recostruction problem (PaCER)

[ariannafelice]

Dear all,
i’m using Lead-DBS, i usually work on CT scan and I’ve run into difficulties with the recostruction step. I tried to use the default method PaCER, but i got this error

Warning: PaCER failed with the following error:
In ea_autocoord (line 270)
In ea_run (line 96)
In lead_dbs>run_button_Callback (line 187)
In gui_mainfcn (line 95)
In lead_dbs (line 43)
In matlab.graphics.internal.figfile.FigFile/read>@(hObject,eventdata)lead_dbs(‘run_button_Callback’,hObject,eventdata,guidata(hObject))
Identifier:
Message: PaCER returned a different number of electrodes than expected by LeadDBS! In most cases this indicates an error in PaCER preprocessing (brain mask estimation) due to untypical CT data. Please provide a brain mask to PaCER in this case using the mask parameter.
In: C:\Users\BIOING\Desktop\STUDI\lead\ea_runpacer.m
Method: ea_runpacer
Line: 17
Please check your input data carefully.

So lead-dbs revert to “Trac/Core” algorithm and here i got an other error:
Error using ea_reconstruct_trajectory (line 282)
Mask out of bounds! Must have lost trajectory…
Please try a different ‘Mask window size’ or try manual mode by setting ‘Entrypoint for Target’ to
‘Manual’.
Error while evaluating UIControl Callback.

What’s wrong? I would like to use PaCER even because in your papar is written that it requires very little to no manual refinament.
Could somebody help me?
Thanks in advace.
Regards,
Arianna

[andreashorn]

Hi Arianna,

please see the – not really helpful – answer here:

pre-recostruction issue

Best, Andy

[ariannafelice]

Dear Andy,
can you please redirect the link? Because nothing appears to me.
Thanks, Arianna

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