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* daemon: Improve the SQLite wrapper API.•••In particular, this eliminates a bunch of boilerplate code. Also integrates these Nix commits: 80da7a6 Probably fix SQLITE_BUSY errors 37a337b throwSQLiteError(): Check for SIGINT so we don't loop forever Co-authored-by: Ludovic Courtès <ludo@gnu.org> Eelco Dolstra2016-10-285-228/+168
* daemon: Factor out SQLite handling.•••* nix/libstore/local-store.cc: Move SQLite code to... * nix/libstore/sqlite.cc, nix/libstore/sqlite.hh: ... here. New files. * nix/local.mk (libstore_a_SOURCES): Add sqlite.cc. (libstore_headers): Add sqlite.hh. Co-authored-by: Ludovic Courtès <ludo@gnu.org> Eelco Dolstra2016-10-285-208/+227
* daemon: Turn retrying SQLite transactions into a higher-order function.•••* nix/libstore/local-store.cc (retry_sqlite, end_retry_sqlite): Remove. (retrySQLite): New template. (LocalStore::registerFailedPath, LocalStore::hasPathFailed) (LocalStore::queryFailedPaths, LocalStore::clearFailedPaths) (LocalStore::queryPathInfo, LocalStore::isValidPath_) (LocalStore::queryValidPaths, LocalStore::queryAllValidPaths) (LocalStore::queryReferrers, LocalStore::queryValidDerivers) (LocalStore::queryDerivationOutputs) (LocalStore::queryDerivationOutputNames) (LocalStore::queryPathFromHashPart, LocalStore::registerValidPaths) (LocalStore::invalidatePathChecked): Use it. Co-authored-by: Ludovic Courtès <ludo@gnu.org> Eelco Dolstra2016-10-281-33/+42
* gnu: vim: Update to 8.0.0051.•••* gnu/packages/vim.scm (vim): Update to 8.0.0051. [source]: Change to github release archive. Marius Bakke2016-10-281-4/+5
* gnu: python-twobitreader: Update to 3.1.4.•••* gnu/packages/bioinformatics.scm (python-twobitreader, python2-twobitreader): Update to 3.1.4. Leo Famulari2016-10-281-2/+2
* gnu: python-twobitreader: Disable the test suite.•••The tests were silently skipped with Python 3.4. With Python 3.5, this caused the build of python-twobitreader to fail. * gnu/packages/bioinformatics.scm (python-twobitreader, python2-twobitreader)[arguments]: Disable the tests. Leo Famulari2016-10-281-0/+5
* gnu: Add emacs-org-trello.•••* gnu/packages/emacs.scm (emacs-org-trello): New variable. Roel Janssen2016-10-281-0/+26
* gnu: python-wsgiproxy2: Disable the test suite.•••* gnu/packages/python.scm (python-wsgiproxy2, python2-wsgiproxy2)[arguments]: Disable the tests. Leo Famulari2016-10-281-0/+5
* gnu: python-beautifulsoup4: Update to 4.5.1.•••* gnu/packages/python.scm (python-beautifulsoup4, python2-beautifulsoup4): Update to 4.5.1. Leo Famulari2016-10-281-2/+2
* gnu: python-beautifulsoup4: Run the test suite.•••* gnu/packages/python.scm (python-beautifulsoup4)[arguments]: Add field run python-2 -> python-3 conversion script and test suite. (python2-beautifulsoup4)[arguments]: Specify use of python-2. Leo Famulari2016-10-281-1/+12
* gnu: python-feedparser: Disable the test suite.•••The tests were silently skipped with Python 3.4. With Python 3.5, this caused the build of python-feedparser to fail. * gnu/packages/python.scm (python-feedparser, python2-feedparser)[arguments]: Disable the tests. Leo Famulari2016-10-281-0/+2
* gnu: libwebp: Fix CVE-2016-9085.•••* gnu/packages/patches/libwebp-CVE-2016-9085.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/image.scm (libwebp)[source]: Use it. Leo Famulari2016-10-283-0/+146
* gnu: libwebp: Update to 0.5.1.•••* gnu/packages/image.scm (libwebp): Update to 0.5.1. Leo Famulari2016-10-281-2/+3
* gnu: Add emacs-request.•••* gnu/packages/emacs.scm (emacs-request): New variable. Roel Janssen2016-10-281-0/+20
* gnu: Add qwt.•••* gnu/packages/qt.scm (qwt): New variable. Signed-off-by: Marius Bakke <mbakke@fastmail.com> Thomas Danckaert2016-10-281-0/+50
* gnu: Add r-mutationalpatterns.•••* gnu/packages/bioinformatics.scm (r-mutationalpatterns): New variable. Roel Janssen2016-10-271-0/+33
* gnu: jasper: Updat eto 1.900.16.•••* gnu/packages/image.scm (japer): Update to 1.900.16. Efraim Flashner2016-10-271-2/+2
* gnu: windowmaker: Add support for more image formats.•••* gnu/packages/gnustep.scm (windowmaker)[inputs]: Add giflib, libpng, and libtiff. Kei Kebreau2016-10-271-1/+4
* gnu: r: Use uname from Guix•••* gnu/packages/statistics.scm (r): Use uname from Guix. Roel Janssen2016-10-271-0/+8
* gnu: python-urllib3: Update to 1.18.1.•••* gnu/packages/python.scm (python-urllib3): Update to 1.18.1. [home-page]: Use https URL. Marius Bakke2016-10-271-3/+3
* tests: Test installation with a RAID root partition.•••* gnu/tests/install.scm (%raid-root-os, %raid-root-os-source) (%raid-root-installation-script, %test-raid-root-os): New variables. Ludovic Courtès2016-10-271-0/+84
* file-systems: 'disk-partitions' detected partitions from mapped devices.•••Previously, partitions of mdadm- or cryptsetup-produced block devices would not be returned by 'disk-partitions'. * gnu/build/file-systems.scm (disk-partitions)[last-character]: New procedure. [partition?]: Add 'name' parameter and rewrite. Adjust caller. * gnu/build/file-systems.scm (ENOENT-safe): Silently ignore ENOMEDIUM. Ludovic Courtès2016-10-271-16/+19
* tests: Add #:memory-size parameter for the command to run the installed OS.•••* gnu/tests/install.scm (qemu-command/writable-image): Add #:memory-size parameter and honor it. Ludovic Courtès2016-10-271-3/+3
* mapped-devices: Use 'mdadm-static' in 'raid-device-mapping'.•••* gnu/system/mapped-devices.scm (open-raid-device, close-raid-device): Use MDADM-STATIC instead of MDADM. Use 'file-append'. Ludovic Courtès2016-10-271-3/+5
* gnu: Add mdadm-static.•••* gnu/packages/linux.scm (mdadm-static): New variable. Ludovic Courtès2016-10-271-0/+29
* gnu: libmikmod: Update to 3.3.10.•••* gnu/packages/sdl.scm (libmikmod): Update to 3.3.10. Efraim Flashner2016-10-271-2/+2
* gnu: sdl2: Update to 2.0.5.•••* gnu/packages/sdl.scm (sdl2): Update to 2.0.5. Efraim Flashner2016-10-271-2/+2
* gnu: Use 'https' for libsdl urls.•••* gnu/packages/sdl.scm (sdl, sdl2, sdl-image, sdl-mixer, sdl-net) (sdl-ttf, sdl2-image, sdl2-ttf)[source]: Use https. [home-page]: Use https. Efraim Flashner2016-10-271-13/+14
* gnu: mcelog: Update to 144.•••* gnu/packages/linux.scm (mcelog): Update to 144. Tobias Geerinckx-Rice2016-10-271-2/+2
* gnu: btrfs-progs: Update to 4.8.2.•••* gnu/packages/linux.scm (btrfs-progs): Update to 4.8.2. Tobias Geerinckx-Rice2016-10-271-2/+2
* gnu: gnupg: Add support for pcsc-lite.•••* gnu/packages/gnupg.scm (gnupg)[inputs]: Add pcsc-lite. [arguments]: Rename phase 'patch-config-files' to 'patch-paths'. Patch `scd/scdaemon.c' with absolute path of libpcsclite.so. Signed-off-by: Marius Bakke <mbakke@fastmail.com> Mike Gerwitz2016-10-271-2/+9
* gnu: Add pcsc-lite.•••* gnu/packages/security-token.scm (pcsc-lite): New variable. Signed-off-by: Marius Bakke <mbakke@fastmail.com> Mike Gerwitz2016-10-271-2/+36
* gnu: Add dbacl.•••* gnu/packages/textutils.scm (dbacl): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il> ng02016-10-271-0/+86
* gnu: valgrind: Use 'modify-phases' syntax.•••* gnu/packages/valgrind.scm (valgrind)[arguments]: Use 'modify-phases' syntax. Efraim Flashner2016-10-271-12/+13
* gnu: valgrind: Update to 3.12.0.•••* gnu/packages/valgrind.scm (valgrind): Update to 3.12.0. Efraim Flashner2016-10-271-2/+2
* gnu: python-pathlib2: Add comment.•••As suggested by Efraim Flashner. * gnu/packages/python.scm (python-pathlib2): Add comment. Hartmut Goebel2016-10-271-0/+3
* gnu: shotwell: Update to 0.25.0.•••* gnu/packages/gnome.scm (shotwell): Update to 0.25.0. [inputs]: Add gcr. Leo Famulari2016-10-261-3/+4
* gnu: vdirsyncer: Update to 0.14.0.•••* gnu/packages/dav.scm (vdirsyncer): Update to 0.14.0. Leo Famulari2016-10-261-2/+2
* tests: Test installation with store on a separate partition.•••This is a followup to 0f65f54ebd76324653fd5506a7dab42ee44d9255. * gnu/tests/install.scm (%separate-store-os, %separate-store-os-source) (%separate-store-installation-script, %test-separate-store-os): New variables. Ludovic Courtès2016-10-271-0/+82
* tests: Use #:fallback? #t when building system tests.•••* build-aux/run-system-tests.scm (run-system-tests): Pass #:fallback? #t to 'set-build-options*'. Ludovic Courtès2016-10-271-1/+2
* tests: Adjust pypi test to recent importer change.•••This is a followup to b5c347ad3d83ee580c111bd14c80b469b0dcb294. * tests/pypi.scm ("pypi->guix-package"): Expect 'propagated-inputs', not 'inputs'. ("pypi->guix-package, wheels"): Likewise. Ludovic Courtès2016-10-271-2/+2
* tests: Skip 'pivot-root' test on Linux > 4.7.5.•••* tests/syscalls.scm ("pivot-root"): Skip when 'uname' returns a 'utsname:release' > 4.7.5. Ludovic Courtès2016-10-271-1/+4
* gnu: Add lci.•••* gnu/packages/lolcode.scm: New file. * gnu/local.mk (GNU_SYSTEM_MODULES): Add it. Signed-off-by: Efraim Flashner <efraim@flashner.co.il> ng02016-10-262-0/+59
* gnu: Add autossh.•••* gnu/packages/ssh.scm (autossh): New variable. Christopher Allan Webber2016-10-261-0/+26
* gnu: r: Update to 3.3.1.•••* gnu/packages/statistics.scm (r): Update to 3.3.1. Ricardo Wurmus2016-10-261-2/+2
* gnu: r-matrixstats: Update to 0.51.0.•••* gnu/packages/statistics.scm (r-matrixstats): Update to 0.51.0. Ricardo Wurmus2016-10-261-2/+2
* gnu: r-r-utils: Update to 2.4.0.•••* gnu/packages/statistics.scm (r-r-utils): Update to 2.4.0. Ricardo Wurmus2016-10-261-2/+2
* gnu: r-irlba: Update to 2.1.2.•••* gnu/packages/statistics.scm (r-irlba): Update to 2.1.2. Ricardo Wurmus2016-10-261-2/+2
* gnu: r-codetools: Update to 0.2-15.•••* gnu/packages/statistics.scm (r-codetools): Update to 0.2-15. Ricardo Wurmus2016-10-261-2/+2
* gnu: r-snow: Update to 0.4-2.•••* gnu/packages/statistics.scm (r-snow): Update to 0.4-2. Ricardo Wurmus2016-10-261-2/+2