On Tue, 2007-05-08 at 10:30, Carl Diehl wrote: > Hi Edward. > > This was maybe a too hasty bug submit, since this problem doesn't appear > in relax v1.3 which I installed after this version didn't work. But I'll > test the fixes anyway. > Cheers > Carl Diehl > Biophysical Chemistry, Lund University > > On Tue, 2007-05-08 at 00:00, Edward d'Auvergne wrote: > > Hi, > > > > I have now fixed the bug. Carl, would you be able to test the fixes? > > I unfortunately cannot replicate the bug as the relaxation data you > > use is not available (however if absolutely necessary I could extract > > it from the saved file). To check it you need the program Subversion > > installed and then either type: > > > > svn co svn://svn.gna.org/svn/relax/1.2 relax-1.2 > > > > or: > > > > svn co http://svn.gna.org/svn/relax/1.2 relax-1.2 > > > > The resultant code in the 'relax-1.2' directory can then be directly > > run using the script. I'll attempt a fix for your other bug report > > and then maybe release relax-1.2.11. > > > > Cheers, > > > > Edward > > > > > > On 5/7/07, Edward d'Auvergne <[EMAIL PROTECTED]> wrote: > > > Hi Carl, > > > > > > I'm sorry about the delayed response. I have just moved from > > > Australia to Germany to start a postdoc and have been too busy to > > > reply to any email until now. Thank you for the bug report. I've > > > tried replicating the bug you have identified using your attached > > > files but unfortunately I have recently upgraded my system and > > > realised that relax doesn't function using Python 2.5. The relax > > > error system is completely broken. I'll fix that then try to fix your > > > problem. > > > > > > Cheers, > > > > > > Edward > > > > > > > > > > > > On 4/25/07, anonymous <[EMAIL PROTECTED]> wrote: > > > > > > > > URL: > > > > <http://gna.org/bugs/?8996> > > > > > > > > Summary: Bugs in palmer.py > > > > Project: relax > > > > Submitted by: None > > > > Submitted on: Wednesday 04/25/2007 at 12:32 CEST > > > > Category: relax's source code > > > > Severity: 3 - Normal > > > > Priority: 5 - Normal > > > > Status: None > > > > Privacy: Public > > > > Assigned to: None > > > > Originator Name: Carl Diehl > > > > Originator Email: [EMAIL PROTECTED] > > > > Open/Closed: Open > > > > Discussion Lock: Any > > > > Release: 1.2.10 > > > > Operating System: GNU/Linux > > > > > > > > _______________________________________________________ > > > > > > > > Details: > > > > > > > > The following bug were encountered while running the palmer.py script > > > > with > > > > stage=2, stage=1 worked fine with the original data. > > > > > > > > > > > > relax> run.create(run='aic', run_type='mf') > > > > > > > > relax> model_selection(method='AIC', modsel_run='aic', runs=None) > > > > AIC model selection. > > > > > > > > Instance 0. > > > > > > > > Run Num_params_(k) Num_data_sets_(n) Chi2 > > > > Criterion > > > > > > > > The model from the run None has been selected. > > > > > > > > Instance 1. > > > > > > > > Run Num_params_(k) Num_data_sets_(n) Chi2 > > > > Criterion > > > > m1 1 6 4.17590 > > > > 6.17590 > > > > m2 2 6 3.77440 > > > > 7.77440 > > > > m3 2 6 4.17590 > > > > 8.17590 > > > > m4 3 6 3.77440 > > > > 9.77440 > > > > m5 3 6 6.09960 > > > > 12.09960 > > > > > > > > The model from the run 'm1' has been selected. > > > > > > > > relax> results.write(run='aic', file='results', dir='aic', force=1, > > > > format='columnar', compress_type=1) > > > > Opening the file 'aic/results.bz2' for writing. > > > > Traceback (most recent call last): > > > > File "/home/matsl/carl/apps/relax-1.2.10/relax", line 454, in ? > > > > Relax() > > > > File "/home/matsl/carl/apps/relax-1.2.10/relax", line 166, in __init__ > > > > self.interpreter.run() > > > > File "/home/matsl/carl/apps/relax-1.2.10/prompt/interpreter.py", line > > > > 213, > > > > in run > > > > run_script(intro=self.relax.intro_string, local=self.local, > > > > script_file=self.relax.script_file, quit=1) > > > > File "/home/matsl/carl/apps/relax-1.2.10/prompt/interpreter.py", line > > > > 388, > > > > in run_script > > > > console.interact(intro, local, script_file, quit) > > > > File "/home/matsl/carl/apps/relax-1.2.10/prompt/interpreter.py", line > > > > 340, > > > > in interact_script > > > > execfile(script_file, local) > > > > File "palmer.py", line 132, in ? > > > > exec_stage_2(runs) > > > > File "palmer.py", line 85, in exec_stage_2 > > > > results.write(run=name, file='results', force=1) > > > > File "/home/matsl/carl/apps/relax-1.2.10/prompt/results.py", line > > > > 201, in > > > > write > > > > self.__relax__.generic.results.write(run=run, file=file, > > > > directory=dir, > > > > force=force, format=format, compress_type=compress_type) > > > > File "/home/matsl/carl/apps/relax-1.2.10/generic_fns/results.py", > > > > line 166, > > > > in write > > > > self.write_function(results_file, run) > > > > File "/home/matsl/carl/apps/relax-1.2.10/specific_fns/model_free.py", > > > > line > > > > 4980, in write_columnar_results > > > > self.write_columnar_line(file=file, num=data.num, name=data.name, > > > > select=data.select, data_set='error', nucleus=nucleus, model=model, > > > > equation=equation, params=params, param_set=self.param_set, s2=s2, > > > > s2f=s2f, > > > > s2s=s2s, local_tm=local_tm, te=te, tf=tf, ts=ts, rex=rex, r=r, csa=csa, > > > > diff_type=diff_type, diff_params=diff_params, pdb=pdb, > > > > pdb_model=pdb_model, > > > > pdb_heteronuc=data.heteronuc, pdb_proton=data.proton, xh_vect=xh_vect, > > > > ri_labels=ri_labels, remap_table=remap_table, frq_labels=frq_labels, > > > > frq=frq, > > > > ri=ri, ri_error=ri_error) > > > > AttributeError: Element instance has no attribute 'heteronuc' > > > > > > > > > > > > > > > > > > > > _______________________________________________________ > > > > > > > > File Attachments: > > > > > > > > > > > > ------------------------------------------------------- > > > > Date: Wednesday 04/25/2007 at 12:32 CEST Name: palmer.py Size: 4kB > > > > By: > > > > None > > > > > > > > <http://gna.org/bugs/download.php?file_id=2268> > > > > ------------------------------------------------------- > > > > Date: Wednesday 04/25/2007 at 12:32 CEST Name: stage1.save.bz2 Size: > > > > 3kB > > > > By: None > > > > > > > > <http://gna.org/bugs/download.php?file_id=2269> > > > > > > > > _______________________________________________________ > > > > > > > > Reply to this item at: > > > > > > > > <http://gna.org/bugs/?8996> > > > > > > > > _______________________________________________ > > > > Message sent via/by Gna! > > > > http://gna.org/ > > > > > > > > > > > > _______________________________________________ > > > > relax (http://nmr-relax.com) > > > > > > > > This is the relax-devel 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-devel > > > > > > >
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