2011/8/11 Myriam Siefert <myriamsiefert@gmail.com>

Hi Nick,
I just would like to make sure that you had received my data, otherwise I can send it again possibly by another mean if better.
Thanks a lot for your help
Sincerely,
Myriam

2011/8/10 Myriam Siefert <myriamsiefert@gmail.com>
Hi Bruce and Nick,
Thank you so much for taking a look!
Right now I'm uploading the set on the anonymous ftp server (ftp://surfer.nmr.mgh.harvard.edu/transfer/incoming) : talairach_issue.zip. It should appear to you in about 1 hour.
It contains 2 versions of the same subject, the only difference is that OK-J-20bis was run with the -use-mritotal flag.
Please let me know if there's any problem with the upload or if you need anything else.
Sincerely,
Myriam

2011/8/10 Bruce Fischl <fischl@nmr.mgh.harvard.edu>

Hi Myriam
Could you send nick a dataset so he can take a look?
Thanks
Bruce

On Aug 10, 2011, at 10:24 AM, Myriam Siefert <myriamsiefert@gmail.com> wrote:

Hi freesurfers,

I'm currently re-processing with FS5.1 some data that i had already processed with FS5.0 and am experiencing some unexpected issues with the linear talairach transform.

- While manually checking with Tkregister, I noticed that some off the subjects had quite unsatisfying transforms , while no talairach failure was detected on the log
- The transforms looked ok for those subjects in FS 5.0
- I re-run autorecon1 using the -use-mritotal flag
- While still no error in the log file, the transforms usually then look acceptable in Tkregister but completely wrong when talairach.xfm is loaded in tkmedit : transformation in the top or bottom left corners, coronal and transversal views interverted, sagittal views rotated by 90 degrees...
This happens for a few (not all) of the subjects that I've re-processed with FS5.1 so far.

I'm probably doing something wrong but can't figure out what nor what to do about it.
Any advice would be highly appreciated.

Thanks in advance

Myriam Siefert, MD, MS candidate
Visiting scholar in SACNlab Northwestern University

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