# The databases in this directory are short versions of real life databases
# use the commands below to create them, if additional sequences or structures are needed

# simulated sequence database - in this case just some pdb sequences, usually uniprot90 or similar
$MODPIPEBASE/ext/blast/bin/formatdb -i testdb.fsa

# assumed naming for test cases 
 mv testdb.fsa.psq testdb.psq
 mv testdb.fsa.pin testdb.pin
 mv testdb.fsa.phr testdb.phr

# hdf5 file for structure db - input must be Modeller PIR format
$MODPIPEBASE/python/MakeHDF5.py -f PIR pdb_95.pir pdb_95.hdf5

# hdf5 file for sequence db - input must be fasta format to remove all structure info
$MODPIPEBASE/python/MakeHDF5.py -f FASTA testdb.fsa testdb.hdf5
