Commit graph

53 commits

Author SHA1 Message Date
Alexey Dokuchaev
e409be37a8 biology/ugene: update UniPro UGENE to version 40.1 (bugfix release). 2021-10-14 11:23:37 +00:00
Alexey Dokuchaev
299862ff2a biology/ugene: update Unipro UGENE to version 40.0. 2021-09-16 09:48:26 +00:00
Alexey Dokuchaev
05f96c80f8 biology/ugene: update Unipro UGENE to version 39.0. 2021-06-25 17:56:47 +00:00
Kevin Bowling
da3162c7c9 graphics/mesa-libs: Bump reverse deps for libglvnd
Per discussion with bapt on helping pkg handle the changing of these
deps and avoiding impossible upgrade senarios.

PR:		246767
Reviewed by:	manu, bapt
Approved by:	x11
Differential Revision:	https://reviews.freebsd.org/D30824
2021-06-22 11:53:08 -07:00
Alexey Dokuchaev
6464fe05fe - Update Unipro UGENE to version 38.1 and thus unbreak
- CONFIG defaults to 64-bit mode now, adjust the check
2021-05-18 15:24:55 +00:00
Dmitry Marakasov
4b5a5c6d9c biology/ugene: mark BROKEN (does not fetch)
Approved by:	portmgr blanket
2021-05-12 14:55:32 +03:00
Mathieu Arnold
305f148f48
Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
Alexey Dokuchaev
2ed87b8454 - Update Unipro UGENE to version 38.0
- Garbage-collect no longer needed patches
- Make COMMENT shorter and closer to upstream
- Stop building bundled SQLite, use ours!
2021-03-23 14:20:49 +00:00
Mark Linimon
c9edd6a5af Mark BROKEN on riscv64 the same as on aarch64.
While here, pet portlint (Makevar order).

Approved by:	portmgr (tier-2 blanket)
Obtained from:	lonesome.com build testing
2021-01-19 02:29:16 +00:00
Alexey Dokuchaev
8f46816990 - Update Unipro UGENE port to version 37.0
- Drop no longer used WebEngine dependencies
- Force SSE2 on i386 (required for the build)
- Chase HTTP 301 redirection in the WWW line
2020-12-31 13:43:09 +00:00
Tobias C. Berner
90ba7116a9 biology/ugene: prepare for Qt5-5.15 2020-05-19 18:00:02 +00:00
Alexey Dokuchaev
52ea511a14 - Resurrect and unbreak by updating to version 34.0
- Stop providing outdated offline PDF documentation,
  users are advised to use the online files instead
2020-05-10 15:42:32 +00:00
Rene Ladan
0786acb315 Remove expired ports:
Adjusted for ports rescued since r534032

2020-05-05 audio/festvox-czech: Broken for more than 6 months
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2020-05-05 biology/consed: Broken for more than 6 months
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2020-05-05 devel/tcloo: Tcl/Tk 8.5 is nearing EOL, please consider porting to Tcl/Tk 8.6
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2020-05-05 editors/omegaT: Broken for more than 6 months
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2020-05-05 games/xvmines: 64-bit unsupported
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2020-05-05 lang/ohugs: Broken for more than 6 months
2020-05-05 lang/opendylan: Broken for more than 6 months
2020-05-05 lang/phc: Broken for more than 6 months
2020-05-05 lang/starlogo: Broken for more than 6 months
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2020-05-05 multimedia/lxdvdrip: Broken for more than 6 months
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2020-05-05 textproc/html2tex: Broken for more than 6 months
2020-05-05 textproc/htmlsection: Broken for more than 6 months
2020-05-05 textproc/kenlm: Broken for more than 6 months
2020-05-05 textproc/libguess: Broken for more than 6 months
2020-05-05 textproc/libxml++26-reference: Broken for more than 6 months
2020-05-05 textproc/no-hunspell: Broken for more than 6 months
2020-05-05 textproc/p5-MARC: Broken for more than 6 months
2020-05-05 textproc/p5-texcount: Broken for more than 6 months
2020-05-05 textproc/pcrs: Broken for more than 6 months
2020-05-05 textproc/pear-Structures_DataGrid_DataSource_RSS: Broken for more than 6 months
2020-05-05 textproc/pear-Structures_DataGrid_DataSource_XML: Broken for more than 6 months
2020-05-05 textproc/permute: Broken for more than 6 months
2020-05-05 textproc/pocketreader: Broken for more than 6 months
2020-05-05 textproc/py-sgrep: Broken for more than 6 months
2020-05-05 textproc/rss2html: Broken for more than 6 months
2020-05-05 textproc/ruby-xmlparser: Broken for more than 6 months
2020-05-05 textproc/sv-hyphen: Broken for more than 6 months
2020-05-05 textproc/tclExpat: Broken for more than 6 months
2020-05-05 textproc/tex2im: Broken for more than 6 months
2020-05-05 textproc/topic: Broken for more than 6 months
2020-05-05 textproc/uz-hunspell: Broken for more than 6 months
2020-05-05 textproc/xmlprpr: Broken for more than 6 months
2020-05-05 www/ach: Broken for more than 6 months
2020-05-05 www/apache-forrest: Broken for more than 6 months
2020-05-05 www/apercu: Broken for more than 6 months
2020-05-05 www/cblog: Broken for more than 6 months
2020-05-05 www/drood: Broken for more than 6 months
2020-05-05 www/drraw: Broken for more than 6 months
2020-05-05 www/flood: Broken for more than 6 months
2020-05-05 www/grafana2: Broken for more than 6 months
2020-05-05 www/imgsizer: Broken for more than 6 months
2020-05-05 www/jdresolve: Broken for more than 6 months
2020-05-05 www/linkcheck: Broken for more than 6 months
2020-05-05 www/madsonic-standalone: Broken for more than 6 months
2020-05-05 www/mod_auth_external2: Broken for more than 6 months
2020-05-05 www/mod_chroot: Broken for more than 6 months
2020-05-05 www/mod_cvs2: Broken for more than 6 months
2020-05-05 www/mod_domaintree: Broken for more than 6 months
2020-05-05 www/mod_encoding: Broken for more than 6 months
2020-05-05 www/mod_flickr: Broken for more than 6 months
2020-05-05 www/mod_gzip2: Broken for more than 6 months
2020-05-05 www/mod_layout22: Broken for more than 6 months
2020-05-05 www/mod_proctitle: Broken for more than 6 months
2020-05-05 www/mod_tsa: Broken for more than 6 months
2020-05-05 www/mod_vhs: Broken for more than 6 months
2020-05-05 www/p5-AnyEvent-Mojo: Broken for more than 6 months
2020-05-05 www/p5-Apache-Gallery: Broken for more than 6 months
2020-05-05 www/p5-WWW-Google-Video: Broken for more than 6 months
2020-05-05 www/p5-WWW-Shorten-KUSO: Broken for more than 6 months
2020-05-05 www/p5-WWW-Shorten-isgd: Broken for more than 6 months
2020-05-05 www/photo_gallery: Broken for more than 6 months
2020-05-05 www/pwebstats: Broken for more than 6 months
2020-05-05 www/py-django-profiles: Broken for more than 6 months
2020-05-05 www/red5: Broken for more than 6 months
2020-05-05 www/redmine-sidebar_hide: Broken for more than 6 months
2020-05-05 www/rssowl: Broken for more than 6 months
2020-05-05 www/skytemplate: Broken for more than 6 months
2020-05-05 www/surfraw: Broken for more than 6 months
2020-05-05 www/sws: Broken for more than 6 months
2020-05-05 www/tickr: Broken for more than 6 months
2020-05-05 www/tinytinyhttpd: Broken for more than 6 months
2020-05-05 www/udmsearch: Broken for more than 6 months
2020-05-05 www/vee: Broken for more than 6 months
2020-05-05 www/webreport: Broken for more than 6 months
2020-05-05 www/webstats: Broken for more than 6 months
2020-05-05 www/www6to4: Broken for more than 6 months
2020-05-05 x11/deskpaint: Broken for more than 6 months
2020-05-05 x11/dmenu2: Broken for more than 6 months
2020-05-05 x11/gcb: Broken for more than 6 months
2020-05-05 x11/gpctool: Broken for more than 6 months
2020-05-05 x11/ipager: Broken for more than 6 months
2020-05-05 x11/keylaunch: Broken for more than 6 months
2020-05-05 x11/props: 64-bit unsupported
2020-05-05 x11/roxbg: Broken for more than 6 months
2020-05-05 x11/sisctrl: Broken for more than 6 months
2020-05-05 x11/wdm: Broken for more than 6 months
2020-05-05 x11/xaniroc: Broken for more than 6 months
2020-05-05 x11/xmove: Broken for more than 6 months
2020-05-05 x11/xnodecor: Broken for more than 6 months
2020-05-05 x11/xvattr: Broken for more than 6 months
2020-05-05 x11-clocks/tktz: Broken for more than 6 months
2020-05-05 x11-clocks/xtimer: Broken for more than 6 months
2020-05-05 x11-themes/gnome-icons-dropline-neu: Broken for more than 6 months
2020-05-05 x11-themes/gnome-icons-dropline-nou: Broken for more than 6 months
2020-05-05 x11-themes/gnome-icons-gion: Broken for more than 6 months
2020-05-05 x11-themes/gnome-icons-jini: Broken for more than 6 months
2020-05-05 x11-themes/gtk-aurora-engine: Broken for more than 6 months
2020-05-05 x11-themes/gtk-blueprint-engine: Broken for more than 6 months
2020-05-05 x11-themes/gtk-murrina-fancy-clearlooks: Broken for more than 6 months
2020-05-05 x11-themes/gtk-murrina-lightblue: Broken for more than 6 months
2020-05-05 x11-themes/gtk-murrine-themes: Broken for more than 6 months
2020-05-05 x11-themes/murrine-configurator: Broken for more than 6 months
2020-05-05 x11-themes/nimbus: Broken for more than 6 months
2020-05-05 x11-themes/openbox-themes: Broken for more than 6 months
2020-05-05 x11-themes/rezlooks: Broken for more than 6 months
2020-05-05 x11-themes/ubuntulooks: Broken for more than 6 months
2020-05-05 x11-toolkits/slingshot: 64-bit unsupported
2020-05-05 x11-toolkits/xview-clients: 64-bit unsupported
2020-05-05 x11-wm/fluxconf: Broken for more than 6 months
2020-05-05 x11-wm/ion: Broken for more than 6 months
2020-05-05 x11-wm/matwm2: Broken for more than 6 months
2020-05-05 x11-wm/nickleby: Broken for more than 6 months
2020-05-05 x11-wm/olvwm: 64-bit unsupported
2020-05-05 x11-wm/ratmenu: Broken for more than 6 months
2020-05-05 15:38:11 +00:00
Antoine Brodin
5771a96715 Deprecate ports broken for more than 6 months 2020-04-04 20:51:40 +00:00
Antoine Brodin
cc8ad7de9b Mark a few ports BROKEN, unfetchable 2019-11-06 12:48:32 +00:00
Niclas Zeising
f01bbf652d Add USES=xorg USES=gl, ports categories b
Add USES=xorg, USES=gl and in a few cases USES=gnome to ports in categories
starting with 'b'.
2019-11-04 21:08:20 +00:00
Tijl Coosemans
1bf487d3e7 Fix Qt5 symbol version scripts to put the catch-all clause first. When
a symbol matches multiple clauses the last one takes precedence.  If the
catch-all is last it captures everything.  In the case of Qt5 libraries
this caused all symbols to have a Qt_5 label while some should have
Qt_5_PRIVATE_API.  This only affects lld because GNU ld always gives the
catch-all lowest priority.

Older versions of Qt5Webengine exported some memory allocation symbols from
the bundled Chromium.  Version 5.9 stopped exporting these [1] but the
symbols were kept as weak wrappers for the standard allocation functions to
maintain binary compatibility. [2][3]  The problem is that the call to the
standard function in these weak wrappers is only resolved to the standard
function if there's a call to this standard function in other parts of
Qt5Webengine, because only then is there a non-weak symbol that takes
precedence over the weak one.  If there's no such non-weak symbol the call
in the weak wrapper resolves to the weak wrapper itself creating an infinite
call loop that overflows the stack and causes a crash.  Some of the
allocation functions are variants of C++ new and delete and it probably
depends on the compiler whether these variants are used in other parts of
Qt5Webengine.

Remove the weak wrappers (make them Linux specific).  This isn't binary
compatible but we are already breaking that with the changes to the symbol
versions.

[1] 5c2cbfccf9
[2] 2ed5054e3a
[3] 009f5ebb4b

Bump all ports that depend on Qt5.

PR:		234070
Exp-run by:	antoine
Approved by:	kde (adridg)
2019-01-16 11:13:44 +00:00
Tobias C. Berner
ea792330aa Update Qt5 to 5.12.0
http://blog.qt.io/blog/2018/12/06/qt-5-12-lts-released/

- This breaks support for libressl again. Patches are welcome.

PR:		233705
Exp-run by:	antoine
2018-12-16 14:49:16 +00:00
Jason E. Hale
d010f9e7f2 Update to 1.31.0
PR:		229463
Approved by:	Hannes Hauswedell <h2+fbsdports@fsfe.org> (maintainer)
2018-09-02 20:47:15 +00:00
Tobias C. Berner
b1a1d38bf9 Replace bsd.qt.mk by Uses/qt.mk and Uses/qt-dist.mk
From now on, ports that depend on Qt4 will have to set
	USES=		qt:4
	USE_QT=		foo bar
ports depending on Qt5 will use
	USES=		qt:5
	USE_QT=		foo bar

PR:		229225
Exp-run by:	antoine
Reviewed by:	mat
Approved by:	portmgr (antoine)
Differential Revision:	→https://reviews.freebsd.org/D15540
2018-06-28 17:39:53 +00:00
Raphael Kubo da Costa
f002331665 Add upstream patch to fix the build with Qt 5.10.
_tmp/ui/ui_Bowtie2Settings.h:189:35: error: no viable conversion from 'QLatin1String' to 'const QKeySequence'
            gbarCheckBox->setShortcut(QLatin1String(""));
                                      ^~~~~~~~~~~~~~~~~

PR:		228213
2018-05-15 18:51:51 +00:00
Raphael Kubo da Costa
f6ceca6350 Update Qt5 ports to 5.9.3.
This took quite a lot of time because Qt's own build system underwent
several changes in 5.8.0 that took a while to adapt to.

And, of course, qt5-webengine is a behemoth that we need to patch like crazy
due to its bundling of Chromium. In fact, most of the Chromium patches in
qt5-webengine have been imported with no changes from www/chromium@433510
("www/chromium: update to 56.0.2924.87").

New port: accessibility/qt5-speech

Bigger changes to Qt5 ports we had to make:
- Qt now allows using a configure.json file to define configuration options
  and specify configuration checks that can be done when qmake is invoked.
  However, configure.json checks done in a subdirectory only propagates to
  subdirectories, and checks elsewhere will fail if all .pro files are being
  parsed at once (i.e. qmake -recursive), so several ports had to switch to
  USES=qmake:norecursive along with manual additional qmake invocations in
  subdirectories in order to work. It's been mentioned in a few places such
  as Qt's bug tracker that qmake's recursive mode is pretty much deprecated,
  so we might switch to non-recursive mode by default in the future.

- Uses/qmake.mk: Introduce QMAKE_CONFIGURE_ARGS. qmake now accepts
  arbitrary options such as '-foo' and '-no-bar' at the end of the
  command-line. They can be specified in QMAKE_CONFIGURE_ARGS.

- graphics/qt5-wayland: The port can only be built if graphics/mesa-libs is
  built with the WAYLAND option, so a corresponding option (off by default)
  was added to the port.

- misc/qt5-doc: Switch to a pre-built documentation tarball. The existing
  port was not working with Qt 5.9. Instead of trying to fix it, switch to
  what Gentoo does and fetch a tarball that already contains all
  documentation so that we do not have to build anything at all. The
  tarball's name and location in download.qt.io look a bit weird, but it
  seems to work fine.

- www/qt5-webengine: Use binutils from ports, Chromium's GN build system
  generates a build.ninja that uses ar(1) with the @file syntax that is not
  supported by BSD ar, so we need to use GNU ar from binutils.

- x11-toolkits/qt5-declarative-render2d: This port was merged into the main
  Qt Declarative repository upstream, and into x11-toolkits/qt5-quick in the
  ports tree.

Changes to other ports we had to make:
- biology/ugene: Drop a '#define point "."' that is not present in more
  recent versions of the port. Defining a macro with such a common name
  causes build issues with Qt 5.9, which uses |point| as an argument name in
  methods.

- cad/qelectrotech: Fix plist with Qt 5.9. Directories are no longer
  installed with `cp -f -R', but rather `qmake install qinstall', which does
  not install

    %%DATADIR%%/elements/10_electric/20_manufacturers_articles/bosch_rexroth/.directory

  That's a local file that should not even have been part of the tarball
  anyway.

- chinese/gcin-qt5: Add additional private Qt directories (which should not
  be used in the first place) to get the port to build with Qt 5.9.

- devel/qtcreator: Fix plist with Qt 5.9. Something changed in qdoc and some
  test classes no longer generate documentation files.

- security/keepassx-devel: Import a patch sent upstream almost a year ago to
  fix the build with Qt 5.9.

Thanks to antoine for the exp-run, and tcberner and Laurent Cimon
<laurent@nuxi.ca> for landing changes in our qt-5.9 branch.

PR:		224849
2018-01-06 21:30:31 +00:00
Mathieu Arnold
3fcd0e41de Remove USES=execinfo.
PR:		220271
Submitted by:	mat (review), Yasuhiro KIMURA (PR)
Sponsored by:	Absolight
Differential Revision:	https://reviews.freebsd.org/D11488
2017-09-22 10:48:28 +00:00
Matthew Rezny
b760897dde Revision bump of all ports with USE_GL after consolidation of mesa-libs
Approved by:	swills (mentor)
Differential Revision:	https://reviews.freebsd.org/D10845
2017-05-23 05:03:14 +00:00
Dmitry Marakasov
9d79e7b146 - Remove always-true/false conditions after FreeBSD 9, 10.1, 10.2 EOL
Approved by:	portmgr blanket
2017-01-09 13:16:49 +00:00
Mark Linimon
17e48e339b The 64-bit arm arch is actually spelled 'aarch64', not 'arm64'. 2016-11-08 19:29:56 +00:00
Mark Linimon
82b3226534 Mark as broken on arm64.
Approved by:	portmgr (tier-2 blanket)
2016-11-08 07:20:38 +00:00
Dimitry Andric
488fd1255a During the exp-run in bug 208158, it was found that biology/ugene gives
errors with libc++ 3.8.0:

In file included from src/QScoreAdapter.cpp:1:
In file included from src/QScoreAdapter.h:4:
In file included from ../../include/U2Core/MAlignment.h:1:
In file included from ../../include/U2Core/../../corelibs/U2Core/src/datatype/MAlignment.h:25:
In file included from ../../include/U2Core/../../corelibs/U2Core/src/datatype/MAlignmentInfo.h:25:
In file included from /usr/local/include/qt5/QtCore/QString:1:
In file included from /usr/local/include/qt5/QtCore/qstring.h:41:
In file included from /usr/local/include/qt5/QtCore/qchar.h:37:
In file included from /usr/local/include/qt5/QtCore/qglobal.h:39:
/usr/include/c++/v1/cstddef:43:15: fatal error: 'stddef.h' file not found
#include_next <stddef.h>
              ^

This is because the port tries to add /usr/include as a system include
directory, using -isystem, and this screws up the order of include
directories.  Fix it by patching up a number of .pri files to avoid
using the -isystem flag.

Approved by:	h2+fbsdports@fsfe.org (maintainer)
PR:		209366
MFH:		2016Q2
2016-05-07 19:38:53 +00:00
Alexey Dokuchaev
66ab33fca6 Update to version 1.22.0, which now unfortunately requires Qt 5.x. Also
since around v1.18.0, UGENE is using Google's Breakpad library for crash
reporting, which is very system-specific and does not support FreeBSD at
the moment.  Due to lack of resources and interest in porting it, simply
disable crash reporting code for the time being.
2016-04-14 04:07:44 +00:00
Mathieu Arnold
7f4572eae4 Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.
With hat:	portmgr
Sponsored by:	Absolight
2016-04-01 13:29:15 +00:00
Philip M. Gollucci
71f877793d biology/ugene: qt4-linguist -> qt4-linguisttools
- add USES=desktop-file-utils

PR:                  202138
Submitted by:        s3erios@gmail.com
Approved by:         h2+fbsdports@fsfe.org
2015-08-18 20:02:45 +00:00
Alexey Dokuchaev
0a216b375c - Update Unipro UGENE to version 1.17.0 (documentation was also rerolled)
- Remove no longer required local source code tweaks (picked up upstream)
2015-07-15 07:18:08 +00:00
Alexey Dokuchaev
14e4d92279 Update Unipro UGENE to version 1.16.2. 2015-05-28 08:11:59 +00:00
Alexey Dokuchaev
70f863c983 - Update to version 1.16.1
- Explicitly list all required Qt components in USE_QT4 instead of relying
  on them being silently picked up through `www/webkit-qt4' dependency
- Group *_build components together while here
- Remove one REINPLACE_CMD call that is no longer needed
2015-03-23 01:44:43 +00:00
Alexey Dokuchaev
4be0124f6e Update Unipro UGENE to version 1.16.0 (documentation was also rerolled). 2015-02-24 11:42:53 +00:00
Alexey Dokuchaev
74af9d60da Update to version 1.15.1. 2015-01-06 05:28:58 +00:00
Alexey Dokuchaev
085ce877c7 Update to version 1.15.0. 2014-12-03 01:40:54 +00:00
Baptiste Daroussin
99a3e8559c Cleanup plist 2014-10-20 07:10:48 +00:00
Alexey Dokuchaev
211de67db6 Update to version 1.14.2. 2014-10-13 11:01:51 +00:00
Gerald Pfeifer
15945f8122 Update the default version of GCC in the Ports Collection from GCC 4.7.4
to GCC 4.8.3.

Part II, Bump PORTREVISIONs.

PR:		192025
Tested by:	antoine (-exp runs)
Approved by:	portmgr (implicit)
2014-09-10 20:50:31 +00:00
Alexey Dokuchaev
19bbb2d91d - Update Unipro UGENE and documentation to version 1.14.0
- Remove patches integrated upstream (it's nice to have direct contact)
- Sort USES and pkg-plist, cleanup Makefile a bit while here

Approved by:	maintainer (implicit)
2014-09-01 07:38:59 +00:00
Baptiste Daroussin
895c00dee5 USES=execinfo 2014-08-04 23:06:21 +00:00
Alexey Dokuchaev
ae2e4e1956 Update to version 1.13.1. 2014-03-07 07:39:20 +00:00
Alexey Dokuchaev
4e749081cf Unbreak the fetch: one of the documentation PDF files was rerolled. 2014-01-30 13:38:26 +00:00
Bernhard Froehlich
feaa1e68d7 - Mark BROKEN because it does not fetch 2014-01-30 13:11:40 +00:00
Alexey Dokuchaev
9dc680d0e8 - Update to version 1.13.0 and improve FreeBSD support; it also builds
pretty cleanly with GCC v4.2, v4.6, and Clang (modulo a few warnings)
- Sadly, do not use PORTDOCS: since DOCSDIR is set to be inside DATADIR,
  and will get appended to PLIST after @dirrm %%DATADIR%%, which upsets
  sanity checking tools; instead, list the docs explicitly in DISTFILES
  and add them to pkg-plist (guarded by %%PORTDOCS%%)

Tested on:	i386 (only)
2014-01-16 17:17:15 +00:00
Alexey Dokuchaev
0b0738811e - Install official UGENE documentation (PDF)
- Utilize DIST_SUBDIR as now it's more than one distfile
2013-11-01 15:20:28 +00:00
Alexey Dokuchaev
c5854fe3e1 - Update to version 1.12.3
- Conditionalize dependency on `devel/libexecinfo'
- Try to detect SSE2 support
- Convert to USES=qmake and stafigy
- Improve grammar in port description while here

Approved by:	maintainer (implicit)
2013-10-31 15:30:04 +00:00
Dmitry Marakasov
a2105d9f79 - Remove manual creation and removal of share/applications, as it's now in the mtree (categories starting with [bce])
Approved by:	portmgr (bdrewery)
2013-10-22 13:57:35 +00:00
Baptiste Daroussin
7055ff02f1 Add NO_STAGE all over the place in preparation for the staging support (cat: biology) 2013-09-20 15:55:44 +00:00