Error running PSSPRED
Posted: Sat Aug 28, 2021 5:22 am
I need to use PSSPRED for my research work on proteins. I have downloaded and extracted the nr database from ncbi(https://ftp.ncbi.nlm.nih.gov/blast/db/) which I am using in PSSPRED.
But when I run the command "PSSpred.pl seq.txt" I get the following error.
running Psi-blast .....
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.00.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.01.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.02.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.03.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.04.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.05.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.06.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.07.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.08.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.09.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.10.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.11.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.12.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.13.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.14.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.15.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.16.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.17.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.18.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.19.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.20.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.21.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.22.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.23.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.24.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.25.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.26.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.27.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.28.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.29.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.30.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.31.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.32.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.33.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.34.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.35.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.36.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.37.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.38.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.39.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.40.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.41.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.42.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.43.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.44.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.45.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.46.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.47.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.48.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.49.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.50.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.51.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.52.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.53.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.54.
[makemat] FATAL ERROR: Unable to open file psitmp.chk
cp: cannot stat 'psitmp.mtx': No such file or directory
Running PSSpred1 ...
cannot open file pssm.txt
cannot open file mtx
Running PSSpred2 ...
cannot open file pssm.txt
cannot open file mtx
Running PSSpred3 ...
cannot open file pssm.txt
cannot open file mtx
Running PSSpred4 ...
cannot open file pssm.txt
cannot open file mtx
Running PSSpred5 ...
cannot open file pssm.txt
cannot open file mtx
Running PSSpred6 ...
cannot open file pssm.txt
cannot open file mtx
Running PSSpred7 ...
cannot open file pssm.txt
cannot open file mtx
But when I run the command "PSSpred.pl seq.txt" I get the following error.
running Psi-blast .....
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.00.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.01.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.02.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.03.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.04.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.05.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.06.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.07.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.08.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.09.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.10.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.11.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.12.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.13.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.14.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.15.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.16.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.17.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.18.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.19.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.20.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.21.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.22.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.23.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.24.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.25.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.26.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.27.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.28.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.29.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.30.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.31.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.32.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.33.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.34.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.35.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.36.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.37.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.38.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.39.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.40.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.41.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.42.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.43.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.44.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.45.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.46.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.47.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.48.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.49.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.50.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.51.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.52.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.53.
[blastpgp] WARNING: readdb: wrong version of formatdb was used to make database /home/sourav/BLAST_DB/nr.54.
[makemat] FATAL ERROR: Unable to open file psitmp.chk
cp: cannot stat 'psitmp.mtx': No such file or directory
Running PSSpred1 ...
cannot open file pssm.txt
cannot open file mtx
Running PSSpred2 ...
cannot open file pssm.txt
cannot open file mtx
Running PSSpred3 ...
cannot open file pssm.txt
cannot open file mtx
Running PSSpred4 ...
cannot open file pssm.txt
cannot open file mtx
Running PSSpred5 ...
cannot open file pssm.txt
cannot open file mtx
Running PSSpred6 ...
cannot open file pssm.txt
cannot open file mtx
Running PSSpred7 ...
cannot open file pssm.txt
cannot open file mtx