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Author SHA1 Message Date
Marius Bakke bd12be346b
gnu: LibRaw: Update to 0.19.4. 
* gnu/packages/photo.scm (libraw): Update to 0.19.4.
 2019-08-08 17:48:45 +02:00
Marius Bakke c8f5827a56
gnu: postgresql: Udpate to 10.10 [fixes CVE-2019-10208]. 
* gnu/packages/databases.scm (postgresql): Update to 10.10.
 2019-08-08 17:32:18 +02:00
Ricardo Wurmus 7ef25083f0
gnu: r-modelr: Update to 0.1.5. 
* gnu/packages/cran.scm (r-modelr): Update to 0.1.5.
[propagated-inputs]: Remove r-lazyeval; add r-rlang.
 2019-08-08 17:20:46 +02:00
Ricardo Wurmus eb8963d989
gnu: r-quantreg: Update to 5.51. 
* gnu/packages/statistics.scm (r-quantreg): Update to 5.51.
 2019-08-08 16:47:05 +02:00
Ricardo Wurmus eaca771e88
gnu: r-knitr: Update to 1.24. 
* gnu/packages/statistics.scm (r-knitr): Update to 1.24.
 2019-08-08 16:47:05 +02:00
Ricardo Wurmus 9649072cbd
gnu: r-markdown: Update to 1.1. 
* gnu/packages/statistics.scm (r-markdown): Update to 1.1.
[propagated-inputs]: Add r-xfun.
 2019-08-08 16:47:05 +02:00
Ricardo Wurmus d099499e0b
gnu: r-ggsignif: Update to 0.6.0. 
* gnu/packages/cran.scm (r-ggsignif): Update to 0.6.0.
 2019-08-08 16:47:05 +02:00
Ricardo Wurmus 90060e2071
gnu: r-hdf5array: Update to 1.12.2. 
* gnu/packages/bioinformatics.scm (r-hdf5array): Update to 1.12.2.
 2019-08-08 16:47:05 +02:00
Ricardo Wurmus a39f2e4cea
gnu: r-biocparallel: Update to 1.18.1. 
* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.18.1.
 2019-08-08 16:47:02 +02:00
Marius Bakke ba73c434e0
gnu: ToME4: Disable parallel build. 
* gnu/packages/games.scm (tome4)[arguments]: Add <#:parallel-build?>.
 2019-08-08 16:45:14 +02:00
Efraim Flashner 1a069a170c
Revert "gnu: Add vcflib." 
This reverts commit 194e45f90a.

This commit does not have a good commit message, and it breaks master
 2019-08-08 15:34:05 +03:00
Efraim Flashner 6bc63fd8a7
Revert "gnu: Add freebayes." 
This reverts commit 173e046950.
 2019-08-08 15:32:51 +03:00
Pierre Neidhardt 173e046950
gnu: Add freebayes. 
* gnu/packages/bioinformatics.scm (freebayes): New variable.
 2019-08-08 15:18:34 +03:00
Pierre Neidhardt 194e45f90a
gnu: Add vcflib. 
* gnu/packages/bioinformatics.scm (vcflib): New variable.
 2019-08-08 15:18:33 +03:00
Pierre Neidhardt 7d71557d4d
gnu: Add fastahack. 
* gnu/packages/bioinformatics.scm (fastahack): New variable.
 2019-08-08 15:18:32 +03:00
Pierre Neidhardt 70782dddff
gnu: Add fsom. 
* gnu/packages/bioinformatics.scm (fsom): New variable.
 2019-08-08 15:18:31 +03:00
Pierre Neidhardt 8cd51276e5
gnu: Add multichoose. 
* gnu/packages/bioinformatics.scm (multichoose): New variable.
 2019-08-08 15:18:30 +03:00
Pierre Neidhardt 7faa70cf2b
gnu: Add smithwaterman. 
* gnu/packages/bioinformatics.scm (smithwaterman): New variable.
 2019-08-08 15:18:29 +03:00
Pierre Neidhardt 62a031afc4
gnu: Add tabixpp. 
* gnu/packages/bioinformatics.scm (tabixpp): New variable.
 2019-08-08 15:18:14 +03:00
Efraim Flashner 8378c87a59
gnu: Add network-manager-openconnect. 
* gnu/packages/gnome.scm (network-manager-openconnect): New variable.
 2019-08-08 10:08:00 +03:00
Robert Vollmert caa366ec23
gnu: ghc-trifecta: Disable tests. 
* gnu/packages/haskell.scm (ghc-trifecta)[arguments]: Disable tests.
 2019-08-07 22:05:34 -04:00
Robert Vollmert dbfaac113a
gnu: ghc-yaml: Disable tests. 
* gnu/packages/haskell.scm (ghc-yaml)[arguments]: Disable tests.
 2019-08-07 22:05:34 -04:00
Robert Vollmert 9ec2d6f84c
gnu: ghc-libmpd-haskell: Disable tests. 
* gnu/packages/haskell.scm (ghc-libmpd-haskell)[arguments]: Disable
tests.
 2019-08-07 22:05:33 -04:00
Robert Vollmert 3755088b54
gnu: Remove ghc-packedstring. 
The package has no reverse dependencies and is deprecated upstream.

* gnu/packages/haskell.scm (ghc-packedstring): Remove variable.
 2019-08-07 22:05:33 -04:00
Robert Vollmert 63edeca773
gnu: Remove ghc-haddock-test. 
The package doesn't build, has no reverse dependencies, and is
deprecated upstream.

* gnu/packages/haskell.scm (ghc-haddock-test): Remove variable.
 2019-08-07 22:05:33 -04:00
Robert Vollmert 0d59302eba
gnu: Remove ghc-regex-tdfa-rc. 
The package doesn't build, has no reverse dependencies, and is deprecated
upstream.

* gnu/packages/haskell.scm (ghc-regex-tdfa-rc): Remove variable.
 2019-08-07 22:05:33 -04:00
Robert Vollmert 8ede1021c8
gnu: Add ghc-snap-server. 
* gnu/packages/haskell-web.scm (ghc-snap-server): New variable.
 2019-08-07 22:05:33 -04:00
Robert Vollmert 4f1793a2be
gnu: Add ghc-snap-core. 
* gnu/packages/haskell-web.scm (ghc-snap-core): New variable.
 2019-08-07 22:05:32 -04:00
Robert Vollmert 4ccd679f25
gnu: Add ghc-http-streams. 
* gnu/packages/haskell-web.scm (ghc-http-streams): New variable.
 2019-08-07 22:05:32 -04:00
Robert Vollmert 0173cdd31d
gnu: Add ghc-http-common. 
* gnu/packages/haskell-web.scm (ghc-http-common): New variable.
 2019-08-07 22:05:32 -04:00
Robert Vollmert 4ba66e6f16
gnu: Add ghc-openssl-streams. 
* gnu/packages/haskell-crypto.scm (ghc-openssl-streams): New variable.
 2019-08-07 22:05:32 -04:00
Robert Vollmert 0925b80409
gnu: Add ghc-hsopenssl. 
* gnu/packages/haskell-crypto.scm (ghc-hsopenssl): New variable.
 2019-08-07 22:05:32 -04:00
Robert Vollmert 7b01a977e4
gnu: Add ghc-io-streams-haproxy. 
* gnu/packages/haskell-xyz.scm (ghc-io-streams-haproxy): New variable.
 2019-08-07 22:05:32 -04:00
Robert Vollmert 658dbc7ff2
gnu: Add ghc-io-streams. 
* gnu/packages/haskell-xyz.scm (ghc-io-streams): New variable.
 2019-08-07 22:05:31 -04:00
Robert Vollmert 14e4199646
gnu: Add ghc-zlib-bindings. 
* gnu/packages/haskell-xyz.scm (ghc-zlib-bindings): New variable.
 2019-08-07 22:05:31 -04:00
Robert Vollmert bbf8bf31e4
gnu: Add ghc-threads. 
* gnu/packages/haskell-xyz.scm (ghc-threads): New variable.
 2019-08-07 22:05:31 -04:00
Robert Vollmert b57e99f574
gnu: Add ghc-readable. 
* gnu/packages/haskell-xyz.scm (ghc-readable): New variable.
 2019-08-07 22:05:31 -04:00
Robert Vollmert efb96749a2
gnu: Add ghc-concurrent-extra. 
* gnu/packages/haskell-xyz.scm (ghc-concurrent-extra): New variable.
 2019-08-07 22:05:31 -04:00
Robert Vollmert 79fcc5e59b
gnu: Add ghc-language-glsl. 
* gnu/packages/haskell-xyz.scm (ghc-language-glsl): New variable.
 2019-08-07 22:05:30 -04:00
Robert Vollmert 6b34d01cbf
gnu: Add ghc-prettyclass. 
* gnu/package/haskell-xyz.scm: New file.
* gnu/local.mk: Add it.
* gnu/packages/haskell-xyz.scm (ghc-prettyclass): New variable.
 2019-08-07 22:05:30 -04:00
Robert Vollmert 91732735f6
gnu: ghc-ansi-terminal: Downgrade to 0.8.0.4. 
This reverts commits

    cbff89d126,
    5a499d0f7d, and
    4e3ebbfb16.

* gnu/packages/haskell.scm (ghc-ansi-terminal): Downgrade to 0.8.0.4.
(ghc-ansi-terminal-0.8): Delete variable.
(ghc-ansi-wl-pprint, ghc-concurrent-output)[inputs]: Replace
'ghc-ansi-terminal-0.8' with 'ghc-ansi-terminal'.
* gnu/packages/haskell-check.scm (ghc-hedgehog)[inputs]: Likewise.
 2019-08-07 22:05:30 -04:00
Robert Vollmert e8aea9018b
gnu: ghc-validation: Downgrade to 1. 
This is the Stackage LTS version, which is compatible with
ansi-terminal 0.8.

* gnu/packages/haskell.scm (ghc-validation): Downgrade to 1.
 2019-08-07 22:05:30 -04:00
Robert Vollmert f74aa98ed7
gnu: ghc-concurrent-output: Downgrade to 1.10.9. 
This is the Stackage LTS version, which is compatible with
ansi-terminal 0.8.

* gnu/packages/haskell.scm (ghc-concurrent-output): Downgrade to 1.10.9
and use ghc-ansi-terminal-0.8.
 2019-08-07 22:05:30 -04:00
Robert Vollmert 1c54c30d9c
gnu: ghc-validation: Do not generate 'Setup.hs'. 
This is handled by the build system.

* gnu/packages/haskell.scm (ghc-validation): Remove 'arguments'.
 2019-08-07 22:05:30 -04:00
Robert Vollmert a1eb8be8ca
gnu: Remove ghc-parsec, ghc-stm, ghc-text, ghc-xhtml. 
These are ghc-8.4-bundled packages, removing to avoid build
conflicts.

* gnu/packages/haskell.scm (ghc-parsec, ghc-stm, ghc-text): Remove.
* gnu/packages/haskell-web.scm (ghc-xhtml): Remove.
* gnu/packages/agda.scm (agda)[inputs]: Remove ghc-stm and ghc-text.
* gnu/packages/bioinformatics.scm (ngless)[inputs]: Remove ghc-parsec and
ghc-text.
* gnu/packages/haskell-apps.scm (darcs)[inputs]: Remove ghc-parsec.
(git-annex)[inputs]: Remove ghc-stm and ghc-text.
(ghc-sdl2)[inputs]: Remove ghc-text.
(ghc-sdl2-image)[inputs]: Remove ghc-text.
* gnu/packages/haskell-check.scm (ghc-tasty-ant-xml)[inputs]: Remove ghc-stm.
(ghc-tasty)[inputs]: Remove ghc-stm.
(ghc-tasty-rerun)[inputs]: Same.
(ghc-quickcheck-instances)[inputs]: Remove ghc-text.
(ghc-hedgehog)[inputs]: Remove ghc-stm.
* gnu/packages/haskell-crypto.scm (ghc-asn1-encoding)[inputs]: Remove
ghc-text.
* gnu/packages/haskell-web.scm (ghc-tagsoup)[inputs]: Remove ghc-text.
(ghc-cookie)[inputs]: Same.
(ghc-http-types)[inputs]: Same.
(ghc-http)[inputs]: Remove ghc-parsec.
(ghc-http-client)[inputs]: Remove ghc-text.
(ghc-http2)[inputs]: Remove ghc-stm.
(ghc-http-conduit)[native-inputs]: Remove ghc-text.
(ghc-wai)[inputs]: Same.
(ghc-wai-extra)[inputs]: Same.
(ghc-warp)[inputs]: Remove ghc-stm and ghc-text.
(ghc-xss-sanitize)[native-inputs]: Remove ghc-text.
(ghc-css-text)[inputs]: Same.
(ghc-mime-types)[inputs]: Same.
(ghc-blaze-html)[inputs]: Same.
(ghc-aeson)[inputs]: Same.
(ghc-aeson-pretty)[inputs]: Same.
(ghc-aeson-qq)[inputs]: Remove ghc-text and ghc-parsec.
(ghc-multipart)[inputs]: Remove ghc-parsec.
(ghc-uri-encode)[inputs]: Remove ghc-text.
(ghc-path-pieces)[inputs]: Same.
(ghc-yesod-core)[inputs]: Remove ghc-text and ghc-parsec.
(ghc-yesod-persistent)[inputs]: Remove ghc-text.
(ghc-yesod-form)[inputs]: Same.
(ghc-yesod)[inputs]: Same.
(ghc-hxt-regex-xmlschema)[inputs]: Remove ghc-parsec and ghc-text.
(ghc-hxt)[inputs]: Remove ghc-parsec.
* gnu/packages/haskell.scm (ghc-convertible)[inputs]: Remove ghc-text.
(ghc-double-conversion)[inputs]: Same.
(ghc-tree-diff)[inputs]: Remove ghc-parsec and ghc-text.
[native-inputs]: Remove ghc-parsec.
(ghc-cgi)[inputs]: Remove ghc-parsec.
(hlint)[inputs]: Remove ghc-text.
(ghc-openglraw)[inputs]: Remove ghc-text.
(ghc-opengl)[inputs]: Same.
(ghc-streaming-commons)[inputs]: Remove ghc-stm and ghc-text.
(ghc-hackage-security)[inputs]: Remove ghc-parsec.
(cabal-install)[inputs]: Remove ghc-stm.
(ghc-parsec-numbers)[inputs]: Remove ghc-parsec.
(ghc-safesemaphore)[inputs]: Remove ghc-stm.
(ghc-text-binary)[inputs]: Remove ghc-text.
(ghc-hashable)[inputs]: Remove ghc-text.
(ghc-transformers-base)[inputs]: Remove ghc-stm.
(ghc-indents)[inputs]: Remove ghc-parsec.
(ghc-regex-tdfa-rc)[inputs]: Same.
(ghc-regex-tdfa-text)[inputs]: Same.
(ghc-regex)[inputs]: Remove ghc-text.
(ghc-parsers)[inputs]: Remove ghc-parsec and ghc-text.
(ghc-attoparsec)[inputs]: Remove ghc-text.
(ghc-attoparsec-bootstrap)[inputs]: Same.
(ghc-zip-archive)[inputs]: Same.
(ghc-polyparse)[inputs]: Same.
(ghc-reducers)[inputs]: Same.
(ghc-xml)[inputs]: Same.
(ghc-feed)[inputs]: Same.
(ghc-exceptions)[inputs]: Remove ghc-stm.
(ghc-case-insensitive)[inputs]: Remove ghc-text.
(ghc-megaparsec)[inputs]: Same.
(ghc-network-uri)[inputs]: Remove ghc-parsec.
(ghc-monad-control)[inputs]: Remove ghc-stm.
(ghc-blaze-builder)[inputs]: Remove ghc-text.
(ghc-blaze-markup)[inputs]: Same.
(ghc-async)[inputs]: Remove ghc-stm.
(ghc-invariant)[inputs]: Same.
(ghc-statevar)[inputs]: Same.
(ghc-lens)[inputs]: Remove ghc-text.
(ghc-cheapskate)[inputs]: Same.
(ghc-semigroups)[inputs]: Same.
(ghc-semigroups-bootstrap)[inputs]: Same.
(ghc-fast-logger)[inputs]: Same.
(ghc-scientific)[inputs]: Same.
(ghc-scientific-bootstrap)[inputs]: Same.
(ghc-texmath)[inputs]: Remove ghc-parsec.
(ghc-highlighting-kate)[inputs]: Same.
(ghc-cmark)[inputs]: Remove ghc-text.
(ghc-cmark-gfm)[inputs]: Same.
(ghc-th-lift-instances)[inputs]: Same.
(ghc-yaml)[inputs]: Same.
(ghc-hslua)[inputs]: Same.
(ghc-hslua-module-text)[inputs]: Same.
(ghc-skylighting-core)[inputs]: Same.
(ghc-doctemplates)[inputs]: Remove ghc-text and ghc-parsec.
(ghc-pandoc)[inputs]: Same.
(ghc-typed-process)[inputs]: Remove ghc-stm.
(ghc-conduit-extra)[inputs]: Remove ghc-stm and ghc-text.
(ghc-xml-types)[inputs]: Remove ghc-text.
(ghc-xml-conduit)[inputs]: Same.
(ghc-pandoc-citeproc)[inputs]: Remove ghc-text and ghc-parsec.
(ghc-regex-tdfa)[inputs]: Remove ghc-parsec.
(ghc-wl-pprint-text)[inputs]: Remove ghc-text.
(ghc-graphviz)[inputs]: Same.
(ghc-system-filepath-bootstrap)[inputs]: Same.
(ghc-system-fileio-bootstrap)[inputs]: Same.
(ghc-shelly)[inputs]: Same.
(ghc-chell)[inputs]: Same.
(ghc-system-filepath)[inputs]: Same.
(ghc-system-fileio)[inputs]: Same.
(ghc-fsnotify)[inputs]: Same.
(ghc-json)[inputs]: Remove ghc-text and ghc-parsec.
(ghc-esqueleto)[inputs]: Remove ghc-text.
(shellcheck)[inputs]: Remove ghc-parsec.
(ghc-errors)[inputs]: Remove ghc-text.
(ghc-chunked-data)[inputs]: Same.
(ghc-uuid-types)[inputs]: Same.
(ghc-uuid)[inputs]: Same.
(ghc-rebase)[inputs]: Remove ghc-stm and ghc-text.
(ghc-foldl)[inputs]: Remove ghc-text.
(ghc-mono-traversable)[inputs]: Same.
(ghc-conduit-combinators)[inputs]: Same.
(ghc-aws)[inputs]: Same.
(ghc-stm-chans)[inputs]: Remove ghc-stm.
(ghc-monad-logger)[inputs]: Remove ghc-text and ghc-stm.
(ghc-shakespeare)[inputs]: Remove ghc-parsec and ghc-text.
(ghc-resource-pool)[inputs]: Remove ghc-stm.
(ghc-attoparsec-iso8601)[inputs]: Remove ghc-text.
(ghc-http-api-data)[inputs]: Same.
(ghc-persistent)[inputs]: Same.
(ghc-aeson-compat)[inputs]: Same.
(ghc-persistent-template)[inputs]: Same.
(ghc-unliftio)[inputs]: Remove ghc-stm.
(ghc-persistent-sqlite)[native-inputs]: Remove ghc-text.
(ghc-bytes)[inputs]: Same.
(ghc-missingh)[inputs]: Remove ghc-parsec.
(ghc-rio)[inputs]: Remove ghc-text.
(ghc-cairo)[inputs]: Same.
(ghc-atomic-write)[inputs]: Remove ghc-text.
[native-inputs]: Same.
(ghc-stm-conduit)[inputs]: Remove ghc-stm.
(ghc-conduit-algorithms)[inputs]: Same.
(ghc-interpolate)[native-inputs]: Remove ghc-text.
(ghc-hpack)[inputs]: Same.
(ghc-inline-c)[inputs]: Remove ghc-parsec.
(ghc-configurator)[inputs]: Remove ghc-text.
(ghc-c2hs)[native-inputs]: Same.
(ghc-libmpd)[inputs]: Same.
(ghc-concurrent-output)[inputs]: Remove ghc-stm.
* gnu/packages/idris.scm (idris)[inputs]: Remove ghc-text.
* gnu/packages/wm.scm (xmobar)[inputs]: Remove ghc-parsec and ghc-stm.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-07 22:05:29 -04:00
Robert Vollmert cce84c34cd
gnu: Add ghc-8.6. 
* gnu/packages/haskell.scm (ghc-8.6): New variable.

Co-authored-by: Timothy Sample <samplet@ngyro.com>
 2019-08-07 22:05:29 -04:00
Robert Vollmert a62ddb748f
gnu: ghc-8: Rename to 'ghc-8.4'. 
* gnu/packages/haskell.scm (ghc-8): Rename to...
(ghc-8.4): ...this.
(ghc-8): New variable.
 2019-08-07 22:05:23 -04:00
Marius Bakke 8e7f97b9ff
Merge branch 'master' into staging 2019-08-08 00:35:37 +02:00
Marius Bakke ba7ff983d6
gnu: wpa-supplicant: Update to 2.9. 
* gnu/packages/admin.scm (wpa-supplicant-minimal): Update to 2.9.
 2019-08-08 00:30:56 +02:00
Marius Bakke 277faff8ff
gnu: xf86-video-intel: Update to 2.99.917-14.6f4972d. 
* gnu/packages/xorg.scm (xf86-video-intel): Update to 2.99.917-14.6f4972d.
 2019-08-08 00:30:56 +02:00
Jakob L. Kreuze d84e9b75b2
machine: Add 'build-locally?' field for managed hosts. 
* gnu/machine/ssh.scm (machine-ssh-configuration-build-locally?): New
variable.
(managed-host-remote-eval): Pass 'build-locally?' to 'remote-eval'.
 2019-08-07 18:29:07 -04:00
Ricardo Wurmus 9bd1333e58
Merge remote-tracking branch 'origin/master' into wip-texlive 2019-08-07 22:26:55 +02:00
Marius Bakke fa228db78b
gnu: mesa: Update to 19.1.4. 
* gnu/packages/gl.scm (mesa): Update to 19.1.4.
 2019-08-07 22:07:41 +02:00
Jakob L. Kreuze ec12235ce2
reconfigure: Improve tests for system activation. 
* gnu/tests/reconfigure.scm (run-switch-to-system-test): Assert that
'/run/current-system' points to the activated system, and that new user
accounts specified in the operating system declaration are created.
 2019-08-07 15:27:09 -04:00
Efraim Flashner 355ba48c46
gnu: igt-gpu-tools: Rework custom phases. 
* gnu/packages/admin.scm (igt-gpu-tools)[arguments]: Use custom 'autogen
phase to replace 'bootstrap phase.
 2019-08-07 20:06:01 +03:00
Efraim Flashner 72bc58f850
gnu: dosbox: Remove extra build phase. 
* gnu/packages/emulators.scm (dosbox)[arguments]: Remove unneeded
'autogen phase.
 2019-08-07 20:06:00 +03:00
Efraim Flashner 3192f25948
gnu: zimg: Remove extra build phase. 
* gnu/packages/image.scm (zimg)[arguments]: Remove unneeded 'autogen
phase.
 2019-08-07 20:06:00 +03:00
Efraim Flashner 384242adf1
gnu: leptonica: Remove extra build phase. 
* gnu/packages/image.scm (leptonica)[arguments]: Remove unneeded
'autogen phase.
 2019-08-07 20:06:00 +03:00
Efraim Flashner a491856f2a
gnu: ghmm: Remove extra build phase. 
* gnu/packages/machine-learning.scm (ghmm)[arguments]: Remove unneeded
'autogen phase.
 2019-08-07 20:05:59 +03:00
Efraim Flashner e3a699380e
gnu: ghmm: Update source file-name field. 
* gnu/packages/machine-learning.scm (ghmm)[source]: Change 'file-name
field to include '-checkout' string.
 2019-08-07 20:05:59 +03:00
Efraim Flashner 1f53fdae82
gnu: dovecot-libsodium-plugin: Remove extra build phase. 
* gnu/packages/mail.scm (dovecot-libsodium-plugin)[arguments]: Remove
unneeded 'autogen phase.
 2019-08-07 20:05:59 +03:00
Efraim Flashner 7b0efd4c32
gnu: dovecot-trees: Remove extra build phase. 
* gnu/packages/mail.scm (dovecot-trees)[arguments]: Remove unneeded
'autogen phase.
 2019-08-07 20:05:58 +03:00
Efraim Flashner 02abfcca46
gnu: libetpan: Rework custom phases. 
* gnu/packages/mail.scm (libetpan)[arguments]: Use custom 'autogen phase
to replace 'boostrap phase.
 2019-08-07 20:05:58 +03:00
Efraim Flashner 1d05b683ef
gnu: libmediainfo: Remove extra build phase. 
* gnu/packages/video.scm (libmediainfo)[arguments]: Remove unneeded
'autogen phase.
 2019-08-07 20:05:58 +03:00
Efraim Flashner d05e607c9d
gnu: libsmpeg: Remove extra build phase. 
* gnu/packages/video.scm (libsmpeg)[arguments]: Remove unnecessary
'autogen phase.
 2019-08-07 20:05:57 +03:00
Efraim Flashner 2230039427
gnu: vapoursynth: Remove extra build phase. 
* gnu/packages/video.scm (vapoursynth)[arguments]: Remove unneeded
'autogen phase.
 2019-08-07 20:05:57 +03:00
Efraim Flashner fe7023a744
gnu: i3blocks: Remove extra build phase. 
* gnu/packages/wm.scm (i3blocks)[arguments]: Remove unneeded 'autogen
phase.
 2019-08-07 20:05:57 +03:00
Efraim Flashner db736ca20c
gnu: ocproxy: Remove extra build phase. 
* gnu/packages/vpn.scm (ocproxy)[arguments]: Remove unneeded 'autogen
phase.
 2019-08-07 20:05:57 +03:00
Efraim Flashner 0d7f282b02
gnu: openconnect: Fix propagated-inputs. 
* gnu/packages/vpn.scm (openconnect)[inputs]: Move libxml2, gnutls,
zlib ...
[propagated-inputs]: ... to here.
 2019-08-07 20:05:56 +03:00
Ricardo Wurmus 9fa7c20be9
gnu: gnome-maps: Fix runtime error. 
Fixes <https://bugs.gnu.org/35761>.

* gnu/packages/geo.scm (gnome-maps)[arguments]: Add lib output of
gnome-online-accounts and geocode-glib to LD_LIBRARY_PATH.
[inputs]: Add gnome-online-accounts:lib.
 2019-08-07 19:03:19 +02:00
Ricardo Wurmus fdc0688cba
gnu: r-dt: Update to 0.8. 
* gnu/packages/statistics.scm (r-dt): Update to 0.8.
[propagated-inputs]: Add r-jsonlite.
 2019-08-07 12:54:43 +02:00
Ricardo Wurmus 42a8b01d15
gnu: r-epi: Update to 2.38. 
* gnu/packages/cran.scm (r-epi): Update to 2.38.
 2019-08-07 12:54:43 +02:00
Ricardo Wurmus 2132e92261
gnu: r-ggpubr: Update to 0.2.2. 
* gnu/packages/cran.scm (r-ggpubr): Update to 0.2.2.
[propagated-inputs]: Add r-rlang.
 2019-08-07 12:54:43 +02:00
Ricardo Wurmus 33af00eea4
gnu: r-tinytex: Update to 0.15. 
* gnu/packages/cran.scm (r-tinytex): Update to 0.15.
 2019-08-07 12:54:43 +02:00
Ricardo Wurmus f503ed92d2
gnu: r-servr: Update to 0.15. 
* gnu/packages/cran.scm (r-servr): Update to 0.15.
 2019-08-07 12:54:43 +02:00
Rutger Helling 18e700517e
gnu: dolphin-emu: Update to commit 24718c1. 
* gnu/packages/emulators.scm (dolphin-emu): Update to commit 24718c1.
 2019-08-07 08:15:28 +02:00
Mark H Weaver 9d52e3f3d5
gnu: linux-libre: Update to 5.2.7. 
* gnu/packages/linux.scm (linux-libre-5.2-version): Update to 5.2.7.
(linux-libre-5.2-pristine-source)[hash]: Update hash.
 2019-08-07 00:28:32 -04:00
Mark H Weaver 9f90e58c4a
gnu: linux-libre@4.19: Update to 4.19.65. 
* gnu/packages/linux.scm (linux-libre-4.19-version): Update to 4.19.65.
(linux-libre-4.19-pristine-source)[hash]: Update hash.
 2019-08-07 00:28:30 -04:00
Mark H Weaver 7acea31bbc
gnu: linux-libre@4.14: Update to 4.14.137. 
* gnu/packages/linux.scm (linux-libre-4.14-version): Update to 4.14.137.
(linux-libre-4.14-pristine-source)[hash]: Update hash.
 2019-08-07 00:28:28 -04:00
Mark H Weaver 2b6c7a7cbc
gnu: linux-libre@4.9: Update to 4.9.188. 
* gnu/packages/linux.scm (linux-libre-4.9-version): Update to 4.9.188.
(linux-libre-4.9-pristine-source)[hash]: Update hash.
 2019-08-07 00:28:12 -04:00
Mark H Weaver ad6814557e
gnu: linux-libre@4.4: Update to 4.4.188. 
* gnu/packages/linux.scm (linux-libre-4.4-version): Update to 4.4.188.
(linux-libre-4.4-pristine-source)[hash]: Update hash.
 2019-08-07 00:23:20 -04:00
Ricardo Wurmus f2758945fe
gnu: r-ggplotify: Update to 0.0.4. 
* gnu/packages/cran.scm (r-ggplotify): Update to 0.0.4.
 2019-08-06 23:38:22 +02:00
Ricardo Wurmus 5fe9ce982d
gnu: r-bayestestr: Update to 0.2.5. 
* gnu/packages/cran.scm (r-bayestestr): Update to 0.2.5.
 2019-08-06 23:38:22 +02:00
Jakob L. Kreuze fd3119db4f
machine: Implement safety checks. 
* gnu/machine/ssh.scm (machine-check-file-system-availability)
(machine-check-initrd-modules, check-deployment-sanity): New variable.
(deploy-managed-host): Perform safety checks before deploying.
 2019-08-06 16:40:25 -04:00
Jakob L. Kreuze d97ce20400
machine: Rename 'system' field. 
* gnu/machine.scm (machine-system): Delete variable.
(machine-operating-system): New variable.
All callers changed.
* doc/guix.texi (Invoking guix deploy): Use the
'machine-operating-system' accessor rather than 'machine-system'.
 2019-08-06 15:48:51 -04:00
Christopher Baines ec405a4b01
gnu: perl-hash-merge: Change inputs to propagated-inputs. 
Clone::Choose is required at runtime, so this input needs to be
propagated. This change fixes the sqitch package.

* gnu/packages/perl.scm (perl-hash-merge)[inputs]: Change to
propagated-inputs.
 2019-08-06 19:53:51 +01:00
Rutger Helling 86445c8e35
gnu: ffmpeg: Update to 4.2. 
* gnu/packages/video.scm (ffmpeg): Update to 4.2.
[inputs]: Add dav1d.
* gnu/packages/video.scm (ffmpeg-3.4)[arguments]: Adjust inheritance.
 2019-08-06 18:59:28 +02:00
Marius Bakke 58e37b5441
gnu: nss: Fix build failure on armhf-linux. 
Fixes <https://bugs.gnu.org/36930>.

* gnu/packages/patches/nss-freebl-stubs.patch: New file.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
* gnu/packages/nss.scm (nss)[source](patches): Add it.
 2019-08-06 17:06:57 +02:00
Ricardo Wurmus b120789193
gnu: r-rsubread: Update to 1.34.6. 
* gnu/packages/bioconductor.scm (r-rsubread): Update to 1.34.6.
 2019-08-06 15:49:00 +02:00
Ricardo Wurmus d6158ecb3b
gnu: r-abaenrichment: Update to 1.14.1. 
* gnu/packages/bioconductor.scm (r-abaenrichment): Update to 1.14.1.
 2019-08-06 15:49:00 +02:00
Ricardo Wurmus fbe5a0872f
gnu: r-atacseqqc: Update to 1.8.5. 
* gnu/packages/bioconductor.scm (r-atacseqqc): Update to 1.8.5.
 2019-08-06 15:49:00 +02:00
Ricardo Wurmus fcbd8960c2
gnu: r-genomicinteractions: Update to 1.18.1. 
* gnu/packages/bioconductor.scm (r-genomicinteractions): Update to 1.18.1.
 2019-08-06 15:49:00 +02:00
Ricardo Wurmus 109b8ad5f9
gnu: r-chippeakanno: Update to 3.18.2. 
* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.18.2.
 2019-08-06 15:49:00 +02:00
Ricardo Wurmus c8e141ab02
gnu: r-msnid: Update to 1.18.1. 
* gnu/packages/bioinformatics.scm (r-msnid): Update to 1.18.1.
 2019-08-06 15:49:00 +02:00
Ricardo Wurmus afe4be49f1
gnu: r-rcas: Update to 1.10.1. 
* gnu/packages/bioinformatics.scm (r-rcas): Update to 1.10.1.
 2019-08-06 15:49:00 +02:00
Ricardo Wurmus 76d9b08e1b
gnu: r-genomicfeatures: Update to 1.36.4. 
* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.36.4.
 2019-08-06 15:48:59 +02:00
Ricardo Wurmus e16fe0b50a
gnu: r-rtracklayer: Update to 1.44.2. 
* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.44.2.
 2019-08-06 15:48:59 +02:00
Ricardo Wurmus 6f8760d9f8
gnu: r-summarizedexperiment: Update to 1.14.1. 
* gnu/packages/bioinformatics.scm (r-summarizedexperiment): Update to 1.14.1.
 2019-08-06 15:48:59 +02:00
Ricardo Wurmus 2ebd2b440d
gnu: r-biomart: Update to 2.40.3. 
* gnu/packages/bioinformatics.scm (r-biomart): Update to 2.40.3.
 2019-08-06 15:48:59 +02:00
Ricardo Wurmus fbd761fe9b
gnu: r-limma: Update to 3.40.6. 
* gnu/packages/bioinformatics.scm (r-limma): Update to 3.40.6.
 2019-08-06 15:48:59 +02:00
Ricardo Wurmus 8a5f9d3d56
gnu: r-edger: Update to 3.26.6. 
* gnu/packages/bioinformatics.scm (r-edger): Update to 3.26.6.
 2019-08-06 15:48:59 +02:00
Ricardo Wurmus 00300de5d0
gnu: r-xgboost: Update to 0.90.0.2. 
* gnu/packages/cran.scm (r-xgboost): Update to 0.90.0.2.
 2019-08-06 15:48:59 +02:00
Ricardo Wurmus 6fa5987606
gnu: r-citr: Update to 0.3.1. 
* gnu/packages/cran.scm (r-citr): Update to 0.3.1.
[propagated-inputs]: Remove r-bibtex.
 2019-08-06 15:48:59 +02:00
Ricardo Wurmus 5b87fae3f8
gnu: r-enrichr: Update to 2.0. 
* gnu/packages/cran.scm (r-enrichr): Update to 2.0.
 2019-08-06 15:48:59 +02:00
Ricardo Wurmus 006c3dc386
gnu: r-dalex: Update to 0.4.4. 
* gnu/packages/cran.scm (r-dalex): Update to 0.4.4.
 2019-08-06 15:48:58 +02:00
Ricardo Wurmus 22d556a8e1
gnu: r-bookdown: Update to 0.12. 
* gnu/packages/cran.scm (r-bookdown): Update to 0.12.
 2019-08-06 15:48:58 +02:00
Ricardo Wurmus 1a88de187b
gnu: r-ldheatmap: Update to 0.99-7. 
* gnu/packages/cran.scm (r-ldheatmap): Update to 0.99-7.
[propagated-inputs]: Add r-rcpp.
 2019-08-06 15:48:58 +02:00
Ricardo Wurmus 2deb1529a2
gnu: r-sf: Update to 0.7-7. 
* gnu/packages/cran.scm (r-sf): Update to 0.7-7.
 2019-08-06 15:48:58 +02:00
Ricardo Wurmus 4eed03ea41
gnu: r-deldir: Update to 0.1-23. 
* gnu/packages/cran.scm (r-deldir): Update to 0.1-23.
 2019-08-06 15:48:58 +02:00
Ricardo Wurmus 24d439868b
gnu: r-classint: Update to 0.4-1. 
* gnu/packages/cran.scm (r-classint): Update to 0.4-1.
 2019-08-06 15:48:58 +02:00
Ricardo Wurmus 8518744ec4
gnu: r-rematch2: Update to 2.1.0. 
* gnu/packages/cran.scm (r-rematch2): Update to 2.1.0.
 2019-08-06 15:48:58 +02:00
Ricardo Wurmus bd00835630
gnu: r-irkernel: Update to 1.0.2. 
* gnu/packages/cran.scm (r-irkernel): Update to 1.0.2.
 2019-08-06 15:48:58 +02:00
Ricardo Wurmus 51c9504ba6
gnu: r-lavaan: Update to 0.6-4. 
* gnu/packages/cran.scm (r-lavaan): Update to 0.6-4.
 2019-08-06 15:48:58 +02:00
Ricardo Wurmus 01629c665b
gnu: r-bayesm: Update to 3.1-3. 
* gnu/packages/cran.scm (r-bayesm): Update to 3.1-3.
 2019-08-06 15:48:57 +02:00
Ricardo Wurmus eebd93eb6b
gnu: r-rsvd: Update to 1.0.2. 
* gnu/packages/cran.scm (r-rsvd): Update to 1.0.2.
 2019-08-06 15:48:57 +02:00
Ricardo Wurmus d5d631b650
gnu: r-future: Update to 1.14.0. 
* gnu/packages/cran.scm (r-future): Update to 1.14.0.
 2019-08-06 15:48:57 +02:00
Ricardo Wurmus ffb97e695c
gnu: r-spatialextremes: Update to 2.0-7.2. 
* gnu/packages/cran.scm (r-spatialextremes): Update to 2.0-7.2.
 2019-08-06 15:48:57 +02:00
Ricardo Wurmus 504a51369f
gnu: r-bigrquery: Update to 1.2.0. 
* gnu/packages/cran.scm (r-bigrquery): Update to 1.2.0.
[propagated-inputs]: Add r-gargle and r-rlang.
 2019-08-06 15:48:57 +02:00
Ricardo Wurmus 6275418b6f
gnu: Add r-gargle. 
* gnu/packages/cran.scm (r-gargle): New variable.
 2019-08-06 15:48:57 +02:00
Ricardo Wurmus 031afc4890
gnu: r-shades: Update to 1.4.0. 
* gnu/packages/cran.scm (r-shades): Update to 1.4.0.
 2019-08-06 15:48:57 +02:00
Ricardo Wurmus 12618b5080
gnu: r-rnifti: Update to 0.11.1. 
* gnu/packages/cran.scm (r-rnifti): Update to 0.11.1.
 2019-08-06 15:48:57 +02:00
Ricardo Wurmus b154b02620
gnu: r-flare: Update to 1.6.0.2. 
* gnu/packages/cran.scm (r-flare): Update to 1.6.0.2.
 2019-08-06 15:48:57 +02:00
Ricardo Wurmus e0f20dce62
gnu: r-sparsesvd: Update to 0.2. 
* gnu/packages/cran.scm (r-sparsesvd): Update to 0.2.
 2019-08-06 15:48:57 +02:00
Ricardo Wurmus 14148ef1ee
gnu: r-tidytree: Update to 0.2.5. 
* gnu/packages/cran.scm (r-tidytree): Update to 0.2.5.
 2019-08-06 15:48:56 +02:00
Ricardo Wurmus ef93e90fae
gnu: r-rgl: Update to 0.100.26. 
* gnu/packages/cran.scm (r-rgl): Update to 0.100.26.
 2019-08-06 15:48:56 +02:00
Ricardo Wurmus 65555b1d08
gnu: r-afex: Update to 0.24-1. 
* gnu/packages/cran.scm (r-afex): Update to 0.24-1.
 2019-08-06 15:48:56 +02:00
Ricardo Wurmus 99765abb13
gnu: r-usethis: Update to 1.5.1. 
* gnu/packages/cran.scm (r-usethis): Update to 1.5.1.
 2019-08-06 15:48:56 +02:00
Ricardo Wurmus a5a64814b2
gnu: r-sjplot: Update to 2.7.0. 
* gnu/packages/cran.scm (r-sjplot): Update to 2.7.0.
[propagated-inputs]: Add r-ggrepel.
 2019-08-06 15:48:56 +02:00
Ricardo Wurmus 7343fa8ecb
gnu: r-ggeffects: Update to 0.11.0. 
* gnu/packages/cran.scm (r-ggeffects): Update to 0.11.0.
 2019-08-06 15:48:56 +02:00
Ricardo Wurmus 5ae4cbb656
gnu: r-performance: Update to 0.3.0. 
* gnu/packages/cran.scm (r-performance): Update to 0.3.0.
 2019-08-06 15:48:56 +02:00
Ricardo Wurmus 5357c59bf3
gnu: r-emmeans: Update to 1.4. 
* gnu/packages/cran.scm (r-emmeans): Update to 1.4.
 2019-08-06 15:48:56 +02:00
Ricardo Wurmus 332c8df6f0
gnu: r-magick: Update to 2.1. 
* gnu/packages/cran.scm (r-magick): Update to 2.1.
 2019-08-06 15:48:55 +02:00
Ricardo Wurmus 2634febacd
gnu: r-raster: Update to 2.9-23. 
* gnu/packages/cran.scm (r-raster): Update to 2.9-23.
 2019-08-06 15:48:55 +02:00
Ricardo Wurmus a510dc6091
gnu: r-proc: Update to 1.15.3. 
* gnu/packages/cran.scm (r-proc): Update to 1.15.3.
 2019-08-06 15:48:55 +02:00
Ricardo Wurmus 44de742e37
gnu: r-insight: Update to 0.4.1. 
* gnu/packages/cran.scm (r-insight): Update to 0.4.1.
 2019-08-06 15:48:55 +02:00
Ricardo Wurmus 72c967e2ea
gnu: r-abn: Update to 2.1. 
* gnu/packages/cran.scm (r-abn): Update to 2.1.
[propagated-inputs]: Remove r-cairo.
 2019-08-06 15:48:55 +02:00
Ricardo Wurmus c187e8f65d
gnu: r-factominer: Update to 1.42. 
* gnu/packages/cran.scm (r-factominer): Update to 1.42.
 2019-08-06 15:48:55 +02:00
Ricardo Wurmus 2d363778d4
gnu: r-reticulate: Update to 1.13. 
* gnu/packages/cran.scm (r-reticulate): Update to 1.13.
 2019-08-06 15:48:55 +02:00
Ricardo Wurmus e3abc134e8
gnu: r-dosnow: Update to 1.0.18. 
* gnu/packages/cran.scm (r-dosnow): Update to 1.0.18.
 2019-08-06 15:48:55 +02:00
Ricardo Wurmus cc7176cc2c
gnu: r-zip: Update to 2.0.3. 
* gnu/packages/cran.scm (r-zip): Update to 2.0.3.
 2019-08-06 15:48:55 +02:00
Ricardo Wurmus 9c69d79744
gnu: r-radiant-data: Update to 1.0.0. 
* gnu/packages/cran.scm (r-radiant-data): Update to 1.0.0.
 2019-08-06 15:48:54 +02:00
Ricardo Wurmus dbd3950a3f
gnu: r-shinyace: Update to 0.4.0. 
* gnu/packages/cran.scm (r-shinyace): Update to 0.4.0.
 2019-08-06 15:48:54 +02:00
Ricardo Wurmus 9f8f2d9b14
gnu: r-pillar: Update to 1.4.2. 
* gnu/packages/cran.scm (r-pillar): Update to 1.4.2.
 2019-08-06 15:48:54 +02:00
Ricardo Wurmus 56444d1852
gnu: r-vctrs: Update to 0.2.0. 
* gnu/packages/cran.scm (r-vctrs): Update to 0.2.0.
[propagated-inputs]: Add r-ellipsis.
 2019-08-06 15:48:54 +02:00
Ricardo Wurmus 503d5b5a75
gnu: r-processx: Update to 3.4.1. 
* gnu/packages/cran.scm (r-processx): Update to 3.4.1.
 2019-08-06 15:48:54 +02:00
Ricardo Wurmus 70980197aa
gnu: r-vioplot: Update to 0.3.2. 
* gnu/packages/cran.scm (r-vioplot): Update to 0.3.2.
 2019-08-06 15:48:54 +02:00
Ricardo Wurmus 83e3e72a30
gnu: r-hardyweinberg: Update to 1.6.3. 
* gnu/packages/cran.scm (r-hardyweinberg): Update to 1.6.3.
 2019-08-06 15:48:54 +02:00
Ricardo Wurmus 04d42a9de1
gnu: r-mice: Update to 3.6.0. 
* gnu/packages/cran.scm (r-mice): Update to 3.6.0.
 2019-08-06 15:48:54 +02:00
Ricardo Wurmus bed3424619
gnu: r-jomo: Update to 2.6-9. 
* gnu/packages/cran.scm (r-jomo): Update to 2.6-9.
 2019-08-06 15:48:54 +02:00
Ricardo Wurmus 417f7ed58d
gnu: r-recipes: Update to 0.1.6. 
* gnu/packages/cran.scm (r-recipes): Update to 0.1.6.
[propagated-inputs]: Remove r-rcpproll.
 2019-08-06 15:48:54 +02:00
Ricardo Wurmus a80620b96d
gnu: r-geometry: Update to 0.4.2. 
* gnu/packages/cran.scm (r-geometry): Update to 0.4.2.
[propagated-inputs]: Add r-linprog.
 2019-08-06 15:48:54 +02:00
Ricardo Wurmus f3640cee10
gnu: Add r-linprog. 
* gnu/packages/cran.scm (r-linprog): New variable.
 2019-08-06 15:48:53 +02:00
Ricardo Wurmus 099b7c55bb
gnu: r-lava: Update to 1.6.6. 
* gnu/packages/cran.scm (r-lava): Update to 1.6.6.
 2019-08-06 15:48:53 +02:00
Ricardo Wurmus 3337fd1dce
gnu: r-energy: Update to 1.7-6. 
* gnu/packages/cran.scm (r-energy): Update to 1.7-6.
 2019-08-06 15:48:53 +02:00
Ricardo Wurmus 80cdd36fe8
gnu: r-lpsolve: Update to 5.6.13.2. 
* gnu/packages/cran.scm (r-lpsolve): Update to 5.6.13.2.
 2019-08-06 15:48:53 +02:00
Ricardo Wurmus 4522ec869b
gnu: r-rcpp: Update to 1.0.2. 
* gnu/packages/cran.scm (r-rcpp): Update to 1.0.2.
 2019-08-06 15:48:53 +02:00
Ricardo Wurmus cd7e9fb161
gnu: r-pkgbuild: Update to 1.0.4. 
* gnu/packages/cran.scm (r-pkgbuild): Update to 1.0.4.
 2019-08-06 15:48:53 +02:00
Ricardo Wurmus b89805fe14
gnu: r-haven: Update to 2.1.1. 
* gnu/packages/cran.scm (r-haven): Update to 2.1.1.
 2019-08-06 15:48:53 +02:00
Ricardo Wurmus b44c12057b
gnu: r-curl: Update to 4.0. 
* gnu/packages/cran.scm (r-curl): Update to 4.0.
 2019-08-06 15:48:53 +02:00
Ricardo Wurmus 3e0128ec36
gnu: r-callr: Update to 3.3.1. 
* gnu/packages/cran.scm (r-callr): Update to 3.3.1.
 2019-08-06 15:48:53 +02:00
Ricardo Wurmus 6a04f25faf
gnu: r-ellipsis: Update to 0.2.0.1. 
* gnu/packages/cran.scm (r-ellipsis): Update to 0.2.0.1.
 2019-08-06 15:48:53 +02:00
Ricardo Wurmus 710ecc9ceb
gnu: r-clipr: Update to 0.7.0. 
* gnu/packages/cran.scm (r-clipr): Update to 0.7.0.
 2019-08-06 15:48:53 +02:00
Ricardo Wurmus d36430d274
gnu: r-desolve: Update to 1.24. 
* gnu/packages/maths.scm (r-desolve): Update to 1.24.
 2019-08-06 15:48:52 +02:00
Ricardo Wurmus 17e43c425d
gnu: r-quantreg: Update to 5.42.1. 
* gnu/packages/statistics.scm (r-quantreg): Update to 5.42.1.
 2019-08-06 15:48:52 +02:00
Ricardo Wurmus 599fbee5fb
gnu: r-pbapply: Update to 1.4-1. 
* gnu/packages/statistics.scm (r-pbapply): Update to 1.4-1.
 2019-08-06 15:48:52 +02:00
Ricardo Wurmus 0910ff0cfc
gnu: r-robust: Update to 0.4-18.1. 
* gnu/packages/statistics.scm (r-robust): Update to 0.4-18.1.
 2019-08-06 15:48:52 +02:00
Ricardo Wurmus ddfd0afb2a
gnu: r-mclust: Update to 5.4.5. 
* gnu/packages/statistics.scm (r-mclust): Update to 5.4.5.
 2019-08-06 15:48:52 +02:00
Ricardo Wurmus 58aa971fbd
gnu: r-fastica: Update to 1.2-2. 
* gnu/packages/statistics.scm (r-fastica): Update to 1.2-2.
 2019-08-06 15:48:52 +02:00
Ricardo Wurmus db93ef0948
gnu: r-cowplot: Update to 1.0.0. 
* gnu/packages/statistics.scm (r-cowplot): Update to 1.0.0.
[propagated-inputs]: Remove r-plyr; add r-rlang.
 2019-08-06 15:48:52 +02:00
Ricardo Wurmus b2fea05954
gnu: r-rngtools: Update to 1.4. 
* gnu/packages/statistics.scm (r-rngtools): Update to 1.4.
 2019-08-06 15:48:52 +02:00
Ricardo Wurmus 8d84a0ad70
gnu: r-domc: Update to 1.3.6. 
* gnu/packages/statistics.scm (r-domc): Update to 1.3.6.
 2019-08-06 15:48:52 +02:00
Ricardo Wurmus 862959813f
gnu: r-doparallel: Update to 1.0.15. 
* gnu/packages/statistics.scm (r-doparallel): Update to 1.0.15.
 2019-08-06 15:48:52 +02:00
Ricardo Wurmus 5a01128f45
gnu: r-foreach: Update to 1.4.7. 
* gnu/packages/statistics.scm (r-foreach): Update to 1.4.7.
 2019-08-06 15:48:52 +02:00
Ricardo Wurmus b41d03dd35
gnu: r-iterators: Update to 1.0.12. 
* gnu/packages/statistics.scm (r-iterators): Update to 1.0.12.
 2019-08-06 15:48:52 +02:00
Ricardo Wurmus 90752043dd
gnu: r-rsqlite: Update to 2.1.2. 
* gnu/packages/statistics.scm (r-rsqlite): Update to 2.1.2.
 2019-08-06 15:48:52 +02:00
Ricardo Wurmus 2de0f885f4
gnu: r-blob: Update to 1.2.0. 
* gnu/packages/statistics.scm (r-blob): Update to 1.2.0.
[propagated-inputs]: Add r-rlang and r-vctrs; remove r-tibble.
 2019-08-06 15:48:51 +02:00
Ricardo Wurmus feb261ee9b
gnu: r-rmarkdown: Update to 1.14. 
* gnu/packages/statistics.scm (r-rmarkdown): Update to 1.14.
 2019-08-06 15:48:51 +02:00
Ricardo Wurmus 6af62ad50a
gnu: r-rcpparmadillo: Update to 0.9.600.4.0. 
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.9.600.4.0.
 2019-08-06 15:48:51 +02:00
Ricardo Wurmus 9b02d1c836
gnu: r-hms: Update to 0.5.0. 
* gnu/packages/statistics.scm (r-hms): Update to 0.5.0.
[propagated-inputs]: Add r-vctrs.
 2019-08-06 15:48:51 +02:00
Ricardo Wurmus 78896ba23b
gnu: r-devtools: Update to 2.1.0. 
* gnu/packages/statistics.scm (r-devtools): Update to 2.1.0.
[propagated-inputs]: Add r-roxygen2 and r-testthat.
 2019-08-06 15:48:51 +02:00
Ricardo Wurmus 1df87085e3
gnu: r-git2r: Update to 0.26.1. 
* gnu/packages/statistics.scm (r-git2r): Update to 0.26.1.
[inputs]: Remove libssh2 and openssl; add libgit2.
 2019-08-06 15:48:51 +02:00
Ricardo Wurmus 9236b2c144
gnu: r-httr: Update to 1.4.1. 
* gnu/packages/statistics.scm (r-httr): Update to 1.4.1.
 2019-08-06 15:48:51 +02:00
Ricardo Wurmus 3511aff992
gnu: r-openssl: Update to 1.4.1. 
* gnu/packages/statistics.scm (r-openssl): Update to 1.4.1.
 2019-08-06 15:48:51 +02:00
Ricardo Wurmus c02bb7e901
gnu: r-checkmate: Update to 1.9.4. 
* gnu/packages/statistics.scm (r-checkmate): Update to 1.9.4.
 2019-08-06 15:48:51 +02:00
Ricardo Wurmus b29ecb8e37
gnu: r-xml2: Update to 1.2.1. 
* gnu/packages/statistics.scm (r-xml2): Update to 1.2.1.
 2019-08-06 15:48:51 +02:00
Ricardo Wurmus 8d932e71d6
gnu: r-coda: Update to 0.19-3. 
* gnu/packages/statistics.scm (r-coda): Update to 0.19-3.
 2019-08-06 15:48:51 +02:00
Ricardo Wurmus 7d36001bd2
gnu: r-dplyr: Update to 0.8.3. 
* gnu/packages/statistics.scm (r-dplyr): Update to 0.8.3.
 2019-08-06 15:48:50 +02:00
Ricardo Wurmus eae8e56a64
gnu: r-testthat: Update to 2.2.1. 
* gnu/packages/statistics.scm (r-testthat): Update to 2.2.1.
[propagated-inputs]: Add r-evaluate.
 2019-08-06 15:48:50 +02:00
Ricardo Wurmus c2e85d0265
gnu: r-digest: Update to 0.6.20. 
* gnu/packages/statistics.scm (r-digest): Update to 0.6.20.
 2019-08-06 15:48:50 +02:00
Ricardo Wurmus d6e54e7002
gnu: r-nlme: Update to 3.1-141. 
* gnu/packages/statistics.scm (r-nlme): Update to 3.1-141.
 2019-08-06 15:48:50 +02:00
Ricardo Wurmus ecebfe51ce
gnu: r-foreign: Update to 0.8-72. 
* gnu/packages/statistics.scm (r-foreign): Update to 0.8-72.
 2019-08-06 15:48:50 +02:00
Ricardo Wurmus 6eccb0879f
gnu: r-boot: Update to 1.3-23. 
* gnu/packages/statistics.scm (r-boot): Update to 1.3-23.
 2019-08-06 15:48:50 +02:00
Rutger Helling 49fd98bf65
gnu: faudio: Update to 19.08. 
* gnu/packages/audio.scm (faudio): Update to 19.08.
 2019-08-06 13:09:23 +02:00
Rutger Helling 932f795c0e
gnu: kitty: Update to 0.14.3. 
* gnu/packages/terminals.scm (kitty): Update to 0.14.3.
[inputs]: Add libcanberra.
 2019-08-06 13:06:25 +02:00
Ricardo Wurmus 378d94e51b
Merge remote-tracking branch 'origin/master' into wip-texlive 2019-08-06 10:07:36 +02:00
Brian Leung 6a5198170e
gnu: emacs-ivy: Update to 0.12.0-1.d3e4514. 
* gnu/packages/emacs-xyz.scm (emacs-ivy): Update to 0.12.0-1.d3e4514.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-06 09:41:44 +02:00
Mark H Weaver aac6c53a7b
gnu: libmad: Add more security fixes from Debian. 
Includes fixes for CVE-2017-8372, CVE-2017-8373, and CVE-2017-8374.

Reported by <marit@secmail.pro> in <https://bugs.gnu.org/36909>.

* gnu/packages/patches/libmad-frame-length.patch: Delete file.
* gnu/packages/patches/libmad-length-check.patch,
gnu/packages/patches/libmad-md_size.patch: New files.
* gnu/local.mk (dist_patch_DATA): Update accordingly.
* gnu/packages/mp3.scm (libmad)[source]: Update patches accordingly.
 2019-08-06 03:18:24 -04:00
Rutger Helling b0c48829b6
gnu: flatpak: Update to 1.4.2. 
* gnu/packages/package-management.scm (flatpak): Update to 1.4.2.
 2019-08-06 08:25:35 +02:00
Marius Bakke 2426e2c94c
gnu: strace: Fix test failures on some systems. 
* gnu/packages/patches/strace-ipc-tests.patch: New file.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
* gnu/packages/linux.scm (strace)[source](patches): New field.
[arguments]: Add 'regenerate-tests' phase.

Co-Authored-By: Mark H Weaver <mhw@netris.org>
 2019-08-06 02:17:38 -04:00
Tobias Geerinckx-Rice 96681d4be1
gnu: terminator: Wrap instead of propagating GSettings schemas. 
* gnu/packages/gnome.scm (terminator)[inputs]:
Move gsettings-desktop-schemas back here…
[propagated-inputs]: …from here.
[arguments]: Add the glib-or-gtk-build-system's ‘glib-or-gtk-wrap’
phase.
 2019-08-05 22:18:57 +02:00
Tobias Geerinckx-Rice 7b88b71120
gnu: libvirt: Update to 5.6.0. 
* gnu/packages/virtualization.scm (libvirt): Update to 5.6.0.
[source]: Remove patch.
* gnu/packages/patches/libvirt-remove-ATTRIBUTE_UNUSED.patch:
Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
 2019-08-05 21:03:31 +02:00
Tobias Geerinckx-Rice d866acca9a
gnu: python-libvirt: Update to 5.6.0. 
* gnu/packages/virtualization.scm (python-libvirt): Update to 5.6.0.
 2019-08-05 21:03:31 +02:00
Mark H Weaver 0fae1b6dee
Revert "gnu: nss: Update to 3.45 [security fixes]." 
This reverts commit 95580bda05.

Note that the security fixes mentioned in that commit were already
present in NSS 3.44.1, which is the version that's now reinstated
by this revert.  The rationale for this revert is that NSS 3.45 fails
to build on armhf-linux.
 2019-08-05 12:45:22 -04:00
Rutger Helling c94884bcc1
gnu: wine: Adapt Intel Vulkan on i686-linux. 
* gnu/packages/wine.scm (wine)[arguments]: Adjust to also provide Vulkan on
i686-linux for Intel.
* gnu/packages/wine.scm (wine64)[arguments]: Adjust to also provide Vulkan on
i686-linux for Intel.
* gnu/packages/wine.scm (wine-staging)[arguments]: Adjust to also provide
Vulkan on i686-linux for Intel.
* gnu/packages/wine.scm (wine64-staging)[arguments]: Adjust to also provide
Vulkan on i686-linux for Intel.
 2019-08-05 16:47:36 +02:00
Brian Leung e15ec8bcec
gnu: emacs-org-super-agenda: Update to 1.1.1-1.375bde4. 
* gnu/packages/emacs-xyz.scm (emacs-org-super-agenda): Update to
1.1.1-1.375bde4.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 16:19:03 +02:00
Brian Leung 4d48e277ca
gnu: Add emacs-org-sidebar. 
* gnu/packages/emacs-xyz.scm (emacs-org-sidebar): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 16:17:46 +02:00
Brian Leung 003d153783
gnu: emacs-dired-hacks: Update to 0.0.1-2.886befe. 
* gnu/packages/emacs-xyz.scm (emacs-dired-hacks): Update to 0.0.1-2.886befe.
[description]: Use full sentences.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 16:16:59 +02:00
Brian Leung f94ae7d472
gnu: Add emacs-nswbuff. 
* gnu/packages/emacs-xyz.scm (emacs-nswbuff): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 16:15:44 +02:00
Brian Leung 12dd1a4838
gnu: Add emacs-company-math. 
* gnu/packages/emacs-xyz.scm (emacs-company-math): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 16:15:00 +02:00
Brian Leung 16fdde79ec
gnu: Add emacs-math-symbol-lists. 
* gnu/packages/emacs-xyz.scm (emacs-math-symbol-lists): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 16:13:58 +02:00
Brian Leung c07f3113d9
gnu: Add emacs-hercules. 
* gnu/packages/emacs-xyz.scm (emacs-hercules): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 16:12:59 +02:00
Brian Leung d052e51b57
gnu: Add emacs-mc-extras. 
* gnu/packages/emacs-xyz.scm (emacs-mc-extras): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 16:12:09 +02:00
Brian Leung 594d60a3f4
gnu: emacs-nodejs-repl: Update to 0.2.2. 
* gnu/packages/emacs-xyz.scm (emacs-nodejs-repl): Update to 0.2.2.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 16:09:52 +02:00
Brian Leung 365e94c019
gnu: emacs-counsel-etags: Update to 1.8.7. 
* gnu/packages/emacs-xyz.scm (emacs-counsel-etags): Update to 1.8.7.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 16:09:37 +02:00
Brian Leung 10989c59cb
gnu: emacs-lua-mode: Update to 20151025-2.95c64bb. 
* gnu/packages/emacs-xyz.scm (emacs-lua-mode): Update to 20151025-2.95c64bb.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 16:08:30 +02:00
Brian Leung f48aa64ea8
gnu: emacs-evil-expat: Update to 0.0.1-1.f4fcd0a. 
* gnu/packages/emacs-xyz.scm (emacs-evil-expat): Update to 0.0.1-1.f4fcd0a.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 16:07:09 +02:00
Brian Leung fef08850b7
gnu: emacs-so-long: Update to 1.0-2.cfae473. 
* gnu/packages/emacs-xyz.scm (emacs-so-long): Update to 1.0-2.cfae473.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 16:05:26 +02:00
Brian Leung aca6091b05
gnu: emacs-highlight-indentation: Update to 0.7.0-1.d03803f. 
* gnu/packages/emacs-xyz.scm (emacs-highlight-indentation): Update to
0.7.0-1.d03803f.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 16:04:27 +02:00
Brian Leung 76c2e51017
gnu: Add emacs-dired-toggle-sudo. 
* gnu/packages/emacs-xyz.scm (emacs-dired-toggle-sudo): New variable.
* gnu/packages/patches/emacs-dired-toggle-sudo-emacs-26.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 16:02:05 +02:00
Brian Leung 1a24d8b347
gnu: Add emacs-helm-org-rifle. 
* gnu/packages/emacs-xyz.scm (emacs-helm-org-rifle): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 15:47:00 +02:00
Brian Leung 1239146613
gnu: emacs-magit-todos: Update to 1.3. 
* gnu/packages/emacs-xyz.scm (emacs-magit-todos): Update to 1.3.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 15:45:54 +02:00
Brian Leung 0074b1e96c
gnu: Add emacs-scroll-on-drag. 
* gnu/packages/emacs-xyz.scm (emacs-scroll-on-drag): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 15:45:24 +02:00
Brian Leung 91b351de53
gnu: Add emacs-evil-traces. 
* gnu/packages/emacs-xyz.scm (emacs-evil-traces): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 15:43:05 +02:00
Brian Leung 7fb91e4f36
gnu: emacs-helm: Update to 3.3. 
* gnu/packages/emacs-xyz.scm (emacs-helm): Update to 3.3.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 15:40:37 +02:00
Jonathan Frederickson 213315d485
gnu: Add libhandy. 
* gnu/packages/gnome.scm (libhandy): New variable.

Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-08-05 14:06:11 +02:00
Nicolas Goaziou b705b1388f
gnu: emacs-org-contrib: Update to 20190805. 
* gnu/packages/emacs-xyz.scm (emacs-org-contrib): Update to 20190805.
 2019-08-05 13:07:56 +02:00
Nicolas Goaziou dedafb9ccf
gnu: emacs-org: Update to 9.2.5. 
* gnu/packages/emacs-xyz.scm (emacs-org): Update to 9.2.5.
 2019-08-05 13:03:17 +02:00
Brian Leung 71804546b1
gnu: python-scikit-learn: Make gzip timestamps writable. 
* gnu/packages/machine-learning.scm (python-scikit-learn)
[arguments]: Add custom phase to make gzip timestamps writable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2019-08-05 10:23:02 +03:00
Brian Leung d9340de903
gnu: khmer: Make gzip timestamps writable. 
* gnu/packages/bioinformatics.scm (khmer)[arguments]: Add custom phase
to make gzip timestamps writable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2019-08-05 10:22:20 +03:00
Rutger Helling 3f14c9135b
gnu: mesa: Enable Intel 32-bit Vulkan drivers. 
* gnu/packages/gl.scm (mesa)[arguments]: Also build Vulkan drivers for Intel
on i686-linux.
 2019-08-05 08:25:04 +02:00
Mark H Weaver 5ee4d11ff4
gnu: linux-libre: Update to 5.2.6. 
* gnu/packages/linux.scm (linux-libre-5.2-version): Update to 5.2.6.
(linux-libre-5.2-pristine-source)[hash]: Update hash.
 2019-08-04 22:02:02 -04:00
Mark H Weaver b4478eb2e3
gnu: linux-libre@4.19: Update to 4.19.64. 
* gnu/packages/linux.scm (linux-libre-4.19-version): Update to 4.19.64.
(linux-libre-4.19-pristine-source)[hash]: Update hash.
 2019-08-04 22:01:59 -04:00
Mark H Weaver cf1941712f
gnu: linux-libre@4.14: Update to 4.14.136. 
* gnu/packages/linux.scm (linux-libre-4.14-version): Update to 4.14.136.
(linux-libre-4.14-pristine-source)[hash]: Update hash.
 2019-08-04 22:01:57 -04:00
Mark H Weaver 8079493c6c
gnu: linux-libre@4.9: Update to 4.9.187. 
* gnu/packages/linux.scm (linux-libre-4.9-version): Update to 4.9.187.
(linux-libre-4.9-pristine-source)[hash]: Update hash.
 2019-08-04 22:01:55 -04:00
Mark H Weaver 71f9016a4f
gnu: linux-libre@4.4: Update to 4.4.187. 
* gnu/packages/linux.scm (linux-libre-4.4-version): Update to 4.4.187.
(linux-libre-4.4-pristine-source)[hash]: Update hash.
 2019-08-04 22:01:52 -04:00
Mark H Weaver 95580bda05
gnu: nss: Update to 3.45 [security fixes]. 
Includes fixes for CVE-2019-11719, CVE-2019-11727, and CVE-2019-11729.

* gnu/packages/nss.scm (nss): Update to 3.45.
 2019-08-04 21:59:38 -04:00
Tobias Geerinckx-Rice 35600cd9a0
gnu: docker-compose: Remove inputs for old Python versions. 
* gnu/packages/docker.scm (docker-compose)[inputs]:
Remove python2-backport-ssl-match-hostname and python-ipaddress.
 2019-08-05 01:06:58 +02:00
Tobias Geerinckx-Rice d12578f2e2
gnu: python-docker-py: Propagate dependencies. 
* gnu/packages/docker.scm (python-docker-py)[inputs]:
Move python-docker-pycreds and python-paramiko from here…
[propagated-inputs]: …to here.
(docker-compose)[inputs]: Remove them.
 2019-08-05 01:06:58 +02:00
Tobias Geerinckx-Rice e643d90f0f
gnu: docker-compose: Remove Windows-specific input. 
* gnu/packages/docker.scm (docker-compose)[inputs]:
Remove python-colorama.
 2019-08-05 01:06:57 +02:00
Marius Bakke 5b689de58d
gnu: x265: Update to 3.1.2. 
* gnu/packages/video.scm (x265): Update to 3.1.2.
 2019-08-05 00:17:09 +02:00
Marius Bakke 621ce95cfe
gnu: x265: Update source URI. 
* gnu/packages/video.scm (x265)[source](uri): Add the canonical upstream at
<https://bitbucket.org/multicoreware/x265>.
 2019-08-05 00:17:09 +02:00
Marius Bakke 15b5963300
gnu: i3-wm: Update to 4.17. 
* gnu/packages/wm.scm (i3-wm): Update to 4.17.
 2019-08-04 17:39:04 +02:00
Marius Bakke cb96d239e6
gnu: i3status: Update to 2.13. 
* gnu/packages/wm.scm (i3status): Update to 2.13.
[arguments]: Remove #:make-flags and #:phases.  Add #:out-of-source?.
[native-inputs]: Add DOCBOOK-XSL, LIBXML2 and XMLTO.
 2019-08-04 17:38:13 +02:00
Marius Bakke 4f868257f3
gnu: samba: Update to 4.10.6. 
* gnu/packages/samba.scm (samba): Update to 4.10.6.
 2019-08-04 16:22:35 +02:00
Marius Bakke 2e2db09280
gnu: strace: Update to 5.2. 
* gnu/packages/linux.scm (strace): Update to 5.2.
 2019-08-04 16:22:20 +02:00
Marius Bakke 16feaeefc9
gnu: libevent: Update to 2.1.11. 
* gnu/packages/libevent.scm (libevent): Update to 2.1.11.
 2019-08-04 16:22:01 +02:00
Marius Bakke febbe43155
gnu: exiv2: Update to 0.27.2. 
* gnu/packages/image.scm (exiv2): Update to 0.27.2.
 2019-08-04 16:21:43 +02:00
Marius Bakke 9728def2e9
gnu: enchant: Update to 2.2.5. 
* gnu/packages/enchant.scm (enchant): Update to 2.2.5.
 2019-08-04 16:21:26 +02:00
Marius Bakke 6bf53ad58d
gnu: python-mako: Update to 1.1.0. 
* gnu/packages/python-xyz.scm (python-mako): Update to 1.1.0.
[arguments]: New field.
[native-inputs]: Remove PYTHON-NOSE.
 2019-08-04 14:02:48 +02:00
Marius Bakke 4668464f29
gnu: flac: Update to 1.3.3. 
* gnu/packages/xiph.scm (flac): Update to 1.3.3.
[source](patches): Remove.
* gnu/packages/patches/flac-CVE-2017-6888.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
 2019-08-04 13:57:53 +02:00
Marius Bakke 3082280cf9
gnu: libpciaccess: Update to 0.16. 
* gnu/packages/xorg.scm (libpciaccess): Update to 0.16.
 2019-08-04 13:49:57 +02:00
Marius Bakke 8ed97b6ea1
gnu: nss, nss-certs: Update to 3.45. 
* gnu/packages/certs.scm (nss-certs): Update to 3.45.
* gnu/packages/nss.scm (nss): Likewise.
 2019-08-04 13:49:57 +02:00
Marius Bakke cb16a9fba9
gnu: python-packaging: Update to 19.1. 
* gnu/packages/python-xyz.scm (python-packaging): Update to 19.1.
 2019-08-04 13:49:56 +02:00
Marius Bakke ec227df31a
gnu: perl-cgi: Update to 4.44. 
* gnu/packages/web.scm (perl-cgi): Update to 4.44.
 2019-08-04 13:49:56 +02:00
Marius Bakke ff292a77a9
gnu: perl-http-message: Update to 6.18. 
* gnu/packages/web.scm (perl-http-message): Update to 6.18.
 2019-08-04 13:49:56 +02:00
Marius Bakke 81e74dc80b
gnu: libva: Update to 2.5.0. 
* gnu/packages/video.scm (libva): Update to 2.5.0.
 2019-08-04 13:49:56 +02:00
Marius Bakke 1648530f4a
gnu: gtk+: Update to 3.24.10. 
* gnu/packages/gtk.scm (gtk+): Update to 3.24.10.
 2019-08-04 13:49:56 +02:00
Marius Bakke 140716a5c9
gnu: cups-filters: Update to 1.25.1. 
* gnu/packages/cups.scm (cups-filters): Update to 1.25.1.
 2019-08-04 13:49:56 +02:00
Marius Bakke 6d9de48d15
gnu: subversion: Update to 1.10.6 [fixes CVE-2018-11782, CVE-2019-0203]. 
* gnu/packages/version-control.scm (subversion): Update to 1.10.6.
 2019-08-04 13:49:56 +02:00
Marius Bakke cc3c5fc5e1
gnu: mariadb: Update to 10.1.41 [security fixes]. 
This fixes CVE-2019-2805, CVE-2019-2740, CVE-2019-2739, and CVE-2019-2737.

* gnu/packages/databases.scm (mariadb): Update to 10.1.41.
[source](uri): Update download URL.
 2019-08-04 13:49:56 +02:00
Marius Bakke 4661fa76c7
gnu: python-mako: Update to 1.0.14. 
* gnu/packages/python-xyz.scm (python-mako): Update to 1.0.14.
 2019-08-04 13:49:55 +02:00
Marius Bakke 756a980953
gnu: python-cython: Update to 0.29.13. 
* gnu/packages/python-xyz.scm (python-cython): Update to 0.29.13.
 2019-08-04 13:49:55 +02:00
Marius Bakke c0e40f4fd2
gnu: ImageMagick: Update to 6.9.10-58. 
* gnu/packages/imagemagick.scm (imagemagick): Update to 6.9.10-58.
 2019-08-04 13:49:55 +02:00
Marius Bakke 7aad68f6d9
gnu: libwebp: Update to 1.0.3. 
* gnu/packages/image.scm (libwebp): Update to 1.0.3.
 2019-08-04 13:49:55 +02:00
Marius Bakke f184893af0
gnu: MariaDB: Disable the TokuDB plugin. 
Fixes <https://bugs.gnu.org/35521>.
Reported by Mark H Weaver <mhw@netris.org>.

* gnu/packages/databases.scm (mariadb)[arguments]: Pass "-DTOKUDB_OK" in
<#:configure-flags>.  Enable the "innodb_fts.crash_recovery" test, which
likely failed because of the high I/O load induced by TokuDB.
[inputs]: Remove SNAPPY.

(cherry picked from commit bba7a77ed9)
 2019-08-04 13:49:55 +02:00
Marius Bakke 275cce3d87
gnu: python-cython: Speed up test suite. 
* gnu/packages/python-xyz.scm (python-cython)[arguments]: In the CHECK phase,
disable compiler optimizations and enable (some) parallel tests.

(cherry picked from commit e9194eb048)
 2019-08-04 13:49:55 +02:00
Marius Bakke 18090a9735
gnu: perl-try-tiny: Update to 0.30. 
* gnu/packages/perl.scm (perl-try-tiny): Update to 0.30.
 2019-08-04 13:49:55 +02:00
Marius Bakke 1c7d7f3f65
gnu: double-conversion: Update to 3.1.5. 
* gnu/packages/maths.scm (double-conversion): Update to 3.1.5.
 2019-08-04 13:49:54 +02:00
Marius Bakke a33925d122
gnu: Remove pcre2/fixed. 
* gnu/packages/pcre.scm (pcre2/fixed): Remove variable.
(pcre2)[replacement]: Remove.
[source](patches): New field.
* gnu/packages/php.scm (php)[inputs]: Change PCRE2/FIXED to PCRE2.
 2019-08-04 13:49:45 +02:00
Marius Bakke f35d313265
Merge branch 'master' into staging 2019-08-04 13:41:27 +02:00
Marius Bakke e920037793
gnu: docker-cli: Print a usable version string. 
* gnu/packages/docker.scm (docker-cli)[arguments]<#:phases>: Set the VERSION
variable before building the package.
 2019-08-04 13:33:42 +02:00
Marius Bakke 7f2e852267
gnu: ungoogled-chromium: Update to 76.0.3809.87-0.6ea9390. 
* gnu/packages/chromium.scm (%preserved-third-party-files): Adjust for 76.
(%chromium-version): Set to 76.0.3809.87.
(%ungoogled-revision): Set to 6ea939002bae43a27910e03569d43519d07842e7.
(%debian-revision): Set to debian/76.0.3809.87-2.
(%chromium-origin, %ungoogled-origin, %debian-origin): Update hashes.
(gentoo-patch, gentoo-patches): New procedures.
(%auxiliary-patches): New variable.
(ungoogled-chromium-source): Ignore Ungoogleds bundled Debian patches, as well
as some of Debians build fixes.  Apply %AUXILIARY-PATCHES.
(ungoogled-chromium)[arguments]: Adjust unbundling substitutions.  Do not set
Blink symbol level.
 2019-08-04 13:33:42 +02:00
Marius Bakke f339cb188a
gnu: re2: Update to 2019-08-01. 
* gnu/packages/regex.scm (re2): Update to 2019-08-01.
 2019-08-04 13:33:42 +02:00
Tobias Geerinckx-Rice ded545d562
gnu: mpfi: Use @acronym{} in Texinfo. 
* gnu/packages/multiprecision.scm (mpfi)[description]: Substitute
@acronym{} for @dfn{}.
 2019-08-03 23:26:40 +02:00
Tobias Geerinckx-Rice aaf80ba781
gnu: mpc: Use @acronym{} in Texinfo. 
* gnu/packages/multiprecision.scm (mpc)[description]: Substitute
@acronym{} for @dfn{}.
 2019-08-03 23:26:40 +02:00
Tobias Geerinckx-Rice 932b607293
gnu: mpfr: Use @acronym{} in Texinfo. 
* gnu/packages/multiprecision.scm (mpfr)[description]: Substitute
@acronym{} for @dfn{}.
 2019-08-03 23:26:40 +02:00
Tobias Geerinckx-Rice 245fae9077
gnu: gmp: Use @acronym{} in Texinfo. 
* gnu/packages/multiprecision.scm (gmp)[description]: Substitute
@acronym{} for @dfn{}.
 2019-08-03 23:26:40 +02:00
Tobias Geerinckx-Rice f8f2b048b9
gnu: mtd-utils: Support cryptography. 
* gnu/packages/linux.scm (mtd-utils)[inputs]: Add openssl.
 2019-08-03 23:26:40 +02:00
Tobias Geerinckx-Rice 9ea820a5bf
gnu: mtd-utils: Update to 2.1.1. 
* gnu/packages/linux.scm (mtd-utils): Update to 2.1.1.
[inputs]: Add zstd:lib.
 2019-08-03 23:26:39 +02:00
Tobias Geerinckx-Rice b5e912a88c
gnu: man-pages: Update to 5.02. 
* gnu/packages/man.scm (man-pages): Update to 5.02.
 2019-08-03 17:41:29 +02:00
Alex Vong 144cb83a71
gnu: youtube-dl: Update to 2019.08.02. 
* gnu/packages/video.scm (youtube-dl): Update to 2019.08.02.
 2019-08-03 21:54:08 +08:00
David Thompson 2d0e802f1a
gnu: guile-next: Update to 2.9.3. 
* gnu/packages/guile.scm (guile-next): Update to 2.9.3.
 2019-08-03 08:14:20 -04:00
Rutger Helling 036feaf9cb
gnu: wine64-staging: Adapt patch script. 
* gnu/packages/wine.scm (wine64-staging)[arguments]: Don't exclude certain
patches.
 2019-08-03 10:50:58 +02:00
Rutger Helling 09fd82ce8c
gnu: wine-staging: Update to 4.13. 
* gnu/packages/wine.scm (wine-staging-patchset-data): Update to 4.13.
* gnu/packages/wine.scm (wine-staging): Update to 4.13.
 2019-08-03 10:33:23 +02:00
Tobias Geerinckx-Rice 82ebb785f1
gnu: you-get: Update to 0.4.1328. 
* gnu/packages/video.scm (you-get): Update to 0.4.1328.
 2019-08-03 01:13:47 +02:00
Tobias Geerinckx-Rice 095c09c773
gnu: krita: Update to 4.2.5. 
* gnu/packages/kde.scm (krita): Update to 4.2.5.
 2019-08-03 01:13:47 +02:00
Tobias Geerinckx-Rice ad9fd1ba2c
gnu: texmacs: Update to 1.99.11. 
* gnu/packages/text-editors.scm (texmacs): Update to 1.99.11.
 2019-08-03 01:13:47 +02:00
Pierre Neidhardt 000faac0a2
gnu: sbcl-trivia: Fix .asd loading. 
* gnu/packages/lisp.scm (sbcl-trivia): Do it.
 2019-08-02 17:45:37 +02:00
Pierre Neidhardt 6ba457cc1c
gnu: Add sbcl-cl-str. 
* gnu/packages/lisp.scm (sbcl-cl-str): New variable.
 2019-08-02 13:11:13 +02:00
Tobias Geerinckx-Rice 7c13793dbc
Revert "gnu: fontforge: Update to 20190801." 
This is core-updates material.
This reverts commit 4bb1582c8a.
 2019-08-02 08:42:14 +02:00
Tobias Geerinckx-Rice 3ab8c2242d
gnu: fontforge: Use top-level home page. 
* gnu/packages/fontutils.scm (fontforge)[home-page]: Remove language code.
 2019-08-02 08:00:07 +02:00
Tobias Geerinckx-Rice 4bb1582c8a
gnu: fontforge: Update to 20190801. 
* gnu/packages/fontutils.scm (fontforge): Update to 20190801.
 2019-08-02 08:00:07 +02:00
Tobias Geerinckx-Rice a17fe3f01a
gnu: Add missing pcre2-fix-jit_match-crash.patch. 
* gnu/packages/patches/pcre2-fix-jit_match-crash.patch: Really new file.
 2019-08-02 02:01:17 +02:00
Tobias Geerinckx-Rice 61919f0981
gnu: php: Update to 7.3.8. 
* gnu/packages/php.scm (php): Update to 7.3.8.
[inputs]: Use pcre2/fixed.
 2019-08-02 01:49:53 +02:00
Tobias Geerinckx-Rice 951fd8572a
gnu: pcre@2: Fix run-time crash [security fix]. 
* gnu/packages/pcre.scm (pcre2)[replacement]: New field.
(pcre2/fixed): New public variable.
* packages/patches/pcre2-fix-jit_match-crash.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
 2019-08-02 01:49:47 +02:00
Tobias Geerinckx-Rice 9b76aa1031
gnu: php: Don't use NAME in source URI. 
* gnu/packages/php.scm (php)[source]: Hard-code NAME.
 2019-08-02 01:49:24 +02:00
Nicolas Goaziou d9e3f9d9d7
gnu: giac: Update to 1.5.0-63. 
* gnu/packages/algebra.scm (giac): Update to 1.5.0-63.
 2019-08-02 00:08:08 +02:00
Nicolas Goaziou d623e98f0d
gnu: snap: Update to 5.0.8. 
* gnu/packages/education.scm (snap): Update to 5.0.8.
 2019-08-01 22:42:26 +02:00
Nicolas Goaziou 5d727935a8
gnu: silkaj: Update to 0.7.3. 
* gnu/packages/finance.scm (silkaj): Update to 0.7.3.
 2019-08-01 22:34:04 +02:00
Nicolas Goaziou a41cd13563
gnu: python-duniterpy: Update to 0.55.1. 
* gnu/packages/finance.scm (python-duniterpy): Update to 0.55.1.
 2019-08-01 22:24:34 +02:00
mjbecze@riseup.net 01b37d0f74
gnu: Add trezord. 
* gnu/packages/finance.scm (trezord): New variable.

Signed-off-by: Julien Lepiller <julien@lepiller.eu>
 2019-08-01 22:04:22 +02:00
Nicolas Goaziou 0ca3ee43b7
gnu: wireshark: Update to 3.0.3. 
* gnu/packages/networking.scm (wireshark): Update to 3.0.3.
 2019-08-01 17:30:11 +02:00
Tobias Geerinckx-Rice e7dfbae8a9
gnu: mksh: Update to 57. 
* gnu/packages/shells.scm (mksh): Update to 57.
 2019-08-01 07:04:27 +02:00
Tobias Geerinckx-Rice 3935507f0f
gnu: intel-vaapi-driver: Restrict supported systems. 
As noted at <https://debbugs.gnu.org/36814> and then promptly forgotten.
This follows up on commit d8d7565b82.

* gnu/packages/video.scm (intel-vaapi-driver)[supported-systems]:
Build onl on Intel systems.
 2019-08-01 05:43:33 +02:00
Tobias Geerinckx-Rice a094693de3
gnu: sane-backends: Build back ends that need JPEG support. 
* gnu/packages/scanner.scm (sane-backends)[inputs]: Add libjpeg.
 2019-08-01 05:43:33 +02:00
Tobias Geerinckx-Rice 7018f926d4
gnu: sane-backends-minimal: Update to 1.0.28. 
* gnu/packages/scanner.scm (sane-backends-minimal): Update to 1.0.28.
[arguments]: Disable back end tests.
 2019-08-01 05:34:56 +02:00
Mark H Weaver 6af4cb30d3
gnu: blender: Remove stale warning about it being an RC build. 
This is a followup to commit 274ba54e53.

* gnu/packages/graphics.scm (blender)[description]: Remove warning.
 2019-07-31 16:13:00 -04:00
Mark H Weaver ee825b5d0f
gnu: linux-libre: Update to 5.2.5. 
* gnu/packages/linux.scm (linux-libre-5.2-version): Update to 5.2.5.
(linux-libre-5.2-pristine-source)[hash]: Update hash.
 2019-07-31 15:04:26 -04:00
Mark H Weaver ead739ec64
gnu: linux-libre@4.19: Update to 4.19.63. 
* gnu/packages/linux.scm (linux-libre-4.19-version): Update to 4.19.63.
(linux-libre-4.19-pristine-source)[hash]: Update hash.
 2019-07-31 15:03:47 -04:00
Mark H Weaver fd9832e624
gnu: linux-libre@4.14: Update to 4.14.135. 
* gnu/packages/linux.scm (linux-libre-4.14-version): Update to 4.14.135.
(linux-libre-4.14-pristine-source)[hash]: Update hash.
 2019-07-31 15:02:22 -04:00
Marius Bakke af825b11f7
gnu: Remove python2-trezor and python2-trezor-agent. 
Some of the automatic python3->python2 transformation packages that these
depend upon are failing.  Just remove these trivial packages to please the CI.

* gnu/packages/finance.scm (python2-trezor-agent, python2-trezor): Remove
variables.
 2019-07-31 19:37:32 +02:00
Ricardo Wurmus 14bb1c4842
gnu: Add r-cicero-monocle3. 
* gnu/packages/bioconductor.scm (r-cicero-monocle3): New variable.
 2019-07-31 19:01:22 +02:00
Danny Milosavljevic 3d88855dfd
gnu: claws-mail: Add startup-notification. 
* gnu/packages/mail.scm (claws-mail)[inputs]: Add startup-notification.
 2019-07-31 14:07:01 +02:00
Oleg Pykhalov 716908411b
gnu: emacs-org-ql: Update to 0.1. 
* gnu/packages/emacs-xyz.scm (emacs-org-ql): Update to 0.1.
 2019-07-31 13:08:58 +03:00
Oleg Pykhalov becb69cfe6
gnu: Add emacs-org-redmine. 
* gnu/packages/emacs-xyz.scm (emacs-org-redmine): New variable.
 2019-07-31 13:08:25 +03:00
Pierre Neidhardt e4ce0097c7
gnu: Add sbcl-mk-string-metrics. 
* gnu/packages/lisp.scm (sbcl-mk-string-metrics): New variable.
 2019-07-31 10:27:45 +02:00
Tobias Geerinckx-Rice bab94ffa0e
gnu: python-glances: Please ‘guix lint’. 
* gnu/packages/python-xyz.scm (python-glances)[synopsis]: Remove article.
[description]: Double-space between sentences.
 2019-07-31 05:46:07 +02:00
Tobias Geerinckx-Rice 15b4c91163
gnu: python-glances: Don't check for updates by default. 
* gnu/packages/python-xyz.scm (python-glances)[source]: Add snippet.
 2019-07-31 05:46:07 +02:00
Tobias Geerinckx-Rice 9898a2d345
gnu: python-glances: Update to 3.1.1. 
* gnu/packages/python-xyz.scm (python-glances): Update to 3.1.1.
[propagated-inputs]: Add python-future.
 2019-07-31 05:46:07 +02:00
Eric Bavier 9e43348e75
gnu: netsurf: Add libnslog input. 
* gnu/packages/web.scm (netsurf)[inputs]: Add libnslog.
 2019-07-30 22:37:27 -05:00
Eric Bavier 2c618972c0
gnu: Add libnslog. 
* gnu/packages/web.scm (libnslog): New variable.
 2019-07-30 22:36:44 -05:00
Eric Bavier 33d13088d0
gnu: netsurf: Update to 3.9. 
* gnu/packages/web.scm (netsurf)[source]: Update to 3.9.
[native-inputs]: Add "xxd" input.
 2019-07-30 19:27:47 -05:00
Eric Bavier 595d4ab163
gnu: nsgenbind: Update to 0.7. 
* gnu/packages/web.scm (nsgenbind)[source]: Update to 0.7.  Remove use of
"name" in source url.
 2019-07-30 19:27:08 -05:00
Eric Bavier 0a7473f16b
gnu: libnspsl: Update to 0.1.5. 
* gnu/packages/web.scm (libnspsl)[source]: Update to 0.1.5.  Remove use of
"name" in url.
 2019-07-30 19:26:33 -05:00
Eric Bavier 2dd9b64307
gnu: libdom: Update to 0.4.0. 
* gnu/packages/web.scm (libdom)[source]: Update to 0.4.0.  Remove use of
"name" in source url.
 2019-07-30 19:25:57 -05:00
Eric Bavier 816edf3380
gnu: libcss: Update to 0.9.0. 
* gnu/packages/web.scm (libcss)[source]: Update to 0.9.0.  Remove use of
"name" in source url.
 2019-07-30 19:25:23 -05:00
Eric Bavier c033093b8d
gnu: libwapcaplet: Update to 0.4.2. 
* gnu/packages/web.scm (libwapcaplet)[source]: Update to 0.4.2.  Remove use of
"name" in source url.
 2019-07-30 19:24:49 -05:00
Eric Bavier 33abd52719
gnu: hubbub: Update to 0.3.6. 
* gnu/packages/web.scm (hubbub)[source]: Update to 0.3.6.  Remove use of
"name" in source url.
 2019-07-30 19:22:25 -05:00
Leo Famulari 274ba54e53
gnu: Blender: Update to 2.80. 
* gnu/packages/graphics.scm (blender): Update to 2.80.
 2019-07-30 18:56:27 -04:00
Rutger Helling 1dff73acf9
gnu: glu: Update to 9.0.1. 
* gnu/packages/gl.scm (glu): Update to 9.0.1.
 2019-07-30 23:45:43 +02:00
Nicolas Goaziou ffbaefc71a
gnu: flare-game: Update to 1.11. 
* gnu/packages/games.scm (flare-game): Update to 1.11.
 2019-07-30 22:47:44 +02:00
Nicolas Goaziou f9622ec713
gnu: flare-engine: Update to 1.11. 
* gnu/packages/games.scm (flare-engine): Update to 1.11.
 2019-07-30 22:39:33 +02:00
Nicolas Goaziou 5473261b21
gnu: grammalecte: Update to 1.2.1. 
* gnu/packages/dictionaries.scm (grammalecte): Update to 1.2.1.
 2019-07-30 22:28:03 +02:00
Nicolas Goaziou 2363ed01ec
gnu: Add geany. 
* gnu/packages/text-editors.scm (geany): New variable.
 2019-07-30 20:01:59 +02:00
Nicolas Goaziou c55cd98c9c
gnu: Add scintilla. 
* gnu/packages/text-editors.scm (scintilla): New variable.
 2019-07-30 20:01:54 +02:00
Ricardo Wurmus b2dce6b5a2
gnu: Add r-monocle3. 
* gnu/packages/bioconductor.scm (r-monocle3): New variable.
 2019-07-30 15:52:48 +02:00
Ricardo Wurmus 86c46d7120
gnu: Add r-uwot. 
* gnu/packages/cran.scm (r-uwot): New variable.
 2019-07-30 15:52:07 +02:00
Ricardo Wurmus cf51d895f3
gnu: Add r-matrix-utils. 
* gnu/packages/cran.scm (r-matrix-utils): New variable.
 2019-07-30 15:51:42 +02:00
Ricardo Wurmus 0b2883e1f6
gnu: Add r-grr. 
* gnu/packages/cran.scm (r-grr): New variable.
 2019-07-30 15:51:34 +02:00
Ricardo Wurmus c4a5ce4648
gnu: Add r-rcppparallel. 
* gnu/packages/cran.scm (r-rcppparallel): New variable.
 2019-07-30 15:50:42 +02:00
Ricardo Wurmus 8f7d7cd05f
gnu: Add r-speedglm. 
* gnu/packages/cran.scm (r-speedglm): New variable.
 2019-07-30 15:50:35 +02:00
Ricardo Wurmus 3e63f078da
gnu: Add r-pbmcapply. 
* gnu/packages/cran.scm (r-pbmcapply): New variable.
 2019-07-30 15:50:20 +02:00
Ricardo Wurmus 37120e7a23
gnu: Add r-rhpcblasctl. 
* gnu/packages/cran.scm (r-rhpcblasctl): New variable.
 2019-07-30 15:50:10 +02:00
Ricardo Wurmus b46a0ee753
gnu: Add r-cicero. 
* gnu/packages/bioconductor.scm (r-cicero): New variable.
 2019-07-30 15:22:40 +02:00
Ricardo Wurmus 79f04920b2
gnu: Add r-glasso. 
* gnu/packages/cran.scm (r-glasso): New variable.
 2019-07-30 15:22:33 +02:00
Ricardo Wurmus b03dd5cfc0
gnu: Add r-sankeyd3. 
* gnu/packages/cran.scm (r-sankeyd3): New variable.
 2019-07-30 12:17:34 +02:00
Ricardo Wurmus 983906bb95
gnu: Add r-d3r. 
* gnu/packages/cran.scm (r-d3r): New variable.
 2019-07-30 12:17:34 +02:00
Rutger Helling be27b8f2e1
gnu: youtube-dl: Update to 2019.07.30. 
* gnu/packages/video.scm (youtube-dl): Update to 2019.07.30.
 2019-07-30 10:48:51 +02:00
Leo Famulari 18c4b0a277
gnu: Syncthing: Update to 1.2.0. 
* gnu/packages/syncthing.scm (syncthing): Update to 1.2.0.
[inputs]: Remove go-golang-org-x-crypto-bcrypt and
go-golang-org-x-crypto-blowfish. Add go-golang-org-x-crypto,
go-github-com-getsentry-raven-go, go-github-com-maruel-panicparse,
go-github-com-ccding-go-stun, go-github-com-audriusbutkevicius-pfilter, and
go-github-com-lucas-clemente-quic-go.
 2019-07-29 14:57:07 -04:00
Leo Famulari 0c3c597d2e
gnu: Update default Go compiler to Go 1.12. 
* gnu/packages/golang.scm (go): Update to go-1.12.
* guix/build/go-build-system.scm (setup-go-environment): Set $GOCACHE.
 2019-07-29 14:57:07 -04:00