<html>
<head>
<meta content="text/html; charset=ISO-8859-1"
http-equiv="Content-Type">
</head>
<body bgcolor="#FFFFFF" text="#000000">
<div class="moz-cite-prefix">Hey Duncan,<br>
<br>
it looks pretty much like you are using an old FieldTrip version
with a new neighbourhood-structure. Could you check the with the
most recent version again? <br>
Some months (about a year?) ago we changed the neighbour
definition from cell arrays to structure arrays, so any attempt to
access cfg.neighbours{i} will fail, cause it has to be
cfg.neighbours(i) instead. But as I already said, this has been
changed quite some time back in the past :) <br>
<br>
Essentially, your code is fine, but some note that
cfg.neighbourdist should be a scalar, not the string 'number', but
only if cfg.method='distance'. If you choose cfg.method =
'template' then cfg.neighbourdist is not used, cause a template is
loaded.<br>
<br>
Best,<br>
Jörn<br>
<br>
On 9/13/2012 12:46 PM, Duncan Astle wrote:<br>
</div>
<blockquote
cite="mid:B8B69AFC9DFA1B428EAF97E5EB02266B30CD3FF2@wsr-ex-101.mrc-cbsu.local"
type="cite">
<meta http-equiv="Content-Type" content="text/html;
charset=ISO-8859-1">
<meta name="Generator" content="Microsoft Word 12 (filtered
medium)">
<style><!--
/* Font Definitions */
@font-face
{font-family:Calibri;
panose-1:2 15 5 2 2 2 4 3 2 4;}
/* Style Definitions */
p.MsoNormal, li.MsoNormal, div.MsoNormal
{margin:0cm;
margin-bottom:.0001pt;
font-size:11.0pt;
font-family:"Calibri","sans-serif";}
a:link, span.MsoHyperlink
{mso-style-priority:99;
color:blue;
text-decoration:underline;}
a:visited, span.MsoHyperlinkFollowed
{mso-style-priority:99;
color:purple;
text-decoration:underline;}
span.EmailStyle17
{mso-style-type:personal-compose;
font-family:"Calibri","sans-serif";
color:windowtext;}
.MsoChpDefault
{mso-style-type:export-only;}
@page WordSection1
{size:612.0pt 792.0pt;
margin:72.0pt 72.0pt 72.0pt 72.0pt;}
div.WordSection1
{page:WordSection1;}
--></style><!--[if gte mso 9]><xml>
<o:shapedefaults v:ext="edit" spidmax="1026" />
</xml><![endif]--><!--[if gte mso 9]><xml>
<o:shapelayout v:ext="edit">
<o:idmap v:ext="edit" data="1" />
</o:shapelayout></xml><![endif]-->
<div class="WordSection1">
<p class="MsoNormal">Dear Fieldtrippers,<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">I am rather new to this, but am attempting
to do some cluster stats on my ERP sensor level data. It is
working well, and I can cluster across time, but I can’t get
it to cluster across electrode locations. I think it is
because of a mistake that I am making in my ‘neighbours’ file,
although it looks fine when I inspect it. This is the error
message that I get:<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">??? Cell contents reference from a non-cell
array object.<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Error in ==>
clusterstat>makechanneighbstructmat at 520<o:p></o:p></p>
<p class="MsoNormal"> [seld] = match_str(cfg.channel,
cfg.neighbours{chan}.label);<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Error in ==> clusterstat at 60<o:p></o:p></p>
<p class="MsoNormal"> channeighbstructmat =
makechanneighbstructmat(cfg);<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Error in ==> statistics_montecarlo at
322<o:p></o:p></p>
<p class="MsoNormal"> [stat, cfg] = clusterstat(cfg, statrand,
statobs,'issource',issource);<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Error in ==> statistics_wrapper at 285<o:p></o:p></p>
<p class="MsoNormal"> [stat, cfg] = statmethod(cfg, dat,
cfg.design, 'issource',issource);<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Error in ==> ft_timelockstatistics at
119<o:p></o:p></p>
<p class="MsoNormal">[stat, cfg] = statistics_wrapper(cfg,
varargin{:});<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Can anyone spot what I am doing wrong?<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">This is how I make my neighbour file:<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">cfg = [];</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">cfg.layout =
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:#A020F0">'EEG1010.lay'</span><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">;
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:forestgreen">% try 'distance' as well</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">cfg.feedback =
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:#A020F0">'yes'</span><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">;
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:forestgreen">% show a neighbour plot
</span><span style="font-size:12.0pt;font-family:"Courier
New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">cfg.method =
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:#A020F0">'template'</span><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">cfg.neighbourdist =
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:#A020F0">'number'</span><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">cfg.template =
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:#A020F0">'EEG1010_neighb.mat'</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">cfg.channel =
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:#A020F0">'all'</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">cfg.feedback =
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:#A020F0">'yes'</span><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">neighbours =
ft_prepare_neighbours(cfg, Load5Hard);
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:forestgreen">% define neighbouring
channels
</span><span style="font-size:12.0pt;font-family:"Courier
New""><o:p></o:p></span></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">This is how I then try the stats:<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg = [];</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.channel =
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:#A020F0">'all'</span><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.latency = [0.1 1.3];</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.avgovertime =
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:#A020F0">'no'</span><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.avgoverchannel =
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:#A020F0">'no'</span><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.parameter =
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:#A020F0">'individual'</span><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.method =
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:#A020F0">'montecarlo'</span><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.statistic =
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:#A020F0">'depsamplesT'</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.alpha = 0.05;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.correctm =
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:#A020F0">'cluster'</span><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">;
</span><span style="font-size:12.0pt;font-family:"Courier
New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.correcttail =
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:#A020F0">'prob'</span><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.numrandomization = 1000;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.feedback =
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:#A020F0">'yes'</span><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">;
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:forestgreen">% show a neighbour plot
</span><span style="font-size:12.0pt;font-family:"Courier
New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.neighbours = neighbours;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:forestgreen">%cfg.minnbchan = 2;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.clusterstatistic =
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:#A020F0">'maxsum'</span><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.clusterthreshold =
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:#A020F0">'nonparametric'</span><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.clusteralpha = 0.01;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.clustercritval = 0.06;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:forestgreen">% cfg.clustertail = 0;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.tail = 0;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> Nsub = 19;</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.design(1,1:2*Nsub) =
[ones(1,Nsub) 2*ones(1,Nsub)];</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.design(2,1:2*Nsub) = [1:Nsub
1:Nsub];</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.ivar = 1;
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:forestgreen">% the 1st row in cfg.design
contains the independent variable</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> cfg.uvar = 2;
</span><span style="font-size:10.0pt;font-family:"Courier
New";color:forestgreen">% the 2nd row in cfg.design
contains the subject number</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">
</span><span style="font-size:12.0pt;font-family:"Courier
New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black"> </span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal" style="text-autospace:none"><span
style="font-size:10.0pt;font-family:"Courier
New";color:black">[stat] = ft_timelockstatistics(cfg,
Load3Hard, Load3Easy)</span><span
style="font-size:12.0pt;font-family:"Courier New""><o:p></o:p></span></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Any suggestions very gratefully received. <o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Thanks,<o:p></o:p></p>
<p class="MsoNormal">Duncan<o:p></o:p></p>
<p class="MsoNormal">________________________________________________<o:p></o:p></p>
<p class="MsoNormal">Dr. Duncan Astle,<o:p></o:p></p>
<p class="MsoNormal">Programme Leader Track,<o:p></o:p></p>
<p class="MsoNormal">British Academy Research Fellow,<o:p></o:p></p>
<p class="MsoNormal">MRC Cognition and Brain Sciences Unit,<o:p></o:p></p>
<p class="MsoNormal">Chaucer Road,<o:p></o:p></p>
<p class="MsoNormal">Cambridge.<o:p></o:p></p>
<p class="MsoNormal"><a class="moz-txt-link-abbreviated" href="mailto:Duncan.Astle@mrc-cbu.cam.ac.uk">Duncan.Astle@mrc-cbu.cam.ac.uk</a><o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
</div>
<br>
<fieldset class="mimeAttachmentHeader"></fieldset>
<br>
<pre wrap="">_______________________________________________
fieldtrip mailing list
<a class="moz-txt-link-abbreviated" href="mailto:fieldtrip@donders.ru.nl">fieldtrip@donders.ru.nl</a>
<a class="moz-txt-link-freetext" href="http://mailman.science.ru.nl/mailman/listinfo/fieldtrip">http://mailman.science.ru.nl/mailman/listinfo/fieldtrip</a></pre>
</blockquote>
<br>
<br>
<pre class="moz-signature" cols="72">--
Jörn M. Horschig
PhD Student
Donders Institute for Brain, Cognition and Behaviour
Centre for Cognitive Neuroimaging
Radboud University Nijmegen
Neuronal Oscillations Group
FieldTrip Development Team
P.O. Box 9101
NL-6500 HB Nijmegen
The Netherlands
Contact:
E-Mail: <a class="moz-txt-link-abbreviated" href="mailto:jm.horschig@donders.ru.nl">jm.horschig@donders.ru.nl</a>
Tel: +31-(0)24-36-68493
Web: <a class="moz-txt-link-freetext" href="http://www.ru.nl/donders">http://www.ru.nl/donders</a>
Visiting address:
Trigon, room 2.30
Kapittelweg 29
NL-6525 EN Nijmegen
The Netherlands</pre>
</body>
</html>