21565719e5
gnu: claws-mail: Update to 3.13.2.
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* gnu/packages/mail.scm (claws-mail): Update to 3.13.2.
2016-01-23 20:13:31 +02:00
3a40a92c73
gnu: Add cufflinks.
...
* gnu/packages/bioinformatics.scm (cufflinks): New variable.
2016-01-23 09:15:11 +01:00
94ce537eac
gnu: Add TopHat.
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* gnu/packages/bioinformatics.scm (tophat): New variable.
* gnu/packages/patches/tophat-build-with-later-seqan.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
2016-01-23 08:53:10 +01:00
3062d750b4
gnu: star: Update to 2.5.1b.
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* gnu/packages/bioinformatics.scm (star): Update to 2.5.1b.
[source]: Remove bundled htslib sources and pre-built binaries.
[arguments]: Add phase "do-not-use-bundled-htslib".
[inputs]: Add "htslib".
2016-01-23 08:40:14 +01:00
c0266e8d03
gnu: star: Use "modify-phases" syntax.
...
* gnu/packages/bioinformatics.scm (star)[arguments]: Use "modify-phases"
syntax.
2016-01-23 08:40:14 +01:00
ebf89f134c
gnu: fuse: Update to 2.9.5 [fixes CVE-2016-1233].
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* gnu/packages/linux.scm (fuse): Update to 2.9.5.
2016-01-22 09:00:34 +02:00
b6d937d99e
gnu: american-fuzzy-lop: Update to 1.96b.
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* gnu/packages/debug.scm (american-fuzzy-lop): Update to 1.96b.
[arguments]: Create symbolic link to custom qemu, rather than copying.
2016-01-21 23:54:48 -06:00
2d8211ab30
gnu: american-fuzzy-lop: Fix qemu configure flags.
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Fixes regression introduced in 06da1a6
2016-01-21 23:54:48 -06:00
765973cd65
gnu: Add iftop.
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* gnu/packages/admin.scm (iftop): New variable.
2016-01-21 20:21:19 -05:00
c2af02602a
Revert "gnu: Add iftop."
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This reverts commit 45da8c6dd1
2016-01-21 20:11:21 -05:00
45da8c6dd1
gnu: Add iftop.
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* gnu/packages/admin.scm (iftop): New variable.
2016-01-21 18:11:12 -05:00
c74f0cb2b8
tests: Prevent 'http_proxy' from breaking Web server tests.
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* tests/lint.scm: Add call to 'unsetenv' to remove 'http_proxy'.
* tests/publish.scm: Likewise.
2016-01-22 00:02:52 +01:00
c4847f49b3
doc: Fix typo in "Locales".
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* doc/guix.texi (Locales): Add missing 's'.
2016-01-22 00:02:52 +01:00
6b779207ee
system: grub: Search root device by label or UUID if possible.
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Fixes <http://bugs.gnu.org/22281 >.
Reported by Christopher Allan Webber <cwebber@dustycloud.org>.
* gnu/system/grub.scm (eye-candy): Add 'root-fs' parameter. Replace
'search --file' command in the output with whatever 'grub-root-search'
returns.
(grub-root-search): New procedure.
(grub-configuration-file): Add 'store-fs' parameter. Use
'grub-root-search' instead of hard-coded 'search --file' commands.
* gnu/system.scm (store-file-system,
operating-system-store-file-system): New procedures.
(operating-system-grub.cfg): Use it, and adjust call to
'grub-configuration-file'.
* tests/system.scm: New file.
* Makefile.am (SCM_TESTS): Add it.
2016-01-22 00:02:52 +01:00
3738d8700f
gnu: ffmpeg: Update to 2.8.5.
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* gnu/packages/video.scm (ffmpeg): Update to 2.8.5.
2016-01-21 10:30:21 -05:00
0c0207a93b
gnu: gajim: Update to 0.16.5 [fixes CVE-2015-8688].
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* gnu/packages/messaging.scm (gajim): Update to 0.16.5.
[arguments]: Disable tests.
2016-01-21 10:24:44 -05:00
6c92d8dd35
gnu: bind-utils: Build and install "nsupdate".
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* gnu/packages/dns.scm (bind-utils)[arguments]: Build and install
"nsupdate" executable.
2016-01-21 15:53:35 +01:00
bd0eb6672b
gnu: bind-utils: Generalize "build" and "install" phases.
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* gnu/packages/dns.scm (bind-utils)[arguments]: Generalize "build" and
"install" phases.
2016-01-21 15:53:35 +01:00
b2844d8f14
gnu: bind-utils: Use "modify-phases" syntax.
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* gnu/packages/dns.scm (bind-utils): Use "modify-phases" syntax.
2016-01-21 15:53:35 +01:00
897092875e
gnu: r-qtl: Update to 1.38-4.
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* gnu/packages/bioinformatics.scm (r-qtl): Update to 1.38-4.
2016-01-21 11:16:12 +01:00
1207a0c33e
gnu: libxmp: Update to 4.3.10.
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* gnu/packages/audio.scm (libxmp): Update to 4.3.10.
2016-01-21 00:44:46 -05:00
7ed0145712
gnu: Add NQC.
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* gnu/packages/lego.scm: New file.
* gnu-system.am (GNU_SYSTEM_MODULES): Add it.
2016-01-20 22:06:27 -06:00
ea4a0e81cb
gnu: licenses: Add Mozilla Public License 1.0.
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* guix/licenses.scm (mpl1.0): New variable.
2016-01-20 22:06:27 -06:00
feb767b23c
gnu: Add transmission-remote-cli.
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* gnu/packages/bittorrent.scm (transmission-remote-cli): New variable.
2016-01-20 20:19:46 -05:00
aca738f3c6
doc: Explain how to make the Info manual visible.
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Suggested by David Thompson <dthompson2@worcester.edu>
at <http://bugs.gnu.org/22402 >.
* doc/guix.texi (Binary Installation): Explain how to make the Info
manual visible.
2016-01-21 00:22:34 +01:00
5d94ac5192
doc: Explain how to remove services from a list.
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Suggested by <swedebugia@riseup.net>.
* doc/guix.texi (Using the Configuration System): Add
@unnumberedsubsubsec. Explain how to remove services from a list.
Mention (gnu system).
2016-01-21 00:22:34 +01:00
893106cbbf
services: avahi: Export service type.
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* gnu/services/avahi.scm: Export 'avahi-service-type'.
2016-01-21 00:22:34 +01:00
80b64ee2d8
gnu: isc-dhcp: Update bundled bind to 9.9.8-P3 [fixes CVE-2015-8704].
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* gnu/packages/admin.scm (isc-dhcp): Update bundled bind to 9.9.8-P3.
2016-01-20 14:58:40 -05:00
d912db5bc0
gnu: bind-utils: Update to 9.10.3-P3 [fixes CVE-2015-8704].
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* gnu/packages/dns.scm (bind-utils): Update to 9.10.3-P3.
2016-01-20 14:57:06 -05:00
beed3af565
gnu: linux-libre: Add fix for CVE-2016-0728.
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* gnu/packages/patches/linux-libre-CVE-2016-0728.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/linux.scm (linux-libre)[source]: Add patch.
2016-01-20 13:23:42 -05:00
d4df203292
gnu: obs: Add support for webcams.
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* gnu/packages/video.scm (obs)[inputs]: Add v4l-utils.
2016-01-20 11:46:45 -05:00
945d985aab
gnu: Add v4l-utils.
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* gnu/packages/video.scm (v4l-utils): New variable.
2016-01-20 11:46:45 -05:00
f32ee38fcd
gnu: arb: Correct patch.
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* gnu/packages/patches/arb-ldconfig.patch: Correct erroneously committed file.
This is a follow-up to commit ffc8f34511
2016-01-20 16:57:17 +01:00
ffc8f34511
gnu: arb: Update to 2.8.1.
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* gnu/packages/algebra.scm (arb)[source]: Update to 2.8.1. Add patch.
* gnu/packages/patches/arb-ldconfig.patch: New file.
* gnu-system.am (dist_patch_DATA): Register patch.
2016-01-20 16:33:34 +01:00
a132f7d68f
tests: Move beatify-description tests to import-tests.
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Fixes <http://bugs.gnu.org/22391 >.
* tests/cran.scm (beautify-description: use double spacing,
beautify-description: transform fragment into sentence). Move
from here ...
* tests/import-utils.scm: ... to here. New file.
* Makefile.am (SCM_TESTS): Add import-utils.
2016-01-20 22:06:25 +10:00
e88d5fa9eb
import: gem: Beautify only the description, not the synopsis.
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* guix/import/gem.scm (make-gem-sexp): Add synopsis argument.
(gem->guix-package): Pass unbeautified synopsis to make-gem-sexp.
* tests/gem.scm: Adapt it.
2016-01-20 21:52:52 +10:00
d0bd632f89
import: Add Bioconductor importer and updater.
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* guix/import/cran.scm (%bioconductor-updater,
latest-bioconductor-release, bioconductor-package?): New procedures.
(cran->guix-package): Support repositories other than CRAN.
(%bioconductor-url, %bioconductor-svn-url): New variables.
(description->package): Update signature to distinguish between packages
from different repositories.
(latest-release): Rename procedure ...
(latest-cran-release): ... to this.
(cran-package?): Do not assume all R packages are available on CRAN.
* tests/cran.scm: Update tests.
* guix/scripts/import/cran.scm: Add "--archive" option and default to
CRAN.
* guix/scripts/refresh.scm (%updaters): Add "%bioconductor-updater".
* doc/guix.texi: Document Bioconductor importer and updater.
2016-01-20 12:41:28 +01:00
4c3d2b2a8f
gnu: enlightenment: Update to 0.20.3.
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* gnu/packages/enlightenment.scm (enlightenment): Update to 0.20.3.
2016-01-20 12:37:21 +02:00
0568dbabe0
gnu: libshout: Update to 2.4.1.
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* gnu/packages/xiph.scm (libshout): Update to 2.4.1.
2016-01-20 02:12:23 +02:00
1c3d37e648
gnu: opusfile: Update to 0.7.
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* gnu/packages/xiph.scm (opusfile): Update to 0.7.
2016-01-20 02:12:23 +02:00
275cc09280
gnu: opus: Update to 1.1.2.
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* gnu/packages/xiph.scm (opus): Update to 1.1.2.
2016-01-20 02:12:23 +02:00
55ca5e8095
gnu: lilypond: Double 'max-silent-time'.
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Suggested by Mark H Weaver <mhw@netris.org>.
* gnu/packages/music.scm (lilypond)[properties]: New field.
2016-01-19 22:14:15 +01:00
af46761302
hydra: Honor the 'max-silent-time' package property.
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Suggested by Mark H Weaver <mhw@netris.org>.
* build-aux/hydra/gnu-system.scm (package->alist): Add
'max-silent-time' pair.
2016-01-19 22:12:11 +01:00
f495301902
guix build: Add '--keep-going'.
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* guix/scripts/build.scm (show-build-options-help)
(%standard-build-options): Add --keep-going.
* guix/scripts/build.scm (set-build-options-from-command-line): Honor
it.
* doc/guix.texi (Invoking guix build): Document it.
2016-01-19 21:59:58 +01:00
0e510971c3
derivations: Add test in keep-going mode.
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* tests/derivations.scm ("derivation fails but keep going"): New test.
2016-01-19 21:59:58 +01:00
16966d5b4d
gnu: fdm: Adjust license link to point to web-accessible copy of command.c
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* gnu/packages/mail.scm (fdm): Adjusted license field
2016-01-19 07:54:18 -08:00
34dd26af49
gnu: Add fdm.
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* gnu/packages/mail.scm (fdm): New variable.
2016-01-18 21:51:45 -08:00
1348185ac2
gnu: Add linux-libre-4.2.5
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* gnu/packages/linux.scm (linux-libre-4.2.5): New variable.
2016-01-18 15:10:38 -08:00
aac783cac5
build: Remove traces of 'NIX_SETUID_HELPER'.
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This is a followup to 0919f5f4
2016-01-18 23:52:13 +01:00
26da7c2606
gnu: mpv: Update to 0.15.0.
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* gnu/packages/video.scm (mpv): Update to 0.15.0.
2016-01-18 22:26:56 +02:00
Efraim Flashner