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2017-12-27gnu: Run some tests in the mongodb package check phase.Christopher Baines
Previously the mongodb dbtests and unittests were only built, and not actually run. * gnu/packages/databases.scm (mongodb)[native-inputs]: Add python2-minimal, python2-pymongo and python2-pyyaml for running the resmoke.py program, and add tzdata as some tests fail without this. [arguments]: Run the tests through the resmoke.py script in the check phase, set TZDIR as a couple of tests seem to depend on this, add a comment about the resource requirements of the tests, as they require a large amount of disk space, and disable the async_stream_test, as it seems to hang.
2017-12-27gnu: Build wiredtiger with builtin compressors.Christopher Baines
WiredTiger is used by MongoDB, and it seems to require it to be built with builtin support for snappy compression. * gnu/packages/databases.scm (wiredtiger)[arguments]: Replace --enable-zlib and --enable-snappy with --with-builtins=snappy,zlib.
2017-12-26gnu: python-sqlalchemy-utils: Update to 0.32.21.Tobias Geerinckx-Rice
* gnu/packages/databases.scm (python-sqlalchemy-utils): Update to 0.32.21.
2017-12-26gnu: python-sadisplay: Update to 0.4.8.Tobias Geerinckx-Rice
* gnu/packages/databases.scm (python-sadisplay): Update to 0.4.8.
2017-12-26gnu: check, databases: Use HTTPS for bitbucket.org.Tobias Geerinckx-Rice
* gnu/packages/check.scm (python-pytest-capturelog)[home-page]: Likewise. * gnu/packages/databases.scm (python-alembic)[home-page]: Likewise.
2017-12-26gnu: python-redis: Update to 2.10.6.Tobias Geerinckx-Rice
* gnu/packages/databases.scm (python-redis): Update to 2.10.6.
2017-12-26gnu: python-alembic: Update to 0.9.6.Tobias Geerinckx-Rice
* gnu/packages/databases.scm (python-alembic): Update to 0.9.6.
2017-12-22gnu: Build wiredtiger with snappy support.Christopher Baines
This is probably necessary to get the MongoDB package in Guix to successfully use the Guix wiredtiger package, as MongoDB it uses wiredtiger with snappy by default. * gnu/packages/databases.scm (wiredtiger)[arguments]: Add --enable-snappy to #:configure-flags. [inputs]: Add snappy.
2017-12-22gnu: mariadb: Update to 10.1.29.Leo Famulari
* gnu/packages/databases.scm (mariadb): Update to 10.1.29.
2017-12-10gnu: perl-sql-abstract: Update source uri.Efraim Flashner
* gnu/packages/databases.scm (perl-sql-abstract)[source]: Update source uri.
2017-12-07gnu: perl-dbd-pg: Update to 3.7.0.Tobias Geerinckx-Rice
* gnu/packages/databases.scm (perl-dbd-pg): Update to 3.7.0
2017-12-07gnu: perl-sql-abstract: Update to 1.84.Tobias Geerinckx-Rice
* gnu/packages/databases.scm (perl-sql-abstract): Update to 1.84
2017-12-07gnu: perl-dbix-class-schema-loader: Update to 0.07047.Tobias Geerinckx-Rice
* gnu/packages/databases.scm (perl-dbix-class-schema-loader): Update to 0.07047
2017-12-07gnu: perl-dbi: Update to 1.637.Tobias Geerinckx-Rice
* gnu/packages/databases.scm (perl-dbi): Update to 1.637
2017-11-30gnu: mongodb: Use scons-build-system.Arun Isaac
* gnu/packages/databases.scm (mongodb): Switch to scons-build-system.
2017-11-26gnu: mongodb: Remove some bundled sources.Efraim Flashner
* gnu/packages/databases.scm (mongodb)[source]: Add snippet to remove some of the bundled sources. [input]: Remove unused boost input.
2017-11-26gnu: mongodb: Use system wiredtiger when available.Efraim Flashner
* gnu/packages/databases.scm (mongodb)[inputs]: Add wiredtiger on 64-bit systems. [arguments]: When using wiredtiger, use system wiredtiger.
2017-11-26gnu: mongodb: Build without wiredtiger on 32-bit systems.Efraim Flashner
* gnu/packages/databases.scm (mongodb)[arguments]: Add a configure-flag to build without wiredtiger support on 32-bit systems.
2017-11-25gnu: mongodb: Update to 3.4.10.Leo Famulari
* gnu/packages/databases.scm (mongodb): Update to 3.4.10.
2017-11-20gnu: Add python-pyodbc.Danny Milosavljevic
* gnu/packages/databases.scm (python-pyodbc, python2-pyodbc): New variables.
2017-11-17gnu: Move database packages from python.scm to databases.scm.Ricardo Wurmus
* gnu/packages/python.scm (python-ccm, python2-ccm, python2-pysqlite, python-sqlalchemy, python2-sqlalchemy, python-sqlalchemy-utils, python2-sqlalchemy-utils, python-alembic, python2-alembic, python-pickleshare, python2-pickleshare, python-apsw, python2-apsw, python2-neo4j-driver, python2-py2neo, python-psycopg2, python2-psycopg2, python-sadisplay, python2-sadisplay, python-mysqlclient, python2-mysqlclient, python-hiredis, python2-hiredis, python-fakeredis, python2-fakeredis, python-redis, python2-redis, python-rq, python2-rq, python-trollius-redis, python2-trollius-redis, python-sqlparse, python2-sqlparse, python-sql, python2-sql): Move from here... * gnu/packages/databases.scm: ...to here. * gnu/packages/tryton.scm, gnu/packages/python-web.scm, gnu/packages/nutrition.scm, gnu/packages/medical.scm: Adjust accordingly.
2017-11-14gnu: Add guile-wiredtiger.Kristofer Buffington
* gnu/packages/databases.scm (guile-wiredtiger): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-13gnu: Move test packages from perl to perl-check.Ricardo Wurmus
* gnu/packages/perl.scm (perl-test2-bundle-extended, perl-test2-plugin-nowarnings, perl-test-base, perl-test-class, perl-test-class-most, perl-test-cleannamespaces, perl-test-command, perl-test-cpan-meta, perl-test-cpan-meta-json, perl-test-deep, perl-test-differences, perl-test-directory, perl-test-eol, perl-test-exception, perl-test-fatal, perl-test-file-sharedir-dist, perl-test-files, perl-test-harness, perl-test-leaktrace, perl-test-longstring, perl-test-manifest, perl-test-memory-cycle, perl-test-mockobject, perl-test-mocktime, perl-test-most, perl-test-needs, perl-test-notabs, perl-test-nowarnings, perl-test-number-delta, perl-test-output, perl-test-pod, perl-test-pod-coverage, perl-test-requires, perl-test-script, perl-test-sharedfork, perl-test-simple, perl-test-taint, perl-test-tester, perl-test-trap, perl-test-utf8, perl-test-warn, perl-test-warnings, perl-test-without-module, perl-test-writevariants, perl-test-yaml, perl-test-trailingspace): Move variables to ... * gnu/packages/perl-check.scm: ... this new file. * gnu/local.mk (GNU_SYSTEM_MODULES): Add it. * gnu/packages/admin.scm, gnu/packages/bioinformatics.scm, gnu/packages/crypto.scm, gnu/packages/databases.scm, gnu/packages/glib.scm, gnu/packages/gnupg.scm, gnu/packages/image-viewers.scm, gnu/packages/language.scm, gnu/packages/networking.scm, gnu/packages/package-management.scm, gnu/packages/perl.scm, gnu/packages/terminals.scm, gnu/packages/tex.scm, gnu/packages/version-control.scm, gnu/packages/web.scm, gnu/packages/xml.scm, gnu/packages/xorg.scm: Use perl-check module.
2017-11-10gnu: postgresql@9.6: Update to 9.6.6 [security fixes].Efraim Flashner
This fixes CVE-2017-12172, CVE-2017-15098, CVE-2017-15099. * gnu/packages/databases.scm (postgresql@9.6): Update to 9.6.6.
2017-11-10gnu: postgresql: Update to 10.1 [security fixes].Rutger Helling
Fixes CVE-2017-12172, CVE-2017-15098 and CVE-2017-15099. * gnu/packages/databases.scm (postgresql): Update to 10.1. Signed-off-by: Marius Bakke <mbakke@fastmail.com>
2017-11-07gnu: Add r-rmysql.Ricardo Wurmus
* gnu/packages/databases.scm (r-rmysql): New variable.
2017-11-05gnu: redis: Update to 4.0.2.Marius Bakke
* gnu/packages/databases.scm (redis): Update to 4.0.2.
2017-10-25gnu: Add sqlite-with-fts3.Ricardo Wurmus
* gnu/packages/databases.scm (sqlite-with-fts3): New variable. Co-authored-by: Pierre Langlois <pierre.langlois@gmx.com>
2017-10-23gnu: python-lmdb: Update to 0.93.Tobias Geerinckx-Rice
* gnu/packages/databases.scm (python-lmdb): Update to 0.93.
2017-10-23gnu: python-peewee: Update to 2.10.2.Tobias Geerinckx-Rice
* gnu/packages/databases.scm (python-peewee): Update to 2.10.2.
2017-10-20gnu: mysql: Update to 5.7.20.Leo Famulari
* gnu/packages/databases.scm (mysql): Update to 5.7.20.
2017-10-12gnu: Add postgresql@9.6.Efraim Flashner
* gnu/packages/databases.scm (postgresql@9.6): New variable.
2017-10-10Merge branch 'staging'Marius Bakke
2017-10-10gnu: postgresql: Update to 10.0.Rutger Helling
* gnu/packages/databases.scm (postgresql): Update to 10.0. Signed-off-by: Leo Famulari <leo@famulari.name>
2017-10-07Merge branch 'master' into stagingMarius Bakke
2017-10-06gnu: Add mongodb.Christopher Baines
* gnu/packages/databases.scm (mongodb): New variable.
2017-10-05Merge branch 'master' into stagingMarius Bakke
2017-10-04gnu: virtuoso-ose: Limit to 64-bit platforms.Efraim Flashner
* gnu/packages/databases.scm (virtuoso-ose)[supported-systems]: New field.
2017-10-03gnu: Add virtuoso-ose.Roel Janssen
* gnu/packages/databases.scm (virtuoso-ose): New variable.
2017-09-30gnu: Add ruby-es-dump-restore.Christopher Baines
* gnu/packages/databases.scm (es-dump-restore): New variable.
2017-09-21gnu: bdb: Update to 6.2.32.Marius Bakke
* gnu/packages/databases.scm (bdb): Update to 6.2.32.
2017-09-20gnu: Use 'modify-phases' syntax.Kei Kebreau
* gnu/packages/admin.scm (mingetty, clusterssh, wpa-supplicant-minimal, wpa-supplicant, wakelan, acpica, tree, direvent, dstat)[arguments]: Use 'modify-phases' syntax. * gnu/packages/algebra.scm (arb)[arguments]: Likewise. * gnu/packages/apr.scm (apr-util)[arguments]: Likewise. * gnu/packages/audio.scm (clalsadrv, fluidsynth, faad2, lv2-mda-piano, lv2-mda-epiano, timidity++, vamp, soundtouch, portaudio, rsound, zita-convolver, zita-alsa-pcmi)[arguments]: Likewise. * gnu/packages/backup.scm (rdup, btar)[arguments]: Likewise. * gnu/packages/bioinformatics.scm (bedops, bwa, crossmap, express, flexbar, grit, hisat, ngs-sdk, subread)[arguments]: Likewise. * gnu/packages/bittorrent.scm (transmission)[arguments]: Likewise. * gnu/packages/cdrom.scm (cd-discid)[arguments]: Likewise. * gnu/packages/compression.scm (sharutils)[arguments]: Likewise. * gnu/packages/conky.scm (conky)[arguments]: Likewise. * gnu/packages/databases.scm (bdb, bdb-5.3)[arguments]: Likewise. * gnu/packages/debug.scm (delta, c-reduce)[arguments]: Likewise. * gnu/packages/display-managers.scm (slim)[arguments]: Likewise. * gnu/packages/dns.scm (dnsmasq)[arguments]: Likewise. * gnu/packages/emacs.scm (geiser, emacs-wget, bbdb)[arguments]: Likewise. * gnu/packages/engineering.scm (pcb)[arguments]: Likewise. * gnu/packages/firmware.scm (ath9k-htc-firmware)[arguments]: Likewise. * gnu/packages/flashing-tools.scm (flashrom)[arguments]: Likewise. * gnu/packages/fltk.scm (fltk)[arguments]: Likewise. * gnu/packages/freedesktop.scm (python-pyxdg)[arguments]: Likewise. * gnu/packages/gd.scm (perl-gd)[arguments]: Likewise. * gnu/packages/gkrellm.scm (gkrellm)[arguments]: Likewise. * gnu/packages/glib.scm (glibmm)[arguments]: Likewise. * gnu/packages/gl.scm (glew)[arguments]: Likewise. * gnu/packages/gnome.scm (icon-naming-utils, orbit2, libbonobo, gnome-vfs, libgnome, libbonoboui, goffice-0.8, dconf)[arguments]: Likewise. * gnu/packages/gprolog.scm (gprolog)[arguments]: Likewise. * gnu/packages/gps.scm (gpscorrelate)[arguments]: Likewise. * gnu/packages/graphics.scm (agg)[arguments]: Likewise. * gnu/packages/gtk.scm (ganv, girara, gtksourceview-2, guile-present, python2-pycairo)[arguments]: Likewise. * gnu/packages/guile.scm (guile-1.8)[arguments]: Likewise. * gnu/packages/guile-wm.scm (guile-wm)[arguments]: Likewise. * gnu/packages/hugs.scm (hugs)[arguments]: Likewise. * gnu/packages/hurd.scm (gnumach-headers, hurd-headers, hurd-minimal) [arguments]: Likewise. * gnu/packages/image-viewers.scm (feh, sxiv)[arguments]: Likewise. * gnu/packages/libcanberra.scm (libcanberra)[arguments]: Likewise. * gnu/packages/linux.scm (bridge-utils, iw, fuse, unionfs-fuse/static, lm-sensors, i2c-tools, xsensors, perf, mdadm, libaio, module-init-tools) [arguments]: Likewise. * gnu/packages/lisp.scm (ccl)[arguments]: Likewise. * gnu/packages/lout.scm (lout)[arguments]: Likewise. * gnu/packages/lua.scm (luajit)[arguments]: Likewise. * gnu/packages/machine-learning.scm (shogun)[arguments]: Likewise. * gnu/packages/mail.scm (exim)[arguments]: Likewise. * gnu/packages/man.scm (man-pages, txt2man)[arguments]: Likewise. * gnu/packages/maths.scm (lapack, superlu-dist, openlibm, openspecfun) [arguments]: Likewise. * gnu/packages/messaging.scm (bitlbee)[arguments]: Likewise. * gnu/packages/mp3.scm (libmad, id3lib, mp3info)[arguments]: Likewise. * gnu/packages/music.scm (solfege)[arguments]: Likewise. * gnu/packages/noweb.scm (noweb)[arguments]: Likewise. * gnu/packages/patchutils.scm (patchutils, quilt, colordiff)[arguments]: Likewise. * gnu/packages/pdf.scm (xpdf, zathura-cb, zathura-ps, zathura-djvu, zathura-pdf-poppler, zathura, podofo, fbida)[arguments]: Likewise. * gnu/packages/perl.scm (perl-file-list, perl-test-harness)[arguments]: Likewise. * gnu/packages/photo.scm (gphoto2)[arguments]: Likewise. * gnu/packages/popt.scm (popt)[arguments]: Likewise. * gnu/packages/pretty-print.scm (source-highlight, astyle)[arguments]: Likewise. * gnu/packages/pumpio.scm (pumpa)[arguments]: Likewise. * gnu/packages/python.scm (python-passlib, python-pycrypto, python2-empy, python-sqlalchemy, python-docopt)[arguments]: Likewise. * gnu/packages/rdf.scm (lrdf)[arguments]: Likewise. * gnu/packages/regex.scm (tre)[arguments]: Likewise. * gnu/packages/rrdtool.scm (rrdtool)[arguments]: Likewise. * gnu/packages/ruby.scm (ruby-2.1, ruby-1.8)[arguments]: Likewise. * gnu/packages/sawfish.scm (sawfish)[arguments]: Likewise. * gnu/packages/scheme.scm (racket)[arguments]: Likewise. * gnu/packages/sdl.scm (guile-sdl)[arguments]: Likewise. * gnu/packages/serveez.scm (serveez)[arguments]: Likewise. * gnu/packages/skribilo.scm (skribilo)[arguments]: Likewise. * gnu/packages/smalltalk.scm (smalltalk)[arguments]: Likewise. * gnu/packages/suckless.scm (dmenu, slock)[arguments]: Likewise. * gnu/packages/tcl.scm (expect)[arguments]: Likewise. * gnu/packages/telephony.scm (commoncpp)[arguments]: Likewise. * gnu/packages/textutils.scm (recode, libgtextutils)[arguments]: Likewise. * gnu/packages/time.scm (time)[arguments]: Likewise. * gnu/packages/tor.scm (privoxy)[arguments]: Likewise. * gnu/packages/uucp.scm (uucp)[arguments]: Likewise. * gnu/packages/video.scm (libdvdnav-4)[arguments]: Likewise. * gnu/packages/web-browsers.scm (lynx)[arguments]: Likewise. * gnu/packages/web.scm (tinyproxy)[arguments]: Likewise. * gnu/packages/wicd.scm (wicd)[arguments]: Likewise. * gnu/packages/wm.scm (bspwm)[arguments]: Likewise. * gnu/packages/xdisorg.scm (sxhkd, xcape)[arguments]: Likewise. * gnu/packages/xfce.scm (xfconf)[arguments]: Likewise. * gnu/packages/xfig.scm (transfig)[arguments]: Likewise. * gnu/packages/xorg.scm (imake)[arguments]: Likewise.
2017-09-17gnu: python-orator: Move to (gnu packages databases).Ben Woodcroft
* gnu/packages/python.scm: Remove (gnu packages time) import. (python-orator, python2-orator): Move from here ... * gnu/packages/databases.scm: ... to here.
2017-09-04gnu: Put autoconf-related phases immediately after the 'unpack phase.Kei Kebreau
* gnu/packages/audio.scm (audacity, rtmidi)[arguments]: Correct phases accordingly. * gnu/packages/bioinformatics.scm (mash, seek, vsearch, emboss, htslib-for-sambamba)[arguments]: Likewise. * gnu/packages/ci.scm (cuirass)[arguments]: Likewise. * gnu/packages/compression.scm (minizip, xdelta)[arguments]: Likewise. * gnu/packages/cpp.scm (libzen)[arguments]: Likewise. * gnu/packages/crypto.scm (opendht)[arguments]: Likewise. * gnu/packages/databases.scm (4store, mdbtools)[arguments]: Likewise. * gnu/packages/debug.scm (stress-make)[arguments]: Likewise. * gnu/packages/dns.scm (dnscrypt-proxy, dnscrypt-wrapper)[arguments]: Likewise. * gnu/packages/emacs.scm (emacs-pdf-tools)[arguments]: Likewise. * gnu/packages/embedded.scm (libjaylink, openocd)[arguments]: Likewise. * gnu/packages/engineering.scm (gerbv)[arguments]: Likewise. * gnu/packages/erlang.scm (erlang)[arguments]: Likewise. * gnu/packages/ftp.scm (weex)[arguments]: Likewise. * gnu/packages/gnome.scm (dia)[arguments]: Likewise. * gnu/packages/gnunet.scm (gnurl, guile-gnunet)[arguments]: Likewise. * gnu/packages/gtk.scm (guile-rsvg, graphene)[arguments]: Likewise. * gnu/packages/guile.scm (guildhall, guile-ics, guile-sqlite3)[arguments]: Likewise. * gnu/packages/ibus.scm (ibus-libpinyin)[arguments]: Likewise. * gnu/packages/irc.scm (weechat)[arguments]: Likewise. * gnu/packages/java.scm (classpath-devel)[arguments]: Likewise. * gnu/packages/libreoffice.scm (libetonyek)[arguments]: Likewise. * gnu/packages/libusb.scm (hidapi)[arguments]: Likewise. * gnu/packages/linux.scm (gpm)[arguments]: Likewise. * gnu/packages/logging.scm (glog)[arguments]: Likewise. * gnu/packages/machine-learning.scm (ghmm)[arguments]: Likewise. * gnu/packages/mail.scm (dovecot-trees, dovecot-libsodium-plugin, esmtp) [arguments]: Likewise. * gnu/packages/messaging.scm (freetalk, libmesode, libstrophe)[arguments]: Likewise. * gnu/packages/microcom.scm (microcom)[arguments]: Likewise. * gnu/packages/ocaml.scm (ocaml-ssl)[arguments]: Likewise. * gnu/packages/parallel.scm (slurm)[arguments]: Likewise. * gnu/packages/pdf.scm (libharu)[arguments]: Likewise. * gnu/packages/samba.scm (cifs-utils)[arguments]: Likewise. * gnu/packages/serialization.scm (msgpack)[arguments]: Likewise. * gnu/packages/shells.scm (scsh)[arguments]: Likewise. * gnu/packages/telephony.scm (libiax2)[arguments]: Likewise. * gnu/packages/textutils.scm (dotconf)[arguments]: Likewise. * gnu/packages/version-control.scm (findnewest)[arguments]: Likewise. * gnu/packages/video.scm (libmediainfo, mediainfo)[arguments]: Likewise.
2017-09-01gnu: mysql: Enable tests on aarch64.Efraim Flashner
* gnu/packages/databases.scm (mysql)[arguments]: Remove logic disabling the tests on aarch64-linux.
2017-08-31gnu: postgresql: Update to 9.6.5.Marius Bakke
* gnu/packages/databases.scm (postgresql): Update to 9.6.5. Release-notes: https://www.postgresql.org/docs/9.6/static/release-9-6-5.html
2017-08-27gnu: tdb: Update to 1.3.15.Marius Bakke
* gnu/packages/databases.scm (tdb): Update to 1.3.15.
2017-08-25gnu: perl: Add more missing dependencies on Module::Install.Marius Bakke
* gnu/packages/databases.scm (perl-dbix-class, perl-dbix-class-cursor-cached, perl-dbix-class-introspectablem2m, perl-dbix-class-schema-loader)[native-inputs]: Add PERL-MODULE-INSTALL. * gnu/packages/web.scm (perl-catalyst-action-renderview, perl-catalyst-action-rest, perl-catalyst-authentication-store-dbix-class, perl-catalyst-component-instancepercontext, perl-catalyst-model-dbic-schema, perl-catalyst-plugin-authentication, perl-catalyst-plugin-authorization-roles, perl-catalyst-plugin-configloader, perl-catalyst-plugin-session, perl-catalyst-plugin-session-state-cookie, perl-catalyst-plugin-stacktrace, perl-catalyst-plugin-static-simple, perl-catalyst-traitfor-request-proxybase, perl-catalyst-view-download, perl-catalyst-view-json, perl-catalystx-script-server-starman, perl-test-www-mechanize, perl-test-www-mechanize-catalyst)[native-inputs]: Likewise. * gnu/packages/xorg.scm (perl-x11-xcb)[native-inputs]: Likewise.
2017-08-21Merge branch 'master' into core-updatesMarius Bakke
2017-08-17gnu: mariadb: Update to 10.1.26 [fixes CVE-2017-{3636,3641,3653}].Alex Vong
* gnu/packages/databases.scm (mariadb): Update to 10.1.26. Signed-off-by: Leo Famulari <leo@famulari.name>
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