Hi Lina, >> I can also offer you my own dssp script which works with multiple objects, >> see >> attachment. It provides the PyMOL commands "dssp" and "stride". Check "help >> dssp". > > Thanks, I tried, > > PyMOL>dssp all, /home/lina/dssp, raw=text_type > Traceback (most recent call last): > File "/usr/local/lib/python2.6/dist-packages/pymol/parser.py", line 254, in > parse > self.result=apply(layer.kw[0],layer.args,layer.kw_args) > File "dssp.py", line 70, in dssp > process = Popen([exe, '-na', tmpfilepdb], stdout=PIPE) > File "/usr/lib/python2.6/subprocess.py", line 623, in __init__ > errread, errwrite) > File "/usr/lib/python2.6/subprocess.py", line 1141, in _execute_child > raise child_exception > OSError: [Errno 2] No such file or directory
does /home/lina/dssp point to your dssp executable? Cheers, Thomas PS: I just realized that there is a new dssp-2 and it does not understand the -na option, thus will fail with my script without modifying it. -- Thomas Holder MPI for Developmental Biology Spemannstr. 35 D-72076 Tübingen ------------------------------------------------------------------------------ BlackBerry® DevCon Americas, Oct. 18-20, San Francisco, CA http://p.sf.net/sfu/rim-devcon-copy2 _______________________________________________ PyMOL-users mailing list ([email protected]) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/[email protected]
