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Hi Thomas,
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<div>Thanks for your informative e-mail :). </div>
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<div class="">Here's what I did:<br class="">
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<b class="">1- Get the data for a subset of my choosing (I tried everything with a small 4-channel, 55-trials subset)<br class="">
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<div class=""><b class="">2- Put that data into a structure built as follows, adding fields that FieldTrip required:</b><br class="">
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<div class=""><font face="courier new, monospace" class=""> fsample: 1017 </font>(I know this is weird but we're stuck with it)</div>
<div class=""><font face="courier new, monospace" class=""> channels: [1 17 25 29] </font>Added to keep track of in-house bookkeeping</div>
<div class=""><font face="courier new, monospace" class=""> label: {'Ch:1 idElectrodeSite:181' 'Ch:17 idElectrodeSite:183' 'Ch:25 idElectrodeSite:184'
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'Ch:29 idElectrodeSite:185'} </font>Not the right structure, but I don't have header files to get them from</div>
<div class=""><font face="courier new, monospace" class=""> trial: {55×1 cell} </font>One cell per trial, with each being<font face="courier new, monospace" class=""> [chan x time]</font></div>
<div class=""><font face="courier new, monospace" class=""> time: {55×1 cell} </font>One cell per trial, each going from -750ms to 750ms (around target onset) This includes a 250ms pad on each side.</div>
<div class=""><font face="courier new, monospace" class=""> trl: [55×3 double] </font>Built from scratch as if the trials were continuous. (Inspired by the FT function that does this) </div>
<div class=""><font face="courier new, monospace" class=""> dimord: 'chan_time' </font>Added by hand, can't get Fieldtrip to recognize it</div>
<div class=""><font face="courier new, monospace" class=""> sampleinfo: [55×2 double] </font>The first two columns of
<font face="courier new, monospace" class="">trl</font></div>
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<div>You may need to get rid of the following fields: ’trl’ ‘dimord’ and ‘channels’. Once this is done, I think you are ready to go, without warnings and errors.</div>
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<div class=""><font face="arial, sans-serif" class=""><b class="">3- Try to use ft_freqanalysis using the following cfg (also attached)<br class="">
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<div class=""><font face="courier new, monospace" class="">cfg = [];<br class="">
cfg.method= 'tfr';<br class="">
cfg.pad = 'nextpow2';<br class="">
cfg.width = 7;<br class="">
cfg.gwidth = 3;<br class="">
cfg.foi = [15:1:60];<br class="">
cfg.toi = 'all';</font><br class="">
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I first get the message: <br class="">
</font><font face="courier new, monospace" class="">the input is raw data with 4 channels and 55 trial<br class="">
</font><font face="arial, sans-serif" class="">This would be encouraging, but then,
</font><span style="font-family:arial,sans-serif" class="">I get the following warnings:</span></div>
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Warning: could not determine dimord of "trial" in: </font><font face="arial, sans-serif" class="">(structure shown above)</font><br class="">
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<div class=""><font face="courier new, monospace" class="">Warning: could not determine dimord of "trl" in: </font><span style="font-family:arial,sans-serif" class="">(structure shown above)<br class="">
...but four pairs of them.<br class="">
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Looking through the debugger, I found out they're given when </span><span style="font-family:arial,sans-serif" class="">ft_freqanalysis, calls ft_checkdata and ft_selectdata. <br class="">
</span><span style="font-family:arial,sans-serif" class=""><b class="">Are these warnings something I should be worried about, or can everything work well the way it is?</b> <br class="">
Also, how is it that FT 'could not determine dimord' when I give it one in the data structure, and it seems to understand the way it works given the message it sends at the beginning?<br class="">
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<div class=""><span style="font-family:arial,sans-serif" class="">After the warnings, I get this:<br class="">
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the call to "ft_selectdata" took 16 seconds<br class="">
processing trials<br class="">
trial 2, frequency 32 (46.18 Hz)<br class="">
<font color="#ff0000" class="">Array dimensions must match for binary array op.<br class="">
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Error in ft_freqanalysis (line 679)<br class="">
trlcnt(1, ifoi, :) = trlcnt(1, ifoi, :) + shiftdim(double(acttboi(:)'),-1);<br class="">
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<div class=""><font face="arial, sans-serif" class="">...which I simply don't know how to solve.<br class="">
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<b class="">So in summary:</b> <br class="">
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1- Is it possible to make FT work without using original files to get the data?<br class="">
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Yes!</div>
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<div class=""><font face="arial, sans-serif" class="">2- If it is, what have I done wrong, and how could I make it work?<br class="">
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See above.</div>
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<div class=""><font face="arial, sans-serif" class="">3- Are the warnings worrisome or is it just a natural consequence of trying to jerry-rig data in FT?<br class="">
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Not worrisome, they should go away if you do exactly as I told :).</div>
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<div class=""><font face="arial, sans-serif" class="">4- Any idea on how to solve the error message I get is appreciated, but a secondary objective. <br class="">
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<div>Probably it goes away.</div>
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<div>Keep up the good work and with best wishes,</div>
<div>Jan-Mathijs</div>
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I attached the function I made to build the data structure in case it could help.<br class="">
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Thank you very much for reading this long-winded message!<br class="">
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Regards<br class="">
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Thomas Lusignan, B. Sc. <br class="">
Paul Cisek's Lab<br class="">
Université de Montréal</font></div>
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