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* gnu: r-riboseqr: Update to 1.16.0.•••* gnu/packages/bioconductor.scm (r-riboseqr): Update to 1.16.0. Ricardo Wurmus2018-11-07
* gnu: r-riboprofiling: Update to 1.12.0.•••* gnu/packages/bioconductor.scm (r-riboprofiling): Update to 1.12.0. Ricardo Wurmus2018-11-07
* gnu: r-ripseeker: Update to 1.22.0.•••* gnu/packages/bioconductor.scm (r-ripseeker): Update to 1.22.0. Ricardo Wurmus2018-11-07
* gnu: r-chipcomp: Update to 1.12.0.•••* gnu/packages/bioconductor.scm (r-chipcomp): Update to 1.12.0. Ricardo Wurmus2018-11-07
* gnu: r-bayseq: Update to 2.16.0.•••* gnu/packages/bioconductor.scm (r-bayseq): Update to 2.16.0. Ricardo Wurmus2018-11-07
* gnu: r-chippeakanno: Update to 3.16.0.•••* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.16.0. [propagated-inputs]: Remove r-biocinstaller; add r-biocmanager. Ricardo Wurmus2018-11-07
* gnu: r-graph: Update to 1.60.0.•••* gnu/packages/bioconductor.scm (r-graph): Update to 1.60.0. Ricardo Wurmus2018-11-07
* gnu: r-multtest: Update to 2.38.0.•••* gnu/packages/bioconductor.scm (r-multtest): Update to 2.38.0. Ricardo Wurmus2018-11-07
* gnu: r-qdnaseq: Update to 1.18.0.•••* gnu/packages/bioconductor.scm (r-qdnaseq): Update to 1.18.0. Ricardo Wurmus2018-11-07
* gnu: r-cghcall: Update to 2.44.0.•••* gnu/packages/bioconductor.scm (r-cghcall): Update to 2.44.0. Ricardo Wurmus2018-11-07
* gnu: r-cghbase: Update to 1.42.0.•••* gnu/packages/bioconductor.scm (r-cghbase): Update to 1.42.0. Ricardo Wurmus2018-11-07
* gnu: r-marray: Update to 1.60.0.•••* gnu/packages/bioconductor.scm (r-marray): Update to 1.60.0. Ricardo Wurmus2018-11-07
* gnu: r-diffbind: Update to 2.10.0.•••* gnu/packages/bioconductor.scm (r-diffbind): Update to 2.10.0. Ricardo Wurmus2018-11-07
* gnu: r-hpar: Update to 1.24.0.•••* gnu/packages/bioconductor.scm (r-hpar): Update to 1.24.0. Ricardo Wurmus2018-11-07
* gnu: Add r-biocmanager.•••* gnu/packages/cran.scm (r-biocmanager): New variable. Ricardo Wurmus2018-11-07
* gnu: Add r-ncdf4.•••* gnu/packages/cran.scm (r-ncdf4): New variable. Ricardo Wurmus2018-11-07
* gnu: Add r-rcppannoy.•••* gnu/packages/cran.scm (r-rcppannoy): New variable. Ricardo Wurmus2018-11-07
* gnu: slang: Use a correct location for terminfo dirs.•••As termcap is disabled and no terminfo directory is given, slang is not able to query terminal capabilities. Specifying a correct path for terminfo will automatically disable termcap support in the configuration. * gnu/packages/slang.scm (slang)[source]: Remove the snippet disabling termcap. [arguments]: Set MISC_TERMINFO_DIRS to a correct location. Mathieu Othacehe2018-11-07
* gnu: terminals: Change libtsm and kmscon repositories.•••Those two packages (from the same author) are no longer maintained and do not even compile. Switch to a fork that is maintained even if it does not have any release yet. * gnu/packages/terminals.scm (libtsm)[origin]: Use "https://github.com/Aetf/libtsm" as new origin and switch to git-fetch method. (kmscon)[origin]: Use "https://github.com/Aetf/kmscon" as new origin and switch to git-fetch method. Mathieu Othacehe2018-11-07
* services: kmscon: Add an auto-login option.•••Add an auto-login option that behaves as the one of mingetty-service. * gnu/services/base.scm (kmscon-configuration)[auto-login]: New field. (kmscon-service-type): Pass it to kmscon command. * doc/guix.texi (Base Services): Document it. Mathieu Othacehe2018-11-07
* services: kmscon: Do not switch to vt at start.•••* gnu/services/base.scm (kmscon-service-type): Add "--no-switchvt" to kmscon command. Mathieu Othacehe2018-11-07
* gnu: Add guile-newt.•••* gnu/packages/guile.scm (guile-newt): New variable. Mathieu Othacehe2018-11-07
* gnu: kodi: Fix typo.•••This is a follow-up to 2c17bd7b2955beef4130d11b33e07e4fb3b234dc. * gnu/packages/kodi.scm (kodi)[arguments]: Remove unwanted symbols. Efraim Flashner2018-11-07
* gnu: LibreOffice: Update to 6.1.3.2.•••* gnu/packages/libreoffice.scm (libreoffice): Update to 6.1.3.2. Leo Famulari2018-11-06
* gnu: GnuPG: Update to 2.2.11.•••* gnu/packages/gnupg.scm (gnupg): Update to 2.2.11. Leo Famulari2018-11-06
* install: Add 'install-database-and-gc-roots'.•••* gnu/build/install.scm (%root-profile): New variable. (install-database-and-gc-roots): New procedure. (populate-single-profile-directory): Replace inline code with a call to 'install-database-and-gc-roots'. Ludovic Courtès2018-11-06
* pack: Import (guix store database) only when '--localstatedir' is passed.•••This is another way to address <https://bugs.gnu.org/32184>, which was previously addressed in commit 19c924af4f3726688ca155a905ebf1cb9acdfca2. * gnu/build/install.scm (register-closure): Move to... * gnu/build/vm.scm (register-closure): ... here. New procedure. * guix/scripts/pack.scm (self-contained-tarball)[build]: Remove now unneeded 'with-extensions' form and custom (guix config) module. * tests/guix-pack.sh: Revert the strategy from commit 19c924af4f3726688ca155a905ebf1cb9acdfca2. * tests/pack.scm ("self-contained-tarball"): Likewise. Ludovic Courtès2018-11-06
* pack: Move store database creation to a separate derivation.•••* guix/scripts/pack.scm (store-database): New procedure. (self-contained-tarball): Use it when LOCALSTATEDIR? is true. Remove 'schema' and add 'database'. [build]: Pass DATABASE to 'populate-single-profile-directory'. (squashfs-image): Remove #:deduplicate? parameter. [build]: Remove (gnu build install) and (guix config) from the imported modules. Remove 'with-extensions'. * gnu/build/install.scm (populate-single-profile-directory): Remove #:deduplicate?, #:register?, and #:schema; add #:database. Remove call to 'register-closure' and simply copy DATABASE instead. Ludovic Courtès2018-11-06
* gnu: nginx: Update to 1.14.1 [security fixes].•••This fixes CVE-2018-16843, CVE-2018-16844, and CVE-2018-16845. * gnu/packages/web.scm (nginx): Update to 1.14.1. Marius Bakke2018-11-06
* gnu: Syncthing: Update to 0.14.52.•••* gnu/packages/syncthing.scm (syncthing): Update to 0.14.52. Leo Famulari2018-11-06
* gnu: libgit2: Work around test failures on 32-bit platforms.•••* gnu/packages/patches/libgit2-oom-test.patch: New file. * gnu/packages/version-control.scm (libgit2)[source]: Use it. * gnu/local.mk (dist_patch_DATA): Add it. Ludovic Courtès2018-11-06
* gnu: Add xcb-util-errors.•••* gnu/packages/xorg.scm (xcb-util-errors): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Stefan Stefanović2018-11-06
* gnu: guile-sqlite3: Update home page.•••* gnu/packages/guile.scm (guile-sqlite3)[home-page]: Update. Ludovic Courtès2018-11-06
* gnu: Add r-weights.•••* gnu/packages/cran.scm (r-weights): New variable. Signed-off-by: Gábor Boskovits <boskovits@gmail.com> lakshmi2018-11-06
* gnu: youtube-dl: Update to 2018.11.03.•••* gnu/packages/video.scm (youtube-dl): Update to 2018.11.03. Tobias Geerinckx-Rice2018-11-06
* gnu: terraform-docs: Update to 0.5.0.•••* gnu/packages/terraform.scm (terraform-docs): Update to 0.5.0. [native-inputs]: Remove them all. Tobias Geerinckx-Rice2018-11-06
* gnu: jq: Don't use NAME in source URI.•••* gnu/packages/web.scm (jq)[source]: Code more hard. Tobias Geerinckx-Rice2018-11-06
* gnu: jq: Update to 1.6.•••* gnu/packages/web.scm (jq): Update to 1.6. [source]: Remove upstreamed patch. * gnu/packages/patches/jq-CVE-2015-8863.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. Tobias Geerinckx-Rice2018-11-06
* gnu: ffmpeg: Update to 4.1.•••* gnu/packages/video.scm (ffmpeg): Update to 4.1. Rutger Helling2018-11-06
* Revert "gnu: c-ares: Update to 1.15.0."•••c-ares has more than 3000 dependant packages. This reverts commit b588adc96feec4498857ecb6d3537f746b0c0463. Efraim Flashner2018-11-06
* gnu: c-ares: Update to 1.15.0.•••* gnu/packages/adns.scm (c-ares): Update to 1.15.0. Efraim Flashner2018-11-06
* gnu: services: dns: Fix 'ddclient-activation'.•••* gnu/services/dns.scm (ddclient-activation): Fix procedure. Oleg Pykhalov2018-11-06
* gnu: xf86-video-intel: Update to commit 0932a6b37ba6d5c9e916a1cb6ab89c3205b81...•••* gnu/packages/xorg.scm (xf86-video-intel): Update to 2.99.917-11.0932a6b. Marius Bakke2018-11-05
* gnu: xapian: Update to 1.4.9.•••* gnu/packages/patches/xapian-revert-5489fb2f8.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. * gnu/packages/search.scm (xapian): Update to 1.4.9. [source](patches): Remove. (python-xapian-bindings): Update to 1.4.9. Marius Bakke2018-11-05
* gnu: libssh: Update to 0.7.7.•••* gnu/packages/ssh.scm (libssh): Update to 0.7.7. Marius Bakke2018-11-05
* gnu: strace: Update to 4.25.•••* gnu/packages/linux.scm (strace): Update to 4.25. Marius Bakke2018-11-05
* gnu: libmtp: Update to 1.1.16.•••* gnu/packages/libusb.scm (libmtp): Update to 1.1.16. Marius Bakke2018-11-05
* gnu: libgit2: Update to 0.26.8.•••* gnu/packages/version-control.scm (libgit2): Update to 0.26.8. Marius Bakke2018-11-05
* gnu: i3-wm: Update to 4.16.•••* gnu/packages/wm.scm (i3-wm): Update to 4.16. Marius Bakke2018-11-05
* gnu: libgphoto2: Update to 2.5.20.•••* gnu/packages/photo.scm (libgphoto2): Update to 2.5.20. Marius Bakke2018-11-05
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