Yes they were.

On Jan 21, 2016, at 06:14, Eugenio Iglesias e.iglesias@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.jiook@gmail.com To: "iglesias" iglesias@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.

Attached is recon-all.log file.

Best,

Jiook

On 2016. 1. 21., at 오전 6:35, Eugenio Iglesias e.iglesias@bcbl.eu wrote:

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.jiook@gmail.com To: "Eugenio Iglesias" e.iglesias@bcbl.eu Cc: "iglesias" iglesias@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.iglesias@bcbl.eu mailto:e.iglesias@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 http://www.jeiglesias.com/ www.bcbl.eu http://www.bcbl.eu/

Legal disclaimer/Aviso legal/Lege-oharra: www.bcbl.eu/legal-disclaimer http://www.bcbl.eu/legal-disclaimer

From: "Jiook Cha" <cha.jiook@gmail.com mailto:cha.jiook@gmail.com> To: "iglesias" <iglesias@nmr.mgh.harvard.edu mailto:iglesias@nmr.mgh.harvard.edu> Cc: "Freesurfer support list" <freesurfer@nmr.mgh.harvard.edu mailto: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 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.