help > RE: BrainAligner : displacement field
Aug 8, 2011  03:08 PM | Thomas Templier
RE: BrainAligner : displacement field
Hello Hanchuan,

thank you for the update. Unfortunately, I can't make it work properly. I would like to obtain the displacement field for the global transformation and then for the warping. In both cases I get the normal outputs but I fail having the DF as output.

This sentence in the help bothers me :
Note: specify -t will disable -F even -F is specified.
It means that the only way to have the DF is to omit -t, and give the input and output landmarks to compute the DF. If I omit -t like this :
./BA -s subject.tif -L landmarks_target.csv -l landmarks_subject -B 1024 -H 2 -c 1 -w 10 -o output.tif -F DF.raw
then I have the message :
You have not specified the target image. Do nothing.
If I omit -t and -s, I have the message :
You have not specified the subject image or the outpuf image. Do nothing.
I've also tried this without success :
./BA -t target.tif -s subject.tif -L landmarks_target.csv -B 1024 -H 2 -c 1 -w 10 -o output.tif -F DF.raw

Secondly, if I run BA with the same parameters as I did before, everything works well but I get the weird warning :
The data is not with a TIF surfix, -- now this program assumes it is RAW format defined by Hanchuan Peng.

Let me know if you need some logs.
Thank you.
Best Regards


Thomas
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Thomas Templier Jul 10, 2011
Hanchuan Peng Jul 11, 2011
Thomas Templier Jul 12, 2011
Hanchuan Peng Jul 13, 2011
Thomas Templier Aug 5, 2011
Hanchuan Peng Aug 6, 2011
RE: BrainAligner : displacement field
 Thomas Templier Aug 8, 2011
Hanchuan Peng Aug 8, 2011
Thomas Templier Aug 8, 2011
Hanchuan Peng Aug 9, 2011
Thomas Templier Aug 9, 2011