I have added-segid 222 fcseed-config -seg subj/mri/lh.perirhinal.nii.gz -segid 222 -fcname L_Perirhinal.dat -fsd rest -mean -cfg mean.L_Perirhinal.config -overwrite and runningselxavg3-sess -s subj_folder -a fc.rperiseed.surf.rhthis error is producedINFO: key nSliceGroups unrecognized, line 11, skipping ERROR: cannot find volume matching $SUBJ_DIR/subj/rest/001/R_Perirhinal.dat ERROR: loading nonpar reg $SUBJ_DIR/subj/rest/001/R_Perirhinal.dat ------------------------------------------ ERROR: fast_selxavg3() failed\n Thanks
Stefano ----Messaggio originale---- Da: std...@virgilio.it Data: 1-mag-2017 22.04 A: <freesurfer@nmr.mgh.harvard.edu> Ogg: [Freesurfer] R: R: R: Re: R: Re: Hipposubfields in FreeSuerferColorLUT.txt Dear list and Eugenio, I have run for each subject mri_label2vol --label SUBJ/label/rh.perirhinal_exvivo.thresh.label --regheader SUBJ/mri/norm.mgz --fill-ribbon --subject SUBJ --hemi rh --o SUBJ/mri/rh.perirhinal.nii.gz next, to use FS-FAST on perihrinal.nii.gz, I have run fcseed-config -seg SUBJ/mri/lh.perirhinal.nii.gz -fcname L_Perirhinal.dat -fsd rest -mean -cfg mean.L_Perirhinal.config This error occurs: ERROR: no segmentations IDs (-segid) or ROI (-roi) specified What's should I do? Thanks Stefano On Mon, 06 Feb 2017 13:59:38 -0800 Do you mean to use them as seeds in FSFAST? You'll need to map them into the conformed space using mri_label2vol with the --regheader option (see the --help); view the volume to make sure it looks ok. Then run fcseed-config specifying the volume with -seg and the code with segid ----Messaggio originale---- Da: std...@virgilio.it Data: 6-feb-2017 22.27 A: "Freesurfer support list"<freesurfer@nmr.mgh.harvard.edu> Ogg: [Freesurfer] R: Re: R: Re: Hipposubfields in FreeSuerferColorLUT.txt Thank you very much.Could you provide me any suggestion to extract CA1 left or CA1 right?And how can I use them in FAST? By codes?Regards,Stefano ----Messaggio originale---- Da: "Iglesias Gonzalez, Eugenio" <e.igles...@ucl.ac.uk> Data: 6-feb-2017 17.42 A: "std...@virgilio.it"<std...@virgilio.it>, "Freesurfer support list"<freesurfer@nmr.mgh.harvard.edu> Ogg: Re: [Freesurfer] R: Re: Hipposubfields in FreeSuerferColorLUT.txt You would extract CA1 left from lh.hippoSfLabels-T1.v10.mgz and CA1 right from rh.hippoSfLabels-T1.v10.mgz (assuming you’ve used T1s to segment the subfields). Cheers, /E Juan Eugenio Iglesias ERC Senior Research Fellow Translational Imaging Group University College London http://www.jeiglesias.com http://cmictig.cs.ucl.ac.uk/ On 6 Feb 2017, at 16:17, std...@virgilio.it wrote: Thanks Eugenio for your response. My apologies but this matter is unclear to me. If I would use results for FS-FAST how I can identify for example CA1 right from CA1 left? Additionally, for enthorinal which is the correct code in FAST? Stefano ----Messaggio originale---- Da: "Iglesias Gonzalez, Eugenio" <e.igles...@ucl.ac.uk> Data: 6-feb-2017 15.54 A: "std...@virgilio.it"<std...@virgilio.it>, "Freesurfer support list"<freesurfer@nmr.mgh.harvard.edu> Ogg: Re: [Freesurfer] Hipposubfields in FreeSuerferColorLUT.txt Ciao Stefano, The results for the left and right hippocampi are in different files, so there’s no ambiguity despite the fact that they indeed share the same label codes. Cheers, /Eugenio Juan Eugenio Iglesias ERC Senior Research Fellow Translational Imaging Group University College London http://www.jeiglesias.com http://cmictig.cs.ucl.ac.uk/ On 6 Feb 2017, at 13:18, std...@virgilio.it wrote: Hi list, within FreeSuerferColorLUT.txt, do the numbers between 200-226 descrived the hippo-subfield outputs? Additionally, how can I obtain separate right and left masks? Thanks Stefano _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer 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. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer 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.
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer 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.
