Hi Bruce et al.,
I have a problem with the -hippo-subfields segmentation not creating some files for the left side when I run it on our Linux box located at the Martinos Center, with Freesurfer sourced to /usr/local/freesurfer/nmr-stable51-env. Specifically, it runs to apparent completion and exits without error, but it does not create these three .mgz files: posterior_Left-Cerebral-Cortex.mgz posterior_Left-Cerebral-White-Matter.mgz posterior_Left-Hippocampus.mgz
All the other posterior_*.mgz files are created, however. It is only these same 3 that are missing every time. The hippo-subfields.log file also does not get created. This happens whether I run -hippo-subfields as part of the recon-all -all process, or as a stand-alone: recon-all -s mysubject -hippo-subfields
The Freesurfer build stamp is freesurfer-Linux-centos4_x86_64-stable-v5.1.0-20110514
If I copy the subject's directory over to my iMac (OS 10.6.8) which has its own standalone copy of Freesurfer 5.1 installed, and run the same command line there, it runs fine. All the files are created, including the hippo-subfields.log. The build stamp on the iMac is freesurfer-Darwin-leopard-i686-stable-pub-v5.1.0
Thank you, Inge