Hi Raja, the code where this error happens is very complex and there is no way I debug it without reproducing this crash myself. For this I need the model, data and exact command you used that leads to this failure. Could you please send it to me (to my email address, not to the whole phenixbb)? As always, all the files will be kept confidentially. Pavel. On 5/27/09 10:38 AM, Raja Dey wrote:
Dear Friends, I was running phenix refinement with the following command:
phenix.refine YCd4p4_output.mtz p53_2.1.pdb simulated_annealing=true main.ncs=true refinement.ncs.excessive_distance_limit=6 ncs_groups.params ncs.find_automatically=False ordered_solvent=true strategy=rigid_body+individual_sites+group_adp+tls rigid_body_selections.params output.write_maps=true output.prefix=may27_1 --overwrite
It ran for a while and then got the following error... Does anyone have idea what's going wrong?
Traceback (most recent call last): File "/usr/local/phenix-1.4-3/phenix/phenix/command_line/refine.py", line 9, in <module> command_line.run(command_name="phenix.refine", args=sys.argv[1:]) File "/usr/local/phenix-1.4-3/phenix/phenix/refinement/command_line.py", line 89, in run call_back_after_monitor_collect=call_back_after_monitor_collect) File "/usr/local/phenix-1.4-3/phenix/phenix/refinement/driver.py", line 1098, in run call_back_after_monitor_collect = call_back_after_monitor_collect) File "/usr/local/phenix-1.4-3/phenix/phenix/refinement/strategies.py", line 153, in refinement_machine model.show_groups(rigid_body = True, out = log) File "/usr/local/phenix-1.4-3/mmtbx/model.py", line 709, in show_groups start = i_selection[0] IndexError: Index out of range.
Thanks... Raja
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