Bruce and Sebastian thank you very much.<div><br></div><div>I have checked the files but they are all wrong.</div><div><br></div><div>These are the image info:</div><div><br></div><div><div>data_type &nbsp; &nbsp; &nbsp;FLOAT32</div><div>dim1 &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; 280</div><div>dim2 &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; 240</div><div>dim3 &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; 240</div><div>dim4 &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; 1</div><div>datatype &nbsp; &nbsp; &nbsp; 16</div><div>pixdim1 &nbsp; &nbsp; &nbsp; &nbsp;0.5999984741</div><div>pixdim2 &nbsp; &nbsp; &nbsp; &nbsp;1.0416666269</div><div>pixdim3 &nbsp; &nbsp; &nbsp; &nbsp;1.0416666269</div><div>pixdim4 &nbsp; &nbsp; &nbsp; &nbsp;0.0000000000</div><div>cal_max &nbsp; &nbsp; &nbsp; &nbsp;0.0000</div><div>cal_min &nbsp; &nbsp; &nbsp; &nbsp;0.0000</div><div>file_type &nbsp; &nbsp; &nbsp;NIFTI-1+</div><div><br></div><div>Waiting for your feedback.</div><div><br></div><div>Thank you very much.</div><div><br></div><div><br></div><div>Stefano</div><div><br></div><div><br></div>
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----Messaggio originale----<br>Da: sebastian.moeller1@rwth-aachen.de<br>Data: 26-mag-2013 21.31<br>A: "Bruce Fischl"&lt;fischl@nmr.mgh.harvard.edu&gt;<br>Cc: &lt;stdp82@virgilio.it&gt;, &lt;freesurfer@nmr.mgh.harvard.edu&gt;<br>Ogg: Re: [Freesurfer] very slow analysis with recon-all<br><br>Hi Stefano, hi Bruce,<br><br>sorry to partly high-jack your thread Stafano. In my experience with NHPs I often encounter problems like included cerebellum, so I routinely check the filled.mgz before actually running the surface recon, to confirm that the cerebellum (or other non-white matter) is NOT part of either hemisphere. (In my cases typically I then have to either edit the wm.mgz, the brain mask, or the pons cutting plane, but I guess that is NHP specific).<br>	Now wouldn't that filled.mgz check not also work for human recons?<br><br>best<br>	Sebastian<br><br><br>On May 26, 2013, at 21:13 , Bruce Fischl wrote:<br><br>&gt; Hi Stefano<br>&gt; <br>&gt; a defect with over 60K vertices is more than 1/2 the size of a typical hemisphere, so something has gone badly wrong. Have you checked the skull stripping? The aseg? The talairach? There shouldn't be a defect that big - you will need to figure out why<br>&gt; <br>&gt; cheers<br>&gt; Bruce<br>&gt; On Sun, 26 May 2013, stdp82@virgilio.it wrote:<br>&gt; <br>&gt;&gt; Hi list,<br>&gt;&gt; I'm running recon-all on two T1 but the command is for two days<br>&gt;&gt; on CORRECTING DEFECT 11 (vertices=55538, convex hull=7811).<br>&gt;&gt; Is it ok? What's happen?<br>&gt;&gt; Thanks,<br>&gt;&gt; Stefano<br>&gt;&gt; <br>&gt; _______________________________________________<br>&gt; Freesurfer mailing list<br>&gt; Freesurfer@nmr.mgh.harvard.edu<br>&gt; https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer<br>&gt; <br>&gt; <br>&gt; The information in this e-mail is intended only for the person to whom it is<br>&gt; addressed. If you believe this e-mail was sent to you in error and the e-mail<br>&gt; contains patient information, please contact the Partners Compliance HelpLine at<br>&gt; http://www.partners.org/complianceline . If the e-mail was sent to you in error<br>&gt; but does not contain patient information, please contact the sender and properly<br>&gt; dispose of the e-mail.<br><br><br><br>
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