Last login: Thu Oct 20 13:45:04 on ttys008
-------- freesurfer-Darwin-lion-stable-pub-v5.3.0 --------
Setting up environment for FreeSurfer/FS-FAST (and FSL)
FREESURFER_HOME   /Applications/freesurfer
FSFAST_HOME       /Applications/freesurfer/fsfast
FSF_OUTPUT_FORMAT nii.gz
SUBJECTS_DIR      /Applications/freesurfer/subjects
MNI_DIR           /Applications/freesurfer/mni
FSL_DIR           /usr/local/fsl
hippocapussimac:~ hippocampus$ cd /Applications/freesurfer/subjects 
hippocapussimac:subjects hippocampus$ export SUBJECTS_DIR=/Applications/freesurfer/subjects 
hippocapussimac:subjects hippocampus$ echo $SUBJECTS_DIR
/Applications/freesurfer/subjects
hippocapussimac:subjects hippocampus$ long_mris_slopes --qdec /Applications/freesurfer/subjects/long.qdec.respsex.table.dat --meas thickness --hemi lh --do-avg --do-rate --do-pc1 --do-spc --do-stack --do-label --time days --qcache fsaverage --sd $SUBJECTS_DIR
Parsing the qdec table: /Applications/freesurfer/subjects/long.qdec.respsex.table.dat
ERROR: qdec table /Applications/freesurfer/subjects/long.qdec.respsex.table.dat not found or empty?
hippocapussimac:subjects hippocampus$ long_mris_slopes --qdec /long.qdec.respsex.table.dat --meas thickness --hemi lh --do-avg --do-rate --do-pc1 --do-spc --do-stack --do-label --time days --qcache fsaverage --sd $SUBJECTS_DIR
Parsing the qdec table: /long.qdec.respsex.table.dat
ERROR: qdec table /long.qdec.respsex.table.dat not found or empty?
hippocapussimac:subjects hippocampus$ long_mris_slopes --qdec long.qdec.respsex.table.dat --meas thickness --hemi lh --do-avg --do-rate --do-pc1 --do-spc --do-stack --do-label --time days --qcache fsaverage --sd $SUBJECTS_DIR
Parsing the qdec table: long.qdec.respsex.table.dat
ERROR: qdec table long.qdec.respsex.table.dat not found or empty?
hippocapussimac:subjects hippocampus$ #if I move it to a qdec folder within subjects
hippocapussimac:subjects hippocampus$ long_mris_slopes --qdec /Applications/freesurfer/subjects/qdec/long.qdec.respsex.table.dat --meas thickness --hemi lh --do-avg --do-rate --do-pc1 --do-spc --do-stack --do-label --time days --qcache fsaverage --sd $SUBJECTS_DIR
Parsing the qdec table: /Applications/freesurfer/subjects/qdec/long.qdec.respsex.table.dat
ERROR: qdec table /Applications/freesurfer/subjects/qdec/long.qdec.respsex.table.dat not found or empty?
hippocapussimac:subjects hippocampus$ long_mris_slopes --qdec /qdec/long.qdec.respsex.table.dat --meas thickness --hemi lh --do-avg --do-rate --do-pc1 --do-spc --do-stack --do-label --time days --qcache fsaverage --sd $SUBJECTS_DIR
Parsing the qdec table: /qdec/long.qdec.respsex.table.dat
ERROR: qdec table /qdec/long.qdec.respsex.table.dat not found or empty?
hippocapussimac:subjects hippocampus$ long_mris_slopes --qdec ./qdec/long.qdec.respsex.table.dat --meas thickness --hemi lh --do-avg --do-rate --do-pc1 --do-spc --do-stack --do-label --time days --qcache fsaverage --sd $SUBJECTS_DIR
Parsing the qdec table: ./qdec/long.qdec.respsex.table.dat
ERROR: qdec table ./qdec/long.qdec.respsex.table.dat not found or empty?
hippocapussimac:subjects hippocampus$ #if i change the long.qdec.respsex.table.dat to not include fsid
hippocapussimac:subjects hippocampus$ long_mris_slopes --qdec ./qdec/long.qdec.respsex.table.dat --meas thickness --hemi lh --do-avg --do-rate --do-pc1 --do-spc --do-stack --do-label --time days --qcache fsaverage --sd $SUBJECTS_DIR
Parsing the qdec table: ./qdec/long.qdec.respsex.table.dat

ERROR: qdec table missing correct column headers?
       Make sure first column is labeled 'fsid' for the time point and
       second column is 'fsid-base' to specify the subject tempate (base), e.g.:

 fsid    fsid-base   age 
 me1     me          22.3 
 me2     me          23.2 
 you1    you         21.6 
 you2    you         22.5