[Biopython] running naccess

[Bala subramanian]

Friends,
I am trying to run naccess as follows.

from Bio.PDB.PDBParser import PDBParser
par = PDBParser()
structure = par.get_structure('test','12_25.pdb')
import Bio.PDB.NACCESS as nac
data=nac.run_naccess(structure[0],'12_25.pdb')

It seems that there is an issue with tmp dir creation. I could nt run
naccess even if i define *temp_path='.'* with run_naccess function. Kindly
write me how to resolve the issue.


*I get the following error:*

IOError                                   Traceback (most recent call last)

/tmp/tmpqQLhRl/<ipython console> in <module>()

/apps/py_modules/gcc/lib/python2.6/site-packages/Bio/PDB/NACCESS.pyc in
run_naccess(model, pdb_file, probe_size, z_slice, naccess, temp_path)
     56     # get the output, then delete the temp directory

     57     rsa_file = tmp_pdb_file[:-4] + '.rsa'
---> 58     rf = open(rsa_file)
     59     rsa_data = rf.readlines()
     60     rf.close()

IOError: [Errno 2] No such file or directory: '/tmp/tmpqQLhRl/tmpaOkRlK.rsa'