config.txt

[cutoffs]
ATTENTION_CUTOFF = 0.1
DISTANCE_CUTOFF = 8.0
POSITION_CUTOFF = 6

[paths]
PDB_FOLDER = pdb_files
FILE_FOLDER = files
PLOT_FOLDER = plots

# If PROTEIN_CODES is present, MAX_LENGTH and SAMPLE_SIZE are ignored.
#
# Parameters for the search to fetch the PDB protein codes:
# - MIN_LENGTH is the minimum number of residues that a chain must have.
# - MAX_LENGTH is the maximum number of residues that a chain can have.
# - MIN_RESIDUES is the minimum number of valid residues (i.e., excluding the
# ligands) that the peptide chain must have. The search is based on MIN_LENGTH,
# but some of the fetched proteins may have many ligands. Hence, from each
# chain we discard the ligands and we skip all the chains with less residues
# than MIN_RESIDUES.
# - SAMPLE_SIZE is the number of proteins to include.
[proteins]
PROTEIN_CODES =
MIN_LENGTH = 15
MAX_LENGTH = 300
MIN_RESIDUES = 10
SAMPLE_SIZE = 1000