[FieldTrip] ft_singleplotTFR seems broken

Casper van Heck caspervanheck at gmail.com
Tue Nov 26 12:25:11 CET 2013


Dear Eelke,

I've tried it with the painters, zbuffer, and opengl, using Matlab 2011a
and 2013a (giving me the 'not yet supported'-error), with the same results.
I think I'll try it at home, later, and if that fails, I'll get the
ICT-people to reinstall the whole thing.

Thanks!

Casper


On Fri, Nov 22, 2013 at 4:40 PM, Eelke Spaak <eelke.spaak at donders.ru.nl>wrote:

> Dear Casper,
>
> See attached the plots I get when running your script (on
> Windows/Linux Matlab 2011b/2012a). They seem quite OK to me, so I
> suspect the issue is in your Matlab installation and/or system (e.g.
> video drivers).
>
> One thing that could possibly help (though I would not understand why
> exactly) is to change the renderer, by trying out all three options
> for cfg.renderer = 'painters'/'zbuffer'/'opengl'. Or maybe you could
> try running another Matlab version?
>
> Sorry this is not more helpful, good luck figuring it out!
>
> Best,
> Eelke
>
> On 22 November 2013 13:36, Casper van Heck <caspervanheck at gmail.com>
> wrote:
> > Dear Eelke,
> >
> > I was busy with some other stuff, and just now revisited the analysis.
> Even
> > with a newer version of Fieldtrip, this is still happening, and I still
> do
> > not know why...
> > Have you had time to take a look at it?
> >
> > Sincerely,
> >
> > Casper
> >
> >
> > On Thu, Sep 26, 2013 at 12:43 PM, Casper van Heck <
> caspervanheck at gmail.com>
> > wrote:
> >>
> >> Dear Eelke,
> >>
> >> I've put up an exerpt of my code, with the data from a single subject
> >> (no.10, 9MB) in a separate folder here.
> >> It also includes a screenshot of what I see with when I run the code
> with
> >> this exact dataset, and a small program 'filehandler', which I've been
> to
> >> lazy to replace.
> >>
> >> Note that this specific subject only has about 60 seconds of data (and
> I'm
> >> still waiting for the student to tell me why).
> >>
> >> I'm hoping you'll get the same result as the screenshot, and you'll be
> >> able to tell me why...
> >>
> >> Best regards,
> >>
> >> Casper
> >>
> >>
> >> On Wed, Sep 18, 2013 at 1:25 PM, Eelke Spaak <eelke.spaak at donders.ru.nl
> >
> >> wrote:
> >>>
> >>> Dear Casper,
> >>>
> >>> Could you maybe post a snippet online somewhere (e.g. dropbox) of data
> >>> corresponding to this plot (i.e. the output of ft_freqanalysis that
> >>> you input to ft_singleplotTFR, assuming that it's averaged over trials
> >>> and therefore small)? Then we can see whether this is reproducable on
> >>> our systems.
> >>>
> >>> Best,
> >>> Eelke
> >>>
> >>> On 16 September 2013 17:12, Casper van Heck <caspervanheck at gmail.com>
> >>> wrote:
> >>> > Dear Fieldtrippers,
> >>> >
> >>> > I've been doing some exploratory plotting of a dataset where several
> >>> > subjects were exposed to a continuous stimulus (CPM) over the course
> of
> >>> > three minutes. One of the things that was asked was a time-frequency
> >>> > plot,
> >>> > over those three minutes. While I'm not quite sure a TFR can be used
> on
> >>> > that
> >>> > scale without problems, I went ahead with it just to see what
> Fieldtrip
> >>> > would do. What I got, was this:
> >>> > http://tinypic.com/r/zx2tqs/5|
> >>> > And I have no idea what went wrong (note that this specific subject
> >>> > only got
> >>> > a 60s stimulus). Quality of the picture and the validity of the
> >>> > analysis
> >>> > aside, I have a severe problem with the axes, which seem to be all
> over
> >>> > the
> >>> > place.
> >>> >
> >>> > I simply read the data using ft_preprocessing (no filters or
> anything,
> >>> > since
> >>> > the student in charge already used a 10Hz high-pass and a 150Hz
> >>> > low-pass
> >>> > filter).
> >>> > The only field in 'cfg' is 'headerfile'.
> >>> >
> >>> > Next, I call ft_freqanalysis with:
> >>> >     cfg.output = 'pow';
> >>> >     cfg.method = 'wavelet'; % default; Morlet wavelet
> >>> >     cfg.taper = 'hanning';
> >>> >     cfg.tapsmofrq = 4;
> >>> >     cfg.channel = 'Cz';
> >>> >     cfg.foi = [20:0.5:30];
> >>> >     cfg.t_ftimwin = ones(length(cfg.foi),1).*0.25;
> >>> >     cfg.toi = 0:0.5:60;
> >>> >
> >>> > And finally, I end up with the monstrocity shown earlier. This
> problem
> >>> > only
> >>> > presents itself with Fieldtrip-related functions, the normal
> >>> > Matlab-plots
> >>> > work as well as they've ever done, so I'm thinking it's something in
> >>> > Fieldtrip that's causing this.
> >>> >
> >>> > My hope is that someone has encountered this problem before, and
> knows
> >>> > how
> >>> > to solve it...
> >>> >
> >>> > Sincerely,
> >>> >
> >>> > Casper
> >>> >
> >>> >
> >>> > _______________________________________________
> >>> > fieldtrip mailing list
> >>> > fieldtrip at donders.ru.nl
> >>> > http://mailman.science.ru.nl/mailman/listinfo/fieldtrip
> >>> _______________________________________________
> >>> fieldtrip mailing list
> >>> fieldtrip at donders.ru.nl
> >>> http://mailman.science.ru.nl/mailman/listinfo/fieldtrip
> >>
> >>
> >
> >
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