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* gnu: python-sqlalchemy: Update to 1.0.12.•••* gnu/packages/python.scm (python-sqlalchemy): Update to 1.0.12. Christopher Allan Webber2016-02-15
* gnu: Add slurm.•••* gnu/packages/parallel.scm (slurm): New variable. * gnu/packages/patches/slurm-configure-remove-nonfree-contribs.patch: New file. * gnu-system.am (dist_patch_DATA): Add it. * gnu/packages/parallel.scm: Introduce license name space. Co-authored-by: Andreas Enge <andreas@enge.fr> Pjotr Prins2016-02-15
* gnu: prodigal: Update to 2.6.3.•••* gnu/packages/bioinformatics.scm (prodigal): Update to 2.6.3. Ben Woodcroft2016-02-16
* gnu: polkit-qt: Build with qt-5.•••*gnu/packages/polkit.scm (polkit-qt)[propagated-inputs]: Use qt. Efraim Flashner2016-02-15
* gnu: bazaar: Update to 2.7.0.•••* gnu/packages/version-control.scm (bazaar): Update to 2.7.0. Efraim Flashner2016-02-15
* gnu: r-annotationdbi: Update to 1.32.3.•••* gnu/packages/bioinformatics.scm (r-annotationdbi): Update to 1.32.3. Ricardo Wurmus2016-02-15
* gnu: Add audit.•••* gnu/packages/admin.scm (audit): New variable. Ricardo Wurmus2016-02-15
* gnu: vera: Update to 1.23.•••* gnu/packages/dictionaries.scm (vera): Update to 1.23. Efraim Flashner2016-02-15
* gnu: nano: Update to 2.5.2.•••* gnu/packages/nano.scm (nano): Update to 2.5.2. Efraim Flashner2016-02-15
* gnu: bitcoin-core: Update to 0.11.2.•••* gnu/packages/finance.scm (bitcoin-core): Update to 0.11.2. [native-inputs]: Use python-2 instead of python-wrapper. Efraim Flashner2016-02-15
* gnu: owncloud-client: Update to 2.1.1.•••* gnu/packages/owncloud.scm (owncloud-client): Update to 2.1.1. Efraim Flashner2016-02-15
* gnu: vsearch: Update to 1.10.0.•••* gnu/packages/bioinformatics.scm (vsearch): Update to 1.10.0. [origin]: Adapt to changes in bundling of cityhash. Ben Woodcroft2016-02-15
* gnu: cityhash: Install citycrc.h.•••* gnu/packages/textutils.scm (cityhash)[arguments]: Install citycrc.h. [version]: Use standardised format, increment to 1.1-2. Ben Woodcroft2016-02-15
* gnu: graphite2: Update to 1.3.5. Update home-page and source URI.•••* gnu/packages/fontutils.scm (graphite2): Update to 1.3.5. [source, home-page]: Update to reflect upstream move to github. Mark H Weaver2016-02-15
* gnu: libsndfile: Update to 1.0.26 [with follow-up fix CVE-2015-7805].•••Note: The previous fix for CVE-2015-7805 was incomplete. * gnu/packages/patches/libsndfile-CVE-2014-9496.patch, gnu/packages/patches/libsndfile-CVE-2015-7805.patch: Delete files. * gnu-system.am (dist_patch_DATA): Remove them. * gnu/packages/pulseaudio.scm (libsndfile): Update to 1.0.26. [source]: Remove patches. Mark H Weaver2016-02-15
* gnu: libgcrypt: Update to 1.6.5 [fixes CVE-2015-7511].•••* gnu/packages/gnupg.scm (libgcrypt): Update to 1.6.5. Christopher Allan Webber2016-02-15
* gnu: btrfs-progs: Fix license.•••Reported by Tobias Geerinckx-Rice <tobias.geerinckx.rice@gmail.com> * gnu/packages/linux.scm (btrfs-progs)[license]: Add GPL2 to list of licenses. Leo Famulari2016-02-14
* gnu: font-terminus: Update to 4.40•••* gnu/packages/fonts.scm (font-terminus): Update to 4.40. Signed-off-by: Leo Famulari <leo@famulari.name> Nils Gillmann2016-02-14
* gnu: python-ly: Update to 0.9.3.•••* gnu/packages/python.scm (python-ly): Update to 0.9.3. Andreas Enge2016-02-14
* gnu: lxqt: Update source URLs to use HTTPS.•••* gnu/packages/lxqt.scm (libqtxdg, liblxqt, lxqt-common) (lxqt-session)[source]: Use HTTPS URLs. Mark H Weaver2016-02-14
* gnu: openbox: Update to 3.6.1.•••* gnu/packages/openbox.scm (openbox): Update to 3.6.1. Efraim Flashner2016-02-14
* gnu: postgresql: Update to 9.3.11. [fixes CVE-2015-{5288,5289},CVE-2016-{0766...•••* gnu/packages/databases.scm (postgresql): Update to 9.3.11. Efraim Flashner2016-02-14
* gnu: Add baobab.•••* gnu/packages/gnome.scm (baobab): New variable. Jochem Raat2016-02-13
* gnu: Add pianobar.•••* gnu/packages/music.scm (pianobar): New variable. Signed-off-by: Leo Famulari <leo@famulari.name> Al McElrath2016-02-13
* gnu: Add python-wtforms•••* gnu/packages/python.scm (python-wtforms, python2-wtforms): New variables. Christopher Allan Webber2016-02-13
* doc: Correct typos.•••* doc/guix.texi: Correct typos, grammar and stylistic points. Andreas Enge2016-02-13
* gnu: iproute: Update to 4.4.0.•••* gnu/packages/linux.scm (iproute): Update to 4.4.0. Alex Kost2016-02-13
* gnu: iproute: Use 'modify-phases'.•••* gnu/packages/linux.scm (iproute)[arguments]: Use 'modify-phases'. Alex Kost2016-02-13
* gnu: calibre: Update to 2.51.0.•••* gnu/packages/ebook.scm (calibre): Update to 2.51.0. Andreas Enge2016-02-13
* gnu: gnuplot: Update to 5.0.2.•••* gnu/packages/maths.scm (gnuplot): Update to 5.0.2. Andreas Enge2016-02-13
* gnu: lablgtk: Build cmxa libraries.•••* gnu/packages/ocaml.scm (lablgtk)[arguments]: Add the make target "opt" to also build *.cmxa files. Jan Nieuwenhuizen2016-02-13
* gnu: ocaml: Set search path.•••* gnu/packages/ocaml.scm (ocaml): Register OCAMLPATH as a search path. Jan Nieuwenhuizen2016-02-13
* gnu: Add ocaml-findlib.•••* gnu/packages/ocaml.scm (ocaml-findlib): New variable. * gnu/packages/patches/ocaml-findlib-make-install.patch: New file. * gnu-system.am (dist_patch_DATA): Register it. Jan Nieuwenhuizen2016-02-13
* gnu: gnupg: Add upstream fix for test failures on x86_64.•••Fixes <https://debbugs.gnu.org/22558>. * gnu/packages/patches/gnupg-simple-query-ignore-status-messages.patch: New file. * gnu-system.am (dist_patch_DATA): Add it. * gnu/packages/gnupg.scm (gnupg)[source]: Add patch. Mark H Weaver2016-02-12
* gnu: Add tclxml.•••* gnu/packages/patches/tclxml-3.2-install.patch: New file. * gnu-system.am (dist_patch_DATA): Add it. * gnu/packages/tcl.scm (tclxml): New variable. Signed-off-by: Leo Famulari <leo@famulari.name> Jan Nieuwenhuizen2016-02-12
* gnu: Split acme into python-acme and python2-acme.•••* gnu/packages/tls.scm (acme): Split variable into... (python-acme, python2-acme): ...both Python variants. (letsencrypt)[propagated-inputs]: Update user of renamed variable. Leo Famulari2016-02-12
* gnu: python-wheel: Define 'python2-variant'.•••* gnu/packages/python.scm (python-wheel)[properties]: New field. (python2-wheel): Use 'strip-python2-variant'. (python2-requests): Take the result of 'package-with-python2' directly. * gnu/packages/openstack.scm (python2-requests-mock): Likewise. (python2-oslosphinx): Likewise. Leo Famulari2016-02-12
* gnu: python-jsonschema: Define 'python2-variant'.•••* gnu/packages/python.scm (python-jsonschema)[properties]: New field. (python2-jsonschema): Use 'strip-python2-variant'. * gnu/packages/openstack.scm (python2-tempest-lib): Take the result of 'package-with-python2' directly. Leo Famulari2016-02-12
* gnu: python-cryptography: Define 'python2-variant'.•••* gnu/packages/python.scm (python-cryptography)[properties]: New field. (python2-cryptography): Use 'strip-python2-variant'. (python2-pyopenssl): Take the result of 'package-with-python2' directly. Leo Famulari2016-02-12
* gnu: Add tcllib.•••* gnu/packages/tcl.scm (tcllib): New variable. Signed-off-by: Leo Famulari <leo@famulari.name> Jan Nieuwenhuizen2016-02-12
* gnu: tcl: Use tcl/tk license.•••* gnu/packages/tcl.scm (tcl)[license]: Use the tcl/tk license variable. Signed-off-by: Leo Famulari <leo@famulari.name> Jan Nieuwenhuizen2016-02-12
* licenses: Add tcl/tk license.•••* guix/licenses.scm (tcl/tk): New variable. Signed-off-by: Leo Famulari <leo@famulari.name> Jan Nieuwenhuizen2016-02-12
* scripts: environment: Build environments as profiles.•••Fixes <http://bugs.gnu.org/19816>. * guix/scripts/environment.scm (evaluate-input-search-paths) (build-inputs): Delete. (evaluate-profile-search-paths, strip-input-name) (package-or-package+output?, package-environment-inputs) (build-environment, inputs->profile-derivations): New procedures. (create-environment, show-search-paths, launch-environment) (launch-environment/container): Replace 'inputs' argument with 'profile' argument. (package+propagated-inputs): Strip off names off of input tuples. (options/resolve-packages): Handle input tuples that specify an output in expressions. (guix-environment): Convert inputs into a profile to use in the environment. Remove non-package inputs such as origins from environment inputs. * doc/guix.texi ("invoking guix environment"): Document package+output tuples for --expression option. * tests/guix-environment.sh: Update tests. * tests/guix-environment-container.sh: Likewise. Co-authored-by: Ludovic Courtès <ludo@gnu.org> David Thompson2016-02-12
* profiles: Add #:system argument to profile-derivation.•••Suggested by David Thompson <davet@gnu.org>. * guix/profiles.scm (profile-derivation): Add #:system parameter and honor it. Ludovic Courtès2016-02-12
* store: Add monadic access to '%current-system'.•••* guix/store.scm (current-system, set-current-system): New procedures. * tests/store.scm ("current-system"): New test. Ludovic Courtès2016-02-12
* gnu: macs: Update to 2.1.0.20151222.•••* gnu/packages/bioinformatics.scm (macs): Update to 2.1.0.20151222. Ricardo Wurmus2016-02-12
* gnu: macs: Use "pypi-uri".•••* gnu/packages/bioinformatics.scm (macs)[source]: Use "pypi-uri" to build source URI. Ricardo Wurmus2016-02-12
* gnu: python2-fastlmm: Update to 0.2.21.•••* gnu/packages/python.scm (python2-fastlmm): Update to 0.2.21. Ricardo Wurmus2016-02-12
* gnu: python2-pysnptools: Update to 0.3.5.•••* gnu/packages/python.scm (python2-pysnptools): Update to 0.3.5. Ricardo Wurmus2016-02-12
* gnu: python-numpy-bootstrap: Update to 1.10.4.•••* gnu/packages/python.scm (python-numpy-bootstrap): Update to 1.10.4. Ricardo Wurmus2016-02-12
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