[Bioperl-l] NCBI C++ Toolkit wrapper (was: not BioPerl)

Josh Cherry jcherry at ncbi.nlm.nih.gov
Thu Aug 7 13:06:28 EDT 2008

For those who may be wondering what this is about, a Perl interface to the 
NCBI C++ Toolkit is available at 
ftp://ftp.ncbi.nih.gov/toolbox/ncbi_tools++/CURRENT/.  The C++ Toolkit is 
the main code base that we develop and use at NCBI.  It includes many 
things that may be of interest to BioPerl users, such as sequence analysis 
algorithms, means for interacting with NCBI databases, and facilities for 
reading, writing, and manipulating NCBI data model objects (usually 
defined by ASN.1 specifications; writeable as ASN.1, XML, and JSON, and 
readable from ASN.1 and XML).

Russell, I think you can make things work from behind a firewall by 
setting some environment variables: set CONN_FIREWALL to 1, possibly set 
as appropriate.  Please email me if you can't get things to work.  I'll 
see that decent instructions for this are included in the next release.

Josh Cherry

On Aug 6, 2008, at 4:20 PM, Smithies, Russell wrote:

> Has anyone taken a look at the new Perl interface to the NCBI C++
> Toolkit?
> Unfortunately, I can't even get their examples working as I'm behind a
> firewall and documentation on setting proxy stuff is virtually
> non-existant  :-(
> Russell Smithies

More information about the Bioperl-l mailing list