URL:
<http://gna.org/bugs/?11483>
Summary: Parsing problem in ModelFree4 gets relax crash when
using "palmer.py"
Project: relax
Submitted by: semor
Submitted on: Saturday 04/12/2008 at 19:44
Category: relax's source code
Severity: 3 - Normal
Priority: 5 - Normal
Status: None
Privacy: Public
Assigned to: bugman
Originator Name:
Originator Email:
Open/Closed: Open
Discussion Lock: Any
Release: Repository: 1.2 line
Operating System: GNU/Linux
_______________________________________________________
Details:
Hi,
I am using the script "palmer.py" to extract dynamic information by AIC model
selection using ModelFree4 as an optimization tool.
I get an error message when trying to extract parameters for model "m5"
during stage 2.
=========================
relax> palmer.extract(run='m5', dir=None)
Traceback (most recent call last):
File "/home/semor/packages/relax-1.2/relax", line 454, in ?
Relax()
File "/home/semor/packages/relax-1.2/relax", line 166, in __init__
self.interpreter.run()
File "/home/semor/packages/relax-1.2/prompt/interpreter.py", line 216, in
run
run_script(intro=self.relax.intro_string, local=self.local,
script_file=self.relax.script_file, quit=1)
File "/home/semor/packages/relax-1.2/prompt/interpreter.py", line 391, in
run_script
console.interact(intro, local, script_file, quit)
File "/home/semor/packages/relax-1.2/prompt/interpreter.py", line 343, in
interact_script
execfile(script_file, local)
File "./palmer__stage_2.py", line 142, in ?
exec_stage_2(runs)
File "./palmer__stage_2.py", line 76, in exec_stage_2
palmer.extract(run=name)
File "/home/semor/packages/relax-1.2/prompt/palmer.py", line 263, in
extract
self.__relax__.generic.palmer.extract(run=run, dir=dir)
File "/home/semor/packages/relax-1.2/generic_fns/palmer.py", line 562, in
extract
data.ts = data.ts / 1e12
TypeError: unsupported operand type(s) for /: 'NoneType' and 'float'
=========================
I had a look at the "te" parameter and one line is badly formatted with an
absent separating field (no space between fields for value and error) :
=========================
246 10000.00019682363392.000 1 0.000 0.000
0.000 0.000
=========================
This line should be :
=========================
246 10000.000 19682363392.000 1 0.000 0.000
0.000 0.000
=========================
This issue is caused by the ModelFree4 parser...
However, it could be catched by relax and re-formatted so that relax doesn't
crash ?
Thanks !
_______________________________________________________
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<http://gna.org/bugs/?11483>
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