-in:file:template_pdb input/2gj3A.pdb input/2wkqA.pdb input/2z6dA.pdb
-in:file:pssm input/t523_.fasta.5.pssm input/2gj3A.fasta.5.pssm input/2wkqA.fasta.5.pssm input/2z6dA.fasta.5.pssm input/t523_.fasta.5.pssm
-in:file:alignment input/alignment.filt
-out:file:silent output/t523_.aln.dat
-cm:seq_score L1
-cm:min_gap_open -2.0
-cm:min_gap_extend  -0.5
-cm:aln_format grishin
