[Bioperl-l] How to get the full methods of a bioperl object?

De-Jian,ZHAO zhaodj at ioz.ac.cn
Thu Aug 16 22:13:16 EDT 2007


Dear list members,

I have a question about the methods of bioperl objects.It is how and
where we can get the whole methods of a bioperl object.

Take Bio::Tools::Run::RemoteBlast for example. In the synopsis of
this object, some sample codes are given.The following five clauses
are excerpted from the synopsis.
(1)my $factory = Bio::Tools::Run::RemoteBlast->new(@params);
(2)while ( my @rids = $factory->each_rid ) {
(3)$factory->remove_rid($rid);
(4)my $rc = $factory->retrieve_blast($rid);
(5)my $r = $factory->submit_blast($input);

The five clauses use five methods of the RemoteBlast object,i.e.
(1)new, (2)each_rid, (3)remove_rid,(4)retrieve_blast,and
(5)submit_blast. However,I only find part of them(45) are listed in
the appendix while others(123) are absent. Are there some more
methods not explictly declared? I don't know.This will lead to the
partial understanding and utilization of the module.Therefore I come
here for the way to get the full methods of a bioperl object.

Thanks!
-- 
De-Jian Zhao
Institute of Zoology,Chinese Academy of Sciences
+86-10-64807217
zhaodj at ioz.ac.cn









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