[phenixbb] Iterative build composite omit hanging

Thomas C. Terwilliger terwilliger at lanl.gov
Mon May 30 07:03:09 PDT 2011

Hi Jose,

I'm sorry for the trouble!  It is hard to know what could be causing
autobuild to hang with this one omit region.

Can you possibly send me off-list (terwilliger at lanl.gov) the log file for
this one omit region?  In the job where you ran just the one omit region
(with something like "omit_box_start=3 omit_box_end=3") the
AutoBuild_run_1_/AutoBuild_run_1_1.log file will be helpful. Also a
listing of the directory TEMP0:

ls -tlr AutoBuild_run_1_/TEMP0

will be helpful.  Finally if you can send the last log files shown in that
listing of TEMP0 those could be helpful as well.
All the best,
Tom T

>> Hello,
>> I tried to run an iterative build composite omit for my protein - P1, 1350
>> residues/monomer, 4 molecules in the A.U.. After about 1.5 weeks running
>> almost all was done except one omit region which was stuck. I had two
>> processes running indefinitely (reduce and python) with no output. I tried
>> to rerun that region alone but it gets stuck also with reduce producing no
>> output. What should I do to get the complete map (I am going to merge all
>> the other regions together, but would like to know why this particular one
>> is problematic).
>> 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
>> _______________________________________________
>> phenixbb mailing list
>> phenixbb at phenix-online.org
>> http://phenix-online.org/mailman/listinfo/phenixbb

More information about the phenixbb mailing list