Provided by: psortb_3.0.5+dfsg-1ubuntu1_amd64 bug


       Bio::Tools::PSort::ModuleI - an interface class that all PSort modules should derive


           package Bio::Tools::PSort::Module::Foo;

           use Bio::Tools::PSort::Module;

           use vars qw(@ISA);
           @ISA = qw(Bio::Tools::PSort::Module;




       The module object contains functionality common to all PSort modules.  This class is not
       intended to be instantiated on it's own, it only provides functionality common to all
       PSort modules.


           $result = $module->run($seq);

       The run method must be overridden in all derived classes.  run() should accept a
       Bio::Tools::Seq object, and perform whatever analysis the module provides on the sequence,
       returning a bio::PSort::Scort object upon completion.


       Bio::Tools::PSort, Bio::Tools::PSort::Pathway, Bio::Tools::PSort::Score


        Fiona Brinkman, Cory Spencer <>
        Brinkman Laboratory, Simon Fraser University, BC, CANADA


       PSORT-B is described in Gardy, J.L. et al (2003). PSORT-B: improving protein subcellular
       localization prediction for Gram-negative bacteria. Nuc Acids Res 31(13):3613-17. Please
       cite this publication if you use PSORT-B in your research.

       The standalone version of PSORT-B is distributed under the GNU General Public Licence (Gnu
       GPL) (see the LICENSE file included in the download) by the Brinkman Laboratory, Simon
       Fraser University, Burnaby, B.C., Canada.

       This standalone version of PSORT-B has initially been developed for the Linux environment.

       This document describes the installation of the PSORT-B version 1.1.4 command line program
       and the PSORT-B server packages. For most purposes, following the installation
       instructions for the command line version will be sufficient.

       For further information, please contact


       This program is free software; you can redistribute it and/or modify it under the terms of
       the GNU General Public License as published by the Free Software Foundation; either
       version 2 of the License, or (at your option) any later version.

       This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY;
       without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
       See the GNU General Public License for more details.

       You should have received a copy of the GNU General Public License along with this program;
       if not, write to the Free Software Foundation, Inc., 59 Temple Place, Suite 330, Boston,
       MA  02111-1307  USA