Re: [Freesurfer] fsfast tkmedit-sess problem - Freesurfer

12 Apr 2005


      Yeah... I figured there might be minor differences... however, I've 
attached tutorial.jpg which is a picture from the fs-fast documentation 
that is says is the output of the command:
sliceview-sess -contrast omnibus -analysis sem_assoc -sf sessid -df sesspar 
-map fsig -slice mos -nohdr
and also myresult.jpg which is what I get from the same command, after 
having followed all the commands in the tutorial in sequence.  The other 
results like motion correction parameters/automatic registration/etc come 
up with similar numbers to theirs, though not exact which makes sense if 
the binaries have changed.  However these two pictures appear very different.
-Mike
At 12:39 PM 4/12/2005 -0400, Brian T. Quinn wrote:
...
hi Mike-
in response to your 2nd question, the manual was created a few years ago 
and the binaries have changed since then, so the images won't look exactly 
the same, but should not be drastically different.
thanks,
brian t. quinn
On Tue, 12 Apr 2005, Mike Angstadt wrote:
...
Hi,
        I've just started to look at fs-fast for analyzing data and was 
following along with the tutorial data using the fs-fast documentation 
from the website.  My problem arises when I try to view the data with tkmedit:
...
tkmedit-sess -sf sessid -df sesspar -a sem_assoc -c omnibus -map fsig

tkmedit-sess logfile is /data/freesurfer/scratch/bert/log/tkmedit-sess.log
INFO: Found session in: /data/freesurfer/Sessions//bert-functional
INFO: Found session in: /data/freesurfer/Sessions//bert-functional
ERROR: cannot find 
/data/freesurfer/scratch/bert//data/freesurfer/Sessions//bert-functional/bold/register.dat
I don't understand why it's adding the current directory to the beginning 
of the path where it should be looking for the register.dat file.  The 
path should just be 
/data/freesurfer/Sessions//bert-functional/bold/register.dat, where the 
registration file is located.
Any thoughts?
Also, as a side note... has the tutorial data been updated since the 
documentation was made?  Because following alone with exactly the 
commands given in the documentation does not yield the same visual 
results for me as the example images.
-Mike

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--
brian t. quinn