Bio::Tools::Run::AbstractRunner(3)

NAME
Bio::Tools::Run::AbstractRunner

SYNOPSIS

DESCRIPTION

  Objective
The problems of bioperl-run wrapper before the time this module is made are:

•   There are a lot of duplicate code among bioperl-run modules

•   It seems only to support object-in-object-out process, while sometimes people just need file-in-file-out one, which has been actually implemented but not exposed as a public method.

•   the different implementations, which should be similar and easy, confuse the new developers who wants to make wrappers for their own programs but did not know how. So it is better to review bioperl-run and make the simple things as they should be.

  Temp file issues
    $runner->add_tmp_file($tmp_file);
    $runner->remove_tmp_files;

  Unimplemented
Since it is an abstract module where there are methods to be implemented in the concrete modules

* final_param
* _find_files
* _create_input_files
* _parse_output_files

AUTHOR
Juguang Xiao, juguang at tll.org.sg

COPYRIGHT
This module is a free software. You may copy or redistribute it under the same terms as Perl itself.