Bio-ECell version 0.01

Bio::ECell is a Perl interface for the E-Cell Simulation Environment version 3 (http://www.e-cell.org/), a generic cell simulation software for molecular cell biology researches that allow object-oriented modeling and simulation, multi-algorithm/time-scale simulation, and scripting through Python. This module allows scripting of sessions with Perl.

For the details of the E-Cell API, users should refer to the chapter about scripting a simulation session of E-Cell3 Users Manual, available at the above-mentioned web-site.

Example

use Bio::ECell;

my $ecell = Bio::ECell::new();

$ecell->loadModel("simple.eml");
$ecell->message("Message from Perl!");

my $logger = $ecell->createLoggerStub('Variable:/:S:Value'); $logger->create();

print $ecell->getCurrentTime(), "\n"; $ecell->run(100);
print $ecell->getCurrentTime(), "\n";

my $data = Bio::ECell->ECDDataFile($logger ); $data->setDataName( $logger->getName() ); $data->save('S.ecd');

INSTALLATION

To install this module type the following:

perl Makefile.PL
make
make test
make install

DEPENDENCIES

This module requires these other modules and libraries:

Inline::Python

COPYRIGHT AND LICENCE

Copyright (C) 2007 by Kazuharu Arakawa (gaou@sfc.keio.ac.jp)

This library is free software; you can redistribute it and/or modify it under the same terms as Perl itself, either Perl version 5.8.5 or, at your option, any later version of Perl 5 you may have available.