Put the attached files in /external/fieldtrip/private overwriting the files that are there. This should solve the problem.<div><br></div><div>Vladimir<br><br><div class="gmail_quote">On Thu, Dec 2, 2010 at 12:54 PM, Sid Kouider <span dir="ltr">&lt;<a href="mailto:[log in to unmask]"><a href="/cgi-bin/wa-jisc.exe?LOGON=A3%3Dind1012%26L%3DSPM%26E%3Dquoted-printable%26P%3D775194%26B%3D--0003255750feb4f9de04966d0edd%26T%3Dtext%252Fhtml%3B%2520charset%3DISO-8859-1%26pending%3D" target="_parent" >[log in to unmask]</a></a>&gt;</span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex;">








<div lang="FR" link="blue" vlink="purple">

<div>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D">Ok I updated with the last version of SPM and tried the same
procedure but now there is another bug. I can upload the file for the fieldtrip
rejection function but now I can&#39;t use the option by Trial (it works only for
by Channels, and for the Summary).</span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D">I get the message below:</span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D"> </span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D">??? Undefined function or method &#39;channelselection&#39; for input
arguments of type &#39;cell&#39;.</span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D"> </span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D">Error in ==&gt; rejectvisual_trial at 8</span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D">cfg.channel = channelselection(cfg.channel, data.label);</span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D"> </span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D">Error in ==&gt; ft_rejectvisual at 257</span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D">  [chansel, trlsel, cfg] = rejectvisual_trial(cfg, tmpdata);</span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D"> </span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D">Error in ==&gt; spm_eeg_ft_artefact_visual at 71</span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D">data = ft_rejectvisual(cfg, data);</span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D"> </span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D">Error in ==&gt; spm_MEEGtools at 41</span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D">eval(fun);</span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D">Error in ==&gt; spm at 914</span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D">    evalin(&#39;base&#39;,xTB(i).prog);</span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D"> </span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D">??? Error while evaluating uicontrol Callback</span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D"> </span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D">Also, since it still works with channels, I tried to mark a
channel  as bad, quit and when I reopen the channel is still marked as good.</span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D"> </span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D">I use Matlab 2009b 64 bits on a windows 7 64bit machine.</span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D"> </span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D">Thanks</span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D">-Sid</span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D"> </span></p>

<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;color:#1F497D"> </span></p>

<div style="border:none;border-top:solid #B5C4DF 1.0pt;padding:3.0pt 0cm 0cm 0cm">

<p class="MsoNormal"><b><span style="font-size:10.0pt">De :</span></b><span style="font-size:10.0pt"> Vladimir Litvak
[mailto:<a href="mailto:[log in to unmask]" target="_blank"><a href="/cgi-bin/wa-jisc.exe?LOGON=A3%3Dind1012%26L%3DSPM%26E%3Dquoted-printable%26P%3D775194%26B%3D--0003255750feb4f9de04966d0edd%26T%3Dtext%252Fhtml%3B%2520charset%3DISO-8859-1%26pending%3D" target="_parent" >[log in to unmask]</a></a>] <br>
<b>Envoyé :</b> jeudi 2 décembre 2010 13:23<br>
<b>À :</b> <a href="mailto:[log in to unmask]" target="_blank"><a href="/cgi-bin/wa-jisc.exe?LOGON=A3%3Dind1012%26L%3DSPM%26E%3Dquoted-printable%26P%3D775194%26B%3D--0003255750feb4f9de04966d0edd%26T%3Dtext%252Fhtml%3B%2520charset%3DISO-8859-1%26pending%3D" target="_parent" >[log in to unmask]</a></a><br>
<b>Cc :</b> <a href="mailto:[log in to unmask]" target="_blank"><a href="/cgi-bin/wa-jisc.exe?LOGON=A3%3Dind1012%26L%3DSPM%26E%3Dquoted-printable%26P%3D775194%26B%3D--0003255750feb4f9de04966d0edd%26T%3Dtext%252Fhtml%3B%2520charset%3DISO-8859-1%26pending%3D" target="_parent" >[log in to unmask]</a></a><br>
<b>Objet :</b> Re: bug in SPM EEG fieldtrip visual artefact rejection</span></p>

</div><div><div></div><div class="h5">

<p class="MsoNormal"> </p>

<p class="MsoNormal">Dear Sid,</p>

<div>

<p class="MsoNormal"> </p>

</div>

<div>

<p class="MsoNormal">I tried the tool on your data and everything seems to work
fine. Make sure that you use the latest SPM update. </p>

</div>

<div>

<p class="MsoNormal"> </p>

</div>

<div>

<p class="MsoNormal" style="margin-bottom:12.0pt">Vladimir</p>

<div>

<p class="MsoNormal">On Thu, Dec 2, 2010 at 10:34 AM, Sid Kouider &lt;<a href="mailto:[log in to unmask]" target="_blank"><a href="/cgi-bin/wa-jisc.exe?LOGON=A3%3Dind1012%26L%3DSPM%26E%3Dquoted-printable%26P%3D775194%26B%3D--0003255750feb4f9de04966d0edd%26T%3Dtext%252Fhtml%3B%2520charset%3DISO-8859-1%26pending%3D" target="_parent" >[log in to unmask]</a></a>&gt; wrote:</p>

<div>

<div>

<p class="MsoNormal"><span lang="EN-US">Dear Vladimir,</span></p>

<p class="MsoNormal"><span lang="EN-US">We are analyzing EEG from infants with SPM8 and we would like to use
the fieldtrip visual artefact rejection tool.</span></p>

<p class="MsoNormal"><span lang="EN-US">The way we do it is that we open the file through the function in
MEEG tools, we mark some of the trials as BAD, and then we click on quit
assuming that it will be saved automatically.</span></p>

<p class="MsoNormal"><span lang="EN-US">The problems we encounter are the following: </span></p>

<p class="MsoNormal"><span lang="EN-US"> </span></p>

<p class="MsoNormal"><span lang="EN-US">1) When we open the file again with the same function (for instance
to examine further trials), the trials previously marked as bad before quitting
now appear as GOOD. </span></p>

<p class="MsoNormal"><span lang="EN-US">When looking at the file, using </span></p>

<p class="MsoNormal"><span lang="EN-US"> </span></p>

<p class="MsoNormal"><span lang="EN-US">tmp = load(&#39;C:\Imaging\EEG\sublibaby_EEG\12mois\EEGdata\spm8dataFiles\bMrefspm8_Antoine.mat&#39;)</span></p>

<p class="MsoNormal"><span lang="EN-US">tmp.D.trials(22).bad</span></p>

<p class="MsoNormal"><span lang="EN-US">ans =</span></p>

<p class="MsoNormal"><span lang="EN-US"> </span></p>

<p class="MsoNormal"><span lang="EN-US">     1</span></p>

<p class="MsoNormal"><span lang="EN-US"> </span></p>

<p class="MsoNormal"><span lang="EN-US">we do see that the trials marked as bad are indeed marked as bad. It
looks like the fieldtrip function is not considering that information when
loading the file, isn&#39;t it?</span></p>

<p class="MsoNormal"><span lang="EN-US"> </span></p>

<p class="MsoNormal"><span lang="EN-US">2) The second issue is more weird. The trials we update are marked
as BAD (at least in D.trials.bad), but not on all instances. Indeed, sometimes,
after reopening the file for instant a third time and marking further trials as
BAD, even the D.trials.bad is not updated.</span></p>

<p class="MsoNormal"><span lang="EN-US">Any thought? Did you encounter the same problem?</span></p>

<p class="MsoNormal"><span lang="EN-US"> </span></p>

<p class="MsoNormal"><span lang="EN-US">I have put one original file (i.e., without any trials marked as
BAD) at the following location:</span></p>

<p class="MsoNormal"><span lang="EN-US"> </span></p>

<p class="MsoNormal"><span lang="EN-US"><a href="http://www.lscp.net/persons/sidk/spm8dataFiles.zip" target="_blank">http://www.lscp.net/persons/sidk/spm8dataFiles.zip</a></span></p>

<p class="MsoNormal"><span lang="EN-US"> </span></p>

<p class="MsoNormal"><span lang="EN-US">Thanks for any help you can provide,</span></p>

<p class="MsoNormal"><span lang="EN-US">-Sid</span></p>

<p class="MsoNormal"><span lang="EN-US"> </span></p>

<p class="MsoNormal"><span lang="EN-US"> </span></p>

<p class="MsoNormal"><span style="font-family:&quot;Courier New&quot;">~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~</span></p>

<p class="MsoNormal"><span style="font-family:&quot;Courier New&quot;">Dr Sid Kouider, CNRS research scientist</span></p>

<p class="MsoNormal"><span style="font-family:&quot;Courier New&quot;">Ecole Normale Supérieure </span></p>

<p class="MsoNormal"><span style="font-family:&quot;Courier New&quot;">LSCP, Pavillon Jardin, </span></p>

<p class="MsoNormal"><span style="font-family:&quot;Courier New&quot;">29 rue d&#39;Ulm, 75005 Paris, France </span></p>

<p class="MsoNormal"><span style="font-family:&quot;Courier New&quot;"><a href="http://www.lscp.net/persons/sidk/" target="_blank">www.lscp.net/persons/sidk/</a></span></p>

<p class="MsoNormal"><span style="font-family:&quot;Courier New&quot;">~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~</span></p>

<p class="MsoNormal"> </p>

</div>

</div>

</div>

<p class="MsoNormal"> </p>

</div>

</div></div></div>

</div>


</blockquote></div><br></div>