Assertion Error when using kicked maps in solvent update
Hi In 1.4.106 I get the following Assertion Error when I use kicked maps (refinement.ordered_solvent.use_kick_maps=True) in the solvent update section: Traceback (most recent call last): File "/raidnet/xdata1/programs/phenix-1.4-106/phenix/phenix/command_line/refi ne.py", line 19, in <module> command_line.run(command_name="phenix.refine", args=sys.argv[1:]) File "/raidnet/xdata1/programs/phenix-1.4-106/phenix/phenix/refinement/comman d_line.py", line 89, in run call_back_handler=call_back_handler) File "/raidnet/xdata1/programs/phenix-1.4-106/phenix/phenix/refinement/driver .py", line 1125, in run call_back_handler = call_back_handler) File "/raidnet/xdata1/programs/phenix-1.4-106/phenix/phenix/refinement/strate gies.py", line 358, in refinement_machine log = log) File "/raidnet/xdata1/programs/phenix-1.4-106/cctbx_project/mmtbx/solvent/ord ered_solvent.py", line 205, in __init__ use_kick_map = self.params.use_kick_maps).peaks_mapped() File "/raidnet/xdata1/programs/phenix-1.4-106/cctbx_project/mmtbx/solvent/ord ered_solvent.py", line 394, in find_peaks log = self.log) File "/raidnet/xdata1/programs/phenix-1.4-106/cctbx_project/mmtbx/find_peaks. py", line 98, in __init__ crystal_gridding_tags = fft_map.tags() File "/raidnet/xdata1/programs/phenix-1.4-106/cctbx_project/cctbx/maptbx/__in it__.py", line 152, in tags return crystal_gridding_tags(self) File "/raidnet/xdata1/programs/phenix-1.4-106/cctbx_project/cctbx/maptbx/__in it__.py", line 158, in __init__ assert gridding.symmetry_flags() is not None AssertionError Running from the same .def file w/o kicked maps works fine. Let me know if you need more info to debug this. Cheers, Carsten
Hi Cartsen, yes, I need more information to debug it... I know sending the data may be problematic for you, but if you could fake it (but make sure the program still crash) that would be great. For example, leave just a couple of atoms in your PDB file and distort somehow the reflection data file... Meanwhile I will try to reproduce it myself. Pavel. On 7/21/09 7:54 AM, Schubert, Carsten [PRDUS] wrote:
Hi
In 1.4.106 I get the following Assertion Error when I use kicked maps (refinement.ordered_solvent.use_kick_maps=True) in the solvent update section:
Traceback (most recent call last):
File "/raidnet/xdata1/programs/phenix-1.4-106/phenix/phenix/command_line/refine.py", line 19, in <module>
command_line.run(command_name="phenix.refine", args=sys.argv[1:])
File "/raidnet/xdata1/programs/phenix-1.4-106/phenix/phenix/refinement/command_line.py", line 89, in run
call_back_handler=call_back_handler)
File "/raidnet/xdata1/programs/phenix-1.4-106/phenix/phenix/refinement/driver.py", line 1125, in run
call_back_handler = call_back_handler)
File "/raidnet/xdata1/programs/phenix-1.4-106/phenix/phenix/refinement/strategies.py", line 358, in refinement_machine
log = log)
File "/raidnet/xdata1/programs/phenix-1.4-106/cctbx_project/mmtbx/solvent/ordered_solvent.py", line 205, in __init__
use_kick_map = self.params.use_kick_maps).peaks_mapped()
File "/raidnet/xdata1/programs/phenix-1.4-106/cctbx_project/mmtbx/solvent/ordered_solvent.py", line 394, in find_peaks
log = self.log)
File "/raidnet/xdata1/programs/phenix-1.4-106/cctbx_project/mmtbx/find_peaks.py", line 98, in __init__
crystal_gridding_tags = fft_map.tags()
File "/raidnet/xdata1/programs/phenix-1.4-106/cctbx_project/cctbx/maptbx/__init__.py", line 152, in tags
return crystal_gridding_tags(self)
File "/raidnet/xdata1/programs/phenix-1.4-106/cctbx_project/cctbx/maptbx/__init__.py", line 158, in __init__
assert gridding.symmetry_flags() is not None
AssertionError
Running from the same .def file w/o kicked maps works fine. Let me know if you need more info to debug this.
Cheers,
Carsten
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participants (2)
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Pavel Afonine -
Schubert, Carsten [PRDUS]