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40478 commits

Author SHA1 Message Date
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