[Homer-users] Short Separation in Developer's Version

[Rachel Mulheren]

Based on this error code, it would appear that I need to use the 1.5 cm;
however, the SS channels do not flatten and I get the message: There are no
short separation channels in this probe...performing regular deconvolution.
Design matrix is VERY poorly scaled...(RCond=0.000000e+00), cannot perform
computation
There are no short separation channels in this probe...performing regular
deconvolution.
Design matrix is VERY poorly scaled...(RCond=0.000000e+00), cannot perform
computation

I am attaching a picture of my probe array after running the processing
stream with SS. SS channels were 1 cm, all other channels were 3 cm.



On Wed, Apr 29, 2015 at 3:13 PM, Rachel Mulheren <mulherrw at dukes.jmu.edu>
wrote:

> When the processing gets "stuck" on the SS, this is the following error
> code I receive:
>
> Reference to non-existent field 'svs'.
>
> Error in EasyNIRS_ProcessOpt>pushbutton_Callback (line 268)
> eval( sprintf( '%s_result( %s );', procInput.procFunc.funcName{eventdata},
> sargin(2:end) ) );
>
> Error in gui_mainfcn (line 96)
>         feval(varargin{:});
>
> Error in EasyNIRS_ProcessOpt (line 42)
>     gui_mainfcn(gui_State, varargin{:});
>
> Error in
>
> EasyNIRS_ProcessOpt>EasyNIRS_ProcessOpt_OpeningFcn/@(hObject,eventdata)EasyNIRS_ProcessOpt('pushbutton_Callback',hObject,3,guidata(hObject))
>
>
> Error while evaluating uicontrol Callback
>
> Reference to non-existent field 'svs'.
>
> Error in EasyNIRS_ProcessOpt>pushbutton_Callback (line 268)
> eval( sprintf( '%s_result( %s );', procInput.procFunc.funcName{eventdata},
> sargin(2:end) ) );
>
> Error in gui_mainfcn (line 96)
>         feval(varargin{:});
>
> Error in EasyNIRS_ProcessOpt (line 42)
>     gui_mainfcn(gui_State, varargin{:});
>
> Error in
>
> EasyNIRS_ProcessOpt>EasyNIRS_ProcessOpt_OpeningFcn/@(hObject,eventdata)EasyNIRS_ProcessOpt('pushbutton_Callback',hObject,3,guidata(hObject))
>
>
> Error while evaluating uicontrol Callback
>
> Index exceeds matrix dimensions.
>
> Error in hmrDeconvTB_SS3rd (line 141)
>         Ass = y(:,conc,mlSSlst(iSS));
>
> Error in EasyNIRS_Process (line 88)
>         eval( fcall );
>
> Error in EasyNIRS>runNIRSsignalProcess (line 1022)
> [procResult procInput err] = EasyNIRS_Process(hmr);
>
> Error in EasyNIRS>popupmenuNIRSsignalProcess_Callback (line 1435)
>         runNIRSsignalProcess(iGrp,iSubj,iRun,handles);
>
> Error in gui_mainfcn (line 96)
>         feval(varargin{:});
>
> Error in EasyNIRS (line 43)
>     gui_mainfcn(gui_State, varargin{:});
>
> Error in
>
> @(hObject,eventdata)EasyNIRS('popupmenuNIRSsignalProcess_Callback',hObject,eventdata,guidata(hObject))
>
>
> Error while evaluating uicontrol Callback
>
> >>
>
> On Wed, Apr 29, 2015 at 12:09 PM, David Boas <dboas at nmr.mgh.harvard.edu>
> wrote:
>
>>  Most likely the units are mm and you need to use 15 for the
>> rhoSD_SSThresh
>>
>>  The fact that the processing gets “stuck” when you use 15 probably
>> indicates that it is busy calculating the short separation regression. Let
>> me verify, you say it gets “stuck”, but it doesn’t crash?
>>
>>  What type of computer are you using? How big is your data set?
>>
>>
>>
>>  On Apr 29, 2015, at 11:49 AM, Rachel Mulheren <mulherrw at dukes.jmu.edu>
>> wrote:
>>
>>    Hello,
>>
>>  I included 2 short separation channels (1 cm) in my probe and now that I
>> am running the processing stream including the parameters for short
>> separation, I get the following message: There are no short separation
>> channels in this probe...performing regular deconvolution.
>> Design matrix is VERY poorly scaled...(RCond=0.000000e+00), cannot
>> perform computation
>>
>>  Eyeballing the HRF after running this processing stream, I am not seeing
>> a difference with and without the short separation, so I am guessing that
>> it was not extracted from the signal.
>>
>>  Suggestions for what I might be doing incorrectly?
>>
>>  I am using Block Avg Short Sep
>>  trange -5 to 17
>>  gstd 1
>>  gms 1
>>  rhoSD_SSThresh 1.5
>>
>>  I have also tried with rhoSD_SSThresh 15 (in case there was a mix-up
>> with mm and cm), but the processing starts and gets "stuck" on the short
>> separation.
>>
>>  Thanks,
>>
>>  Rachel
>> _______________________________________________
>> Homer-users mailing list
>> Homer-users at nmr.mgh.harvard.edu
>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/homer-users
>>
>>
>>
>
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