External Email - Use Caution
I receive this error when I try to run mri_sclimbic_seg in dev 2021 12 06
How can I fix this?
mri_sclimbic_seg --s 10105_S1200QUM/ --conform /usr/local/freesurfer/dev7/python/scripts/mri_sclimbic_seg --s 10105_S1200QUM/ --conform Excluding seg [853] Using CPU Using 1 thread(s) Loaded lookup table /usr/local/freesurfer/dev7/models/sclimbic.ctab Loaded population stats /usr/local/freesurfer/dev7/models/sclimbic.volstats.csv Segmentation fault
Victor Zeng Beth Israel Deaconess Medical Center Keshavan Lab --
Hard to say what is going wrong from that. Can you try removing the trailing "/" from the subject name? Also, do you need --conform? Often the recon-all output is already conformed, so --conformed is not usually needed. It would be interesting to know if this is making it fail.
On 12/6/2021 5:40 PM, Zeng, Victor (BIDMC - Keshavan - Psychiatry) wrote:
External Email - Use Caution
I receive this error when I try to run mri_sclimbic_seg in dev 2021 12 06
How can I fix this?
mri_sclimbic_seg --s 10105_S1200QUM/ --conform /usr/local/freesurfer/dev7/python/scripts/mri_sclimbic_seg --s 10105_S1200QUM/ --conform Excluding seg [853] Using CPU Using 1 thread(s) Loaded lookup table /usr/local/freesurfer/dev7/models/sclimbic.ctab Loaded population stats /usr/local/freesurfer/dev7/models/sclimbic.volstats.csv Segmentation fault
Victor Zeng Beth Israel Deaconess Medical Center Keshavan Lab --
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
External Email - Use Caution
Yup, it worked after removed the back slash.
Thanks,
Victor Zeng Beth Israel Deaconess Medical Center Keshavan Lab --
________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Douglas N. Greve dgreve@mgh.harvard.edu Sent: Friday, December 10, 2021 6:45 PM To: freesurfer@nmr.mgh.harvard.edu freesurfer@nmr.mgh.harvard.edu Subject: [External] Re: [Freesurfer] error in mri_sclimbic_seg
Hard to say what is going wrong from that. Can you try removing the trailing "/" from the subject name? Also, do you need --conform? Often the recon-all output is already conformed, so --conformed is not usually needed. It would be interesting to know if this is making it fail.
On 12/6/2021 5:40 PM, Zeng, Victor (BIDMC - Keshavan - Psychiatry) wrote:
External Email - Use Caution
I receive this error when I try to run mri_sclimbic_seg in dev 2021 12 06
How can I fix this?
mri_sclimbic_seg --s 10105_S1200QUM/ --conform /usr/local/freesurfer/dev7/python/scripts/mri_sclimbic_seg --s 10105_S1200QUM/ --conform Excluding seg [853] Using CPU Using 1 thread(s) Loaded lookup table /usr/local/freesurfer/dev7/models/sclimbic.ctab Loaded population stats /usr/local/freesurfer/dev7/models/sclimbic.volstats.csv Segmentation fault
Victor Zeng Beth Israel Deaconess Medical Center Keshavan Lab --
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freesurfer@nmr.mgh.harvard.edu
-
Douglas N. Greve -
Zeng, Victor (BIDMC - Keshavan - Psychiatry)