Hi Jeremy, I noticed the same errors and reported them to the NCBI, apparently the problem has been fixed in version 2.2.5 Wim Wim Glassee - BioInformatics Unit - Molecular Genetics Group - = Department of BioChemistry - University of Antwerp - BELGIUM - email: = wim.glassee@ua.ac.be > -----Original Message----- > From: bioclusters-admin@bioinformatics.org [mailto:bioclusters- > admin@bioinformatics.org] On Behalf Of Jeremy Mann > Sent: donderdag 5 december 2002 17:02 > To: Bioclusters > Subject: [Bioclusters] weird errors from formatdb >=20 > After ryncing the BLAST databases from bio-mirror.net, I am now in the > process of formatting. I am encountering stdout errors when formatting > the nr database. Here is snip: >=20 > <snip> >=20 > formatdb] ERROR: nr.phrOutput > Blast-def-line-set.E.<title> > Invalid value(s) [1] in VisibleString > [AIG1#gi|12324508|gb|AAG52213.1|AC022288_12 AIG1; 4264-2635 = [Arabidopsis > thaliana] ...] > [formatdb] ERROR: nr.phrOutput > Blast-def-line-set.E.<title> > Invalid value(s) [1] in VisibleString [CsmE#gi|21648095|gb|AAM73279.1| > chlorosome envelope protein E [Chlorobium tepidum TLS] ...] > [formatdb] ERROR: nr.phrOutput > Blast-def-line-set.E.<title> > Invalid value(s) [1] in VisibleString [DppC#gi|1574113|gb|AAC22839.1| > dipeptide ABC transporter, permease protein (dppC) [Haemophilus > influenzae Rd] ...] > [formatdb] ERROR: nr.phrOutput > Blast-def-line-set.E.<title> > Invalid value(s) [1] in VisibleString [K3R#gi|347484|gb|AAC37869.1| = ORF > C2L ...] > [formatdb] ERROR: nr.phrOutput > Blast-def-line-set.E.<title> >=20 > </snip> >=20 >=20 > I am using: >=20 > uncompress -c nr.Z | formatdb -i stdin -o T -n nr >=20 > Should I worry about these errors? >=20 > Thanks. >=20 >=20 > -- > Jeremy Mann > jeremy@biochem.uthscsa.edu >=20 > University of Texas Health Science Center > Bioinformatics Core Facility > Phone: (210) 567-2672