[Bioperl-l] Seqboot wrapper

[ahlberg.gustav at gmail.com]

I have been trying to run seqboot via bioperl using the wrapper here

http://doc.bioperl.org/bioperl-run/lib/Bio/Tools/Run/Phylo/Phylip/SeqBoot.html

i keep getting the error message:

MSG: Expecting a Bio::Align::AlignI object
STACK Bio::Tools::Run::Phylo::Phylip::SeqBoot::_setinput 
/opt/local/lib/perl5/site_perl/5.12.4/Bio/Tools/Run/Phylo/Phylip/Seqboot.pm:441
STACK Bio::Tools::Run::Phylo::Phylip::SeqBoot::run 
/opt/local/lib/perl5/site_perl/5.12.4/Bio/Tools/Run/Phylo/Phylip/Seqboot.pm:333
STACK toplevel RIOpipe.pl:136
But I cannot use Align::AlignI. It then tells me that:
Use of new in Bio::Root::RootI is deprecated.  Please use Bio::Root::Root 
instead

I wanted to use Bioperl for seqboot so that my sequence names does not get 
truncated.

Best
Gustav