Dear all,
I have preprocessed my data using Freesurfer v5.2. I have checked the the recon-all.log for each subject to make sure that the process completed without error and that all the appropriate files were created. I have also visually inspected each image. However, when I run recon checker (from freesurfer QA tools) I receive the following error for all of my subjects: 'actual file order disagrees with common file order'. Is this a bug or do I need to re-run the preprocessing again from scratch? If I need to re-run, is there a way to ensure that this won't happen again?
Kind regards,
Sinead
Hi Sinead, In short, it is most likely a bug. I think the current version of the QA tools scripts expects a 5.1 recon-all stream, so the output order of files being slightly different in 5.2/5.3 causes this error/warning to appear. In the future you should just run QA tools with the -snaps-only flag. -Louis
On Wed, 4 Sep 2013, Sinead Kelly wrote:
Dear all, I have preprocessed my data using Freesurfer v5.2. I have checked the the recon-all.log for each subject to make sure that the process completed without error and that all the appropriate files were created. I have also visually inspected each image. However, when I run recon checker (from freesurfer QA tools) I receive the following error for all of my subjects: 'actual file order disagrees with common file order'. Is this a bug or do I need to re-run the preprocessing again from scratch? If I need to re-run, is there a way to ensure that this won't happen again?
Kind regards,
Sinead
-- Sinead Kelly Neuropsychiatric Genetics Group Trinity Centre St. James's Hospital Dublin 8
freesurfer@nmr.mgh.harvard.edu
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Louis Nicholas Vinke -
Sinead Kelly