It looks like mri_ca_register failed to create the m3z. If this is failing on 13 subjects, then there is something systematically wrong. What kind of input do you have? Eg, MPRAGE? What is the resolution? Is it whole brain?

On 5/19/2020 11:17 AM, Safi Ullah . wrote:

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Dear Freesurfer,

Using Freesurfer version 7.1, I was running recon-all on 13 subjects, using the command below

ls *.nii | parallel -jobs 8 recon-all -s {.} -I {} -all –qcache

(also checked with this one find . -name '*.nii' | parallel -j 8 recon-all -s {.} -i {} -all -qcache)

but each time i face the same error as attached with the mail.

I checked the transformation folder, but the said file, talairach.m3z, is not there.

the error is not same for all cases, some cases showed a different errors, stating "IFLAG= -1 LINE SEARCH FAILED. SEE DOCUMENTATION OF ROUTINE MCSRCH ERROR RETURN OF LINE SEARCH:" as attached file recon-all(2nd type).log

Regards
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