Hi, Carl, if you have checked out the code from the repository (using 'svn co ...') you will still notice the bug. There was one other thing I had to change to completely fix the bug. If you do have a checked out copy to test, this can be updated to the latest version by typing 'svn up' in the base directory. If you could check and confirm that the bug is dead, it would be much appreciated.
Thanks, Edward On 5/8/07, Edward d'Auvergne <[EMAIL PROTECTED]> 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 > > > > > > _______________________________________________ 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
