Bio::Tools::Run::AnalyUseraContributeBio::Tools::Run::AnalysisFactory::soap(3)NAMEBio::Tools::Run::AnalysisFactory::soap - A SOAP-based access to the
list of analysis tools
SYNOPSIS
Do not use this object directly, it is recommended to access it and use
it through the Bio::Tools::Run::AnalysisFactory module:
use Bio::Tools::Run::AnalysisFactory;
my $list = Bio::Tools::Run::AnalysisFactory->new(-access => 'soap')
->available_analyses;
print join ("\n", @$list) . "\n";
DESCRIPTION
All public methods are documented in the interface module
"Bio::Factory::AnalysisI".
FEEDBACK
Mailing Lists
User feedback is an integral part of the evolution of this and other
Bioperl modules. Send your comments and suggestions preferably to the
Bioperl mailing list. Your participation is much appreciated.
bioperl-l@bioperl.org - General discussion
http://bioperl.org/wiki/Mailing_lists - About the mailing lists
Support
Please direct usage questions or support issues to the mailing list:
bioperl-l@bioperl.org
rather than to the module maintainer directly. Many experienced and
reponsive experts will be able look at the problem and quickly address
it. Please include a thorough description of the problem with code and
data examples if at all possible.
Reporting Bugs
Report bugs to the Bioperl bug tracking system to help us keep track of
the bugs and their resolution. Bug reports can be submitted via the
web:
http://bugzilla.open-bio.org/
AUTHOR
Martin Senger (martin.senger@gmail.com)
COPYRIGHT
Copyright (c) 2003, Martin Senger and EMBL-EBI. All Rights Reserved.
This module is free software; you can redistribute it and/or modify it
under the same terms as Perl itself.
DISCLAIMER
This software is provided "as is" without warranty of any kind.
SEE ALSO
ยท http://www.ebi.ac.uk/soaplab/Perl_Client.html
BUGS AND LIMITATIONS
None known at the time of writing this.
APPENDIX
The main documentation details are in "Bio::Factory::AnalysisI".
_initialize
Usage : my $factory = Bio::Tools::Run::AnalysisFactory->new(@args);
(_initialize is internally called from the 'new()' method)
Returns : nothing interesting
Args : This module recognises and uses following arguments:
-location
-httpproxy
-soap
Additionally, the main module Bio::Tools::Run::AnalysisFactory
recognises also:
-access
It populates calling object with the given arguments, and then - for
some attributes and only if they are not yet populated - it assigns
some default values.
This is an actual new() method (except for the real object creation and
its blessing which is done in the parent class Bio::Root::Root in
method _create_object).
Note that this method is called always as an object method (never as a
class method) - and that the object who calls this method may already
be partly initiated (from Bio::Tools::Run::AnalysisFactory::new
method); so if you need to do some tricks with the 'class invocation'
you need to change Bio::Tools::Run::AnalysisFactory new method, not
this one.
-location
A URL (also called an endpoint) defining where is located a Web
Service functioning for this object.
Default is "http://www.ebi.ac.uk/soaplab/services" (a service
running at European Bioinformatics Institute on top of most of the
EMBOSS analyses, and on top of few others).
For example, if you run your own Web Service using Java(TM) Apache
Axis toolkit, the location might be something like
"http://localhost:8080/axis/services".
-httpproxy
In addition to the location parameter, you may need to specify also
a location/URL of an HTTP proxy server (if your site requires one).
The expected format is "http://server:port". There is no default
value.
-soap
Defines your own SOAP::Lite object. Useful if you need finer-
grained access to many features and attributes of the wonderful
Paul Kulchenko's module.
VERSION and Revision
Usage : print $Bio::Tools::Run::AnalysisFactory::soap::VERSION;
print $Bio::Tools::Run::AnalysisFactory::soap::Revision;
perl v5.14.1201Bio::Tools::Run::AnalysisFactory::soap(3)