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* Merge branch 'master' into core-updatesMarius Bakke2018-03-29
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| * gnu: r-mutationalpatterns: Update to 1.4.3.Roel Janssen2018-03-29
| | | | | | | | | | * gnu/packages/bioinformatics.scm (r-mutationalpatterns): Update to 1.4.3; [propagated-inputs]: Remove r-gridextra.
| * gnu: kaiju: Update to 1.6.2.Roel Janssen2018-03-29
| | | | | | | | | | * gnu/packages/bioinformatics.scm (kaiju): Update to 1.6.2; [inputs]: Add zlib.
| * gnu: Add duperemove.Vasile Dumitrascu2018-03-29
| | | | | | | | | | | | * gnu/packages/disk.scm (duperemove): New variable. Co-authored-by: Ludovic Courtès <ludovic.courtes@inria.fr>
| * gnu: Add python-debug.Ludovic Courtès2018-03-29
| | | | | | | | | | | | Suggested by Pjotr Prins <pjotr.public12@thebird.nl>. * gnu/packages/python.scm (python-debug): New variable.
| * gnu: nano: Update to 2.9.5.Efraim Flashner2018-03-29
| | | | | | | | * gnu/packages/nano.scm (nano): Update to 2.9.5.
| * gnu: Add r-idr.Roel Janssen2018-03-29
| | | | | | | | * gnu/packages/cran.scm (r-idr): New variable.
| * gnu: Add r-amap.Roel Janssen2018-03-29
| | | | | | | | * gnu/packages/cran.scm (r-amap): New variable.
| * gnu: Add r-venndiagram.Roel Janssen2018-03-29
| | | | | | | | * gnu/packages/cran.scm (r-venndiagram): New variable.
| * gnu: Add r-pastecs.Roel Janssen2018-03-29
| | | | | | | | * gnu/packages/cran.scm (r-pastecs): New variable.
| * gnu: libusb4java: Adjust for building with libusb 1.0.22.Ricardo Wurmus2018-03-29
| | | | | | | | | | * gnu/packages/libusb.scm (libusb4java)[arguments]: Add phase to remove "-Werror" flag.
| * gnu: libusb-for-axoloti: Update patch.Ricardo Wurmus2018-03-29
| | | | | | | | | | * gnu/packages/patches/libusb-for-axoloti.patch: Update context for libusb 1.0.22.
| * gnu: Refactor boot-service-type and activation-service-type.Chris Marusich2018-03-29
| | | | | | | | | | | | | | | | * gnu/services.scm (boot-service-type) <compose>: Use the "identity" procedure instead of the "append" procedure because it more accurately reflects the intent, which is to simply return the single list of extensions to which fold-services applies the "compose" procedure. (activation-service-type) <compose>: Likewise.
| * gnu: node: Update to 9.10.0.Jelle Licht2018-03-28
| | | | | | | | * gnu/packages/node.scm (node): Update to 9.10.0.
| * gnu: http-parser: Update to 2.8.0.Jelle Licht2018-03-28
| | | | | | | | * gnu/packages/web.scm (http-parser): Update to 2.8.0.
| * gnu: xf86-video-ati: Update to 18.0.1.Marius Bakke2018-03-28
| | | | | | | | * gnu/packages/xorg.scm (xf86-video-ati): Update to 18.0.1.
| * gnu: xf86-input-libinput: Update to 0.27.0.Marius Bakke2018-03-28
| | | | | | | | * gnu/packages/xorg.scm (xf86-input-libinput): Update to 0.27.0.
| * gnu: ntp: Update to 4.2.8p11 [security-fixes].Leo Famulari2018-03-28
| | | | | | | | | | | | Fixes CVE-2016-1549 and CVE-2018-{7170,7182,7183,7184,7185}. * gnu/packages/ntp.scm (ntp): Update to 4.2.8p11.
| * gnu: openssl: Replace with OpenSSL 1.0.2o [fixes CVE-2018-0739].Leo Famulari2018-03-28
| | | | | | | | | | * gnu/packages/tls.scm (openssl)[replacement]: New field. (openssl-1.0.2o): New variable.
| * gnu: Add r-parsedate.Konrad Hinsen2018-03-28
| | | | | | | | | | | | * gnu/packages/cran.scm (r-parsedate): New variable. Signed-off-by: Ludovic Courtès <ludovic.courtes@inria.fr>
| * gnu: mu: Fix tests failures triggered by DST.Maxim Cournoyer2018-03-28
| | | | | | | | | | | | * gnu/packages/mail.scm (mu)[phases]: Add 'fix-date-tests. Signed-off-by: Ludovic Courtès <ludovic.courtes@inria.fr>
| * gnu: Add tcalc.Nadya Voronova2018-03-28
| | | | | | | | | | | | * gnu/packages/maths.scm (tcalc): New variables. Signed-off-by: Ludovic Courtès <ludovic.courtes@inria.fr>
| * gnu: culmus: Rename to font-culmus.Arun Isaac2018-03-28
| | | | | | | | | | * gnu/packages/fonts.scm (culmus): Rename to... (font-culmus): ...this. Re-indent.
| * gnu: culmus: Switch to font-build-system.Arun Isaac2018-03-28
| | | | | | | | | | * gnu/packages/fonts.scm (culmus): Switch to font-build-system. [arguments]: Replace system* with invoke.
| * gnu: font-linuxlibertine: Switch to font-build-system.Arun Isaac2018-03-28
| | | | | | | | | | * gnu/packages/fonts.scm (font-linuxlibertine): Switch to font-build-system. [arguments]: Replace system* with invoke.
| * gnu: font-lato: Switch to font-build-system.Arun Isaac2018-03-28
| | | | | | | | | | * gnu/packages/fonts.scm (font-lato): Switch to font-build-system. [source]: Use url-fetch/zipbomb.
| * gnu: icecat: Add fix for CVE-2018-5148.Mark H Weaver2018-03-27
| | | | | | | | | | * gnu/packages/gnuzilla.scm (icecat)[source]: Add the fix for CVE-2018-5148 from the upstream mozilla-esr52 repository.
| * gnu: mupdf: Fix CVE-2018-{6544,1000051}.Leo Famulari2018-03-27
| | | | | | | | | | | | | | * gnu/packages/patches/mupdf-CVE-2018-1000051.patch, gnu/packages/patches/mupdf-CVE-2018-6544.patch: New files. * gnu/local.mk (dist_patch_DATA): Add them. * gnu/packages/pdf.scm (mupdf)[source]: Use them.
| * gnu: emacs-org, emacs-org-contrib: Update to 9.1.9.Nicolas Goaziou2018-03-27
| | | | | | | | | | * gnu/packages/emacs.scm (emacs-org): (emacs-org-contrib): Update to 20180327, a.k.a. release 9.1.9.
| * gnu: alpine: Update to 2.21.999.ng02018-03-27
| | | | | | | | | | | | | | | | * gnu/packages/mail.scm (alpine): Update to 2.21.999. [source]: Change to new upstream location. [home-page]: Use new location. Signed-off-by: Ludovic Courtès <ludovic.courtes@inria.fr>
| * nss: Remove '%compat' from the defaults.Ludovic Courtès2018-03-27
| | | | | | | | | | | | * gnu/system/nss.scm (%compat): Add comment. (<name-service-switch>)[group, password, shadow]: Remove %COMPAT from the default value.
| * gnu: zstd: Update to 1.3.4.Tobias Geerinckx-Rice2018-03-27
| | | | | | | | * gnu/packages/compression.scm (zstd): Update to 1.3.4.
| * gnu: dovecot: Update to 2.3.1.Tobias Geerinckx-Rice2018-03-27
| | | | | | | | | | | | * gnu/packages/mail.scm (dovecot): Update to 2.3.1. [arguments]: Rename ‘patch-other-shebangs’ phase to the more accurate ‘patch-other-file-names’... then patch more file names.
| * gnu: lyx: Use HTTPS home page.Tobias Geerinckx-Rice2018-03-27
| | | | | | | | * gnu/packages/tex.scm (lyx)[home-page]: Use HTTPS.
| * gnu: openssl@1.1.0: Update to 1.1.0h [security fixes].Leo Famulari2018-03-27
| | | | | | | | | | | | Fixes CVE-2017-3738 and CVE-2018-{0733,0739}. * gnu/packages/tls.scm (openssl-next): Update to 1.1.0h.
| * gnu: Remove unnecessary import.Ludovic Courtès2018-03-27
| | | | | | | | * gnu/packages/guile.scm: Remove unnecessary import.
| * activation: Pass '-d HOME' to 'usermod'.Ludovic Courtès2018-03-27
| | | | | | | | | | | | | | | | | | Fixes a bug whereby changes to user home directories in the OS config would never be effective. Reported by Pierre Neidhardt <ambrevar@gmail.com>. * gnu/build/activation.scm (modify-user): Pass '-d HOME'.
| * gnu: bootstrap: Remove unneeded import.Ludovic Courtès2018-03-27
| | | | | | | | * gnu/packages/bootstrap.scm: Remove unneeded (guix build utils) import.
| * gnu: Remove Haskell packages provided by GHC.Timothy Sample2018-03-27
| | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/haskell.scm (ghc-array, ghc-binary, ghc-bytestring, ghc-directory, ghc-haskeline, ghc-process, ghc-transformers, ghc-transformers-0.4.2.0): Remove. (ghc-tar)[inputs]: Remove ghc-array. (ghc-hslogger)[inputs]: Remove ghc-directory. * gnu/packages/version-control.scm (darcs)[inputs]: Remove ghc-array, ghc-binary, and ghc-haskeline. * gnu/packages/wm.scm (xmonad)[inputs]: Remove ghc-directory. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
| * gnu: supercollider: Update to 3.9.2.Tobias Geerinckx-Rice2018-03-27
| | | | | | | | * gnu/packages/audio.scm (supercollider): Update to 3.9.2.
| * gnu: gzdoom: Update to 3.3.0.Tobias Geerinckx-Rice2018-03-27
| | | | | | | | * gnu/packages/games.scm (gzdoom): Update to 3.3.0.
| * gnu: ccache: Update to 3.4.2.Tobias Geerinckx-Rice2018-03-27
| | | | | | | | * gnu/packages/ccache.scm (ccache): Update to 3.4.2.
| * gnu: jetring: Update to 0.27.Tobias Geerinckx-Rice2018-03-27
| | | | | | | | * gnu/packages/gnupg.scm (jetring): Update to 0.27.
| * gnu: libkomparediff2: Update to 17.12.3.Tobias Geerinckx-Rice2018-03-27
| | | | | | | | * gnu/packages/kde.scm (libkomparediff2): Update to 17.12.3.
| * gnu: radeontop: Update to 1.1.Tobias Geerinckx-Rice2018-03-27
| | | | | | | | * gnu/packages/linux.scm (radeontop): Update to 1.1.
| * gnu: ruby-rake: Update to 12.3.1.Tobias Geerinckx-Rice2018-03-27
| | | | | | | | * gnu/packages/ruby.scm (ruby-rake): Update to 12.3.1.
| * gnu: ruby-asciidoctor: Update to 1.5.6.2.Tobias Geerinckx-Rice2018-03-27
| | | | | | | | * gnu/packages/ruby.scm (ruby-asciidoctor): Update to 1.5.6.2.
| * gnu: python-plotly: Update to 2.4.1.Tobias Geerinckx-Rice2018-03-27
| | | | | | | | * gnu/packages/graph.scm (python-plotly): Update to 2.4.1.
| * gnu: python-django-crispy-forms: Update to 1.7.2.Tobias Geerinckx-Rice2018-03-27
| | | | | | | | * gnu/packages/django.scm (python-django-crispy-forms): Update to 1.7.2.
| * gnu: r-randomforest: Update to 4.6-14.Tobias Geerinckx-Rice2018-03-27
| | | | | | | | * gnu/packages/statistics.scm (r-randomforest): Update to 4.6-14.
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