[Bioperl-l] bioperl-network warnings when loading the DIP dataset

Brian Osborne osborne1 at optonline.net
Mon Oct 2 13:59:58 EDT 2006


Florin,

OK, this is fixed in CVS now. The problem is that there's some variability
in how the PSI MI "standard" is used. In this case there was a species that
was not given a value for its scientific name ("fullName"), I had to use
common name in its place. Fortunately there's an NCBI taxon id behind all
this.

Thanks again,

Brian O.


On 10/1/06 8:24 PM, "Florin Iucha" <florin at iucha.net> wrote:

> Also the largest file (full_2_psi1.xml) from release 2006-09-19 of the
> MINT [1] database does not produce the crash.  It has a new warning, however:
> 
>    Can't call method "text" on an undefined value at
>    /usr/local/share/perl/5.8.8/Bio/Network/IO/psi.pm line 290.




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