<html><head></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">I don't know: did you follow up on bugzilla bug 2419? As mentioned in my earlier mail, for the time being you can work around it by commenting out line 421 in your local version of ft_read_headshape.<div><br></div><div>Jan-Mathijs</div><div><br><div><br></div><div><br></div><div><br><div><div>On Jan 7, 2014, at 7:12 PM, Nicholas Heugel wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><div dir="ltr">Do you know if there is any update on the bug I encountered? Does it look like an issue with setting up the analysis or is it an actual bug in the code? Thanks for your assistance.<div><br></div><div>Nicholas</div>
</div><div class="gmail_extra"><br><br><div class="gmail_quote">On Wed, Dec 11, 2013 at 7:42 PM, Nicholas Heugel <span dir="ltr"><<a href="mailto:nheugel89@gmail.com" target="_blank">nheugel89@gmail.com</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">I did as you asked. I put it in the core category with the error as the title</div><div class="HOEnZb">
<div class="h5"><div class="gmail_extra"><br><br><div class="gmail_quote">On Wed, Dec 11, 2013 at 2:04 AM, jan-mathijs schoffelen <span dir="ltr"><<a href="mailto:jan.schoffelen@donders.ru.nl" target="_blank">jan.schoffelen@donders.ru.nl</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div style="word-wrap:break-word">Hi Nicholas,<div><br></div><div>It seems that the fif files lacks some information that FieldTrip assumes to be present. I would say that this can only be caused by the fact that the version of mne_make_source_space you used does not write the triangle area information into the fif file. Could you go to <a href="http://bugzilla.fcdonders.nl/" target="_blank">bugzilla.fcdonders.nl</a>, create yourself an account, and file the issue as a bug? Please then also upload the fif-file you mentioned. I'll have a look at it and make the ft_read_headshape function more robust. In the mean time you could comment out line 421. </div>
<div><br></div><div>Best,</div><div>Jan-Mathijs</div><div><br></div><div><br></div><div><br><div><div><div><div>On Dec 10, 2013, at 6:23 PM, Nicholas Heugel wrote:</div><br></div></div><blockquote type="cite"><div>
<div><div dir="ltr">I a trying to go through the tutorial for the <ul style="padding:0px;margin:0px 0px 0px 1.5em;line-height:22px;list-style-type:square;color:rgb(99,140,156);font-family:Calibri,Geneva,Arial,Verdana,sans-serif;font-size:15px;text-align:justify">
<li style="padding:0px;margin:0px"><div style="padding:0px;margin:0px;color:rgb(0,0,0)"><a href="http://fieldtrip.fcdonders.nl/tutorial/minimumnormestimate" title="" style="padding:0px;margin:0px;color:rgb(0,136,204);text-decoration:none" target="_blank">Source reconstruction of event-related fields using minimum-norm estimate</a></div>
<div style="padding:0px;margin:0px;color:rgb(0,0,0)"><br></div><div style="padding:0px;margin:0px;color:rgb(0,0,0)">I am able to run everything up to the MNE with no problem, and it seems like the MNE portion works. But when I run the command <span style="background-color:rgb(247,249,250);font-family:Consolas,'Andale Mono',Menlo,Monaco,monospace;font-size:12px;white-space:pre-wrap">bnd = ft_read_headshape('Subject01-oct-6-src.fif', 'format', 'mne_source');</span></div>
<div style="padding:0px;margin:0px;color:rgb(0,0,0)"><span style="background-color:rgb(247,249,250);font-family:Consolas,'Andale Mono',Menlo,Monaco,monospace;font-size:12px;white-space:pre-wrap">and then plot it to visualize the source space. I get the error </span><span style="color:rgb(99,140,156)">Reference to non-existent field 'use_tri_area'.
Error in ft_read_headshape (line 421)
shape.area = [src(1).use_tri_area(:); src(2).use_tri_area(:)];</span></div> I have looked on this site and online and can't find an explanation of what is wrong or how to fix the problem. Any help would be appreciated. I am using an Anatomical MRI scan for the head model analysis, the skull is present and I manually am Identifying the fiducials. Also, a few steps earlier it had me check the white matter segmentation done by Freesurfer and that worked fine and what I get closely resembles the tutorial. So I think the problem is somewhere in the MNE I am just not sure where. Any help would be appreciated. Thank you for your time.<br>
</li></ul><div style="text-align:justify"><font color="#638c9c" face="Calibri, Geneva, Arial, Verdana, sans-serif"><span style="font-size:15px;line-height:22px">Nicholas</span></font></div></div></div></div>
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<div>Jan-Mathijs Schoffelen, MD PhD </div><div><br></div><div>Donders Institute for Brain, Cognition and Behaviour, <br>Centre for Cognitive Neuroimaging,<br>Radboud University Nijmegen, The Netherlands</div><div><br></div>
<div>Max Planck Institute for Psycholinguistics,</div><div>Nijmegen, The Netherlands</div><div><br></div><div><a href="mailto:J.Schoffelen@donders.ru.nl" target="_blank">J.Schoffelen@donders.ru.nl</a></div><div>Telephone: <a href="tel:%2B31-24-3614793" value="+31243614793" target="_blank">+31-24-3614793</a></div>
<div><br></div><div><a href="http://www.hettaligebrein.nl/" target="_blank">http://www.hettaligebrein.nl</a></div></div></span></div></span></div></span></div></span></div></span></div></span></div></span></div></span></span>
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text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; font-size: medium; "><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><span class="Apple-style-span" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; font-size: medium; "><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><span class="Apple-style-span" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-size: medium; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; "><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><div>Jan-Mathijs Schoffelen, MD PhD </div><div><br></div><div>Donders Institute for Brain, Cognition and Behaviour, <br>Centre for Cognitive Neuroimaging,<br>Radboud University Nijmegen, The Netherlands</div><div><br></div><div>Max Planck Institute for Psycholinguistics,</div><div>Nijmegen, The Netherlands</div><div><br></div><div><a href="mailto:J.Schoffelen@donders.ru.nl">J.Schoffelen@donders.ru.nl</a></div><div>Telephone: +31-24-3614793</div><div><br></div><div><a href="http://www.hettaligebrein.nl">http://www.hettaligebrein.nl</a></div></div></span></div></span></div></span></div></span></div></span></div></span></div></span></div></span></span>
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