[FieldTrip] Fieldtrip ICA crashes Matlab
Hwee Ling Lee
hweeling.lee at gmail.com
Mon Mar 31 17:25:10 CEST 2014
Hi,
Thanks for your reply. I'm running Matlab with 64 bit. I've got 32GB of RAM
installed. In the previous month, I was able to run ICA and plot its
components without any error message from Matlab. Recently, I keep
experiencing the error message, and Matlab crashes completely. I have no
clue what could have gone wrong.
Cheers,
Hweeling
On 31 March 2014 17:08, Stephen Politzer-Ahles <politzerahless at gmail.com>wrote:
> Hello Hweeling,
>
> What kind of error do you get in MATLAB when you try to do ICA, is it an
> "Out of memory" error? I'm asking because this is a fairly common issue in
> MATLAB on Windows systems (I don't know the details of your data, but I've
> experienced this issue on 32-channel, 1000-Hz epoched EEG data if the
> epochs are long enough and numerous enough). For me the only solutions
> (other than shortening the epochs or downsampling the data, which might not
> be good options depending on your research question) were to use a
> Unix-based operating system (like Mac OS) or to upgrade my Windows (I had
> errors like this when using a 32-bit version of Windows with 2 GB of RAM,
> but not so much after I upgraded to 64-bit and 8 GB of RAM). I'm not sure
> if this is the issue you're having, though.
>
> Best,
> Steve
>
>
>
> Stephen Politzer-Ahles
> New York University, Abu Dhabi
> Neuroscience of Language Lab
> http://www.nyu.edu/projects/politzer-ahles/
>
>
> On Mon, Mar 31, 2014 at 7:02 PM, <fieldtrip-request at science.ru.nl> wrote:
>
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>> 1. Fieldtrip ICA crashes Matlab (Hwee Ling Lee)
>> 2. Re: plotting interpolated sources with ft_sourceplot
>> (J?rn M. Horschig)
>> 3. Re: help about ' fieldtrip2fiff ' (Gio Piantoni)
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>> ----------------------------------------------------------------------
>>
>> Message: 1
>> Date: Mon, 31 Mar 2014 16:48:34 +0200
>> From: Hwee Ling Lee <hweeling.lee at gmail.com>
>> To: FieldTrip discussion list <fieldtrip at science.ru.nl>
>> Subject: [FieldTrip] Fieldtrip ICA crashes Matlab
>> Message-ID:
>> <CABG7z0SPtmOfGWxqRxiveg+cfUewJ8p8P-v9=
>> poVtb-1ApZuDQ at mail.gmail.com>
>> Content-Type: text/plain; charset="iso-8859-1"
>>
>> Dear all,
>>
>> I'm encountering a problem with running ICA in Matlab. After ICA, when I
>> tried to plot the components, Matlab keeps prompting an internal problem
>> and needs to be closed. I wonder why this is the case. Could someone
>> please
>> tell me what went wrong?
>>
>> Here's part of my script for ICA:
>>
>> cfg = []; % if data were cleaned, then use this
>>
>> if sub == 5 %|| sub == 7
>> cfg.channel = {'all', '-AFz', '-FT7'};
>> elseif sub == 7
>> cfg.channel = {'all' '-AFz'};
>> else
>> cfg.channel = {'all'};
>> end
>>
>> % cfg.runica.pca = 121; % using the rank of my data
>> % ic_data = ft_componentanalysis(cfg,cleandata); % if data were
>> cleaned then use this
>> ic_data = ft_componentanalysis(cfg, cleandata);
>>
>> % after ICA, look for components that we want to substract from
>> our
>> data,
>> % only looking at ten channels (components) at a time
>> cfg = [];
>> cfg.dataset = rawdatafile;
>> cfg.viewmode = 'component';
>> cfg.continuous = 'no';
>> cfg.blocksize = 8;
>> cfg.channels = 'all';
>> cfg.layout = 'EEG1020.lay';
>> ft_databrowser(cfg,ic_data);
>>
>>
>> The internal problem appears even when I downsampled my data from 5000 Hz
>> to 1000 Hz.
>>
>> The internal problem appears also when I have short segments of my data
>> (i.e. 2s per trial), and long segments of my data (i.e. 6s per trial).
>>
>> The memory of my PC workstation is:
>> Maximum possible array: 60253 MB (6.318e+10 bytes) *
>> Memory available for all arrays: 60253 MB (6.318e+10 bytes) *
>> Memory used by MATLAB: 560 MB (5.872e+08 bytes)
>> Physical Memory (RAM): 32685 MB (3.427e+10 bytes)
>>
>> Interestingly, this internal problem does not occur when I ran my script
>> on
>> my Macbook Pro.
>>
>> I'm feeling very lost here. Any help is highly appreciated.
>>
>> Cheers,
>> Hweeling
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>
--
=================================================
Dr. rer. nat. Lee, Hwee Ling
Postdoc
German Center for Neurodegenerative Diseases (DZNE) Bonn
Email 1: hwee-ling.lee<at>dzne.de
Email 2: hweeling.lee<at>gmail.com
https://sites.google.com/site/hweelinglee/home
Correspondence Address:
Ernst-Robert-Curtius Strasse 12, 53117, Bonn, Germany
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