[phenixbb] refinement problem

Afshan Begum afshan490 at yahoo.com
Fri Jul 27 03:20:25 PDT 2012

Dear Experts

I am refining my structures in windows mode and every time i got this crash message i do not know how to solve this issue? If any one encountered this 
problem kindly suggest me how to solve it. While when i refine with refmac the file proceeds smoothly but i want to refinement in phenix due to utilize some parameters.

 its end like this:

Exporting results ==============================

Writing refined structure to PDB file:
  C:\Documents and Settings\pc user\Desktop\Refine_2\jbu_refine_2.pdb
n_use            =  7514
n_use_u_both     =  7514
n_use_u_iso      =  0
n_use_u_aniso    =  0
n_grad_site      =  0
n_grad_u_iso     =  0
n_grad_u_aniso   =  0
 =  331
n_grad_fp        =  0
n_grad_fdp       =  0
total number of scatterers =  7514

After that its not produce the map file and gave errore crash mesage.


Bus error (Python call stack above)
                 This crash may be due to a problem in any imported
                 Python module, including modules which are not part
                 of the cctbx project. To disable the traps leading
                 to this message, define these environment variables
                 (e.g. assign the value 1):
                 This will NOT solve the problem, just mask it, but
                 may allow you to proceed in case it is not critical.

Your suggestion highly obliged

I would be very thankful to you

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