Sorry, it wasn't clear from the previous email whether the left hemi had completed or not. Can you please send me the recon-all log file? Cheers, /E
Juan Eugenio Iglesias Postdoctoral researcher BCBL www.jeiglesias.com www.bcbl.eu Legal disclaimer/Aviso legal/Lege-oharra: www.bcbl.eu/legal-disclaimer From: "Jiook Cha" <cha.ji...@gmail.com> To: "Eugenio Iglesias" <e.igles...@bcbl.eu> Cc: "iglesias" <igles...@nmr.mgh.harvard.edu>, "Freesurfer support list" <freesurfer@nmr.mgh.harvard.edu> Sent: Thursday, January 21, 2016 12:32:46 PM Subject: Re: HippocampalSubfields only generates lh Yes they were. On Jan 21, 2016, at 06:14, Eugenio Iglesias < e.igles...@bcbl.eu > wrote: Hi Jiook, the log file says that the analysis of the left side did complete. Were the output files written? Cheers, Eugenio Juan Eugenio Iglesias Postdoctoral researcher BCBL www.jeiglesias.com www.bcbl.eu Legal disclaimer/Aviso legal/Lege-oharra: www.bcbl.eu/legal-disclaimer From: "Jiook Cha" < cha.ji...@gmail.com > To: "iglesias" < igles...@nmr.mgh.harvard.edu > Cc: "Freesurfer support list" < freesurfer@nmr.mgh.harvard.edu > Sent: Wednesday, January 20, 2016 2:16:36 AM Subject: HippocampalSubfields only generates lh Hi Iglesias, I recently tried HippocampalSubfields in freesurfer 6.0. It only completed hippocampal segmentation for the left hemisphere, but not the right. Under scripts folder, recon-all.error says: /ifs/scratch/pimri/posnerlab/freesurfer_dev/freesurfer/bin/recon-all PWD /ifs/scratch/pimri/posnerlab/1anal/osa/fs2/B03/label CMD /ifs/scratch/pimri/posnerlab/freesurfer_dev/freesurfer/bin/segmentSF_T1.sh /ifs/scratch/pimri/posnerlab/freesurfer_dev/freesurfer/MCRv80 /ifs/scratch/pimri/posnerlab/freesurfer_dev/freesurfer B03 /ifs/scratch/pimri/posnerlab/1anal/osa/fs2 left So it seems as left hippocampus failed the pipeline didn’t try the right hippocampus. Attached is hippocampal-subfields-T1.log. Do you have any idea what’s happening here? Best, Jiook The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
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