Compilation and Installation

Procedure

1. Use PuTTY to log in to the server as the root user.
2. Go to the source package directory.

   cd /path/to/psipred

3. Decompress the installation package and go to the directory generated after the decompression.

   tar xvf v4.0.tar.gz
   cd psipred-4.0/src

4. Perform the compilation.

   make -j
   make install

5. Go to the directory generated after the decompression.

   cd ../BLAST+

6. Create a database directory and go to it.

   mkdir database && cd database

7. Download and use the database.

   wget http://ftp.ncbi.nih.gov/blast/db/FASTA/swissprot.gz
   gunzip swissprot.gz
   makeblastdb -dbtype prot -in swissprot -out swissprot

8. Modify the run file.
   1. Open runpsipredplus.

      cd ..
      vim runpsipredplus

   2. Press i to enter the insert mode and modify lines 14 and 17.

      set dbname = /path/to/psipred-4.0/BLAST+/database/swissprot
      set ncbidir = /path/to/blast+/ncbi-blast-2.13.0+-src/c++/ReleaseMT/bin

   3. Press Esc, type :wq!, and press Enter to save the file and exit.