Nagesh Chakka wrote: > Running the script is giving the following message. > > [nagesh@vogon ~/modelling]$ mod8v2 model_dpl_latest.top > Traceback (most recent call last): > File "<string>", line 1, in ? > File "/usr/lib/modeller8v2/modlib/modeller/runtop.py", line 79, in run > self.runlines(self.lines) > File "/usr/lib/modeller8v2/modlib/modeller/runtop.py", line 129, in > runlines > self.set_top_vars(vars) > File "/usr/lib/modeller8v2/modlib/modeller/runtop.py", line 256, in > set_top_vars > raise IndexError, "Variable name not recognized: %s" % varname.upper > () > IndexError: Variable name not recognized: MODELLER.AUTOMODEL
If your script name ends in ".top", Modeller assumes that it is an old TOP script, not a Python script. See http://salilab.org/modeller/8v2/manual/node234.html
Simply rename your script to remove the .top ending (I suggest .py).
Ben Webb, Modeller Caretaker