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Author SHA1 Message Date
Ludovic Courtès aab322d909
install: Don't start sshd by default. 
Reported by Christopher Baines <mail@cbaines.net>
at <https://lists.gnu.org/archive/html/guix-devel/2017-12/msg00058.html>.

* gnu/services/ssh.scm (<openssh-configuration>)[%auto-start?]: New
field.
(openssh-shepherd-service): Honor it.
* gnu/system/install.scm (%installation-services): Set '%auto-start?' to
 #f for openssh-service-type.
 2017-12-04 23:31:15 +01:00
Efraim Flashner 1fa37d1b55
gnu: bluez-alsa: Add missing file-name field. 
* gnu/packages/audio.scm (bluez-alsa)[source]: Add file-name field.
 2017-12-04 22:25:27 +02:00
Ricardo Wurmus dba33ca3da
gnu: Add bluez-alsa. 
* gnu/packages/audio.scm (bluez-alsa): New variable.
 2017-12-04 20:56:06 +01:00
Ricardo Wurmus 0c45a6a4c8
gnu: Add ortp. 
* gnu/packages/telephony.scm (ortp): New variable.
 2017-12-04 20:54:37 +01:00
Ricardo Wurmus 80e2524c9a
gnu: Add bctoolbox. 
* gnu/packages/telephony.scm (bctoolbox): New variable.
 2017-12-04 20:54:37 +01:00
Ricardo Wurmus a64d9d56a3
gnu: mbedtls-apache: Build shared library. 
* gnu/packages/tls.scm (mbedtls-apache)[arguments]: Enable building of shared
library.
 2017-12-04 20:54:37 +01:00
Andy Patterson b142756d9c
gnu: spice: Update to 0.14.0. 
This is a follow-up to commit 9a187b39b7.

* gnu/packages/spice.scm (spice): Update to 0.14.0.
[source]: Remove obsolete patches. Use HTTPS URL.
[inputs]: Add orc.
[home-page]: Update to use https.
* gnu/packages/patches/spice-CVE-2016-9577.patch,
gnu/packages/patches/spice-CVE-2016-9578-1.patch,
gnu/packages/patches/spice-CVE-2016-9578-2.patch,
gnu/packages/patches/spice-CVE-2017-7506.patch: Delete files.
* gnu/local.mk (dist_patch_DATA): Remove them.
 2017-12-04 14:05:23 -05:00
Leo Famulari 982caeab6f
gnu: bazaar: Fix CVE-2017-14176. 
* gnu/packages/patches/bazaar-CVE-2017-14176.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/version-control.scm (bazaar)[source]: Use it.
 2017-12-04 13:13:11 -05:00
Mathieu Othacehe 4307397b5e
bootloader: extlinux: Stop using dd binary. 
* gnu/bootloader/extlinux.scm (dd): Remove it,
(install-extlinux): replace dd call by Guile I/O procedures.
* gnu/system/vm.scm (qemu-image): Add (ice-9 binary-ports) to used-modules
list to provide "get-bytevector-n" and "put-bytevector".
* guix/scripts/system.scm (bootloader-installer-derivation): Ditto.
 2017-12-04 18:26:59 +01:00
Ludovic Courtès be5622e7f1
maint: Add 'berlin.guixsd.org.pub'. 
* bayfront.guixsd.org.pub: Rename to...
* berlin.guixsd.org.pub: ... this.
* Makefile.am (dist_pkgdata_DATA): Adjust accordingly.
* gnu/services/base.scm (%default-authorized-guix-keys): Likewise.
 2017-12-04 17:57:37 +01:00
Ludovic Courtès c7699ebeb4
gnu: git: Remove unreliable git-svn tests. 
Reported in <https://bugs.gnu.org/29546>
by Mark H Weaver <mhw@netris.org>.

* gnu/packages/version-control.scm (git)[arguments]: In 'patch-tests'
phase, delete three git-svn tests.
 2017-12-04 16:35:43 +01:00
nee 6de3d1762b
gnu: elixir: Update to 1.5.2 and disable failing tests. 
* gnu/packages/elixir.scm (elixir)[origin]: Update to 1.5.2.
[arguments]: Patch the shebang of mix. Disable failing tests.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2017-12-04 10:36:48 +01:00
nee 8cbb58918c
gnu: erlang: Update to 20.1. 
* gnu/packages/erlang.scm (erlang): Update to 20.1.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2017-12-04 10:36:48 +01:00
Ludovic Courtès 617e87bff1
services: xorg: Properly handle the case where ~/.xession is used. 
Fixes a regression introduced in
65c0f43649 in the case where users provide
~/.xsession and SESSION is #f.

* gnu/services/xorg.scm (xinitrc): In the XSESSION-FILE case, check
whether SESSION is #f.
 2017-12-04 10:36:48 +01:00
Tobias Geerinckx-Rice 78bae62a25
gnu: protobuf: Update to 3.5.0. 
* gnu/packages/protobuf.scm (protobuf): Update to 3.5.0.
 2017-12-04 08:13:55 +01:00
Tobias Geerinckx-Rice 74327874a5
gnu: you-get: Update to 0.4.995. 
* gnu/packages/video.scm (you-get): Update to 0.4.995.
 2017-12-04 08:13:55 +01:00
Tobias Geerinckx-Rice 1740cb779a
gnu: ghc-async: Update to 2.1.1.1. 
* gnu/packages/haskell.scm (ghc-async): Update to 2.1.1.1.
 2017-12-04 08:13:55 +01:00
Tobias Geerinckx-Rice 8301d739fa
gnu: ghc-alex: Update to 3.2.3. 
* gnu/packages/haskell.scm (ghc-alex): Update to 3.2.3.
[arguments]: Run tests.
 2017-12-04 08:13:30 +01:00
Tobias Geerinckx-Rice 7e95d0fda7
gnu: ghc-comonad: Remove duplicate input. 
* gnu/packages/haskell.scm (ghc-comonad)[inputs]: Remove ghc-contravariant.
Order alphabetically to make this less likely to happen again.
 2017-12-04 04:40:15 +01:00
Tobias Geerinckx-Rice f745999773
gnu: di: Update to 4.44. 
* gnu/packages/admin.scm (di): Update to 4.44.
 2017-12-04 04:40:15 +01:00
Tobias Geerinckx-Rice 1d3c059bbf
gnu: eolie: Update to 0.9.13. 
* gnu/packages/gnome.scm (eolie): Update to 0.9.13.
 2017-12-04 04:40:14 +01:00
Tobias Geerinckx-Rice 440c4273b8
gnu: coda: Update to 2.18.3. 
* gnu/packages/maths.scm (coda): Update to 2.18.3.
 2017-12-04 04:40:14 +01:00
Tobias Geerinckx-Rice d3cdb25d17
gnu: python-scikit-learn: Update to 0.19.1. 
* gnu/packages/machine-learning.scm (python-scikit-learn): Update to 0.19.1.
 2017-12-04 04:40:14 +01:00
Ludovic Courtès 8d7f1d7368
gnu: guix: Update snapshot to 3fb6464. 
* gnu/packages/package-management.scm (guix): Update to 3fb6464.
 2017-12-04 00:08:13 +01:00
Rutger Helling b901043604
gnu: you-get: Update to 0.4.990. 
* gnu/packages/video.scm (you-get): Update to 0.4.990.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2017-12-03 23:49:56 +01:00
Ludovic Courtès 4bd70904c7
gnu: shepherd: Avoid "Bad file descriptor" warnings. 
* gnu/packages/patches/shepherd-close-fds.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/admin.scm (shepherd)[source]: Use it.
 2017-12-03 23:18:53 +01:00
Ricardo Wurmus 98a26dc889
gnu: samplv1: Update to 0.8.5. 
* gnu/packages/music.scm (samplv1): Update to 0.8.5.
 2017-12-03 23:10:57 +01:00
Ricardo Wurmus 54c76c2603
gnu: drumkv1: Update to 0.8.5. 
* gnu/packages/music.scm (drumkv1): Update to 0.8.5.
 2017-12-03 23:10:57 +01:00
Ricardo Wurmus 4a7b1add2a
gnu: synthv1: Update to 0.8.5. 
* gnu/packages/music.scm (synthv1): Update to 0.8.5.
 2017-12-03 23:10:57 +01:00
Ludovic Courtès 8638362f13
install: Add colors in 'motd' and 'issue'. 
* gnu/system/install.scm (%installation-services)[motd]: Add colors.
[services]: Use the "lat9u-16" font.
(%issue): Add colors.
 2017-12-03 19:12:16 +01:00
Ludovic Courtès af4a761e97
install: Add the prerequisites of 'profile-derivation' as GC roots. 
* gnu/system/install.scm (%installation-services): Add
GLIBC-UTF8-LOCALES, TEXINFO, and GUILE-FINAL as GC roots.
 2017-12-03 19:12:16 +01:00
Ricardo Wurmus d112e5a8c2
gnu: Add kallisto. 
* gnu/packages/bioinformatics.scm (kallisto): New variable.
 2017-12-03 18:38:58 +01:00
Ricardo Wurmus 803a9d5c37
gnu: calf: Update to 0.90.0. 
* gnu/packages/audio.scm (calf): Update to 0.90.0.
 2017-12-03 18:31:48 +01:00
Ricardo Wurmus a4527622ee
gnu: jack-2: Update to 1.9.11-RC1. 
* gnu/packages/audio.scm (jack-2): Update to 1.9.11-RC1.
 2017-12-03 18:31:48 +01:00
Ricardo Wurmus 952837c824
gnu: guitarix: Update to 0.36.1. 
* gnu/packages/audio.scm (guitarix): Update to 0.36.1.
 2017-12-03 18:31:48 +01:00
Ricardo Wurmus 75bbc3c2e2
gnu: faust-2: Remove inherited phase. 
* gnu/packages/audio.scm (faust-2)[arguments]: Remove build phase
"fix-permissions".
 2017-12-03 18:31:48 +01:00
Ricardo Wurmus a36047422f
gnu: faust: Update to 0.9.90. 
* gnu/packages/audio.scm (faust): Update to 0.9.90.
[source]: Download sources via git-fetch.
[arguments]: Add phase "fix-permissions".
 2017-12-03 18:31:48 +01:00
Ricardo Wurmus 518957128f
gnu: Add gst123. 
* gnu/packages/gstreamer.scm (gst123): New variable.
 2017-12-03 18:31:47 +01:00
Marius Bakke 0a3b5bb3e1
gnu: weechat: Update to 2.0. 
* gnu/packages/irc.scm (weechat): Update to 2.0.
 2017-12-03 15:39:00 +01:00
Marius Bakke d0d666f97b
gnu: libwebp: Update to 0.6.1. 
* gnu/packages/image.scm (libwebp): Update to 0.6.1.
 2017-12-03 15:39:00 +01:00
Marius Bakke 3d0ffa6cae
gnu: git: Update to 2.15.1. 
* gnu/packages/version-control.scm (git): Update to 2.15.1.
 2017-12-03 15:39:00 +01:00
Nicolas Goaziou 4016de5e7c
gnu: wireshark: Update to 2.4.3. 
* gnu/packages/networking.scm (wireshark): Update to 2.4.3.
 2017-12-03 15:27:23 +01:00
Nicolas Goaziou 993490d301
gnu: giac-xcas: Update to 1.4.9-33. 
* gnu/packages/algebra.scm (giac-xcas): Update to 1.4.9-33.
 2017-12-03 14:40:24 +01:00
Alex Sassmannshausen 8c80f8ef9b
gnu: guile-dsv: Update to 0.2.1 & correct sha256. 
* gnu/packages/guile.scm (guile-dsv): Update to 0.2.1.
 2017-12-03 14:17:46 +01:00
Efraim Flashner 8c94393c6a
gnu: mescc-tools: Update to 0.3. 
* gnu/packages/mes.scm (mescc-tools): Update to 0.3.
[supported-systems]: Remove field.
 2017-12-03 08:47:28 +02:00
Efraim Flashner 211e804758
gnu: u-boot: Update to 2017.11. 
* gnu/packages/bootloaders.scm (u-boot): Update to 2017.11.
 2017-12-03 08:47:28 +02:00
Ludovic Courtès 22bf86a671
linux-boot: Remove unneeded import. 
* gnu/build/linux-boot.scm: Remove unnecessary autoload of (system base
compile).
 2017-12-02 23:13:21 +01:00
Ludovic Courtès 7bf74638ee
build: Do not compile (gnu build shepherd). 
* gnu/local.mk (GNU_SYSTEM_MODULES): Move 'build/shepherd.scm' to...
(MODULES_NOT_COMPILED): ... here.
 2017-12-02 23:13:21 +01:00
Ludovic Courtès bf57e1c708
uuid: Fix typo in comment. 
* gnu/system/uuid.scm: Fix typo in comment.
 2017-12-02 23:13:20 +01:00
Efraim Flashner 72f6caadcb
gnu: elogind: Add file-name for source. 
* gnu/packages/freedesktop.scm (elogind)[source]: Add file-name field.
 2017-12-02 22:41:27 +02:00
Tobias Geerinckx-Rice 5247e79e5f
gnu: youtube-dl: Update to 2017.12.02. 
* gnu/packages/video.scm (youtube-dl): Update to 2017.12.02.
 2017-12-02 16:22:49 +01:00
Tobias Geerinckx-Rice 63f5656c78
gnu: mtr: Don't mention only ICMP ECHO. 
* gnu/packages/networking.scm (mtr)[description]: Allude to the fact that
mtr can send more than mere ICMP.
 2017-12-02 16:22:49 +01:00
Ludovic Courtès c85f069148
gnu: man-db: Use 'groff-minimal' at run time. 
This reduces the closure of man-db from 175 MiB to 97 MiB.

* gnu/packages/man.scm (man-db)[native-inputs]: Add GROFF.
[inputs]: Replace GROFF with GROFF-MINIMAL.
[arguments]: #:configure-flags now refers to GROFF-MINIMAL.
Add #:disallowed-references.
 2017-12-02 15:06:02 +01:00
Ludovic Courtès 3c97322a6e
gnu: Add groff-minimal. 
* gnu/packages/groff.scm (groff-minimal): New variable.
 2017-12-02 15:06:02 +01:00
Ludovic Courtès 63b31b567e
gnu: xfig: Don't ignore 'xmkmf' exit code. 
Suggested by Mike Gerwitz <mtg@gnu.org>.

* gnu/packages/xfig.scm (xfig)[arguments]: Use 'invoke' when invoking
'xmkmf'.
 2017-12-02 15:06:02 +01:00
Mathieu Othacehe 04bbd07218
system: vm: Fix typo in comment. 
* gnu/system/vm.scm (qemu-image): Fix typo targetting -> targeting.
 2017-12-02 13:58:05 +01:00
Manolis Ragkousis 763269f9ac
gnu: keepassxc: Update to 2.2.2. 
* password-utils.scm (keepassxc): Update to 2.2.2.
 2017-12-02 13:51:14 +02:00
Tobias Geerinckx-Rice 31e557c1d9
gnu: nss-certs: Update to 3.34.1. 
* gnu/packages/certs.scm (nss-certs): Update to 3.34.1.
 2017-12-02 02:00:07 +01:00
Ludovic Courtès 2e7825bc7b
gnu: guile-sly: Do not propagate Guile. 
* gnu/packages/guile.scm (guile-sly)[propagated-inputs]: Move GUILE-2.2
to...
[inputs]: ... here.
 2017-12-01 18:47:34 +01:00
Tobias Geerinckx-Rice 27c4796ef9
gnu: tor: Update to 3.1.9 [security fixes]. 
This release contains fixes for TROVE-2017-{009,010,011,012,013}.

* gnu/packages/tor.scm (tor): Update to 3.1.9.
 2017-12-01 16:45:19 +01:00
Ricardo Wurmus b9fb70ca65
gnu: glusterfs: Replace hardcoded FHS references. 
* gnu/packages/patches/glusterfs-use-PATH-instead-of-hardcodes.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/file-systems.scm (glusterfs)[source]: Use it.
 2017-12-01 16:41:23 +01:00
Tobias Geerinckx-Rice b59a8fd49a
gnu: Add mtr. 
* gnu/packages/networking.scm (mtr): New public variable.
 2017-12-01 16:11:57 +01:00
Tobias Geerinckx-Rice 3f691f7196
gnu: ghc-blaze-builder: Update to 0.4.0.2. 
* gnu/packages/haskell.scm (ghc-blaze-builder): Update to 0.4.0.2.
 2017-12-01 16:08:59 +01:00
Tobias Geerinckx-Rice 17c3a50dfd
gnu: ghc-asn1-types: Update to 0.3.2. 
* gnu/packages/haskell-crypto.scm (ghc-asn1-types): Update to 0.3.2.
 2017-12-01 16:08:58 +01:00
Tobias Geerinckx-Rice c24bfc3d2c
gnu: ghc-asn1-encoding: Update to 0.9.5. 
* gnu/packages/haskell-crypto.scm (ghc-asn1-encoding): Update to 0.9.5.
 2017-12-01 16:08:58 +01:00
Tobias Geerinckx-Rice 92cd94648c
gnu: ghc-array: Update to 0.5.2.0. 
* gnu/packages/haskell.scm (ghc-array): Update to 0.5.2.0.
 2017-12-01 16:08:58 +01:00
Tobias Geerinckx-Rice 1a1cf03f24
gnu: ghc-aeson-qq: Update to 0.8.2. 
* gnu/packages/haskell-web.scm (ghc-aeson-qq): Update to 0.8.2.
 2017-12-01 16:08:58 +01:00
Tobias Geerinckx-Rice f4548394d4
gnu: java: Fix several synopses & descriptions. 
* gnu/packages/java.scm (java-plexus-classworlds)[description]: Fix typo and
use @code.
(java-plexus-container-default-bootstrap)[synopsis]: Hyphenate for clarity,
as done in the description.
[description]: Fix typo and use @dfn.
(java-jmh)[description]: Fix typo.
(java-xerial-core)[synopsis, description]: Fix typos.
 2017-12-01 16:08:57 +01:00
Ludovic Courtès c7ffbfe9f9
gnu: guile: Add version 2.2.3. 
* gnu/packages/guile.scm (guile-2.2.3): New variable.
 2017-12-01 16:00:15 +01:00
Ludovic Courtès 8ad4f0aa31
gnu: gnome-default-applications: Add Evince for PDF and PS. 
* gnu/packages/gnome.scm (gnome-default-applications)[propagated-inputs]:
Add EVINCE.
[arguments]: Associate Evince with application/pdf and
application/postscript.
 2017-12-01 16:00:14 +01:00
Ludovic Courtès 4afc903a8c
services: xorg: Add 'font-misc-misc' to the default font set. 
Fixes <https://bugs.gnu.org/24279>.
Reported by John Darrington <john@darrington.wattle.id.au>.

* gnu/services/xorg.scm (%default-xorg-fonts): Add FONT-MISC-MISC.
 2017-12-01 16:00:14 +01:00
Tobias Geerinckx-Rice e695d79dc6
gnu: ghc-edisoncore: Fix typo in synopsis. 
* gnu/packages/haskell.scm (ghc-edisoncore)[synopsis]: Fix typo.
 2017-12-01 15:03:13 +01:00
Tobias Geerinckx-Rice fb5569b0c8
gnu: man-pages: Update to 4.14. 
* gnu/packages/man.scm (man-pages): Update to 4.14.
 2017-12-01 15:03:12 +01:00
Mathieu Othacehe 00e39b2ea4
system: vm: Do not add EFI partition on ARM system. 
* gnu/system/vm.scm (qemu-img): Do not add EFI partition if we are targetting
  ARM.

UEFI support on u-boot is still experimental, so do not add EFI partition on
ARM for now.
 2017-12-01 13:55:49 +01:00
Dave Love f1de0e37d5
gnu: openfoam: Clean up to reduce closure. 
This saves ~1GB.

* gnu/packages/simulation.scm (openfoam)[outputs]: Add debug.
[arguments]: Clean up .o and src after build.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2017-12-01 11:28:48 +01:00
ng0 6101cad4d1
gnu: Add geomyidae. 
* gnu/packages/web.scm (geomyidae): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2017-12-01 11:28:48 +01:00
Mike Gerwitz 491cbd3553
gnu: Add emacs-evil-matchit. 
* gnu/packages/emacs.scm (emacs-evil-matchit): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2017-12-01 11:28:48 +01:00
Ludovic Courtès c03ba83c17
gnu: git: Run tests sequentially. 
Fixes <https://bugs.gnu.org/29512>.
Reported by George myglc2 Clemmer <myglc2@gmail.com>.

* gnu/packages/version-control.scm (git)[arguments]: Add
 #:parallel-tests?.
 2017-12-01 11:28:48 +01:00
Ludovic Courtès f8446df663
gnu: elogind: Remove "uaccess" tag usage in "seat-late" rules. 
* gnu/packages/freedesktop.scm (elogind)[arguments]: Add
'remove-uaccess-tag' phase.
 2017-12-01 11:28:48 +01:00
Mark H Weaver 1776d5cd18
gnu: linux-libre: Update to 4.14.3. 
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.14.3.
(%linux-libre-hash): Update hash.
 2017-12-01 01:37:08 -05:00
Mark H Weaver 6850c9ced5
gnu: linux-libre@4.9: Update to 4.9.66. 
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.66.
 2017-12-01 01:36:21 -05:00
Mark H Weaver 8b8600022c
gnu: linux-libre@4.4: Update to 4.4.103. 
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.103.
 2017-12-01 01:35:44 -05:00
Rutger Helling 34a28c13f5
gnu: qemu: Enable seccomp support. 
* gnu/packages/virtualization.scm (qemu)[inputs]: Add libseccomp.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2017-11-30 18:14:57 +01:00
ng0 e33904336f
gnu: fish-guix: Update to 0.1.2.1. 
* gnu/packages/shells.scm (fish-guix): Update to 0.1.2.1.
(license): Switch to bsd-3.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2017-11-30 18:14:57 +01:00
Ludovic Courtès f00515b483
vm: Filter out file systems that refer to UUIDs or labels. 
* gnu/system/vm.scm (virtualized-operating-system)[user-file-systems]:
Filter out things that refer to file system UUIDs or labels.
 2017-11-30 18:14:57 +01:00
Vasile Dumitrascu 1d0865c19a
gnu: monero-core: Fix missing dependency. 
* gnu/packages/finance.scm (monero-core)[inputs]: Add readline.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2017-11-30 18:14:57 +01:00
Mike Gerwitz 1d752e4345
gnu: Add xautolock. 
* gnu/packages/xdisorg.scm (xautolock): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2017-11-30 18:14:56 +01:00
Ricardo Wurmus 117d8cc40e
gnu: jellyfish: Update to 2.2.7. 
* gnu/packages/bioinformatics.scm (jellyfish): Update to 2.2.7.
[native-inputs]: Add pkg-config.
[inputs]: Add htslib.
 2017-11-30 17:38:36 +01:00
Ricardo Wurmus f1b90a2b58
gnu: r-bigmemory: Update to 4.5.31. 
* gnu/packages/statistics.scm (r-bigmemory): Update to 4.5.31.
[propagated-inputs]: Remove r-r-utils.
 2017-11-30 17:28:27 +01:00
Ricardo Wurmus b50a4b1391
gnu: r-cowplot: Update to 0.9.1. 
* gnu/packages/statistics.scm (r-cowplot): Update to 0.9.1.
[propagated-inputs]: Add r-scales.
 2017-11-30 17:28:27 +01:00
Ricardo Wurmus a3ae2fa537
gnu: r-rcppprogress: Update to 0.4. 
* gnu/packages/statistics.scm (r-rcppprogress): Update to 0.4.
[propagated-inputs]: Add r-devtools.
 2017-11-30 17:28:26 +01:00
Ricardo Wurmus 0382d37734
gnu: r-rmarkdown: Update to 1.8. 
* gnu/packages/statistics.scm (r-rmarkdown): Update to 1.8.
[propagated-inputs]: Remove r-catools; add r-mime and r-stringr.
 2017-11-30 17:28:26 +01:00
Ricardo Wurmus e35cac9581
gnu: r-batchjobs: Update to 1.7. 
* gnu/packages/statistics.scm (r-batchjobs): Update to 1.7.
[propagated-inputs]: Add r-backports, r-data-table, and r-stringi; remove
r-fail and r-stringr.
 2017-11-30 17:28:25 +01:00
Ricardo Wurmus 05fd8e6b46
gnu: r-pracma: Update to 2.1.1. 
* gnu/packages/maths.scm (r-pracma): Update to 2.1.1.
 2017-11-30 17:28:24 +01:00
Ricardo Wurmus 9b8d02011f
gnu: r-annotationhub: Update to 2.10.1. 
* gnu/packages/bioinformatics.scm (r-annotationhub): Update to 2.10.1.
 2017-11-30 17:28:24 +01:00
Ricardo Wurmus 87e91a9fff
gnu: r-msnid: Update to 1.12.1. 
* gnu/packages/bioinformatics.scm (r-msnid): Update to 1.12.1.
 2017-11-30 17:28:23 +01:00
Ricardo Wurmus 439492654b
gnu: r-maldiquant: Update to 1.17. 
* gnu/packages/bioinformatics.scm (r-maldiquant): Update to 1.17.
 2017-11-30 17:28:23 +01:00
Ricardo Wurmus 06e8e0fc6c
gnu: r-genomicalignments: Update to 1.14.1. 
* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.14.1.
 2017-11-30 17:28:22 +01:00
Ricardo Wurmus 1ce5d32b49
gnu: r-limma: Update to 3.34.2. 
* gnu/packages/bioinformatics.scm (r-limma): Update to 3.34.2.
 2017-11-30 17:28:22 +01:00
Ricardo Wurmus 8131cf4162
gnu: r-variantannotation: Update to 1.24.2. 
* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.24.2.
 2017-11-30 17:28:21 +01:00
Ricardo Wurmus d2081a17ed
gnu: r-getopt: Update to 1.20.1. 
* gnu/packages/bioinformatics.scm (r-getopt): Update to 1.20.1.
 2017-11-30 17:28:20 +01:00
Ricardo Wurmus 4220ab0c81
gnu: r-gseabase: Update to 1.40.1. 
* gnu/packages/bioinformatics.scm (r-gseabase): Update to 1.40.1.
 2017-11-30 17:28:20 +01:00
Ricardo Wurmus d259932ca8
gnu: r-dexseq: Update to 1.24.1. 
* gnu/packages/bioinformatics.scm (r-dexseq): Update to 1.24.1.
 2017-11-30 17:28:19 +01:00
Ricardo Wurmus 058644c0f2
gnu: r-deseq2: Update to 1.18.1. 
* gnu/packages/bioinformatics.scm (r-deseq2): Update to 1.18.1.
 2017-11-30 17:28:18 +01:00
Ricardo Wurmus 654c29aceb
gnu: r-annotate: Update to 1.56.1. 
* gnu/packages/bioinformatics.scm (r-annotate): Update to 1.56.1.
 2017-11-30 17:28:18 +01:00
Ricardo Wurmus 814fd32670
gnu: r-circlize: Update to 0.4.2. 
* gnu/packages/cran.scm (r-circlize): Update to 0.4.2.
 2017-11-30 17:28:17 +01:00
Ricardo Wurmus d76f987c42
gnu: r-rcpp: Update to 0.12.14. 
* gnu/packages/cran.scm (r-rcpp): Update to 0.12.14.
 2017-11-30 17:28:17 +01:00
Ricardo Wurmus 26007cd5ee
gnu: r-timedate: Update to 3042.101. 
* gnu/packages/cran.scm (r-timedate): Update to 3042.101.
 2017-11-30 17:28:16 +01:00
Ricardo Wurmus 87313f64d9
gnu: r-stringi: Update to 1.1.6. 
* gnu/packages/statistics.scm (r-stringi): Update to 1.1.6.
 2017-11-30 17:28:16 +01:00
Ricardo Wurmus 3e11bddcc7
gnu: r-devtools: Update to 1.13.4. 
* gnu/packages/statistics.scm (r-devtools): Update to 1.13.4.
 2017-11-30 17:28:15 +01:00
Ricardo Wurmus 20b0f8a5ec
gnu: r-mclust: Update to 5.4. 
* gnu/packages/statistics.scm (r-mclust): Update to 5.4.
 2017-11-30 17:28:15 +01:00
Ricardo Wurmus 6d4aed8d98
gnu: r-rcppeigen: Update to 0.3.3.3.1. 
* gnu/packages/statistics.scm (r-rcppeigen): Update to 0.3.3.3.1.
 2017-11-30 17:28:14 +01:00
Ricardo Wurmus a0a3184925
gnu: r-car: Update to 2.1-6. 
* gnu/packages/statistics.scm (r-car): Update to 2.1-6.
 2017-11-30 17:28:14 +01:00
Ricardo Wurmus c8fb593502
gnu: r-sn: Update to 1.5-1. 
* gnu/packages/statistics.scm (r-sn): Update to 1.5-1.
 2017-11-30 17:28:13 +01:00
Ricardo Wurmus b796f9e6be
gnu: r-openssl: Update to 0.9.9. 
* gnu/packages/statistics.scm (r-openssl): Update to 0.9.9.
 2017-11-30 17:28:13 +01:00
Ricardo Wurmus 09c0107f75
gnu: r-hms: Update to 0.4.0. 
* gnu/packages/statistics.scm (r-hms): Update to 0.4.0.
[propagated-inputs]: Add r-rlang and r-pkgconfig.
 2017-11-30 17:28:12 +01:00
Ricardo Wurmus 6c84c735a5
gnu: r-dendextend: Update to 1.6.0. 
* gnu/packages/cran.scm (r-dendextend): Update to 1.6.0.
 2017-11-30 17:28:12 +01:00
Ricardo Wurmus 18a11c6d62
gnu: r-recipes: Update to 0.1.1. 
* gnu/packages/cran.scm (r-recipes): Update to 0.1.1.
[propagated-inputs]: Add r-broom and r-matrix.
 2017-11-30 17:28:11 +01:00
Ricardo Wurmus 6c8c8c6b75
gnu: Add r-broom. 
* gnu/packages/cran.scm (r-broom): New variable.
 2017-11-30 17:28:10 +01:00
Ricardo Wurmus cdc129dc53
gnu: Add r-psych. 
* gnu/packages/cran.scm (r-psych): New variable.
 2017-11-30 17:28:10 +01:00
Arun Isaac 6e385b76e6
gnu: mongodb: Use scons-build-system. 
* gnu/packages/databases.scm (mongodb): Switch to scons-build-system.
 2017-11-30 18:21:23 +05:30
Arun Isaac bc27eb3b56
gnu: klick: Use scons-build-system. 
* gnu/packages/music.scm (klick): Switch to scons-build-system.
 2017-11-30 18:19:32 +05:30
Arun Isaac 3f3f8f494e
gnu: pingus: Use scons-build-system. 
* gnu/packages/games.scm (pingus): Switch to scons-build-system.
 2017-11-30 18:19:32 +05:30
Arun Isaac 92b51d127f
gnu: godot: Use scons-build-system. 
* gnu/packages/game-development.scm (godot): Switch to scons-build-system.
 2017-11-30 18:19:32 +05:30
Arun Isaac 9364a520ce
gnu: metabat: Use scons-build-system. 
* gnu/packages/bioinformatics.scm (metabat): Switch to scons-build-system.
 2017-11-30 18:19:32 +05:30
Arun Isaac 82cc8253de
gnu: serf: Use scons-build-system. 
* gnu/packages/web.scm (serf): Switch to scons-build-system.
 2017-11-30 18:19:32 +05:30
Arun Isaac 2235abb2a2
gnu: gpick: Use scons-build-system. 
* gnu/packages/image.scm (gpick): Switch to scons-build-system.
 2017-11-30 18:19:31 +05:30
Arun Isaac 2b1a5ed854
gnu: linuxdcpp: Use scons-build-system. 
* gnu/packages/direct-connect.scm (linuxdcpp): Switch to scons-build-system.
 2017-11-30 18:19:31 +05:30
Arun Isaac bf630276a1
gnu: scons: Update to 3.0.1. 
* gnu/packages/python.scm (scons): Update to 3.0.1.
(scons-python2): New variable.
 2017-11-30 18:18:47 +05:30
Mathieu Othacehe c5b2905d92
gnu: dtc: Fix build on 32 bits platforms. 
* gnu/packages/bootloaders.scm (dtc)[patches]: Add dtc-32-bits-check.patch and
  dtc-format-modifier.patch to fix build and tests on 32 bits platforms.
* gnu/packages/patches/dtc-32-bits-check.patch : New file.
* gnu/packages/patches/dtc-format-modifier.patch : New file.
* gnu/local.mk (dist_patch_DATA): Add two above patches.
 2017-11-30 13:32:28 +01:00
Roel Janssen 8937abefb2
gnu: Update r-matrix to 1.2-12. 
* gnu/packages/statistics.scm (r-matrix): Update to 1.2-12.
 2017-11-30 12:52:25 +01:00
Roel Janssen c71558ffed
gnu: Update r-cluster to 2.0.6. 
* gnu/packages/statistics.scm (r-cluster): Update to 2.0.6.
 2017-11-30 12:51:54 +01:00
Roel Janssen cbe1314a7e
gnu: Update r-minimal to 3.4.3. 
* gnu/packages/statistics.scm (r-minimal): Update to 3.4.3.
 2017-11-30 12:50:23 +01:00
Ludovic Courtès 8833a647bb
gnu: guix: Move 'bootstrap' phase after 'unpack'. 
Suggested by Mark H Weaver <mhw@netris.org>
at <https://lists.gnu.org/archive/html/guix-devel/2017-11/msg00389.html>.

* gnu/packages/package-management.scm (guix)[arguments]: Move
'bootstrap' phase back after 'unpack'.
 2017-11-30 11:14:34 +01:00
Efraim Flashner 46ff2dbb4a
gnu: grub-efi: Disable tests on all platforms. 
This is a follow-up to 56f0feb678
and 63087721bb, which accidentally
enabled tests for grub-efi on other platforms.

* gnu/packages/bootloaders.scm (grub-efi)[arguments]: Override inherited
tests field and disable on all platforms.
 2017-11-30 10:17:09 +02:00
Tobias Geerinckx-Rice 3e9013562c
gnu: exim: Update to 4.89.1. 
* gnu/packages/mail.scm (exim): Update to 4.89.1.
[source]: Remove patches for fixed CVEs (all of them).
* gnu/packages/patches/exim-CVE-2017-16943.patch: Delete file...
* gnu/packages/patches/exim-CVE-2017-16944.patch: ...as well as this file...
* gnu/packages/patches/exim-CVE-2017-1000369.patch: ...and this file.
* gnu/local.mk (dist_patch_DATA): Remove all of them.
 2017-11-30 02:29:09 +01:00
Ludovic Courtès 53d26163c6
gnu: libgit2: Avoid dependency on cURL. 
This reduces the closure size from 225 MiB to 80 MiB, while still
supporting HTTP(S) access.

* gnu/packages/version-control.scm (libgit2)[source](modules, snippet):
New fields.
[inputs]: Remove CURL; add HTTP-PARSER.
 2017-11-29 23:40:39 +01:00
Tobias Geerinckx-Rice 32008a75dc
gnu: spectrwm: Fix description. 
* gnu/packages/wm.scm (spectrwm)[description]: Fix typo and use @dfn.
 2017-11-29 22:03:24 +01:00
Tobias Geerinckx-Rice ead48d0523
gnu: ghc-happy: Update to 1.19.8. 
* gnu/packages/haskell.scm (ghc-happy): Update to 1.19.8.
[arguments]: Delete; run all tests.
 2017-11-29 22:02:42 +01:00
Leo Famulari e6e8352382
gnu: curl: Update to 7.57.0 [fixes CVE-2017-{8816,8817,8818}]. 
* gnu/packages/curl.scm (curl): Update replacement to 7.57.0.
(curl-7.56.1): Replace with ...
(curl-7.57.0): ... new variable.
 2017-11-29 14:38:51 -05:00
Leo Famulari 2c646b7d52
gnu: libtorrent-rasterbar: Update to 1.1.5. 
* gnu/packages/bittorrent.scm (libtorrent-rasterbar): Update to 1.1.5.
 2017-11-29 14:38:47 -05:00
Efraim Flashner 63087721bb
gnu: grub :Disable tests on aarch64. 
* gnu/packages/bootloaders.scm (grub)[arguments]: Add aarch64 to the
architectures where the test suite is not run.
 2017-11-29 20:34:29 +02:00
Ludovic Courtès 15c2ddc124
vm: ISO9660 images include /etc and other standard files. 
* gnu/build/vm.scm (make-iso9660-image): Call
'populate-root-file-system' instead of a series of 'mkdir-p' calls.  Add
/etc to the arguments of xorriso.
 2017-11-29 16:44:53 +01:00
Ludovic Courtès 748d4a84d1
linux-boot: Ensure /etc exists on the root file system. 
Fixes a regression introduced in
c828969036 whereby /etc would no longer be
created as a result of calling 'mark-as-not-killable'.

This would affect ISO images because 'make-iso9660-image' does not
create /etc by default.  In particular, the ISO installation image as
created by the "iso-image-installer" test would fail to boot while
creating the /root/etc/mtab symlink:
<https://hydra.gnu.org/build/2352514/nixlog/9/raw>.

* gnu/build/linux-boot.scm (mount-root-file-system): Make sure /root/etc
exists.
 2017-11-29 16:44:53 +01:00
Tobias Geerinckx-Rice a6d06e8612
gnu: openconnect: Use only vpnc-scripts. 
* gnu/packages/vpn.scm (openconnect)[inputs, arguments]: Substitute
‘vpnc-scripts’ for ‘vpnc’
 2017-11-29 16:08:36 +01:00
Tobias Geerinckx-Rice 101e67ac20
gnu: vpnc: Use newer vpnc-scripts. 
* gnu/packages/vpn.scm (vpnc)[source]: Remove patch.
[inputs]: Remove net-tools and iproute2.  Add vpnc-scripts.
[arguments]: Delete ‘configure’ and ‘wrap-vpnc-script’ #:phases.
Add ‘use-store-paths’ phase.
* gnu/packages/patches/vpnc-script.patch: Delete patch.
* gnu/local.mk (dist_patch_DATA): Remove it.
 2017-11-29 16:08:36 +01:00
Tobias Geerinckx-Rice 06d91fd944
gnu: Add vpnc-scripts. 
* gnu/packages/vpn.scm (vpnc-scripts): New variable.
 2017-11-29 16:08:36 +01:00
Mathieu Othacehe 56f0feb678
gnu: grub: Disable tests on ARM platforms. 
* gnu/packages/bootloaders (grub): Disable tests on ARM platforms.
Half of the tests are failing on ARM.
 2017-11-29 15:00:55 +01:00
Roel Janssen 1fd904fb38
gnu: Update r-mutationalpatterns to 1.4.1. 
* gnu/packages/bioinformatics.scm (r-mutationalpatterns): Update to 1.4.1.
 2017-11-29 14:56:28 +01:00
Tobias Geerinckx-Rice 60c8a14b8a
gnu: ghc-tasty-rerun: Update to 1.1.7. 
* gnu/packages/haskell-check.scm (ghc-tasty-rerun): Update to 1.1.7.
 2017-11-29 13:42:06 +01:00