Re: [bug #11483] Parsing problem in ModelFree4 gets relax crash when using "palmer.py" -- April 14, 2008 - 00:26

Hi Ed,

I tested the change you made on the 1.3 line (r5663) by changing the code on my 1.2 line revision.

I now works !

However, I don't know if it can actually catch the "*" bug...

Cheers,


Séb



Edward d'Auvergne wrote:

Hi,

I've committed a fix to this problem.  Because I can't check if this
code functions myself, there are likely to be a few other bugs lying
in there.

Cheers,

Edward


On Sun, Apr 13, 2008 at 11:16 PM, Sébastien Morin
<NO-REPLY.INVALID-ADDRESS@xxxxxxx> wrote:
  

 Follow-up Comment #4, bug #11483 (project relax):

 Hi,

 I tested if the bug was still present.

 However, I can't tell if the bug is fixed, since there is a new problem
 caused by the fix...

 For any model (I tested with all 5 model : m1, m2, m3, m4, m5), I get the
 following :

 ============================================
 relax> palmer.extract(run='m1', dir=None)

Traceback (most recent call last):
  File "/home/semor/pse-4/collaborations/relax/relax-1.2/relax", line 454, in
 ?
    Relax()
  File "/home/semor/pse-4/collaborations/relax/relax-1.2/relax", line 166, in

__init__
    self.interpreter.run()
  File
 "/home/semor/pse-4/collaborations/relax/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/pse-4/collaborations/relax/relax-1.2/prompt/interpreter.py",

line 391, in run_script
    console.interact(intro, local, script_file, quit)
  File
 "/home/semor/pse-4/collaborations/relax/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/pse-4/collaborations/relax/relax-1.2/prompt/palmer.py",

line 263, in extract
    self.__relax__.generic.palmer.extract(run=run, dir=dir)
  File
 "/home/semor/pse-4/collaborations/relax/relax-1.2/generic_fns/palmer.py",
 line 543, in extract
    data.s2, data.s2_err = self.get_mf_data(self.mfout_S2_pos + pos)
  File
 "/home/semor/pse-4/collaborations/relax/relax-1.2/generic_fns/palmer.py",
 line 614, in get_mf_data
    if search('*', val) or search('*', err):
  File "/usr/lib/python2.4/sre.py", line 134, in search
    return _compile(pattern, flags).search(string)
  File "/usr/lib/python2.4/sre.py", line 227, in _compile
    raise error, v # invalid _expression_
 sre_constants.error: nothing to repeat
 ============================================

 This problem is new and apparently caused by the fix proposed.

 If I comment out lines 613 to 621 in "generic_fns/palmer.py", everything
 passes, so the fix for this bug is fine, and the fix for the "*" character
 bug makes relax crash.



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