Dear FreeSurfer Developers,
I've run the longitudinal hippocampal subfield pipeline using the following command on freesurfer version 6.0:
longHippoSubfieldsT1.sh PAWS001_base_FS
I received no errors and everything seems to have run fine. But on computing the subfields using the following command:
quantifyHippocampalSubfields.sh
T1.long PAWS_longitudinalhipsubfields.txt
I noticed that all of subfields have negative volume values. I checked the individual text files within each subject's timepoint and indeed the output is showing negative volumes as shown below:
I noticed that all of subfields have negative volume values. I checked the individual text files within each subject's timepoint and indeed the output is showing negative volumes as shown below:
I have also tested the same subject and run the cross-sectional hippocampal subfield pipeline using the following command:
recon-all -s PAWS001_TP1_FS -hippocampal-subfields-T1
I received the following output with volumes:
I'm really not sure why the longitudinal pipeline is showing negative values. Could it be a Freesurfer version issue? Am I doing something wrong? It is especially mind-boggling since I receive no error and the command is running smoothly! Please help.
Thank you so much!!
Best regards,
Ashwati
