« Return to Thread: problem with Bioperl get_sequence ('swiss', "acc#");

problem with Bioperl get_sequence ('swiss', "acc#");

by Bohr :: Rate this Message:

Hi,

I installed bioperl under OSX Tiger via Fink. I tested the installation using the test tutorial via: perl -w bptutorial.pl 5

The script failed indicating that the file to retrieve was missing. To identify the problem, I used a script using 'get_sequence' that will retrieve a file from 'genbank' or 'embl'. Both succeeded. If I replace it with 'swiss' or 'swissprot' and substitute the ID with the identical ID as in the tutorial, I am recreating the problem found with bptutorial.pl. Other ID's do the same.

Any pointers on the origin of this finding would be greatly appreciated.

« Return to Thread: problem with Bioperl get_sequence ('swiss', "acc#");