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Port details
ugene Free, open-source, cross-platform bioinformatics toolkit
1.17.0 biology on this many watch lists=0 search for ports that depend on this port Find issues related to this port Report an issue related to this port
Maintainer: h2+fbsdports@fsfe.org search for ports maintained by this maintainer
Port Added: 23 Feb 2013 04:51:12
Also Listed In: science
License: GPLv2
Unipro UGENE is multiplatform, open-source software with the main goal of
assisting molecular biologists without much expertise in bioinformatics to
manage, analyze, and visualize their data.  UGENE integrates widely used
bioinformatics tools within one common user interface.

UGENE toolkit supports multiple biological data formats and allows the
retrieval of data from remote data sources.  It provides visualization
modules for biological objects such as annotated genome sequences, Next
Generation Sequencing (NGS) assembly data, multiple sequence alignments,
phylogenetic trees, and 3D structures.

WWW: http://ugene.unipro.ru/
SVNWeb : Homepage : Distfiles Availability : PortsMon

NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.

Build dependencies:
  1. glproto.pc : x11/glproto
  2. dri2proto.pc : x11/dri2proto
  3. xtst.pc : x11/libXtst
  4. libQtCore.so : devel/qt4-corelib
  5. libQtGui.so : x11-toolkits/qt4-gui
  6. linguist-qt4 : devel/qt4-linguist
  7. moc-qt4 : devel/qt4-moc
  8. libQtNetwork.so : net/qt4-network
  9. qmake-qt4 : devel/qmake4
  10. libQtTest.so : devel/qt4-testlib
  11. rcc : devel/qt4-rcc
  12. libQtScript.so : devel/qt4-script
  13. libQtScriptTools.so : devel/qt4-scripttools
  14. uic-qt4 : devel/qt4-uic
  15. libQtWebKit.so : www/webkit-qt4
  16. libQtXml.so : textproc/qt4-xml
  17. gtk-update-icon-cache : graphics/gtk-update-icon-cache
Runtime dependencies:
  1. bash : shells/bash
  2. xtst.pc : x11/libXtst
  3. libQtCore.so : devel/qt4-corelib
  4. libQtGui.so : x11-toolkits/qt4-gui
  5. libqtiff.so : graphics/qt4-imageformats
  6. libQtNetwork.so : net/qt4-network
  7. libQtScript.so : devel/qt4-script
  8. libQtWebKit.so : www/webkit-qt4
  9. libQtXml.so : textproc/qt4-xml
  10. gtk-update-icon-cache : graphics/gtk-update-icon-cache
Library dependencies:
  1. libexecinfo.so : devel/libexecinfo
  2. libGLU.so : graphics/libGLU
  3. libatk-1.0.so : accessibility/atk
  4. libgdk_pixbuf-2.0.so : graphics/gdk-pixbuf2
  5. libglib-2.0.so : devel/glib20
  6. libpango-1.0.so : x11-toolkits/pango
There are no ports dependent upon this port

To install the port: cd /usr/ports/biology/ugene/ && make install clean
To add the package: pkg install biology/ugene


Configuration Options
===> The following configuration options are available for ugene-1.17.0:
     DOCS=on: Install official UGENE documentation (PDF)
===> Use 'make config' to modify these settings

USES:
execinfo qmake qmake:_env

Master Sites:
  1. http://distcache.FreeBSD.org/ports-distfiles/ugene/
  2. http://ugene.unipro.ru/downloads/

Number of commits found: 22

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
15 Jul 2015 07:18:09
Original commit files touched by this commit  1.17.0
Revision:392119
danfe search for other commits by this committer
- Update Unipro UGENE to version 1.17.0 (documentation was also rerolled)
- Remove no longer required local source code tweaks (picked up upstream)
28 May 2015 08:12:00
Original commit files touched by this commit  1.16.2
Revision:387709
danfe search for other commits by this committer
Update Unipro UGENE to version 1.16.2.
23 Mar 2015 01:44:44
Original commit files touched by this commit  1.16.1
Revision:381974
danfe search for other commits by this committer
- 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
24 Feb 2015 11:42:54
Original commit files touched by this commit  1.16.0
Revision:379787
danfe search for other commits by this committer
Update Unipro UGENE to version 1.16.0 (documentation was also rerolled).
06 Jan 2015 05:28:59
Original commit files touched by this commit  1.15.1
Revision:376383
danfe search for other commits by this committer
Update to version 1.15.1.
03 Dec 2014 01:40:55
Original commit files touched by this commit  1.15.0
Revision:373799
danfe search for other commits by this committer
Update to version 1.15.0.
20 Oct 2014 07:10:48
Original commit files touched by this commit  1.14.2
Revision:371237
bapt search for other commits by this committer
Cleanup plist
13 Oct 2014 11:01:52
Original commit files touched by this commit  1.14.2
Revision:370764
danfe search for other commits by this committer
Update to version 1.14.2.
10 Sep 2014 20:50:37
Original commit files touched by this commit  1.14.0_1
Revision:367888
gerald search for other commits by this committer
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)
01 Sep 2014 07:39:00
Original commit files touched by this commit  1.14.0
Revision:366842
danfe search for other commits by this committer
- 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)
04 Aug 2014 23:06:21
Original commit files touched by this commit  1.13.1
Revision:364067
bapt search for other commits by this committer
USES=execinfo
07 Mar 2014 07:39:21
Original commit files touched by this commit  1.13.1
Revision:347340
danfe search for other commits by this committer
Update to version 1.13.1.
30 Jan 2014 13:38:26
Original commit files touched by this commit  1.13.0
Revision:341837
danfe search for other commits by this committer
Unbreak the fetch: one of the documentation PDF files was rerolled.
30 Jan 2014 13:11:41
Original commit files touched by this commit  1.13.0
Revision:341835
decke search for other commits by this committer
- Mark BROKEN because it does not fetch
16 Jan 2014 17:17:16
Original commit files touched by this commit  1.13.0
Revision:339938
danfe search for other commits by this committer
- 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)
01 Nov 2013 15:20:29
Original commit files touched by this commit  1.12.3
Revision:332391
danfe search for other commits by this committer
- Install official UGENE documentation (PDF)
- Utilize DIST_SUBDIR as now it's more than one distfile
31 Oct 2013 15:30:04
Original commit files touched by this commit  1.12.3
Revision:332256
danfe search for other commits by this committer
- 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)
22 Oct 2013 13:57:35
Original commit files touched by this commit  1.11.4
Revision:331271
amdmi3 search for other commits by this committer
- Remove manual creation and removal of share/applications, as it's now in the
mtree (categories starting with [bce])

Approved by:	portmgr (bdrewery)
20 Sep 2013 15:55:44
Original commit files touched by this commit  1.11.4
Revision:327709
bapt search for other commits by this committer
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology)
14 Aug 2013 22:35:54
Refresh Original commit files touched by this commit
Revision:324744  Sanity Test Failure
ak search for other commits by this committer
- Remove MAKE_JOBS_SAFE variable

Approved by:	portmgr (bdrewery)
25 Feb 2013 13:00:16
Original commit files touched by this commit  1.11.4
Revision:312918
danfe search for other commits by this committer
Unbreak on 7.X and i386 systems.

Reported by:	QAT
23 Feb 2013 04:50:48
Original commit files touched by this commit  1.11.4
Revision:312798
danfe search for other commits by this committer
Add Unipro UGENE, a free open-source crowss-platform bioinformatics software.

PR:		ports/173387
Submitted by:	Hannes Hauswedell

Number of commits found: 22

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