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<p class="MsoNormal"><span style="color:#1F497D">Thanks Jim. You're correct, I was trying to run ft_rejectartifact on each trial individually. Your strategy seems like a much more workable solution. Thanks.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:#1F497D"><o:p> </o:p></span></p>
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<p class="MsoNormal"><span style="color:#1F497D">Keith McConnell, M.S.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="color:#1F497D">513.636.0739 (desk)<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:#1F497D">513.504.9907 (cell)<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="color:#1F497D">Division of Pulmonary Medicine<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:#1F497D">Cincinnati Children's Hospital Medical Center<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:#1F497D">Cincinnati, OH 45229<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="color:#1F497D"><o:p> </o:p></span></p>
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<p class="MsoNormal"><b><span style="font-size:10.0pt;font-family:"Tahoma","sans-serif"">From:</span></b><span style="font-size:10.0pt;font-family:"Tahoma","sans-serif""> fieldtrip-bounces@science.ru.nl [mailto:fieldtrip-bounces@science.ru.nl]
<b>On Behalf Of </b>Herring, J.D. (Jim)<br>
<b>Sent:</b> Thursday, October 03, 2013 5:24 AM<br>
<b>To:</b> FieldTrip discussion list<br>
<b>Subject:</b> Re: [FieldTrip] ft_rejectartifact<o:p></o:p></span></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal"><span style="color:black">Dear Keith,<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="color:black"><o:p> </o:p></span></p>
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<p class="MsoNormal"><span style="color:black">What ft_rejectartifact does when rejecting trials completely is check the cfg.trl matrix (which contains the first, last, and offset sample with respect to the original data) for occurences of the artifact that
you want to reject. If an artifact is present, it removes the line from this matrix. Then the artifact free data is read-in from disk or from memory. <o:p></o:p></span></p>
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<p class="MsoNormal"><span style="color:black"><o:p> </o:p></span></p>
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<p class="MsoNormal"><span style="color:black">Basically line 491 checks whether cfg.trl is empty as that would indicate that no trials are left after rejection. Am I correct in assuming you are running ft_rejectartifact on each trial separately? If so, you
could also run it on the entire dataset before going through your loop with the option cfg.artfctdef.feedback = 'yes'; .Doing this will remove the trials containing jump artifacts while preserving the other trials and it will give you feedback on which trials
were removed. <o:p></o:p></span></p>
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<p class="MsoNormal"><span style="color:black"><o:p> </o:p></span></p>
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<p class="MsoNormal"><span style="color:black">Best,<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="color:black"><o:p> </o:p></span></p>
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<p class="MsoNormal"><span style="color:black">Jim<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="color:black"><o:p> </o:p></span></p>
<div class="MsoNormal" align="center" style="text-align:center"><span style="color:black">
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<p class="MsoNormal"><b><span style="color:black">Van: </span></b><span style="color:black">"Keith McConnell" <<a href="mailto:Keith.McConnell@cchmc.org">Keith.McConnell@cchmc.org</a>><br>
<b>Aan: </b><a href="mailto:fieldtrip@science.ru.nl">fieldtrip@science.ru.nl</a><br>
<b>Verzonden: </b>Woensdag 2 oktober 2013 18:46:17<br>
<b>Onderwerp: </b>[FieldTrip] ft_rejectartifact<br>
<br>
<br>
</span><span style="font-size:12.0pt;font-family:"Times New Roman","serif";color:black"><o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">Hello,<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">I have an experiment for which I have an extended stimulus for a very few number of trials (20). I would like to build a for loop to create TF plots for each trial individually.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">There are jump artifacts in the data.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">When a trial is rejected due to jump artifact my loop crashes:<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">Error using ft_rejectartifact (line 491)<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">No trials left after artifact rejection.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">I would like to create an if/then statement that will identify that the individual trial was rejected and return to running the for loop.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">I cannot find the flag that is generated that tells me that there are no trials left.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">Can someone help?<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">Thanks,<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">Keith<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">Keith McConnell, M.S.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">513.636.0739 (desk)<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">513.504.9907 (cell)<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">Division of Pulmonary Medicine<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">Cincinnati Children's Hospital Medical Center<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">Cincinnati, OH 45229<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:12.0pt;font-family:"Times New Roman","serif";color:black"><br>
_______________________________________________<br>
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<a href="http://mailman.science.ru.nl/mailman/listinfo/fieldtrip">http://mailman.science.ru.nl/mailman/listinfo/fieldtrip</a><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:12.0pt;font-family:"Times New Roman","serif";color:black"><br>
<br>
<br>
-- <o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:12.0pt;font-family:"Times New Roman","serif";color:black">Jim Herring, MSc.<br>
Neuronal Oscillations Group<br>
Centre for Cognitive Neuroimaging<br>
Donders Institute for Brain, Cognition and Behaviour<br>
Radboud University Nijmegen<br>
<br>
<o:p></o:p></span></p>
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