[phenixbb] Error in the end of phenix-refine with NCS
José Trincão
trincao at dq.fct.unl.pt
Thu Apr 22 03:47:51 PDT 2010
Hello,
I ran 2 jobs of phenix.refine with ncs (disabled automatic definition) and real-space refinement, weight optimization, 3 macrocycles. In the end of the third macrocycle I got these error messages for both:
===================== NCS restraints at end of refinement =====================
NCS restraint group 1:
NCS operator 1:
Reference selection: "chain A"
Other selection: "chain B"
Number of atom pairs: 9281
Traceback (most recent call last):
File "/usr/local/phenix-1.6.1-357/phenix/phenix/command_line/refine.py", line 11, in <module>
command_line.run(command_name="phenix.refine", args=sys.argv[1:])
File "/usr/local/phenix-1.6.1-357/phenix/phenix/refinement/command_line.py", line 89, in run
call_back_handler=call_back_handler)
File "/usr/local/phenix-1.6.1-357/phenix/phenix/refinement/driver.py", line 1187, in run
out = log)
File "/usr/local/phenix-1.6.1-357/cctbx_project/mmtbx/ncs/restraints.py", line 713, in show_operators
ncs_operators.show(sites_cart=sites_cart, out=out, prefix=prefix+" ")
File "/usr/local/phenix-1.6.1-357/cctbx_project/mmtbx/ncs/restraints.py", line 470, in show
prefix=prefix+" ")
File "/usr/local/phenix-1.6.1-357/cctbx_project/libtbx/utils.py", line 690, in write
file_object.write(str)
IOError: [Errno 5] Input/output error
What could be the problem?
Thanks.
Jose
José Trincão, PhD CQFB at FCT-UNL
2829-516 Caparica, Portugal
"It's very hard to make predictions... especially about the future" - Niels Bohr
More information about the phenixbb
mailing list