Hi Bruce,
The command that we ran is recon-all.
Below is the error msg:
mri_label2label --srcsubject fsaverage --srclabel /export/data/hippocampus/HMN/data/fsaverage/label/lh.BA2.label --trgsubject HMN122 --trglabel ./lh.BA2.label --hemi lh --regmethod surface
No such file or directory mri_label2label: could not open label file /export/data/hippocampus/HMN/data/fsaverage/label/lh.BA2.label
srclabel = /export/data/hippocampus/HMN/data/fsaverage/label/lh.BA2.label srcsubject = fsaverage trgsubject = HMN122 trglabel = ./lh.BA2.label regmethod = surface
srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0
SUBJECTS_DIR /export/data/hippocampus/HMN/data FREESURFER_HOME /cell_root/software/freesurfer/current/sys Loading source label. Invalid argument ERROR reading /export/data/hippocampus/HMN/data/fsaverage/label/lh.BA2.label Linux hippocampus.umd.edu 2.6.32-573.12.1.el6.x86_64 #1 SMP Mon Nov 23 12:55:32 EST 2015 x86_64 x86_64 x86_64 GNU/Linux
recon-all -s HMN122 exited with ERRORS at Tue Feb 23 16:40:01 EST 2016
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Hi Fengji
you need to give us more details about the problems before we can help
you. What commands failed? What was the screen output?
Note that there is still no such thing as FS 6.0. We are hoping to have it
in the relatively near term, but it doesn't exist yet.
cheers
Bruce
On Tue, 1 Mar 2016,
Fengji Geng wrote:
Dear fs developers,?
we are attempting to use the stable version of fs 5.1 for processing while
also using the most current version for hippocampal segmentation on the same
set of subjects (freesurfer 6.0 dev version on 28-Jan-2016). However, when
the develop version of fs 6 was installed, we began having an issue with the
fsaverage folder linking to the newest version, when we need it to link to
version 5.1 during processing. The label files that we need for processing
in version 5.1 are not accessible in the new version?s fsaverage
folder.?However, before we updated to fs 6.0 dev version on 28-Jan-2016, we
never had this issue. So, we are wondering if the newest develop version of
fs 6.0 does not allow?two versions of fs to be used in the same data.?
Looking forward to hearing from you and thanks in advance.
Best,
----- Fengji
--- Fengji