[Bioperl-l] <no subject>

Sean Davis sdavis2 at mail.nih.gov
Wed Sep 21 13:28:59 EDT 2005


#!/usr/bin/perl
use strict;

use Bio::ASN1::EntrezGene;
use YAML;
my $parser = Bio::ASN1::EntrezGene->new('file' => "gene2xml -I
Homo_sapiens.ags.gz -c -x -b | ");

while (my $res = $parser->next_seq) {
  print "#######################################################\n";
#  print Dump($res) . "\n";
}

Output is:
#######################################################
[NULL_Caption] FATAL ERROR: Input
Entrezgene-Set.E.track-info.update-date
Unable to match element in track-info.
[NULL_Caption] FATAL ERROR: NULL value passed to object loader for
Entrezgene
[NULL_Caption] FATAL ERROR: Input
Entrezgene-Set.E.track-info.update-date
element status out of order in SEQUENCE Gene-track
#######################################################
#######################################################

Is this a known issue, or a change in format from NCBI, or something else?

Thanks,
Sean



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