[Bioperl-l] List summary: Dec 9-15, 2002

[Jason Stajich]

Yes yes - this is the way to do it.

I would also like to see us support description() as an alias of desc()
(and corresponding init tags) in the Bio::PrimarySeqI interface
as well.

-jason

On Tue, 17 Dec 2002, Xiao Juguang wrote:

> On Tue, 17 Dec 2002, Elia Stupka wrote:
>
> > > I said the parameter names have to be changed, not the method names
> > > ... Juguang, what was it that you finally changed?
> >
> > I was just chatting with Juguang... he was modifying the parameter
> > names... wouldn't the best thing be to *add* the new parameter names and
> > leave the old ones for backward compatibility? I doubt you were you
> > suggesting to replace them and go off and fix all the code in the whole
> > repository right?
> >
>
> Now, I make it backward compatiable to allow taking in either '-source' or
> '-source_tag', as well as for primary and primary_tag. And all tests
> pass. so that I do not need to touch others' code.
>
> So I can do my first cvs commit to bioperl-live now. :)
>
> Juguang.
>
>
>
> my ($start, $end, $strand, $primary_tag, $source_tag, $primary, $source,
> $frame,
>    $score, $tag, $gff_string, $gff1_string,
>    $seqname, $seqid, $annot, $location) =
>        $self->_rearrange([qw(START
>               END
>               STRAND
> -|>              PRIMARY_TAG
> -|>              SOURCE_TAG
> -|>              PRIMARY
> -|>              SOURCE
>               FRAME
>               SCORE
>               TAG
>               GFF_STRING
>               GFF1_STRING
>               SEQNAME
>               SEQ_ID
>               ANNOTATION
>               LOCATION
>               )], @args);
>
>
>     $primary_tag    && $self->primary_tag($primary_tag);
>     $source_tag     && $self->source_tag($source_tag);
>     $primary        && $self->primary_tag($primary);
>     $source         && $self->source_tag($source);
>
>
>
>
>
>
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--
Jason Stajich
Duke University
jason at cgt.mc.duke.edu