Hi,
I've been running into a problem when trying to run a group analysis. When I go to run isxconcat-sess, I use this command:
isxconcat-sess -sf hc.txt -df sesspar -analysis Ext -c CS+lvsCS-l - percent -o ./HC-Ext-083109 -hemis -trgsubject fsaverage
It runs through the whole isxconcat without stopping, and there appears to be the normal outputs. However, when I scroll through the text in the terminal window, the following error appears repeatedly (I think once for every subject, possibly for each hemi of each subject):
Reading source surface registration /autofs/space/dinah_001/users/balaji/SUBJECTS_DIR/subjects/ ext005_anat/surf/lh.sphere.reg Done loading source registration surface Reading target registration /autofs/space/dinah_001/users/balaji/SUBJECTS_DIR/subjects/ fsaverage/surf/lh.sphere.reg ERROR: could not find volume /autofs/space/dinah_001/users/balaji/ SUBJECTS_DIR/subjects/fsaverage/surf/../mri/orig. Does it exist? Done loading target registration surface Mapping Surfaces (ext005_anat -> fsaverage)
When I go to fsaverage's folder, the orig.mgz file does exist, but for some reason, it looks like it's trying to direct it into the surf folder and then back out and into the mri folder and having trouble for some reason. When I try to type in the cd command as it appears (with the /../), it does take me to the mri folder where orig.mgz is stored, so I'm not sure why I get the error.
I run into trouble after I run mri_glmfit, when I go to run surf- sess. I get the error:
grep: /autofs/space/ricki_001/users/brittany/ext_fmri/HC-Ext-083109/ session.info: No such file or directory ERROR: cannot find /autofs/space/ricki_001/users/brittany/ext_fmri/HC- Ext-083109/ext/register.dat
and then it exits.
So for some reason, it looks like, even though isxconcat and mri_glmfit run and give outputs, they aren't registering to fsaverage somewhere along the way and are therefore not giving all of the outputs I need. Any idea of what I need to do?
Thanks!
Garth