[bug #22860] Failure of the structure.com user function after calling structure.delete. -- October 23, 2014 - 11:41

URL:
  <http://gna.org/bugs/?22860>

                 Summary: Failure of the structure.com user function after
calling structure.delete.
                 Project: relax
            Submitted by: bugman
            Submitted on: Thu 23 Oct 2014 09:41:41 AM UTC
                Category: relax's source code
Specific analysis category: All analyses
                Priority: 3 - Low
                Severity: 2 - Minor
                  Status: None
             Assigned to: bugman
         Originator Name: 
        Originator Email: 
             Open/Closed: Open
                 Release: 3.3.1
         Discussion Lock: Any
        Operating System: All systems

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Details:

The following user functions are sufficient to trigger the bug:

pipe.create(pipe_name='CoM fail', pipe_type='mf')
structure.read_pdb(file='1J7P_1st_NH.pdb',
dir='test_suite/shared_data/frame_order/cam', set_mol_name='C-dom',
set_model_num=1)
structure.delete()
structure.com()

This results in the error:

relax> structure.com(model=None, atom_id=None)
Traceback (most recent call last):
  File "/data/relax/relax-trunk/multi/processor.py", line 494, in run
    self.callback.init_master(self)
  File "/data/relax/relax-trunk/multi/__init__.py", line 318, in
default_init_master
    self.master.run()
  File "/data/relax/relax-trunk/relax.py", line 199, in run
    self.interpreter.run(self.script_file)
  File "/data/relax/relax-trunk/prompt/interpreter.py", line 279, in run
    return run_script(intro=self.__intro_string, local=locals(),
script_file=script_file, show_script=self.__show_script,
raise_relax_error=self.__raise_relax_error)
  File "/data/relax/relax-trunk/prompt/interpreter.py", line 585, in
run_script
    return console.interact(intro, local, script_file,
show_script=show_script, raise_relax_error=raise_relax_error)
  File "/data/relax/relax-trunk/prompt/interpreter.py", line 484, in
interact_script
    exec_script(script_file, local)
  File "/data/relax/relax-trunk/prompt/interpreter.py", line 363, in
exec_script
    runpy.run_module(module, globals)
  File "/usr/lib64/python2.7/runpy.py", line 180, in run_module
    fname, loader, pkg_name)
  File "/usr/lib64/python2.7/runpy.py", line 72, in _run_code
    exec code in run_globals
  File "/data/relax/relax-trunk/aaa.py", line 4, in <module>
    structure.com()
  File "/data/relax/relax-trunk/prompt/uf_objects.py", line 226, in __call__
    self._backend(*new_args, **uf_kargs)
  File "/data/relax/relax-trunk/pipe_control/structure/main.py", line 319, in
com
    cdp.com = pipe_centre_of_mass(model=model, atom_id=atom_id)
  File "/data/relax/relax-trunk/pipe_control/structure/mass.py", line 51, in
pipe_centre_of_mass
    selection = cdp.structure.selection(atom_id=atom_id)
  File "/data/relax/relax-trunk/lib/structure/internal/object.py", line 2377,
in selection
    model = self.structural_data[0]
IndexError: list index out of range





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