[Simnibs-discuss] First steps into Simnibs

[Quentin Mesnildrey]

Thanks I will try this right now.

Sorry for this beginner's mistake.

If I understood correctly, the variable num_elecs refers to the total 
number of stimulation modalities.

ie:
num_elecs  = 1 if tDCS only, (or TMS only)
num_elecs  = 2 if TMS + tDCS (even if I use multiple tDCS electrodes)

Is that right ?

Thank you very much.

Best

Quentin

Le 31/03/2022 à 10:07, Axel Thielscher a écrit :
>
> Dear Quentin,
>
> please change the line:
>
> num_elecs = 2;
>
> to
>
> num_elecs = 1;
>
> then it will work.
>
>
> by num_elecs = 2, you specify that the tDCS simulation is added as 
> simulation number 2 (i.e. s.poslist{2}) which SimNIBS should run:
>
> % Initialize a tDCS simulation
> s.poslist{num_elecs} = sim_struct('TDCSLIST');
> % Set currents
> s.poslist{num_elecs}.currents = [1e-3 -1e-3];
>
> ...
>
> However, as there is no simulation number 1 (s.poslist{1} remains 
> empty), SimNIBS complains. I guess you defined the TMS simulation as 
> simulation number 1, so that it then worked.
>
> Best,
>
> Axel
>
>
>
> On 3/30/2022 5:19 PM, Quentin Mesnildrey wrote:
>> Dear all,
>>
>> please find the very basic simulation I tried to run and the 
>> associated error message.
>>
>> Note that the same code works when I add a TMS section.
>>
>> Best
>>
>> Quentin
>>
>>
>>
>>
>>
>> Le 29/03/2022 à 09:44, Axel Thielscher a écrit :
>>> Dear Quentin,
>>>
>>> can you please send the matlab script where the error occured?
>>>
>>> Best,
>>>
>>> Axel
>>>
>>>
>>> On 3/25/2022 4:54 PM, Quentin Mesnildrey wrote:
>>>> Dear community,
>>>>
>>>> I am just beginning to run simulations using simnibs so I apologize 
>>>> in advance if my question has been answered in the past. If so, 
>>>> please redirect me to a previous discussion.
>>>>
>>>> I have managed to run tDCS simulation using the GUI. My next step 
>>>> is to run it using matlab scripts. I started using the tutorial 
>>>> script provided on the website. Everything seems to work well when 
>>>> I do not change anything but when I remove the TMS component (which 
>>>> I am not interested in), I end up with the following error message :
>>>>
>>>> **************
>>>> if PL['type'][0] == 'TMSLIST':
>>>> IndexError: only integers, slices (`:`), ellipsis (`...`), 
>>>> numpy.newaxis (`None`) and integer or boolean arrays are
>>>> valid indices
>>>> **************
>>>> Which seems to indicate that not having the TMS is problematic.
>>>>
>>>> I would deeply appriciate any advice on this (beginner) issue.
>>>>
>>>> Best regards,
>>>>
>>
>> -- 
>> Quentin Mesnildrey
>> Chef de projet R&D  - CorStim
>> quentin.mesnildrey at corstim.com
>> +33688875685
> -- 
> Dr. Axel Thielscher
> Professor of Neurophysics and Neuroimaging
> Danish Research Center for Magnetic Resonance
> Copenhagen University Hospital Hvidovre
> DK-2650 Hvidovre, Denmark
> www.drcmr.dk
> &
> Department of Health Technology
> Technical University of Denmark
> DK-2800 Kgs. Lyngby
> http://www.healthtech.dtu.dk/

-- 
Quentin Mesnildrey
Chef de projet R&D  - CorStim
quentin.mesnildrey at corstim.com
+33688875685
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