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Hi Tim,

Thank you for your reply. Yes, the fsaverage4 folder has been copied from $FREESURFER_HOME/subjects to $SUBJECTS_DIR. But it didn't work. Do you have any other idea?

Chenfei ------------------ 原始邮件 ------------------ 发件人: "Tim Schäfer"ts+ml@rcmd.org; 发送时间: 2019年3月3日(星期天) 晚上11:15 收件人: "Freesurfer support list"freesurfer@nmr.mgh.harvard.edu;

主题: Re: [Freesurfer] unable to map surface to fsaverage4

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Dear Chenfei,

To successfully use the 'recon-all -qcache' command you listed, you would need to have the fsaverage4 subject in your $SUBJECTS_DIR. Did you copy it there before running the command? You can find it in $FREESURFER_HOME/subjects/fsaverage4.

Best,

Tim

On March 2, 2019 at 2:57 PM Chenfei YE chenfei.ye@foxmail.com wrote:

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Hi,

I'm following the process described in https://www.cloudneuro.org/ to predict age based on cortical thickness of an individual brain. I cannot map surface to the fsaverage4 template by the 2nd command: recon-all -s subject.id -qcache -target fsaverage4The error was shown like mri_surf2surf: could not read su​rface ./test2/surf/lh.fsaverage4.sphere.regNo such file or directory

I tried to change the 1st command like: recon-all -i input_image -s subject.id -all -target fsavearge4But still the same error.

My FreeSurfer version is 6.0.0. Maybe that's why I cannot successfully run the code in https://www.cloudneuro.org/. But is there any way to solve this problem? Thank you.

Chenfei_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

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Yes, it solved my problem. Thank you Greve. Hope next FS version will fix this bug.

Best, Chenfei

------------------ 原始邮件 ------------------ 发件人: "Greve, Douglas N.,Ph.D."DGREVE@mgh.harvard.edu; 发送时间: 2019年3月7日(星期四) 凌晨2:30 收件人: "freesurfer@nmr.mgh.harvard.edu"freesurfer@nmr.mgh.harvard.edu;

主题: Re: [Freesurfer] unable to map surface to fsaverage4

This is a bug in mris_preproc. I have created a new version here https://gate.nmr.mgh.harvard.edu/safelinks/greve/mris_preproc Copy this to $FREESURFER_HOME/bin (after making a backup of the one that is there) let us know if this works

On 3/2/19 8:57 AM, Chenfei YE wrote:

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Hi,

I'm following the process described in https://www.cloudneuro.org/ to predict age based on cortical thickness of an individual brain. I cannot map surface to the fsaverage4 template by the 2nd command:

recon-all -s subject.id -qcache -target fsaverage4

The error was shown like

mri_surf2surf: could not read su​rface
./test2/surf/lh.fsaverage4.sphere.reg

No such file or directory

I tried to change the 1st command like:

recon-all -i input_image -s subject.id -all -target fsavearge4

But still the same error.

My FreeSurfer version is 6.0.0. Maybe that's why I cannot successfully run the code in https://www.cloudneuro.org/. But is there any way to solve this problem? Thank you.

Chenfei

---

Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

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