Hi,
Have a question regarding one subject I´m trying to run with recon-all. It´s been run successfully before. The Freesurfer version used is 4.0.4.
We discovered one subject having faults, and when checking recon-all-status.log, it is clear that -autorecon2 does not finish properly. The last entry is "ASeg Stats". The step "Cortical ribbon mask" is thus not included. The "recon-all finished with ERRORS" is not listed.
The last entry after -autorecon3 is "AParc-to-ASeg", "WMParc" is not finished.
The recon-all-status.log file is about 4.1 GB! Therefore difficult to scan the text, but an excerpt of something repeated is:
-------------------------------------------------------------------------- No such file or directory MRIScomputeWhiteVolume: src (11, 257, 296) maps to (345, 137, 147) - OOB No such file or directory MRIScomputeWhiteVolume: src (11, 257, 297) maps to (345, 137, 147) - OOB No such file or directory MRIScomputeWhiteVolume: src (11, 257, 298) maps to (345, 138, 147) - OOB No such file or directory MRIScomputeWhiteVolume: src (11, 257, 299) maps to (345, 138, 147) - OOB No such file or directory MRIScomputeWhiteVolume: src (11, 257, 300) maps to (345, 138, 147) - OOB No such file or directory --------------------------------------------------------------------------
Have tried to run it several times. Thankful for any suggestions on what to do!
Thanks!
Petr