-page]: Likewise. * gnu/packages/xdisorg.scm (startup-notification)[home-page]: Likewise. 2017-12-12gnu: Remove ffmpeg@3.3.Marius Bakke The reason this was required was because of a regression in ffmpeg 3.4; see <https://trac.ffmpeg.org/ticket/6775>. * gnu/packages/gstreamer.scm (gst-libav)[inputs]: Change FFMPEG-3.3 to FFMPEG. * gnu/packages/video.scm (ffmpeg-3.3): Remove variable. 2017-12-10gnu: gstreamer: Update to 1.12.4.Marius Bakke * gnu/packages/gstreamer.scm (gstreamer, gst-plugins-base, gst-plugins-good, gst-plugins-ugly, gst-libav, python-gst): Update to 1.12.4. (gst-plugins-bad): Likewise. [arguments]: Remove #:phases. 2017-12-03gnu: Add gst123.Ricardo Wurmus * gnu/packages/gstreamer.scm (gst123): New variable. 2017-11-21gnu: orc: Update to 0.4.28.Marius Bakke * gnu/packages/gstreamer.scm (orc): Update to 0.4.28. 2017-10-27gnu: Add ffmpeg@3.3 and use it on packages that fail with 3.4.Rutger Helling * gnu/packages/gstreamer.scm (gst-libav)[inputs]: Change ffmpeg to ffmpeg-3.3. * gnu/packages/messaging.scm (qtox)[inputs]: Change ffmpeg to ffmpeg-3.3. * gnu/packages/video.scm (ffmpeg-3.3): New variable. Signed-off-by: Marius Bakke <mbakke@fastmail.com> 2017-10-05gnu: openjpeg: Update to 2.3.0.Marius Bakke * gnu/packages/patches/openjpeg-CVE-2017-12982.patch, gnu/packages/patches/openjpeg-CVE-2017-14040.patch, gnu/packages/patches/openjpeg-CVE-2017-14041.patch, gnu/packages/patches/openjpeg-CVE-2017-14151.patch, gnu/packages/patches/openjpeg-CVE-2017-14152.patch, gnu/packages/patches/openjpeg-CVE-2017-14164.patch: Delete files. * gnu/local.mk (dist_patch_DATA): Remove them. * gnu/packages/image.scm (openjpeg): Update to 2.3.0. [source](patches): Remove. * gnu/packages/gstreamer.scm (gst-plugins-bad)[arguments]: Adjust openjpeg substitution. 2017-09-18gnu: gstreamer: Update to 1.12.3.Marius Bakke * gnu/packages/gstreamer.scm (gstreamer, gst-plugins-base, gst-plugins-good, gst-plugins-bad, gst-plugins-ugly, gst-libav, python-gst): Update to 1.12.3. 2017-08-22gnu: gst-plugins-bad: Build with wayland support.Efraim Flashner * gnu/packages/gstreamer.scm (gst-plugins-bad)[inputs]: Add wayland. 2017-08-10gnu: openjpeg: Update to 2.2.0 [security fixes].Marius Bakke In addition to the patches we already had (which are not mentioned in the ChangeLog, but verified by following their respective GitHub issues) this release also fixes CVE-2016-9112, CVE-2016-5139, CVE-2016-5152, CVE-2016-5158, CVE-2016-5159, CVE-2016-1626 and CVE-2016-1628. See <https://github.com/uclouvain/openjpeg/blob/v2.2.0/CHANGELOG.md> for details. * gnu/packages/patches/openjpeg-CVE-2016-9572-CVE-2016-9573.patch, gnu/packages/patches/openjpeg-CVE-2016-9850-CVE-2016-9851.patch: Delete files. * gnu/local.mk (dist_patch_DATA): Remove them. * gnu/packages/image.scm (openjpeg): Update to 2.2.0. [source](patches): Remove. * gnu/packages/gstreamer.scm (gst-plugins-bad)[arguments]: Add phase to patch hard-coded openjpeg-2.1 path. 2017-07-31gnu: gst-plugins-good: Update disable-failing-tests phase.Efraim Flashner * gnu/packages/gstreamer.scm (gst-plugins-good)[arguments]: Change the list of tests to disable during 'disable-failing-tests phase. 2017-07-18gnu: orc: Update to 0.4.27.Marius Bakke * gnu/packages/gstreamer.scm (orc): Update to 0.4.27. 2017-07-14gnu: gstreamer: Update to 1.12.2.Marius Bakke * gnu/packages/gstreamer.scm (gstreamer, gst-plugins-base, gst-plugins-good, gst-plugins-bad, gst-plugins-ugly, gst-libav, python-gst): Update to 1.12.2. 2017-06-20gnu: gstreamer: Update to 1.12.1.Marius Bakke * gnu/packages/gstreamer.scm (gstreamer, gst-plugins-base, gst-plugins-good, gst-plugins-bad, gst-plugins-ugly, gst-libav, python-gst, python2-gst): Update to 1.12.1. 2017-05-09gnu: gstreamer: Update to 1.12.0.Leo Famulari * gnu/packages/gstreamer.scm (gstreamer, gst-plugins-base, gst-plugins-good, gst-plugins-bad, gst-plugins-ugly, gst-libav, python-gst): Update to 1.12.0.