[phenixbb] polygon Error.

Pavel Afonine pafonine at lbl.gov
Tue Jun 7 15:46:00 PDT 2011


Hi Yuri,

I just fixed this problem. Please use next available nightly build 
(which will be available in a day or two):

http://www.phenix-online.org/download/nightly_builds.cgi

version dev-780 and up.

Once again, sorry for the problem.

Pavel.


On 5/28/11 1:35 PM, Yuri wrote:
> Hello everyone,
> Keep getting an error when I try to run polygon to validate my model.
> Here is what i get:
>
>
> RuntimeError : lbfgs error: Line search failed: The step is at the 
> lower bound stpmin().
> Traceback:
>   File 
> "/home/local/UFAD/yuri.pompeu/Desktop/PHENIX_installation/phenix-1.7.1-743/cctbx_project/libtbx/thread_utils.py", 
> line 223, in run
>     return_value = self._target(self._args, self._kwargs, self._c)
>
>   File 
> "/home/local/UFAD/yuri.pompeu/Desktop/PHENIX_installation/phenix-1.7.1-743/cctbx_project/libtbx/runtime_utils.py", 
> line 58, in __call__
>     result = self.target()
>
>   File 
> "/home/local/UFAD/yuri.pompeu/Desktop/PHENIX_installation/phenix-1.7.1-743/phenix/phenix/validation/analyze_all.py", 
> line 358, in __call__
>     result = validation_result(params, tmp_dir)
>
>   File 
> "/home/local/UFAD/yuri.pompeu/Desktop/PHENIX_installation/phenix-1.7.1-743/phenix/phenix/validation/analyze_all.py", 
> line 139, in __init__
>     return_fmodel_and_pdb=True)
>
>   File 
> "/home/local/UFAD/yuri.pompeu/Desktop/PHENIX_installation/phenix-1.7.1-743/cctbx_project/mmtbx/model_vs_data.py", 
> line 806, in run
>     mvd_obj.collect(model_vs_data = show_model_vs_data(fmodel))
>
>   File 
> "/home/local/UFAD/yuri.pompeu/Desktop/PHENIX_installation/phenix-1.7.1-743/cctbx_project/mmtbx/model_vs_data.py", 
> line 556, in show_model_vs_data
>     sigmaa_plot = fmodel.sigmaa().show_short(silent=True)
>
>   File 
> "/home/local/UFAD/yuri.pompeu/Desktop/PHENIX_installation/phenix-1.7.1-743/cctbx_project/mmtbx/f_model.py", 
> line 1464, in sigmaa
>     use_sampling_sum_weights      = p.use_sampling_sum_weights)
>
>   File 
> "/home/local/UFAD/yuri.pompeu/Desktop/PHENIX_installation/phenix-1.7.1-743/cctbx_project/mmtbx/scaling/sigmaa_estimation.py", 
> line 191, in __init__
>     w_obs=w_obs)
>
>   File 
> "/home/local/UFAD/yuri.pompeu/Desktop/PHENIX_installation/phenix-1.7.1-743/cctbx_project/scitbx/math/chebyshev_lsq_fit.py", 
> line 72, in __init__
>     self.minimizer = lbfgs.run(target_evaluator=self)
>
>   File 
> "/home/local/UFAD/yuri.pompeu/Desktop/PHENIX_installation/phenix-1.7.1-743/cctbx_project/scitbx/lbfgs/__init__.py", 
> line 258, in run
>     log)
>
>   File 
> "/home/local/UFAD/yuri.pompeu/Desktop/PHENIX_installation/phenix-1.7.1-743/cctbx_project/scitbx/lbfgs/__init__.py", 
> line 143, in run_c_plus_plus
>     if (minimizer.run(x, f, g)): continue
>
>
> Thank you
>



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