[FieldTrip] fieldtrip Digest, Vol 123, Issue 1
Stephen Whitmarsh
stephen.whitmarsh at gmail.com
Mon Feb 1 13:25:55 CET 2021
Hi Yanki,
It seems your datastructure is a single trial of 227572 samples @ 2000Hz =
113s, i.e. about 2 minutes.
Whatever is causing the issue, I am not sure that is what you want to
calculate a 2 second TFR on, right?
You should probably first segment your data into trials. Perhaps start with
the event-related tutorials on the fieldtrip wiki and adapt it to your data?
Best wishes,
Stephen
Op ma 1 feb. 2021 om 12:44 schreef Yankı Tandırcıoğlu <
yankitandircioglu at gmail.com>:
> Sorry, I just saw your other question.
>
> I am a beginner, so I don't know what to expect in terms of values of
> sample & ndatsample relating to your question. This is the struct of the
> data:
>
> temp =
>
> struct with fields:
>
> hdr: [1×1 struct]
> label: {306×1 cell}
> trial: {[306×227572 double]}
> time: {[1×227572 double]}
> fsample: 2000
> grad: [1×1 struct]
> cfg: []
>
> Thank you again.
>
> Best regards,
>
> Yankı Tandırcıoğlu
>
> Yankı Tandırcıoğlu <yankitandircioglu at gmail.com>, 1 Şub 2021 Pzt, 14:35
> tarihinde şunu yazdı:
>
>> Dear Stephen Whitmarsh,
>>
>> Thank you for your kind and rapid response.
>>
>> I tried to run your advice, however the problem remains the same. :(
>>
>> May there any other possible solutions?
>>
>> Thank you.
>>
>> Yankı Tandırcıoğlu
>>
>>
>> <fieldtrip-request at science.ru.nl> adresine sahip kullanıcı 1 Şub 2021
>> Pzt, 14:15 tarihinde şunu yazdı:
>>
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>>> Today's Topics:
>>>
>>> 1. Padding Error (Yankı Tandırcıoğlu)
>>> 2. Re: Padding Error (Stephen Whitmarsh)
>>>
>>>
>>> ----------------------------------------------------------------------
>>>
>>> Message: 1
>>> Date: Mon, 1 Feb 2021 13:21:59 +0300
>>> From: Yankı Tandırcıoğlu <yankitandircioglu at gmail.com>
>>> To: fieldtrip at science.ru.nl
>>> Subject: [FieldTrip] Padding Error
>>> Message-ID:
>>> <
>>> CAExVZ1hKdGZH7zjj-xHjC545EdxK7JRAm0nWf9zbMzpXTPn_xA at mail.gmail.com>
>>> Content-Type: text/plain; charset="utf-8"
>>>
>>> Dear community,
>>>
>>> My name is Yankı Tandırcıoğlu and I am a student at Middle East Technical
>>> University. Currently I am analyzing MEG dataset.
>>>
>>> I tried using ft_freqanalysis to obtain TFR. However, when I call
>>> ft_freqanalysis, I receive the following error message:
>>>
>>> Error using ft_specest_mtmconvol (line 103)
>>> the padding that you specified is shorter than the data
>>>
>>> The cfg and data I use are as follows:
>>>
>>> cfg = [];
>>> cfg.channel = {'megplanar'};
>>> cfg.lpfilter = 'yes'
>>> cfg.lpfreq = 150
>>> cfg.continuous = 'yes'
>>> RestCondition_1 = ft_preprocessing(cfg, temp);
>>>
>>>
>>> cfg = [];
>>>
>>> cfg.output = 'pow';
>>>
>>> cfg.channel = 'megplanar';
>>>
>>> cfg.method = 'mtmconvol';
>>>
>>> cfg.taper = 'hanning';
>>>
>>> cfg.foi = 2:1:40;
>>>
>>> cfg.toi = [0:0.05:2];
>>>
>>> cfg.trials = 'all';
>>>
>>> cfg.t_ftimwin = ones(length(cfg.foi),1).*0.5;
>>>
>>> cfg.keeptrials= 'yes'; %% we keep the single trials
>>>
>>> freq_Rest1 = ft_freqanalysis(cfg,RestCondition_1);
>>>
>>> Can someone tell me if there is something wrong with the cfg settings I
>>> use
>>> or if I am doing something wrong at any other place? T Any help would be
>>> appreciated.
>>>
>>> Best,
>>>
>>> Yankı Tandırcıoğlu
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>>> ------------------------------
>>>
>>> Message: 2
>>> Date: Mon, 1 Feb 2021 11:45:49 +0100
>>> From: Stephen Whitmarsh <stephen.whitmarsh at gmail.com>
>>> To: FieldTrip discussion list <fieldtrip at science.ru.nl>
>>> Subject: Re: [FieldTrip] Padding Error
>>> Message-ID:
>>> <CAFrxm=
>>> w2Ws7c9-Ys7yHOhHL56Kkp_ovRHLCBhTyM8fTGXCQQvw at mail.gmail.com>
>>> Content-Type: text/plain; charset="utf-8"
>>>
>>> Hi Yanki,
>>>
>>> I suspect something is off with your sampling frequency / triallength;
>>>
>>> Try debugging:
>>>
>>> type: dbstop if error
>>>
>>> then run again, and see what is happening on line 102-103;
>>>
>>> if round(pad * fsample) < ndatsample
>>> ft_error('the padding that you specified is shorter than the data');
>>> end
>>>
>>> Are the values of sample & ndatsample what you would expect?
>>>
>>> Hope this helps,
>>> Stephen
>>>
>>>
>>>
>>>
>>> Op ma 1 feb. 2021 om 11:29 schreef Yankı Tandırcıoğlu <
>>> yankitandircioglu at gmail.com>:
>>>
>>> > Dear community,
>>> >
>>> > My name is Yankı Tandırcıoğlu and I am a student at Middle East
>>> Technical
>>> > University. Currently I am analyzing MEG dataset.
>>> >
>>> > I tried using ft_freqanalysis to obtain TFR. However, when I call
>>> > ft_freqanalysis, I receive the following error message:
>>> >
>>> > Error using ft_specest_mtmconvol (line 103)
>>> > the padding that you specified is shorter than the data
>>> >
>>> > The cfg and data I use are as follows:
>>> >
>>> > cfg = [];
>>> > cfg.channel = {'megplanar'};
>>> > cfg.lpfilter = 'yes'
>>> > cfg.lpfreq = 150
>>> > cfg.continuous = 'yes'
>>> > RestCondition_1 = ft_preprocessing(cfg, temp);
>>> >
>>> >
>>> > cfg = [];
>>> >
>>> > cfg.output = 'pow';
>>> >
>>> > cfg.channel = 'megplanar';
>>> >
>>> > cfg.method = 'mtmconvol';
>>> >
>>> > cfg.taper = 'hanning';
>>> >
>>> > cfg.foi = 2:1:40;
>>> >
>>> > cfg.toi = [0:0.05:2];
>>> >
>>> > cfg.trials = 'all';
>>> >
>>> > cfg.t_ftimwin = ones(length(cfg.foi),1).*0.5;
>>> >
>>> > cfg.keeptrials= 'yes'; %% we keep the single trials
>>> >
>>> > freq_Rest1 = ft_freqanalysis(cfg,RestCondition_1);
>>> >
>>> > Can someone tell me if there is something wrong with the cfg settings I
>>> > use or if I am doing something wrong at any other place? T Any help
>>> would
>>> > be appreciated.
>>> >
>>> > Best,
>>> >
>>> > Yankı Tandırcıoğlu
>>> >
>>> > _______________________________________________
>>> > fieldtrip mailing list
>>> > https://mailman.science.ru.nl/mailman/listinfo/fieldtrip
>>> > https://doi.org/10.1371/journal.pcbi.1002202
>>> >
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