Yes. I haven't changed anything. I merely typed 'svn up' and reran my
script and it worked.
Alex
On 10/5/06, Edward d'Auvergne < edward.dauvergne@xxxxxxxxx> wrote:
> Is the data you attached exactly the same data that originally caused the
error?
>
>
>
> On 10/6/06, Edward d'Auvergne <edward@xxxxxxxxxxxxx> wrote:
> > 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 )
> > > > >
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> > > > >
> > > >
> > >
> > >
> > >
> > > --
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> > >
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> >
>
Re: [bug #7296] Potential full analysis read problem