text: user2970: I am trying to install psipred in a unix server.
  Psipred is installed, but fails because it can not find the correct database files.  I have downloaded uniprod90.fasta. Psipred also loads the old legacy ncbi BLAST-2.2.26 and BLAST+.
  runpsipred and runpsipredplus have been patched to call the correct version of BLAST. 
  I have run a few commands to index the uniprod90 database: 
  pfilt uniref90.fasta > uniref90filt
  formatdb -t uniref90filt -i uniref90filt
  makeblastdb -in uniref90.fasta -dbtype prot -input_type fasta -out uniref90.fasta
  
  I then ran psipred and got this error:
  $ ./psipred/example/example.fasta
  Running PSI-BLAST with sequence  ./psipred/example/example.fasta ...
  [blastpgp] WARNING: Unable to open uniref90.pin
  [blastpgp] WARNING: Unable to open uniref90.pin
  FATAL: Error whilst running blastpgp - script terminated!
  
  makeblastdb created 26 pin files, but not uniref90.pin.
  
  user1642: Try with:
  makeblastdb -in uniref90.fasta -dbtype prot -input_type fasta -out uniref90
  
  The -out is the name of the DB. So if you use uniref90.fasta, it creates uniref90.fasta.pinwhile the script seems to be expectinguniref90.pin`.
  
original_text: 2970: <p>I am trying to install psipred in a unix server.</p>
  
  <p>Psipred is installed, but fails because it can not find the correct database files.  I have downloaded uniprod90.fasta. Psipred also loads the old legacy ncbi BLAST-2.2.26 and BLAST+.<br>
  <code>runpsipred</code> and <code>runpsipredplus</code> have been patched to call the correct version of BLAST. </p>
  
  <p>I have run a few commands to index the uniprod90 database: </p>
  
  <pre><code>pfilt uniref90.fasta &gt; uniref90filt
  formatdb -t uniref90filt -i uniref90filt
  makeblastdb -in uniref90.fasta -dbtype prot -input_type fasta -out uniref90.fasta
  </code></pre>
  
  <p>I then ran <code>psipred</code> and got this error:</p>
  
  <pre><code>$ ./psipred/example/example.fasta
  Running PSI-BLAST with sequence  ./psipred/example/example.fasta ...
  [blastpgp] WARNING: Unable to open uniref90.pin
  [blastpgp] WARNING: Unable to open uniref90.pin
  FATAL: Error whilst running blastpgp - script terminated!
  </code></pre>
  
  <p><code>makeblastdb</code> created 26 pin files, but not uniref90.pin.</p>
   1642: <p>Try with:</p>
  
  <pre><code>makeblastdb -in uniref90.fasta -dbtype prot -input_type fasta -out uniref90
  </code></pre>
  
  <p>The <code>-out</code> is the name of the DB. So if you use <code>uniref90.fasta</code>, it creates <code></code>uniref90.fasta.pin<code>while the script seems to be expecting</code>uniref90.pin`.</p>
  