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* gnu: vsearch: Update to 2.0.1.Ben Woodcroft2016-07-01
| | | | * gnu/packages/bioinformatics.scm (vsearch): Update to 2.0.1.
* gnu: Add r-glmnet.Ben Woodcroft2016-07-01
| | | | * gnu/packages/statistics.scm (r-glmnet): New variable.
* gnu: busybox: Use 'modify-phases'.Efraim Flashner2016-06-30
| | | | * gnu/packages/busybox.scm (busybox)[arguments]: Use 'modify-phases'.
* gnu: busybox: Update to 1.25.0.Efraim Flashner2016-06-30
| | | | | * gnu/packages/busybox.scm (busybox): Update to 1.25.0. [native-inputs]: Add which.
* gnu: owncloud-client: Remove some bundled libs.Efraim Flashner2016-06-30
| | | | | * gnu/packages/owncloud.scm (owncloud-client)[source]: Add a snippet removing some of the 3rd party projects.
* gnu: owncloud-client: Update to 2.2.2.Efraim Flashner2016-06-30
| | | | * gnu/packages/owncloud.scm (owncloud-client): Update to 2.2.2.
* gnu: Add python-prompt-toolkit.Danny Milosavljevic2016-06-29
| | | | | | | * gnu/packages/python.scm (python-prompt-toolkit, python2-prompt-toolkit): New variables. Signed-off-by: Leo Famulari <leo@famulari.name>
* gnu: python-wcwidth: Add missing 'properties' field.Leo Famulari2016-06-29
| | | | | | This is a followup to commit a44fd439dcef88b33c00db94fb3419e097401fee. * gnu/packages/python.scm (python-wcwidth)[properties]: New field.
* gnu: ceres-solver: Propagate GLOG.Ludovic Courtès2016-06-29
| | | | | * gnu/packages/maths.scm (ceres)[inputs]: Move GLOG to... [propagated-inputs]: ... here. New field.
* gnu: linux-initrd: Support NVMe devices.Jan Nieuwenhuizen2016-06-29
| | | | | | * gnu/system/linux-initrd.scm (base-initrd): Add nvme to linux-modules. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* download: Use basic authentication when userinfo is present in URI.David Thompson2016-06-29
| | | | | | | * guix/download.scm (url-fetch): Include (guix base64) module on the build-side. * guix/build/download.scm (http-fetch): Add "Authorization" header when userinfo is present in the URI.
* gnu: blast+: Update to 2.4.0.Ben Woodcroft2016-06-29
| | | | * gnu/packages/bioinformatics.scm (blast+): Update to 2.4.0.
* gnu: ceres-solver: Depend on glog.Ludovic Courtès2016-06-29
| | | | | * gnu/packages/maths.scm (ceres)[arguments]: Remove -DMINIGLOG=ON. [inputs]: Add GLOG.
* gnu: Add glog.Ludovic Courtès2016-06-29
| | | | * gnu/packages/logging.scm (glog): New variable.
* gnu: node: Make sure 'npm' remains a symlink after 'patch-shebangs'.Ludovic Courtès2016-06-29
| | | | | | | | | Fixes <http://bugs.gnu.org/23744>. Reported by Jovany Leandro G.C <bit4bit@riseup.net> and Jelle Licht <jlicht@fsfe.org>. * gnu/packages/node.scm (node)[arguments]: Replace 'patch-shebangs' phase.
* gnu: openexr: Install 'ImfStdIO.h'.Ludovic Courtès2016-06-29
| | | | | * gnu/packages/graphics.scm (openexr)[source](snippet): Modify IlmImf/Makefile.in so that it installs 'ImfStdIO.h'.
* gnu: avrdude: Use libusb-compat.Ricardo Wurmus2016-06-29
| | | | | | | * gnu/packages/patches/avrdude-fix-libusb.patch: Remove file. * gnu/local.mk (dist_patch_DATA): Remove it. * gnu/packages/flashing-tools.scm (avrdude)[source]: Remove patch. [inputs]: Replace "libusb" with "libusb-compat".
* gnu: star: Update to 2.5.2a.Ben Woodcroft2016-06-29
| | | | * gnu/packages/bioinformatics.scm (star): Update to 2.5.2a.
* gnu: htslib: Update to 1.3.1.Ben Woodcroft2016-06-29
| | | | * gnu/packages/bioinformatics.scm (htslib): Update to 1.3.1.
* gnu: Add SEEK.Ricardo Wurmus2016-06-28
| | | | * gnu/packages/bioinformatics.scm (seek): New variable.
* gnu: mafft: Update to 7.299.Ben Woodcroft2016-06-28
| | | | * gnu/packages/bioinformatics.scm (mafft): Update to 7.299.
* Revert "gnu: qtbase: Don't propagate mesa."Efraim Flashner2016-06-28
| | | | This reverts commit 763a8e6e235cf464306214349dad21979f2645f0.
* gnu: metabat: Update to 0.26.3.Ben Woodcroft2016-06-28
| | | | | * gnu/packages/bioinformatics.scm (metabat): Update to 0.26.3. [arguments]: Update include and linking paths accordingly.
* gnu: diamond: Update to 0.8.9.Ben Woodcroft2016-06-28
| | | | * gnu/packages/bioinformatics.scm (diamond): Update to 0.8.9.
* gnu: r: Add pango to inputs.Ricardo Wurmus2016-06-28
| | | | * gnu/packages/statistics.scm (r)[inputs]: Remove cairo, add pango.
* tests: Add Avahi and NSS-mDNS test.Ludovic Courtès2016-06-27
| | | | | | * gnu/tests/base.scm (%avahi-os): New variable. (run-nss-mdns-test): New procedure. (%test-nss-mdns): New variable.
* services: avahi: Add #:debug? parameter.Ludovic Courtès2016-06-27
| | | | | | | * gnu/services/avahi.scm (<avahi-configuration>)[debug?]: New field. (avahi-shepherd-service): Honor it. (avahi-service): Add #:debug? and honor it. * doc/guix.texi (Networking Services): Adjust accordingly.
* services: avahi: Pass --daemonize and check for the PID file.Ludovic Courtès2016-06-27
| | | | | | | | This makes sure the service's 'start' finishes when avahi-daemon is ready to process requests. * gnu/services/avahi.scm (avahi-shepherd-service): Use --daemonize instead of --syslog and add #:pid-file.
* tests: 'marionette-service-type' nows takes a <marionette-configuration>.Ludovic Courtès2016-06-27
| | | | | | | * gnu/tests.scm (<marionette-configuration>): New record type. (marionette-shepherd-service): Argument now is a <marionette-configuration>. (marionette-operating-system): Adjust accordingly. Add #:requirements parameter and honor it.
* tests: base: Add host name resolution tests.Ludovic Courtès2016-06-27
| | | | | * gnu/tests/base.scm (run-basic-test)["host name resolution", "host not found"]: New tests.
* services: Export more service types.Ludovic Courtès2016-06-27
| | | | | * gnu/services/base.scm (syslog-service-type): Export. (urandom-seed-service-type): Export.
* services: nscd: Wait for the PID file.Ludovic Courtès2016-06-27
| | | | * gnu/services/base.scm (nscd-shepherd-service): Pass #:pid-file.
* doc: Fix typo for 'static-networking-service'.Ludovic Courtès2016-06-27
| | | | | * doc/guix.texi (Networking Services): Change #:name-services to #:name-servers.
* gnu: Add orage.Kei Kebreau2016-06-27
| | | | * gnu/packages/xfce.scm (orage): New variable.
* gnu: python2-orator: Rearrange inputs.宋文武2016-06-27
| | | | | | * gnu/packages/python.scm (python2-orator)[native-inputs]: Move python2-ipaddress ... [propagated-inputs]: to here.
* gnu: python-orator: Rearrange inputs.宋文武2016-06-27
| | | | | | | | * gnu/packages/python.scm (python-orator)[native-inputs]: Move python-arrow, python-blinker, python-cleo, python-fake-factory, python-inflection, python-lazy-object-proxy, python-pyaml, python-simplejson, python-wrapt ... [propagated-inputs]: to here.
* gnu: python2-fake-factory: Rearrange inputs.宋文武2016-06-27
| | | | | | * gnu/packages/python.scm (python2-fake-factory)[native-inputs]: Move python2-ipaddress ... [propagated-inputs]: to here.
* gnu: python-fake-factory: Rearrange inputs.宋文武2016-06-27
| | | | | | * gnu/packages/python.scm (python-fake-factory)[native-inputs]: Move python-dateutil-2, python-six ... [propagated-inputs]: to here.
* gnu: python-email-validator: Rearrange inputs.宋文武2016-06-27
| | | | | | * gnu/packages/python.scm (python-email-validator)[native-inputs]: Move python-dnspython, python-idna ... [propagated-inputs]: to here.
* gnu: python-cleo: Rearrange inputs.宋文武2016-06-27
| | | | | | * gnu/packages/python.scm (python-cleo)[native-inputs]: Move python-psutil, python-pylev ... [propagated-inputs]: to here.
* gnu: python-arrow: Rearrange inputs.宋文武2016-06-27
| | | | | | * gnu/packages/python.scm (python-arrow)[native-inputs]: Move python-dateutil-2 ... [propagated-inputs]: to here.
* gnu: python-pykafka: Rearrange inputs.宋文武2016-06-27
| | | | | | * gnu/packages/python.scm (python-pykafka)[native-inputs]: Move python-gevent, python-kazoo, python-tabulate ... [propagated-inputs]: to here.
* gnu: python-kazoo: Rearrange inputs.宋文武2016-06-27
| | | | | | * gnu/packages/python.scm (python-kazoo)[native-inputs]: Move six ... [propagated-inputs]: to here.
* gnu: python-twisted: Rearrange inputs.宋文武2016-06-27
| | | | | | * gnu/packages/python.scm (python-twisted)[native-inputs]: Move python-zope-interface ... [propagated-inputs]: to here.
* gnu: Add Go 1.4.Matthew Jordan2016-06-27
| | | | | | | | | * gnu/local.mk: Modified file. * gnu/packages/golang.scm: New file. Co-authored-by: Efraim Flashner <efraim@flashner.co.il> Co-authored-by: Andy Wingo <wingo@igalia.com> Co-authored-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add khmer.Ben Woodcroft2016-06-27
| | | | | | * gnu/packages/bioinformatics.scm (khmer): New variable. * gnu/packages/patches/khmer-use-libraries.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it.
* gnu: Add python-screed.Ben Woodcroft2016-06-27
| | | | | * gnu/packages/bioinformatics.scm (python-screed, python2-screed): New variables.
* gnu: qttools: Update to 5.6.1-1.Efraim Flashner2016-06-27
| | | | * gnu/packages/qt.scm (qttools): Update to 5.6.1-1.
* gnu: qtlocation: Update to 5.6.1-1.Efraim Flashner2016-06-27
| | | | * gnu/packages/qt.scm (qtlocation): Update to 5.6.1-1.
* gnu: qtwebchannel: Update to 5.6.1-1.Efraim Flashner2016-06-27
| | | | * gnu/packages/qt.scm (qtwebchannel): Update to 5.6.1-1.
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