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Port details
libgenome 0.5.2_2 biology Deleted on this many watch lists=0 search for ports that depend on this port
Deprecated DEPRECATED: Unmaintained since 2002
Expired This port expired on: 2014-04-17
Toolkit for developing bioinformatic related software in C++

There is no maintainer for this port.
Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org search for ports maintained by this maintainer
Port Added: 30 Jul 2002 10:57:35
License: GPLv2


libGenome is a freely available toolkit for developing bioinformatic related
software in C++. It is intended to take the hassle out of performing common
tasks on genetic sequence and annotation data.

Among other things, libGenome can help you:
   - Read and write Multi-FastA format files
   - Read and write GenBank flat file database entries
   - Append, chop, truncate, reverse, complement, translate, and otherwise
     mangle sequence data
   - Access annotation in GenBank flat files

WWW: http://pages.cs.wisc.edu/~darling/libgenome/
SVNWeb : Main Web Site : Distfiles Availability : PortsMon

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

Required To Build:
  1. devel/libtool
There are no ports dependent upon this port

No installation instructions: this port has been deleted.

The package name of this deleted port was: libgenome


Configuration Options
===> The following configuration options are available for libgenome-0.5.2_2:
     DOCS=on: Build and/or install documentation
===> Use 'make config' to modify these settings

Master Sites:
  1. ftp://ftp.FreeBSD.org/pub/FreeBSD/ports/distfiles/
  2. http://pages.cs.wisc.edu/~darling/libgenome/releases/

Number of commits found: 33

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
18 Apr 2014 11:17:45
Original commit files touched by this commit  0.5.2_2
Revision:351531
rene search for other commits by this committer
Remove expired ports:
2014-04-16 ports-mgmt/pkgsearch: Upstream disappeared
2014-04-17 science/flounder: Unmaintained since 2002
2014-04-17 security/nbaudit: Unmaintained since 2002
2014-04-17 security/saint: Unmaintained since 2002
2014-04-17 graphics/gozer: Unmaintained since 2002
2014-04-17 misc/pdfmap: Unmaintained since 2002
2014-04-17 devel/showgrammar: Unmaintained since 2002
2014-04-17 biology/libgenome: Unmaintained since 2002
2014-04-17 deskutils/narval: Unmaintained since 2002
2014-04-17 devel/fampp: Unmaintained since 2002
2014-04-17 net-p2p/py-fngrab: Unmaintained since 2002
2014-04-17 misc/wmfirew: Unmaintained since 2002
2014-04-17 x11-wm/e16utils: Unmaintained since 2002
2014-04-17 misc/salias: Unmaintained since 2002
(Only the first 15 lines of the commit message are shown above View all of this commit message)
11 Mar 2014 21:21:15
Original commit files touched by this commit  0.5.2_2
Revision:347934
antoine search for other commits by this committer
Deprecate a few old unmaintained ports
05 Feb 2014 23:47:48
Original commit files touched by this commit  0.5.2_2
Revision:342906
marino search for other commits by this committer
biology/libgenome: Fix build on dragonfly
21 Jan 2014 23:18:05
Original commit files touched by this commit  0.5.2_2
Revision:340671
bapt search for other commits by this committer
Fix properties on pkg-plist
20 Sep 2013 15:55:44
Original commit files touched by this commit  0.5.2_2
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 09:53:39
Original commit files touched by this commit  0.5.2_2
Revision:324692
marino search for other commits by this committer
biology/libgenome: Mark jobs unsafe

Approved by: 	bapt/culot (mentors, implicit)
19 Jun 2013 18:53:55
Original commit files touched by this commit  0.5.2_2
Revision:321307
bsam search for other commits by this committer
. add license (GPLv2);
. bump PORTREVISION;
. NOPORTDOCS -> PORT_OPTIONS:MDOCS;
. trim Makefile headers.
19 Mar 2011 12:38:54
Original commit files touched by this commit  0.5.2_1
miwi search for other commits by this committer
- Get Rid MD5 support
04 Dec 2010 07:34:27
Original commit files touched by this commit  0.5.2_1
ade search for other commits by this committer
Sync to new bsd.autotools.mk
02 Aug 2009 19:36:34
Original commit files touched by this commit  0.5.2_1
mezz search for other commits by this committer
-Repocopy devel/libtool15 -> libtool22 and libltdl15 -> libltdl22.
-Update libtool and libltdl to 2.2.6a.
-Remove devel/libtool15 and devel/libltdl15.
-Fix ports build with libtool22/libltdl22.
-Bump ports that depend on libltdl22 due to shared library version change.
-Explain what to do update in the UPDATING.

It has been tested with GNOME2, XFCE4, KDE3, KDE4 and other many wm/desktop
and applications in the runtime.

With help:      marcus and kwm
Pointyhat-exp:  a few times by pav
Tested by:      pgollucci, "Romain Tartière" <romain@blogreen.org>, and
                a few MarcusCom CVS users. Also, I might have missed a few.
Repocopy by:    marcus
Approved by:    portmgr
21 Aug 2008 06:18:49
Original commit files touched by this commit  0.5.2_1
rafan search for other commits by this committer
Update CONFIGURE_ARGS for how we pass CONFIGURE_TARGET to configure script.
Specifically, newer autoconf (> 2.13) has different semantic of the
configure target. In short, one should use --build=CONFIGURE_TARGET
instead of CONFIGURE_TARGET directly. Otherwise, you will get a warning
and the old semantic may be removed in later autoconf releases.

To workaround this issue, many ports hack the CONFIGURE_TARGET variable
so that it contains the ``--build='' prefix.

To solve this issue, under the fact that some ports still have
configure script generated by the old autoconf, we use runtime detection
in the do-configure target so that the proper argument can be used.

Changes to Mk/*:
 - Add runtime detection magic in bsd.port.mk
(Only the first 15 lines of the commit message are shown above View all of this commit message)
18 Jun 2008 19:08:46
Original commit files touched by this commit  0.5.2_1
pav search for other commits by this committer
- Fix fetch, update WWW
01 Feb 2007 02:42:06
Original commit files touched by this commit  0.5.2_1
kris search for other commits by this committer
Use libtool port instead of included version to avoid objformat a.out botch
14 Aug 2006 10:08:25
Original commit files touched by this commit  0.5.2_1
clsung search for other commits by this committer
- s,INSTALLS_SHLIB,USE_LDCONFIG,g
- these include astro/ audio/ biology/ chinese/ maintained by ports@

PR:             ports/101916
Submitted by:   Gea-Suan Lin <gslin_AT_gslin dot org>
03 May 2006 23:26:35
Original commit files touched by this commit  0.5.2_1
edwin search for other commits by this committer
Remove USE_REINPLACE from all categories starting with B
23 Feb 2006 10:40:45
Original commit files touched by this commit  0.5.2_1
ade search for other commits by this committer
Conversion to a single libtool environment.

Approved by:    portmgr (kris)
24 Nov 2005 00:04:00
Original commit files touched by this commit  0.5.2
pav search for other commits by this committer
- Add SHA256
15 Nov 2005 06:52:12
Original commit files touched by this commit  0.5.2
ade search for other commits by this committer
Mass-conversion to the USE_AUTOTOOLS New World Order.  The code present
in bsd.autotools.mk essentially makes this a no-op given that all the
old variables set a USE_AUTOTOOLS_COMPAT variable, which is parsed in
exactly the same way as USE_AUTOTOOLS itself.

Moreover, USE_AUTOTOOLS has already been extensively tested by the GNOME
team -- all GNOME 2.12.x ports use it.

Preliminary documentation can be found at:
        http://people.FreeBSD.org/~ade/autotools.txt

which is in the process of being SGMLized before introduction into the
Porters Handbook.

Light blue touch-paper.  Run.
31 May 2005 16:34:45
Original commit files touched by this commit  0.5.2
oliver search for other commits by this committer
change the libtool version to use from 1.3 to 1.5
12 Apr 2005 03:26:57
Original commit files touched by this commit  0.5.2
obrien search for other commits by this committer
At Kris's request, back out the MACHINE_ARCH spelling correction until
after 5.4-RELEASE.
11 Apr 2005 08:04:41
Original commit files touched by this commit  0.5.2
obrien search for other commits by this committer
Assist getting more ports working on AMD64 by obeying the
Ports Collection documentation and use 'ARCH' rather than 'MACHINE_ARCH'.
09 Jul 2004 17:43:11
Original commit files touched by this commit  0.5.2
marcus search for other commits by this committer
Apply a big libtool patch to allow porters to use the libtool installed by
the libtoolX ports instead of the one included with each port.  Ports that
set USE_LIBTOOL_VER=X will now use the ports version of libtool instead of
the included version.  To restore previous behavior, use the new macro,
USE_INC_LIBTOOL_VER.  Both macros accept the same argument: a libtool version.

For example, to use the ports version of libtool-1.5, add the following to
your Makefile:

USE_LIBTOOL_VER=        15

To use the included version of libtool with extra hacks provided by
libtool-1.5, add the following to your Makefile:

USE_INC_LIBTOOL_VER=    15

With this change, ports that had to add additional libtool hacks to prevent
.la files from being installed or to fix certain threading issues can now
delete those hacks (after appropriate testing, of course).

PR:             63944
Based on work by:eik and marcus
Approved by:    ade (autotools maintainer)
Tested by:      kris on pointyhat
Bound to be hidden problems:    You bet
22 May 2004 07:29:47
Original commit files touched by this commit  0.5.2
krion search for other commits by this committer
- Update MASTER_SITES and WWW: line

PR:             ports/67015
Submitted by:   Roman Neuhauser <neuhauser@chello.cz>
14 Mar 2004 06:17:56
Original commit files touched by this commit  0.5.2
ade search for other commits by this committer
Whoa there, boy, that's a mighty big commit y'all have there...

Begin autotools sanitization sequence by requiring ports to explicitly
specify which version of {libtool,autoconf,automake} they need, erasing
the concept of a "system default".

For ports-in-waiting:

        USE_LIBTOOL=YES         ->      USE_LIBTOOL_VER=13
        USE_AUTOCONF=YES        ->      USE_AUTOCONF_VER=213
        USE_AUTOMAKE=YES        ->      USE_AUTOMAKE_VER=14

Ports attempting to use the old style system after June 1st 2004 will be
sorely disappointed.
27 Jan 2004 20:51:07
Original commit files touched by this commit  0.5.2
trevor search for other commits by this committer
Add SIZE.
20 Oct 2003 22:41:04
Original commit files touched by this commit  0.5.2
krion search for other commits by this committer
- Update to 0.5.2

PR:             58304
Submitted by:   Clement Laforet <sheepkiller@cultdeadsheep.org>
18 Feb 2003 14:09:17
Original commit files touched by this commit  0.5.1
naddy search for other commits by this committer
Fix install and packaging list.

Reported by:    kris
11 Feb 2003 18:13:27
Original commit files touched by this commit  0.5.1
naddy search for other commits by this committer
Update to version 0.5.1.

PR:             48047
Submitted by:   Ports Fury
29 Dec 2002 04:44:13
Original commit files touched by this commit  0.5.0_1
ijliao search for other commits by this committer
add missing include

PR:             46584
Submitted by:   Ports Fury
22 Dec 2002 12:51:20
Original commit files touched by this commit  0.5.0_1
ijliao search for other commits by this committer
fix build on -current

PR:             46459
Submitted by:   Ports Fury
07 Nov 2002 03:10:58
Original commit files touched by this commit  0.5.0_1
adamw search for other commits by this committer
Fix PORTCOMMENTs that were killing INDEX builds.

105 pointy hats to:     me
Approved by:            pat
17 Aug 2002 19:16:55
Original commit files touched by this commit  0.5.0_1
naddy search for other commits by this committer
- Support CXXFLAGS properly.
- Do not install .la file.

PR:             41732
Submitted by:   Ports Fury
30 Jul 2002 10:57:06
Original commit files touched by this commit  0.5.0
ijliao search for other commits by this committer
add libgenome 0.5.0
Toolkit for developing bioinformatic related software in C++

Number of commits found: 33

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