[Bioperl-l] rebase file withrefm
Staffa, Nick (NIH/NIEHS) [C]
staffa at niehs.nih.gov
Thu Jun 3 13:59:20 EDT 2010
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:
> 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?
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?
More information about the Bioperl-l