Hi all,
We are trying to run exactly the same analysis, particularly the recon-all command, from two different directories. We've found that both directories have '/fsaverage' but that they are sourcing two different links/paths. Why is this and is there a difference in how analysis will be run/processed? The two directories in question are :
/autofs/cluster/ablood/1/miriam/SD_recons AND /autofs/cluster/ablood/1/R01_Botox/R01BTX_recons
We have been running everything in /R01BTX_recons, so we want this to be the model.
I found out that: /autofs/cluster/ablood/1/miriam/SD_recons
already has an fsaverage directory
The difference between the fsaverage directories in /autofs/cluster/ablood/1/miriam/SD_recons AND /autofs/cluster/ablood/1/R01_Botox/R01BTX_recons
Are the following: fsaverage in /autofs/cluster/ablood/1/miriam/SD_recons points to: fsaverage -> /usr/local/freesurfer/stable5_1_0/subjects/fsaverage
and more specifically when I cd fsaverage from /autofs/cluster/ablood/1/miriam/SD_recons the pwd is: /autofs/cluster/freesurfer/centos4.0_x86_64/stable5_1_0/subjects/fsaverage
Whereas: fsaverage in /autofs/cluster/ablood/1/R01_Botox/R01BTX_recons points to: fsaverage -> /usr/local/freesurfer/stable5/subjects/fsaverage
and more specifically when I cd fsaverage from /autofs/cluster/ablood/1/R01_Botox/R01BTX_recons the pwd is: /autofs/cluster/freesurfer/centos4.0_x86_64/stable5/subjects/fsaverage
Not sure if: 1. there is a significant difference between these fsaverages and if we need to be using exactly the same fsaverage in /autofs/cluster/ablood/1/miriam/SD_recons as in /autofs/cluster/ablood/1/R01_Botox/R01BTX_recons?
Thank you!
Sandra