[Bioperl-l] Too many links at LoadHelper.pm

[Fungazid]

Bioperl hi,

I have multiple gff3 files that look like:

--------------------------------------------------------
##gff-version 3
# file: temp1.gff3
contig453278    hs    contig    1    699    .    +    .    Name=contig453278
contig453278    hs    alignment    1    194    .    +    .    Name=hs.ENST00000258455
contig453278    hs    alignment    252    699    .    +    .    Name=hs.ENST00000258455
contig453278    hs    mi2    194    252    .    +    .    Name=mi2
contig453278    hs    transcript    104    183    .    +    .    Name=hs.ENST00000258455;ID=transcript-hs.ENST00000258455;Note=CD,4
contig453278    hs    transcript    1    9    .    +    .    Name=hs.ENST00000258455;ID=transcript-hs.ENST00000258455;Note=CD,1
contig453278    hs    transcript    73    103    .    +    .    Name=hs.ENST00000258455;ID=transcript-hs.ENST00000258455;Note=CD,3
contig453278    hs    transcript    10    72    .    +    .    Name=hs.ENST00000258455;ID=transcript-hs.ENST00000258455;Note=CD,2
---------------------------------------------------------



I uploaded gff3 files to mysql and view the tracks in gBrowse like this:

--------------------------------------------
Bio::DB::SeqFeature::Store->new(...)
$loader=Bio::DB::SeqFeature::Store::GFF3Loader->new(...)
for($i=0; $i<$#files+1; $i++){
$loader->load($file[$i]);
}
--------------------------------------------

Eventually after uploading ~15000 small gff3 files I got the error:

Error in tempdir() using /tmp/XXXXXXXXXX: Could not create directory /tmp/9bbpdE5ibf: Too many links at /usr/local/share/perl/5.8.8/Bio/DB/SeqFeature/Store/LoadHelper.pm line 49



I am trying to see what went wrong, maybe you can rescue me,
Avi