[Bioperl-l] rebase file withrefm

[Staffa, Nick (NIH/NIEHS) [C]]

I was thinking about where the default restriction information is kept.

I remember trying to use the withrefm file in the manner outlined below, and it didn't work.
I did not know about File::Temp.
I must find out about this.


On 6/3/10 1:45 PM, "Dave Messina" <David.Messina at sbc.su.se> wrote:

Hi Nick,


> Could someone please tell me where in a normal bioperl installation the
> rebase file withrefm  downlaoded from NEB goes.



Are you talking about when using the (apparently undocumented) invocation of Bio::Restriction::IO to have BioPerl grab the latest rebase file itself via FTP?

i.e.
my $io = Bio::Restriction::IO->new('-format' => 'withrefm',
                                   '-current' => 1);


If so, it's written to a temporary file via File::Temp, so the location is OS-dependent and determined at runtime.


If you're not talking about that, though, could you please clarify?


Dave