Re: Issue in ModelFree Calculation

2016-09-30 Thread Edward d'Auvergne 
On 26 August 2016 at 18:25,   wrote:
> Hi Edward,
> Thank you for your suggestions. Extremely sorry for my late reply. I already
> tried what Troel had told me. As I didn't install the SciPy package (not
> required for ModelFree analysis), I am unable to perform the full test
> suite. As per your suggestion, I went through the wxPython demo, and found a
> missing link of a library package which I have successfully rebuild. Now
> wxPython is setup correctly. But still I get the same error like previous:
>
> terminate called after throwing an instance of 'std::bad_alloc'
>   what():  std::bad_alloc
> Abort (core dumped)
>
> This time I didn't get errors with the libraries. I have also attached the
> output of "$relax -i". Kindly suggest something to resolve this problem.

Hi Aritra,

Did you work out how to correctly install wxPython in the end?  I have
never seen this std::bad_alloc when using different wxPython versions
for almost a decade, so I cannot really help you debug your private
wxPython software installation.

Regards,

Edward

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Re: Issue in ModelFree Calculation

2016-08-26 Thread aritrabej 
Hi Edward,Thank you for your suggestions. Extremely sorry for my late reply. I 
already tried what Troel had told me. As I didn't install the SciPy package 
(not required for ModelFree analysis), I am unable to perform the full test 
suite. As per your suggestion, I went through the wxPython demo, and found a 
missing link of a library package which I have successfully rebuild. Now 
wxPython is setup correctly. But still I get the same error like previous:
terminate called after throwing an instance of 'std::bad_alloc'  what():  
std::bad_allocAbort (core dumped)
This time I didn't get errors with the libraries. I have also attached the 
output of "$relax -i". Kindly suggest something to resolve this problem.
RegardsAritra

  From: Edward d'Auvergne <edw...@nmr-relax.com>
 To: Troels Emtekær Linnet <tlin...@nmr-relax.com> 
Cc: aritra...@csiriicb.in; "relax-users@gna.org" <relax-users@gna.org>
 Sent: Monday, August 8, 2016 8:25 PM
 Subject: Re: Issue in ModelFree Calculation
  
On 20 July 2016 at 16:02, Troels Emtekær Linnet <tlin...@nmr-relax.com> wrote:
> Hi.
>
> Did you compile relax yourself?
> Try compiled version of relax.
>
> Have you tried running the systemtests?
> http://wiki.nmr-relax.com/Installation_test
>
> It looks like you are running mpirun.
> Try running without.
>
> Or look here:
> http://wiki.nmr-relax.com/Run_relax_at_Google_Cloud_Computing
>
> http://wiki.nmr-relax.com/OpenMPI#Relax_In_multiprocessor_mode
>
> 2016-07-20 15:18 GMT+02:00 <aritra...@csiriicb.in>:
>
>> Dear all,I am a new user of Relax and I am trying to perform ModelFree
>> calculation with a 207 residue protein using both fully automated and
>> manual protocol of Relax GUI mode. But every time the calculation is
>> stopped with a "bad_alloc" error. The details of the is as follows:
>> terminate called after throwing an instance of 'std::bad_alloc'what():
>>  std::bad_alloc*** Process received signal ***Signal: Aborted (6)Signal
>> code:
>>  
>>(-6)[0x2e040c]/lib/libc.so.6(abort+0x17a)[0xb415ea]/usr/lib/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x167)[0x65c0397]/usr/lib/libstdc++.so.6(+0x57f226)[0x65be226]/usr/lib/libstdc++.so.6(+0x57f263)[0x65be263]/usr/lib/libstdc++.so.6(+0x57f3a2)[0x65be3a2]/usr/lib/libstdc++.so.6(_Znwj+0x87)[0x65be937]/usr/lib/libstdc++.so.6(_ZNSbIwSt11char_traitsIwESaIwEE4_Rep9_S_createEjjRKS1_+0x79)[0x65b35a9]/usr/lib/libstdc++.so.6(_ZNSbIwSt11char_traitsIwESaIwEE9_M_mutateEjjj+0x51)[0x65b5471]/usr/lib/libstdc++.so.6(_ZNSbIwSt11char_traitsIwESaIwEE15_M_replace_safeEjjPKwj+0x3b)[0x65b562b]/usr/lib/libstdc++.so.6(_ZNSbIwSt11char_traitsIwESaIwEE6assignEPKwj+0x5f)[0x65b56ef]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x3a535)[0x1fc8535]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x40714)[0x1fce714]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x7c1bd)[0x200a1bd]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x7c38f)[0x200a38f]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x83a3f)[0x2011a3f]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x98d24)[0x2026d24]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x3f03e)[0x1fcd03e]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(_ZNK16wxStyledTextCtrl7SendMsgEiml+0x2f)[0x1fae5ff]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(_ZN16wxStyledTextCtrl17SetSelectionStartEi+0x34)[0x1fb0f34]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x33dd4)[0x1fc1dd4]/usr/lib/python2.6/site-packages/wx-3.0-gtk2/wx/_core_.so(+0x10a489)[0x10b0489]/usr/lib/libpython2.6.so.1.0(PyCFunction_Call+0x148)[0x2d77218]/usr/lib/libpython2.6.so.1.0(PyEval_EvalFrameEx+0x499f)[0x2dd475f]/usr/lib/libpython2.6.so.1.0(PyEval_EvalCodeEx+0x85d)[0x2dd63fd]/usr/lib/libpython2.6.so.1.0(PyEval_EvalFrameEx+0x48de)[0x2dd469e]/usr/lib/libpython2.6.so.1.0(PyEval_EvalCodeEx+0x85d)[0x2dd63fd]/usr/lib/libpython2.6.so.1.0(PyEval_EvalFrameEx+0x48de)[0x2dd469e]/usr/lib/libpython2.6.so.1.0(PyEval_EvalCodeEx+0x85d)[0x2dd63fd]/usr/lib/libpython2.6.so.1.0[0x2d63397]***
>> End of error message
>> ***--mpirun
>> noticed that process rank 0 with PID 15605 on node madhava exited on signal
>> 6
>> (Aborted).--
>> So kindly suggest some details about the error and suggest specific hints
>> to resolve the problem.Thanks in advance.
>> Aritra BejDoctoral FellowCSIR - IICB

Hi Aritra,

Did you get a change to look at Troels' suggestions?  Do you see this
error when you run the test suite?  To me this looks like a faulty
installation of wxPython.  These errors and the files listed have
nothing to do with relax.  What is your output when you run:

$ relax -i

Can you run the wxPython demo or the wxPython tests to make sure this
is set up correctly?

Regards,

Edward

   
___

Re: Issue in ModelFree Calculation

2016-08-08 Thread Edward d'Auvergne 
On 20 July 2016 at 16:02, Troels Emtekær Linnet  wrote:
> Hi.
>
> Did you compile relax yourself?
> Try compiled version of relax.
>
> Have you tried running the systemtests?
> http://wiki.nmr-relax.com/Installation_test
>
> It looks like you are running mpirun.
> Try running without.
>
> Or look here:
> http://wiki.nmr-relax.com/Run_relax_at_Google_Cloud_Computing
>
> http://wiki.nmr-relax.com/OpenMPI#Relax_In_multiprocessor_mode
>
> 2016-07-20 15:18 GMT+02:00 :
>
>> Dear all,I am a new user of Relax and I am trying to perform ModelFree
>> calculation with a 207 residue protein using both fully automated and
>> manual protocol of Relax GUI mode. But every time the calculation is
>> stopped with a "bad_alloc" error. The details of the is as follows:
>> terminate called after throwing an instance of 'std::bad_alloc'what():
>>  std::bad_alloc*** Process received signal ***Signal: Aborted (6)Signal
>> code:
>>  
>> (-6)[0x2e040c]/lib/libc.so.6(abort+0x17a)[0xb415ea]/usr/lib/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x167)[0x65c0397]/usr/lib/libstdc++.so.6(+0x57f226)[0x65be226]/usr/lib/libstdc++.so.6(+0x57f263)[0x65be263]/usr/lib/libstdc++.so.6(+0x57f3a2)[0x65be3a2]/usr/lib/libstdc++.so.6(_Znwj+0x87)[0x65be937]/usr/lib/libstdc++.so.6(_ZNSbIwSt11char_traitsIwESaIwEE4_Rep9_S_createEjjRKS1_+0x79)[0x65b35a9]/usr/lib/libstdc++.so.6(_ZNSbIwSt11char_traitsIwESaIwEE9_M_mutateEjjj+0x51)[0x65b5471]/usr/lib/libstdc++.so.6(_ZNSbIwSt11char_traitsIwESaIwEE15_M_replace_safeEjjPKwj+0x3b)[0x65b562b]/usr/lib/libstdc++.so.6(_ZNSbIwSt11char_traitsIwESaIwEE6assignEPKwj+0x5f)[0x65b56ef]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x3a535)[0x1fc8535]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x40714)[0x1fce714]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x7c1bd)[0x200a1bd]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x7c38f)[0x200a38f]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x83a3f)[0x2011a3f]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x98d24)[0x2026d24]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x3f03e)[0x1fcd03e]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(_ZNK16wxStyledTextCtrl7SendMsgEiml+0x2f)[0x1fae5ff]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(_ZN16wxStyledTextCtrl17SetSelectionStartEi+0x34)[0x1fb0f34]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x33dd4)[0x1fc1dd4]/usr/lib/python2.6/site-packages/wx-3.0-gtk2/wx/_core_.so(+0x10a489)[0x10b0489]/usr/lib/libpython2.6.so.1.0(PyCFunction_Call+0x148)[0x2d77218]/usr/lib/libpython2.6.so.1.0(PyEval_EvalFrameEx+0x499f)[0x2dd475f]/usr/lib/libpython2.6.so.1.0(PyEval_EvalCodeEx+0x85d)[0x2dd63fd]/usr/lib/libpython2.6.so.1.0(PyEval_EvalFrameEx+0x48de)[0x2dd469e]/usr/lib/libpython2.6.so.1.0(PyEval_EvalCodeEx+0x85d)[0x2dd63fd]/usr/lib/libpython2.6.so.1.0(PyEval_EvalFrameEx+0x48de)[0x2dd469e]/usr/lib/libpython2.6.so.1.0(PyEval_EvalCodeEx+0x85d)[0x2dd63fd]/usr/lib/libpython2.6.so.1.0[0x2d63397]***
>> End of error message
>> ***--mpirun
>> noticed that process rank 0 with PID 15605 on node madhava exited on signal
>> 6
>> (Aborted).--
>> So kindly suggest some details about the error and suggest specific hints
>> to resolve the problem.Thanks in advance.
>> Aritra BejDoctoral FellowCSIR - IICB

Hi Aritra,

Did you get a change to look at Troels' suggestions?  Do you see this
error when you run the test suite?  To me this looks like a faulty
installation of wxPython.  These errors and the files listed have
nothing to do with relax.  What is your output when you run:

$ relax -i

Can you run the wxPython demo or the wxPython tests to make sure this
is set up correctly?

Regards,

Edward

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Re: Issue in ModelFree Calculation

2016-07-20 Thread Troels Emtekær Linnet 
Hi.

Did you compile relax yourself?
Try compiled version of relax.

Have you tried running the systemtests?
http://wiki.nmr-relax.com/Installation_test

It looks like you are running mpirun.
Try running without.

Or look here:
http://wiki.nmr-relax.com/Run_relax_at_Google_Cloud_Computing

http://wiki.nmr-relax.com/OpenMPI#Relax_In_multiprocessor_mode

2016-07-20 15:18 GMT+02:00 :

> Dear all,I am a new user of Relax and I am trying to perform ModelFree
> calculation with a 207 residue protein using both fully automated and
> manual protocol of Relax GUI mode. But every time the calculation is
> stopped with a "bad_alloc" error. The details of the is as follows:
> terminate called after throwing an instance of 'std::bad_alloc'what():
>  std::bad_alloc*** Process received signal ***Signal: Aborted (6)Signal
> code:
>  
> (-6)[0x2e040c]/lib/libc.so.6(abort+0x17a)[0xb415ea]/usr/lib/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x167)[0x65c0397]/usr/lib/libstdc++.so.6(+0x57f226)[0x65be226]/usr/lib/libstdc++.so.6(+0x57f263)[0x65be263]/usr/lib/libstdc++.so.6(+0x57f3a2)[0x65be3a2]/usr/lib/libstdc++.so.6(_Znwj+0x87)[0x65be937]/usr/lib/libstdc++.so.6(_ZNSbIwSt11char_traitsIwESaIwEE4_Rep9_S_createEjjRKS1_+0x79)[0x65b35a9]/usr/lib/libstdc++.so.6(_ZNSbIwSt11char_traitsIwESaIwEE9_M_mutateEjjj+0x51)[0x65b5471]/usr/lib/libstdc++.so.6(_ZNSbIwSt11char_traitsIwESaIwEE15_M_replace_safeEjjPKwj+0x3b)[0x65b562b]/usr/lib/libstdc++.so.6(_ZNSbIwSt11char_traitsIwESaIwEE6assignEPKwj+0x5f)[0x65b56ef]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x3a535)[0x1fc8535]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x40714)[0x1fce714]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x7c1bd)[0x200a1bd]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x7c38f)[0x200a38f]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x83a3f)[0x2011a3f]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x98d24)[0x2026d24]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x3f03e)[0x1fcd03e]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(_ZNK16wxStyledTextCtrl7SendMsgEiml+0x2f)[0x1fae5ff]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(_ZN16wxStyledTextCtrl17SetSelectionStartEi+0x34)[0x1fb0f34]/usr/local/lib/libwx_gtk2u_stc-3.0.so.0(+0x33dd4)[0x1fc1dd4]/usr/lib/python2.6/site-packages/wx-3.0-gtk2/wx/_core_.so(+0x10a489)[0x10b0489]/usr/lib/libpython2.6.so.1.0(PyCFunction_Call+0x148)[0x2d77218]/usr/lib/libpython2.6.so.1.0(PyEval_EvalFrameEx+0x499f)[0x2dd475f]/usr/lib/libpython2.6.so.1.0(PyEval_EvalCodeEx+0x85d)[0x2dd63fd]/usr/lib/libpython2.6.so.1.0(PyEval_EvalFrameEx+0x48de)[0x2dd469e]/usr/lib/libpython2.6.so.1.0(PyEval_EvalCodeEx+0x85d)[0x2dd63fd]/usr/lib/libpython2.6.so.1.0(PyEval_EvalFrameEx+0x48de)[0x2dd469e]/usr/lib/libpython2.6.so.1.0(PyEval_EvalCodeEx+0x85d)[0x2dd63fd]/usr/lib/libpython2.6.so.1.0[0x2d63397]***
> End of error message
> ***--mpirun
> noticed that process rank 0 with PID 15605 on node madhava exited on signal
> 6
> (Aborted).--
> So kindly suggest some details about the error and suggest specific hints
> to resolve the problem.Thanks in advance.
> Aritra BejDoctoral FellowCSIR - IICB
> ___
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>
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> reminder, or change your subscription options,
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