def _dssp(self, structure):
structure_temp = NamedTemporaryFile(dir = self.dir)
structure_file = structure_temp.name
with open(structure_file,"w") as handle:
handle.write(structure.text)
dssp_temp = NamedTemporaryFile(dir = self.dir)
cmd = "dssp %s > %s" % (structure_file, dssp_temp.name)
import subprocess
print cmd
subprocess.check_call(cmd,shell=True)
from Bio.PDB.DSSP import make_dssp_dict
dict, keys = make_dssp_dict(dssp_temp.name)
# This can be dangerous...
#os.system("rm "+out_file)
return dict
def get_dssp(pdbid):
f = os.path.join(DSSP_DIR,"%s.dssp"%pdbid)
assert(os.path.exists(f))
dssp,keys = make_dssp_dict(f)
return DSSP(dssp)