[Bioperl-l] Error with supplied lineages importing uniprot data
cjfields at uiuc.edu
Fri Dec 1 14:06:53 EST 2006
On Dec 1, 2006, at 11:12 AM, Sendu Bala wrote:
> pelikan at cs.pitt.edu wrote:
>> Hello all,
>> I'm running bioperl 1.5.2, bioperl-db 1.5.2 - RC005, under windows,
>> without Cygwin. The "make test"s have all completed without error.
>> is my first time dealing with bioperl, so bear with me.
>> I've successfully loaded the most recent taxonomy information
>> using the
>> biosql-schema scripts. After this, I attempted to load the most
>> release of the uniprot flat file dataset with the following command:
>> load_seqdatabase.pl -drive mysql -dbname bioseqdb -dbuser root -
>> ********* -format swiss -safe c:\data\uniprot\uniprot_sprot.dat
>> I am subsequently greeted by many of the following errors:
>> Could not store Q7N3Q6:
> I extracted just Q7N3Q6 from
> and was able to load it in using load_seqdatabase.pl under linux
> with no
> errors. If you make a file with just that sequence do you still get
> Is anyone else able to reproduce the problem?
Okay, just updated to get your latest CVS fixes for bioperl-live and
it passes now for both Mac OS X and WinXP.
Lab of Dr. Robert Switzer
Dept of Biochemistry
University of Illinois Urbana-Champaign
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