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18 May
2012
18 May
'12
2:18 p.m.
On Fri, May 18, 2012 at 2:12 PM, Gino Cingolani
PHENIX keeps crashing while refining a large structure (>18,000 residues/asym unit). Can anybody make sense of the following error message (see below)? ... File "/usr/local/phenix-1.7.3-928/cctbx_project/libtbx/subprocess_with_fixes.py", line 1015, in _execute_child self.pid = os.fork()
It's a memory error - the stage at which it crashes is running phenix.clashscore (which has been used internally by phenix.refine since version 1.7.2). Unfortunately there's no way around this other than installing more memory and/or upgrading to a 64-bit OS. What is the output of boost_adaptbx.show_platform_info? -Nat