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

Albert Vilella avilella at gmail.com
Sat Aug 18 16:38:10 EDT 2007


I particularly like to code and debug at the same time. When you are using
the perl debugger, you can do an:

<DB> m $object

and it will show up all the information and methods for that object.

Cheers,

    Albert.

On 8/17/07, De-Jian,ZHAO <zhaodj at ioz.ac.cn> wrote:
>
> 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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