libgenome 0.5.2_1 biology =0

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
Port Added: 30 Jul 2002 11:57:35

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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/

CVSWeb : Sources : Main Web Site : Distfiles Availability : PortsMon

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Required To Build: devel/libtool15

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To install the port: cd /usr/ports/biology/libgenome/ && make install clean
To add the package: pkg_add -r libgenome

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Configuration Options

     No options to configure

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Master Sites:

http://pages.cs.wisc.edu/~darling/libgenome/releases/

ftp://ftp.FreeBSD.org/pub/FreeBSD/ports/distfiles/

- Fix fetch, update WWW

Use libtool port instead of included version to avoid objformat a.out botch

- 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>

Remove USE_REINPLACE from all categories starting with B

Conversion to a single libtool environment.

Approved by:    portmgr (kris)

- Add SHA256

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.

change the libtool version to use from 1.3 to 1.5

At Kris's request, back out the MACHINE_ARCH spelling correction until
after 5.4-RELEASE.

Assist getting more ports working on AMD64 by obeying the
Ports Collection documentation and use 'ARCH' rather than 'MACHINE_ARCH'.

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

- Update MASTER_SITES and WWW: line

PR:             ports/67015
Submitted by:   Roman Neuhauser <neuhauser@chello.cz>

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.

Add SIZE.

- Update to 0.5.2

PR:             58304
Submitted by:   Clement Laforet <sheepkiller@cultdeadsheep.org>

Fix install and packaging list.

Reported by:    kris

Update to version 0.5.1.

PR:             48047
Submitted by:   Ports Fury

add missing include

PR:             46584
Submitted by:   Ports Fury

fix build on -current

PR:             46459
Submitted by:   Ports Fury

Fix PORTCOMMENTs that were killing INDEX builds.

105 pointy hats to:     me
Approved by:            pat

- Support CXXFLAGS properly.
- Do not install .la file.

PR:             41732
Submitted by:   Ports Fury

add libgenome 0.5.0
Toolkit for developing bioinformatic related software in C++

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