The error message was actually returned alone without the --debug option as a RelaxError. Adding --debug to generate the Traceback log, though, brought up the RelaxNoPipeError. I'll submit the bug momentarily.
Thanks! Chris -----Original Message----- From: Edward d'Auvergne [mailto:[EMAIL PROTECTED] Sent: Wed 11/12/2008 11:48 AM To: Brosey, Chris A Cc: [email protected] Subject: Re: Model_selection problems Hi, This seems like another bug. Could you create a bug report for this? >From your description, I should be able to easily modify the system test added for you other bug report (https://gna.org/bugs/?12582) to catch this one. Oh, did you use the --debug command line argument to produce this error message? Cheers, Edward On Wed, Nov 12, 2008 at 6:36 PM, Brosey, Chris A <[EMAIL PROTECTED]> wrote: > Greetings, > > I have encountered a second problem in attempting to run the > full_analysis.py script under the latest version of relax (v1.3.2/repository > 1.3). For some reason, I am generating a RelaxNoPipeError during execution > of the model_selection function, specifically when model_selection.py > attempts to duplicate and switch to the new 'aic' data pipe after processing > the first residue (see output and traceback logs below). I have not altered > any code within the full_analysis.py beyond that specified in the user > variables and am running the script exclusively for models 'tm0' and 'tm1.' > I have also used input data (R1, R2, and NOE files) from > /test_suite/shared_data/model_free/S2.0.149, modified to include 'None' for > absent data values of GLY1. > > As always, I appreciate any help or suggestions you might have to offer. > Enjoy a great morning! > > Best regards, > > Chris > > Log File (edited) > > relax> pipe.create(pipe_name='tm0', pipe_type='mf') > > relax> sequence.read > Mol_name Res_num Res_name Spin_num Spin_name > None 1 GLY None None > None 2 ALA None N > > relax> grid_search(lower=None, upper=None, inc=11, constraints=True, > verbosity=1) > > Fitting to spin ':2&:[EMAIL PROTECTED]' > ~~~~~~~~~~~~~~~~~~~~~~~~~~~ > relax> results.write(file='results', dir='local_tm/tm0', force=True, > compress_type=1) > Opening the file 'local_tm/tm0/results.bz2' for writing. > > relax> pipe.create(pipe_name='tm1', pipe_type='mf') > > relax> sequence.read > Mol_name Res_num Res_name Spin_num Spin_name > None 1 GLY None None > None 2 ALA None N > > relax> grid_search(lower=None, upper=None, inc=11, constraints=True, > verbosity=1) > > Fitting to spin ':2&:[EMAIL PROTECTED]' > ~~~~~~~~~~~~~~~~~~~~~~~~~~~ > > relax> minimise(*args=('newton',), func_tol=1e-25, max_iterations=10000000, > constraints=True, scaling=True, verbosity=1) > > Fitting to spin ':2&:[EMAIL PROTECTED]' > ~~~~~~~~~~~~~~~~~~~~~~~~~~~ > > relax> results.write(file='results', dir='local_tm/tm1', force=True, > compress_type=1) > Opening the file 'local_tm/tm1/results.bz2' for writing. > > relax> eliminate(function=None, args=None) > > relax> model_selection(method='AIC', modsel_pipe='aic', pipes=['tm0', > 'tm1']) > AIC model selection. > > Model-free model of spin ':1&:[EMAIL PROTECTED]'. > Data pipe Num_params_(k) Num_data_sets_(n) > Chi2 Criterion > The model from the data pipe None has been selected. > > relax> state.save(state='relax_state_20081211_101217', dir_name=None, > force=False, compress_type=1) > Opening the file 'relax_state_20081211_101217.bz2' for writing. > > > Traceback Log > > Traceback (most recent call last): > File "sample_scripts/full_analysis2.py", line 665, in <module> > Main(self.relax) > File "sample_scripts/full_analysis2.py", line 221, in __init__ > self.model_selection(modsel_pipe='aic', dir=self.base_dir + 'aic') > File "sample_scripts/full_analysis2.py", line 600, in model_selection > model_selection(method='AIC', modsel_pipe=modsel_pipe, pipes=self.pipes) > File > "/home/broseyca/relax/relax-1.3.2/relax-1.3/prompt/model_selection.py", line > 132, in model_selection > model_selection.select(method=method, modsel_pipe=modsel_pipe, > pipes=pipes) > File > "/home/broseyca/relax/relax-1.3.2/relax-1.3/generic_fns/model_selection.py", > line 298, in select > switch(modsel_pipe) > File "/home/broseyca/relax/relax-1.3.2/relax-1.3/generic_fns/pipes.py", > line 230, in switch > test(pipe_name) > File "/home/broseyca/relax/relax-1.3.2/relax-1.3/generic_fns/pipes.py", > line 256, in test > raise RelaxNoPipeError, pipe_name > RelaxNoPipeError: RelaxError: The data pipe 'aic' has not been created yet. > > > > > > > > _______________________________________________ > 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 > >
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