Commit graph

390037 commits

Author SHA1 Message Date
Tijl Coosemans
abe394d3ce Fix pkg-plist when FAX option is on. 2016-03-17 09:24:24 +00:00
Tijl Coosemans
5b2f512f3e security/gpgme: put header back in normal location.
This used to cause a conflict with security/gpgme03 but this port has been
removed many years ago now.

Approved by:	jhale (maintainer)
2016-03-17 09:09:06 +00:00
Hajimu UMEMOTO
b2b49483c5 Install cyrus.conf and imapd.conf even when
EXAMPLES is off.

Spotted by:	Karl Pielorz <kpielorz_lst__at__tdx.co.uk>
2016-03-17 08:56:48 +00:00
Wen Heping
ce265985eb Trimmomatic performs a variety of useful trimming tasks for illumina
NGS paired-end and single ended data.

WWW: http://www.usadellab.org/cms/?page=trimmomatic

PR:		208044
Submitted by:	bacon4000@gmail.com
2016-03-17 08:21:14 +00:00
Xin LI
fdf49f6e37 Update to 0.3.15. 2016-03-17 07:03:42 +00:00
Pietro Cerutti
dc6e5ee560 databases/casstcl: update to 2.11 2016-03-17 07:01:38 +00:00
Pietro Cerutti
eaca169a14 databases/cassandra-cpp-driver: update to 2.3.0
Changelog: https://github.com/datastax/cpp-driver/blob/4335850/CHANGELOG.md
2016-03-17 07:00:08 +00:00
Antoine Brodin
5c6280e6e3 Unbreak INDEX when PACKAGE_BUILDING is set 2016-03-17 06:39:40 +00:00
Jan Beich
cd5eb04c19 games/tesseract: typo, DISTVERSION doesn't propagate to packages 2016-03-17 05:53:24 +00:00
Baptiste Daroussin
cbdbd5e020 Update to 2.8 2016-03-17 05:33:06 +00:00
Baptiste Daroussin
d367df6690 Update to 0.8.1 2016-03-17 05:19:52 +00:00
Olivier Duchateau
af422a3e1b - Add CUE option in default build package
- Bump PORTREVISION

Requested by:	glebius@
2016-03-17 04:38:51 +00:00
Jason Unovitch
91463d0eb3 Document possible code execution and integer overflow issue in git
PR:		208074
Reported by:	Sevan Janiyan <venture37@geeklan.co.uk> (via PR)
Reported by:	Tony Tung <tonytung@merly.org> (via email)
Security:	CVE-2016-2315
Security:	CVE-2016-2324
Security:	https://vuxml.FreeBSD.org/freebsd/93ee802e-ebde-11e5-92ce-002590263bf5.html
Security:	https://vuxml.FreeBSD.org/freebsd/d2a84feb-ebe0-11e5-92ce-002590263bf5.html
2016-03-17 02:45:34 +00:00
Greg Lewis
e155738f0c . Update to 2016b. 2016-03-17 01:40:47 +00:00
Dmitry Marakasov
945889a272 - Add LICENSE
- Add NO_ARCH
- Switch to options helpers
- Fix WWW:
2016-03-17 00:42:00 +00:00
Dmitry Marakasov
bb73888896 - Add LICENSE
- Switch to options helpers
2016-03-17 00:41:52 +00:00
Kurt Jaeger
6ec4e815d0 sysutils/htop: 2.0.0 -> 2.0.1
- Add lsof into RUN_DEPENDS
- fix CPU and memory readings
  (thanks to Tim Creech, Hung-Yi Chen, Bernard Spil, Greg V)
- add battery support
  (thanks to Greg V)
- Fix crash when emptying a column of meters
- Make Esc key more responsive

Submitted by:	Hung-Yi Chen <gaod@hychen.org> (maintainer)
2016-03-16 21:07:11 +00:00
Kurt Jaeger
9cae6c02e4 New port: biology/p5-transdecoder
TransDecoder identifies candidate coding regions within transcript
sequences, such as those generated by de novo RNA-Seq transcript
assembly using Trinity, or constructed based on RNA-Seq alignments
to the genome using Tophat and Cufflinks.

WWW: http://transdecoder.github.io/

PR:		207993
Submitted by:	Jason Bacon <bacon4000@gmail.com>
2016-03-16 20:12:32 +00:00
Bernard Spil
269fd9dbaa www/mod_http2-devel: Update to 1.2.8
- Update to latest upstream version
  - Remove patch (included upstream)
  - Add README.md

Reviewed by:	feld (mentor)
Approved by:	feld (mentor)
Differential Revision:	D5657
2016-03-16 19:46:35 +00:00
Alexey Dokuchaev
23d41d4339 Update to version 3.1.1.1, which comes with quite a few bug fixes, including
some especially major ones.  Define LICENSE (GPLv2) while here.
2016-03-16 19:22:02 +00:00
Adam Weinberger
027a531279 Update mail/dovecot2 to 2.2.22, and bump PORTREVISION on dovecot2-pigeonhole
and dovecot2-antispam-plugin.

Changes for 2.2.22:
 + Added doveadm HTTP API: See
   http://wiki2.dovecot.org/Design/DoveadmProtocol/HTTP
 + virtual plugin: Mailbox filtering can now be done based on the
   mailbox metadata. See http://wiki2.dovecot.org/Plugins/Virtual
 + stats: Added doveadm stats reset to reset global stats.
 + stats: Added authentication statistics if auth_stats=yes.
 + dsync, imapc, pop3c & pop3-migration: Many optimizations,
   improvements and error handling fixes.
 + doveadm: Most commands now stop soon after SIGINT/SIGTERM.
 - auth: Auth caching was done too aggressively when %variables were
   used in default_fields, override_fields or LDAP pass/user_attrs.
   userdb result_* were also ignored when user was found from cache.
 - imap: Fixed various assert-crashes caused v2.2.20+. Some of them
   caught actual hangs or otherwise unwanted behavior towards IMAP
   clients.
 - Expunges were forgotten in some situations, for example when
   pipelining multiple IMAP MOVE commands.
 - quota: Per-namespaces quota were broken for dict and count backends
   in v2.2.20+
 - fts-solr: Search queries were using OR instead of AND as the
   separator for multi-token search queries in v2.2.20+.
 - Single instance storage support wasn't really working in v2.2.16+
 - dbox: POP3 message ordering wasn't working correctly.
 - virtual plugin: Fixed crashes related to backend mailbox deletions.
2016-03-16 17:29:33 +00:00
Adam Weinberger
efa373fb06 Update to 6.56.
Changes: https://metacpan.org/changes/distribution/Mojolicious
2016-03-16 17:05:03 +00:00
Jan Beich
b2dc14fb64 devel/pybugz: update to 0.12.1
- Fix manpage and extra config paths

PR:		208061
Approved by:	crees (maintainer)
2016-03-16 16:44:15 +00:00
Tilman Keskinoz
de33574d16 Disable PACKAGE_BUILDING. package building doesn't work with python != 2.7 2016-03-16 16:06:21 +00:00
John Marino
f28b577faf lang/gcc-aux: deprecate, set expiration for 15 May 2016
There are no more ports dependent on gcc-aux anymore, and there's no
known reason to use this compiler over the newer gcc5-aux and gcc6-aux
compilers.  Ideally, there should only be two compilers featured in the
Ada framework: The default and the upcoming one.
2016-03-16 14:48:09 +00:00
John Marino
f2189c0f29 Rebase gnatdroid to gcc6-aux (6.0), add support for MARSHMELLOW
The gnatdroid cross-compilers (*BSD => Android) were the last two users
of gcc-aux (gcc 4.9 Ada compiler).  They are now based on gcc6-aux.

The Android NDK release 11 just came out with support for Android API 23
(Marshmellow) so now gnatdroid supports it.  I removed API 8 and 9
(Froyo and Gingerbread) from gnatdroid-armv7.  Froyo currently is installed
on less than 0.1% of Android devices, and Gingerbread is dropping under 2%
soon.  Many sysroot distfiles were re-rolled to gain required headers, so
a distfiles subdirectory was added as well.
2016-03-16 14:36:10 +00:00
Erwin Lansing
d3749b069b Update to 1.4.9
The main motivations for this release are bug fixes related to use
cases with large number of zones (more than 50 zones) in combination
with an XFR based setup. Too much concurrent zone transfers causes new
transfers to be held back. These excess transfers however were not
properly scheduled for later.

No migration steps needed when upgrading from OpenDNSSEC 1.4.8.

Bugfixes:

* Add TCP waiting queue. Fix signer getting 'stuck' when adding many
  zones at once. Thanks to Haavard Eidnes to bringing this to our attention.
* OPENDNSSEC-723: received SOA serial reported as on disk.
* Fix potential locking issue on SOA serial.
* Crash on shutdown. At all times join xfr and dns handler threads.
* Make handling of notifies more consistent. Previous implementation would
  bounce between code paths.

Known Issues:

When using SoftHSM2 compiled with OpenSSL, and libmysql with OpenSSL
as database backend for OpenDNSSEC. "ods-ksmutil key list --verbose"
crashes on exit. This is ultimately a bug in OpenSSL and not new for
this particular release. Make sure you don't use this specific
combination.

From <https://www.opendnssec.org>

PR:             206491
Submitted by:   Jaap Akkerhuis <jaap@NLnetLabs.nl> (maintainer)
Sponsored by:   DK Hostmaster A/S
2016-03-16 13:33:52 +00:00
John Marino
c319815404 lang/gcc6-aux: Add forgotten patch (gnatdroid support)
There's no requirement to bump since lang/gcc6-aux doesn't compile
the patched code.  The gnatdroid ports will though.
2016-03-16 13:08:54 +00:00
Jan Beich
ee53b43194 games/linux-unigine-valley: add new port
PR:		207198
Submitted by:	Hannes Hauswedell <h2+fbsdports@fsfe.org>

Valley Benchmark is a new GPU stress-testing tool from the developers
of the very popular and highly acclaimed Heaven Benchmark. The
forest-covered valley surrounded by vast mountains amazes with its
scale from a bird's-eye view and is extremely detailed down to every
leaf and flower petal. This non-synthetic benchmark powered by the
state-of-the art UNIGINE Engine showcases a comprehensive set of
cutting-edge graphics technologies with a dynamic environment and
fully interactive modes available to the end user.

This port includes the linux-binaries of the basic (free-to-use)
version of the benchmark.

http://unigine.com/en/products/benchmarks/valley
2016-03-16 13:00:10 +00:00
Jan Beich
c139080ff7 games/linux-unigine-heaven: list also in benchmarks/ and use option helpers 2016-03-16 12:59:39 +00:00
Jan Beich
37f735d129 graphics/mapcache: add new port
PR:		207448
Submitted by:	rmelcer@iteris.com

This is a port of MapCache, a server that implements tile caching to speed up
access to WMS layers. It's primary objectives are to be fast and easily
deployable, while offering the essential features (and more!) expected from a
tile caching solution.

http://www.mapserver.org/mapcache/
2016-03-16 12:59:06 +00:00
Jan Beich
7082dfb47f devel/p8-platform: add new port
PR:		207552
Submitted by:	mickael.maillot@gmail.com

Platform support library used by libCEC and binary add-ons for Kodi

https://github.com/Pulse-Eight/platform
2016-03-16 12:58:46 +00:00
Jan Beich
f7731c8be8 Drop default directory from _DEPENDS in my ports
https://lists.freebsd.org/pipermail/freebsd-ports/2015-October/100794.html
2016-03-16 12:58:16 +00:00
Emanuel Haupt
9d50ebf519 Disable Flash redirection as it generates a deadlock in linux_sys_futex.
Discussed on:	freebsd-emulation
2016-03-16 12:49:49 +00:00
Boris Samorodov
f13b3b339b graphics/iccexamin: Fix build at FreeBSD-HEAD (no-op for other versions).
The error is:
-----
/usr/bin/ld: cannot find -lomp
c++: error: linker command failed with exit code 1 (use -v to see invocation)
*** Error code 1
-----
2016-03-16 11:48:47 +00:00
Boris Samorodov
335e4551a3 devel/mongo-c-driver: Update to version 1.3.4. 2016-03-16 11:43:07 +00:00
Boris Samorodov
b5c5f2f2d4 devel/libbson: Update to version 1.3.4. 2016-03-16 11:42:31 +00:00
John Marino
d0e4b42f8a lang/gcc6-aux: Upgrade version 20160306 => 20160313
The real addition is to complete support for the gnatdroid cross
compilers.  Rather than to revbump, let's just update to the latest
snapshot instead.
2016-03-16 10:46:59 +00:00
Raphael Kubo da Costa
bb48e3761a Update to 2.1.
PR:		207453
Submitted by:	mp39590@gmail.com (maintainer)
2016-03-16 10:39:42 +00:00
Raphael Kubo da Costa
2a28a887f5 Update to 2.0.
PR:		207452
Submitted by:	mp39590@gmail.com (maintainer)
2016-03-16 10:38:52 +00:00
Raphael Kubo da Costa
f62a7e3498 Update to 0.2.
PR:		207451
Submitted by:	mp39590@gmail.com (maintainer)
2016-03-16 10:38:08 +00:00
Raphael Kubo da Costa
632c5d2fbd Update to 1.0.0.
PR:		207450
Submitted by:	mp39590@gmail.com (maintainer)
2016-03-16 10:36:34 +00:00
Alexey Dokuchaev
da14921ade - Update to version 2.0.20 and provide working master sites
- Define LICENSE (GPLv2) and no longer require GNU make(1)
- Install some documentation and a sample configuration file
- Amend features and project URL in port description text
2016-03-16 10:23:13 +00:00
Vsevolod Stakhov
9416382469 - Update to 1.2.0.b4 2016-03-16 09:43:15 +00:00
Guido Falsi
d23cbb0971 Update to 1.7.0. 2016-03-16 09:22:46 +00:00
Alexey Dokuchaev
1c9913eb82 - Update to version 1.4.5, which is based on GTK+ 2.x now
- Unbreak fetching: upstream are using Debian CDN officially
- Stop demanding GNU make: builds fine with BSD make as well
- Define LICENSE (GPLv2), install couple of docs and sample
  configuration file while here
- Update port description text and project web address
2016-03-16 09:22:30 +00:00
Guido Falsi
34b2379e9d Update to 1.7.0. 2016-03-16 09:22:28 +00:00
Dmitry Sivachenko
adca689c5f Update to version 4.9.1 2016-03-16 08:23:16 +00:00
Gordon Tetlow
b0a8b1b1e3 Update devel/p4 and p4d to 2015.1/1362963 for micropatching.
Approved by:	mentors (implicit)
MFH:		2016Q1
2016-03-16 06:16:53 +00:00
Kevin Lo
4eab006be5 Owncloud doesn't require php-mysql.
Submitted by:	Jim Ohlstein <jim at ohlste dot in>
2016-03-16 05:34:35 +00:00