Hi Hugh, I'm pretty sure this error has not been encountered before. It at least hasn't been reported. I've never seen anything close to this before, but I would guess that this is an infinitely recursive exception (the error is being caught but, in the process, the error occurs again, being caught a second time, then the 3rd error occurs, is caught a 3rd time, with this continuing until your computer runs out of RAM and swap space and relax is killed by the operating system). The error seems to occur within the error handing portion of Gary Thompson's multi-processor framework (you are using the uni-processor fabric of the framework here), so maybe Gary might know a solution?
Is this error reproducible? For testing, can you drop the number of Monte Carlo simulations down to say 5? Running relax with the debug flag might also help: $ relax --debug or: $ relax -d Are you using the GUI or scripting user interface? The output of: $ relax --info might also be useful. As for your data set being too large, relax has been used on much bigger systems before so this should not be an issue. One last thing, would you be able to create a bug report for this error (https://gna.org/bugs/?func=additem&group=relax)? All of the info/log files can then be pasted/attached there, and it is a useful future reference for anyone who encounters the same or a similar bug. Cheers, Edward On 2 March 2012 12:33, Hugh RW Dannatt <[email protected]> wrote: > Dear All, > > Having completed the fitting of 1 dataset without any problems, I am > now moving onto another. Everything has worked fine until I change the > DIFF_MODEL to "final" and try to run the program again to get error > estimates on my fitted parameters. > > The program successfully re-opens all the results file and selects the > diffusion model. Then all 500 simulations are done without issue, but > as soon as the program has finished this, it stops outputting anything > to the screen for a long time (>12 hrs). During this time, the CPU and > Memory use is very high and the computer runs slowly. Eventually I get > a "Memory Error" and a whole load of messages outputted to the screen, > which I have pasted below. I should emphasize that all the stages of > running this program with different diffusion models have run fine, > and the computer I'm using is a relatively fast machine (dual core > Pentium 4, 2 GB RAM). > > Has anyone had a similar problem? This dataset is larger than the > previous one which fit without issue (current one has 6 measurements > per 176 residues), but I can't imagine this being the cause of this > problem. > > Thanks > > Hugh > > ---- > > Simulation 485 > Simulation 486 > Simulation 487 > Simulation 488 > Simulation 489 > Simulation 490 > Simulation 491 > Simulation 492 > Simulation 493 > Simulation 494 > Simulation 495 > Simulation 496 > Simulation 497 > Simulation 498 > Simulation 499 > Simulation 500 > > > Traceback (most recent call last): > File "/progs/relax-1.3.13/multi/uni_processor.py", line 136, in run > self.callback.init_master(self) > File "/progs/relax-1.3.13/multi/processor.py", line 263, in > default_init_master > self.master.run() > File "/progs/relax-1.3.13/relax.py", line 171, in run > self.interpreter.run(self.script_file) > File "/progs/relax-1.3.13/prompt/interpreter.py", line 300, in run > return run_script(intro=self.__intro_string, local=locals(), > script_file=script_file, quit=self.__quit_flag, > show_script=self.__show_script, > raise_relax_error=self.__raise_relax_error) > File "/progs/relax-1.3.13/prompt/interpreter.py", line 610, in run_script > return console.interact(intro, local, script_file, quit, > show_script=show_script, raise_relax_error=raise_relax_error) > File "/progs/relax-1.3.13/prompt/interpreter.py", line 495, in > interact_script > exec_script(script_file, local) > File "/progs/relax-1.3.13/prompt/interpreter.py", line 383, in exec_script > runpy.run_module(module, globals) > File "/usr/lib/python2.6/runpy.py", line 140, in run_module > fname, loader, pkg_name) > File "/usr/lib/python2.6/runpy.py", line 34, in _run_code > exec code in run_globals > File "/home1/hugh/data/pgm298bq/relax/dauvergne_protocol.py", line > 216, in <module> > dAuvergne_protocol(pipe_name=name, diff_model=DIFF_MODEL, > mf_models=MF_MODELS, local_tm_models=LOCAL_TM_MODELS, > grid_inc=GRID_INC, min_algor=MIN_ALGOR, mc_sim_num=MC_NUM, > conv_loop=CONV_LOOP) > File "/progs/relax-1.3.13/auto_analyses/dauvergne_protocol.py", line > 223, in __init__ > Traceback (most recent call last): > File "/progs/Linux/bin/relax13", line 7, in <module> > relax.start() > File "/progs/relax-1.3.13/relax.py", line 100, in start > processor.run() > File "/progs/relax-1.3.13/multi/uni_processor.py", line 139, in run > self.callback.handle_exception(self, e) > File "/progs/relax-1.3.13/multi/processor.py", line 250, in > default_handle_exception > traceback.print_exc(file=sys.stderr) > File "/usr/lib/python2.6/traceback.py", line 227, in print_exc > print_exception(etype, value, tb, limit, file) > File "/usr/lib/python2.6/traceback.py", line 125, in print_exception > print_tb(tb, limit, file) > File "/usr/lib/python2.6/traceback.py", line 69, in print_tb > line = linecache.getline(filename, lineno, f.f_globals) > File "/usr/lib/python2.6/linecache.py", line 14, in getline > lines = getlines(filename, module_globals) > File "/usr/lib/python2.6/linecache.py", line 40, in getlines > return updatecache(filename, module_globals) > File "/usr/lib/python2.6/linecache.py", line 136, in updatecache > lines = fp.readlines() > MemoryError > 9078.655u 666.933s 10:55:29.66 24.7% 0+0k 241482000+0io 6665721pf+0w > > _______________________________________________ > relax (http://nmr-relax.com) > > This is the relax-users mailing list > [email protected] > > To unsubscribe from this list, get a password > reminder, or change your subscription options, > visit the list information page at > https://mail.gna.org/listinfo/relax-users _______________________________________________ relax (http://nmr-relax.com) This is the relax-users mailing list [email protected] To unsubscribe from this list, get a password reminder, or change your subscription options, visit the list information page at https://mail.gna.org/listinfo/relax-users
