It may have inadvertently been fixed in one of the many bug fixes that
have gone into the repository lately.
On 10/6/06, Alexandar Hansen <viochemist@xxxxxxxxx> wrote:
> So, I've tried rerunning it. I'm at revision 2600 now after the 7297 bug of
> the 1.2 repository line. I'm also not having any problems ... I swear, it
> gave me those errors before! This is very odd ...
>
> Alex
>
>
> On 10/5/06, Edward d'Auvergne <edward@xxxxxxxxxxxxx> wrote:
> > Hi,
> >
> > Unfortunately I have been unable to reproduce the bug. I've used the
> > data that you attached Alex and modified the runner script to use both
> > my current copy of the 1.2 repository line and relax version 1.2.7 (as
> > your traceback message suggests that that was the version you were
> > using). I also copied the full_analysis-oblate.py script to the local
> > tm script that 'runner' utilises and changed the self.diff_model
> > string to 'local_tm'.
> >
> > When I run the 1.2.7 version it fails because of bug #7241
> > (https://gna.org/bugs/?7241). When I run the 'runner' script using
> > the current 1.2 repository checkout, the script runs to completion
> > without problem. I also tried the 1.3 repository line and it worked
> > fine as well. Were you using the 1.2 repository line or version
> > 1.2.7? If you used the 1.2 line, is your copy up to date? You may
> > already know this, and I doubt that is the issue, but to update your
> > checked out copy type the following in the base directory:
> >
> > $ svn up
> >
> > Could someone else attempt to reproduce this bug using Alex's test
> > data (http://gna.org/bugs/download.php?file_id=1369 )?
> This one has me
> > stumped!
> >
> > Thanks,
> >
> > Edward
> >
> >
> > On 10/4/06, Alex Hansen
> <NO-REPLY.INVALID-ADDRESS@xxxxxxx> wrote:
> > >
> > > URL:
> > > <http://gna.org/bugs/?7296>
> > >
> > > Summary: Potential full analysis read problem
> > > Project: relax
> > > Submitted by: viochemist
> > > Submitted on: Tuesday 10/03/2006 at 18:20
> > > Category: None
> > > Priority: 5 - Normal
> > > Severity: 4 - Important
> > > Status: None
> > > Privacy: Public
> > > Assigned to: None
> > > Originator Name:
> > > Originator Email:
> > > Open/Closed: Open
> > > Release: Repository: 1.2 line
> > > Operating System: GNU/Linux
> > >
> > >
> _______________________________________________________
> > >
> > > Details:
> > >
> > > I've run into a problem when running multiple iterations of the oblate
> > > scheme. Granted, my RNA system is the exact oposite of oblate, but I
> don't
> > > know if that has anything to do with it. I set up a script to run relax
> for
> > > 15 iterations and this is what happens (suppressing all but error
> messages):
> > >
> > > **The first ImportError is a good indication of what iteration is being
> run.
> > >
> > >
> > > ImportError: relaxation curve fitting is unavailible, try compiling the
> C
> > > modules.
> > >
> > > ImportError: relaxation curve fitting is unavailible, try compiling the
> C
> > > modules.
> > >
> > > ImportError: relaxation curve fitting is unavailible, try compiling the
> C
> > > modules.
> > > Traceback (most recent call last):
> > > File "relax", line 458, in ?
> > > Relax()
> > > File "relax", line 170, in __init__
> > > self.interpreter.run()
> > > File
> "/local/home/viochem/relax_1.2.7/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
> "/local/home/viochem/relax_1.2.7/prompt/interpreter.py",
> line 388, in
> > > run_script
> > > console.interact(intro, local, script_file, quit)
> > > File
> "/local/home/viochem/relax_1.2.7/prompt/interpreter.py",
> line 340, in
> > > interact_script
> > > execfile(script_file, local)
> > > File "full_analysis- oblate.py", line 427, in ?
> > > Main()
> > > File "full_analysis-oblate.py", line 223, in __init__
> > > self.multi_model()
> > > File "full_analysis-oblate.py", line 419, in multi_model
> > > minimise('newton', run=name)
> > > File
> "/local/home/viochem/relax_1.2.7/prompt/minimisation.py",
> line 365, in
> > > minimise
> > > self.relax.generic.minimise.minimise(run=run,
> min_algor=min_algor,
> > > min_options=min_options, func_tol=func_tol, grad_tol=grad_tol,
> > > max_iterations=max_iterations, constraints=constraints, scaling=scaling,
> > > print_flag=print_flag)
> > > File
> "/local/home/viochem/relax_1.2.7/generic_fns/minimise.py",
> line 139,
> > > in minimise
> > > minimise(run=run, min_algor=min_algor, min_options=min_options,
> > > func_tol=func_tol, grad_tol=grad_tol, max_iterations=max_iterations,
> > > constraints=constraints, scaling=scaling, print_flag=print_flag)
> > > File
> "/local/home/viochem/relax_1.2.7/specific_fns/model_free.py",
> line
> > > 2367, in minimise
> > > results = generic_minimise(func=self.mf.func, dfunc=self.mf.dfunc,
> > > d2func=self.mf.d2func , args=(), x0=self.param_vector,
> min_algor=min_algor,
> > > min_options=min_options, func_tol=func_tol, grad_tol=grad_tol,
> > > maxiter=max_iterations, A=A, b=b, full_output=1, print_flag=print_flag)
> > > File
> "/local/home/viochem/relax_1.2.7/minimise/generic.py", line
> 397, in
> > > generic_minimise
> > > results = method_of_multipliers(func=func,
> dfunc=dfunc, d2func=d2func,
> > > args=args, x0=x0, min_options=min_options, A=A, b=b, l=l, u=u, c=c,
> dc=dc,
> > > d2c=d2c, func_tol=func_tol, grad_tol=grad_tol, maxiter=maxiter,
> > > full_output=full_output, print_flag=print_flag)
> > > File
> "/local/home/viochem/relax_1.2.7/minimise/method_of_multipliers.py",
> > > line 143, in method_of_multipliers
> > > results = min.minimise ()
> > > File
> "/local/home/viochem/relax_1.2.7/minimise/method_of_multipliers.py",
> > > line 397, in minimise
> > > results = self.generic_minimise(func=self.func_LA,
> dfunc=self.func_dLA,
> > > d2func= self.func_d2LA, args=self.args, x0=self.xk,
> min_algor=self.min_algor,
> > > min_options=self.min_options, func_tol=None, grad_tol=self.tk,
> > > maxiter=maxiter, full_output=1, print_flag=sub_print_flag,
> > > print_prefix="\t")
> > > File
> "/local/home/viochem/relax_1.2.7/minimise/generic.py", line
> 328, in
> > > generic_minimise
> > > results = newton(func=func, dfunc=dfunc, d2func=d2func, args=args,
> x0=x0,
> > > min_options=min_options, func_tol=func_tol, grad_tol=grad_tol,
> > > maxiter=maxiter, full_output=full_output, print_flag=print_flag,
> > > print_prefix=print_prefix)
> > > File
> "/local/home/viochem/relax_1.2.7/minimise/newton.py", line
> 45, in
> > > newton
> > > results = min.minimise()
> > > File
> "/local/home/viochem/relax_1.2.7/minimise/base_classes.py",
> line 234,
> > > in minimise
> > > self.new_param_func()
> > > File
> "/local/home/viochem/relax_1.2.7/minimise/newton.py", line
> 167, in
> > > new_param_func
> > > self.line_search()
> > > File
> "/local/home/viochem/relax_1.2.7/minimise/base_classes.py",
> line 343,
> > > in backline
> > > self.alpha, fc = backtrack(self.func, self.args , self.xk, self.fk,
> > > self.dfk, self.pk, a_init=self.a0)
> > > TypeError: unpack non-sequence
> > >
> > > ImportError: relaxation curve fitting is unavailible, try compiling the
> C
> > > modules.
> > > RelaxError: The file 'oblate/round_2/opt/results' does not exist.
> > >
> > > ImportError: relaxation curve fitting is unavailible, try compiling the
> C
> > > modules.
> > > RelaxError: The file 'oblate/round_2/opt/results' does not exist.
> > >
> > > ImportError: relaxation curve fitting is unavailible, try compiling the
> C
> > > modules.
> > > RelaxError: The file 'oblate/round_2/opt/results' does not exist.
> > >
> > > ImportError: relaxation curve fitting is unavailible, try compiling the
> C
> > > modules.
> > > RelaxError: The file 'oblate/round_2/opt/results' does not exist.
> > >
> > > ImportError: relaxation curve fitting is unavailible, try compiling the
> C
> > > modules.
> > > RelaxError: The file 'oblate/round_2/opt/results' does not exist.
> > >
> > > ImportError: relaxation curve fitting is unavailible, try compiling the
> C
> > > modules.
> > > RelaxError: The file 'oblate/round_2/opt/results' does not exist.
> > >
> > > ImportError: relaxation curve fitting is unavailible, try compiling the
> C
> > > modules.
> > > RelaxError: The file 'oblate/round_2/opt/results' does not exist.
> > >
> > > ImportError: relaxation curve fitting is unavailible, try compiling the
> C
> > > modules.
> > > RelaxError: The file 'oblate/round_2/opt/results' does not exist.
> > >
> > > ImportError: relaxation curve fitting is unavailible, try compiling the
> C
> > > modules.
> > > RelaxError: The file 'oblate/round_2/opt/results' does not exist.
> > >
> > > ImportError: relaxation curve fitting is unavailible, try compiling the
> C
> > > modules.
> > > RelaxError: The file 'oblate/round_2/opt/results' does not exist.
> > >
> > > ImportError: relaxation curve fitting is unavailible, try compiling the
> C
> > > modules.
> > > RelaxError: The file 'oblate/round_2/opt/results' does not exist.
> > >
> > > ImportError: relaxation curve fitting is unavailible, try compiling the
> C
> > > modules.
> > > RelaxError: The file 'oblate/round_2/opt/results' does not exist.
> > >
> > > ***************
> > >
> > >
> > > As can be seen, it runs the init and the first round, but upon reading
> the
> > > failing the second round all other rounds fail. It would appear it's
> reading
> > > something in wrong from the first round output. Am I wrong?
> > >
> > > Please let me know if any input info would be helpful.
> > >
> > > Alex Hansen
> > >
> > >
> > >
> > >
> > >
> > >
> > >
> > >
> > >
> > >
> > >
> > >
> > >
> > >
> _______________________________________________________
> > >
> > > Reply to this item at:
> > >
> > > <http://gna.org/bugs/?7296>
> > >
> > > _______________________________________________
> > > Message sent via/by Gna!
> > > http://gna.org/
> > >
> > >
> > > _______________________________________________
> > > relax (http://nmr-relax.com)
> > >
> > > This is the relax-devel mailing list
> > > relax-devel@xxxxxxx
> > >
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> > >
> >
>
>
>
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Re: [bug #7296] Potential full analysis read problem