[Bioperl-l] BioPerl-network problem?

[Sirisha Gollapudi]

Hi everyone,

I'm trying to use Bio::Network (version 1.6.0) to parse the file 
"HPRD_SINGLE_PSIMI_070609.xml" which I've downloaded from the HPRD 
website (http://www.hprd.org/download). This is the code I'm using:

#!/usr/bin/perl -w
use lib "/opt/bioperl_1.6.0/lib/perl5/";
use Bio::Network::IO;

use Getopt::Std;
my %opts;
getopts('i:', \%opts);

my $input_file = $opts{i};

my $io = Bio::Network::IO->new(-file => $input_file,
                                  -format => 'psi25',
                                  -verbose => 1 );

my $network = $io->next_network;


Which gives the following:

No fullName for interactor Aldehyde dehydrogenase 1
Use of uninitialized value in string eq at 
/opt/bioperl_1.6.0/lib/perl5//Bio/Network/IO/psi25.pm line 376.
Use of uninitialized value in string eq at 
/opt/bioperl_1.6.0/lib/perl5//Bio/Network/IO/psi25.pm line 376.
Use of uninitialized value in string eq at 
/opt/bioperl_1.6.0/lib/perl5//Bio/Network/IO/psi25.pm line 376.
Use of uninitialized value in string eq at 
/opt/bioperl_1.6.0/lib/perl5//Bio/Network/IO/psi25.pm line 376.
Use of uninitialized value in string eq at 
/opt/bioperl_1.6.0/lib/perl5//Bio/Network/IO/psi25.pm line 376.
Use of uninitialized value in string eq at 
/opt/bioperl_1.6.0/lib/perl5//Bio/Network/IO/psi25.pm line 376.
Segmentation fault



I've tried with numerous other PSI-MI v2.5 files, and the only ones that 
"work" are those from MINT - all the others give the same "Use of 
uninitialized value" error as above. I've tried DIP, BioGRID and MPact. 
Any advice on the errors would be great!

Best wishes,

Sirisha

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