Realized in my tooling around I had flipped T1 and hippoSf in my command. Here is how the adjustment needs to be made for:
quantifyHAsubregions.sh hippoSf <T1>-<analysisID> <output_file> <OPTIONAL_SUBJECTS_DIR> leftVolFile="$resultsDirectory/$subjectName/mri/lh.${*prefix*}Volumes-${*suffix*}.v20.txt" rightVolFile="$resultsDirectory/$subjectName/mri/rh.${*prefix*}Volumes-${*suffix*}.v20.txt" On Tue, Sep 19, 2017 at 9:23 AM, Josh Gray <jgray7...@gmail.com> wrote: > Hello, > > I found a small bug in recent dev version bin quantifyHAsubregions.sh: > leftVolFile="$resultsDirectory/$subjectName/mri/lh.${suffix}Volumes-${ > suffix}.v20.txt" > rightVolFile="$resultsDirectory/$subjectName/mri/rh.${suffix}Volumes-${ > suffix}.v20.txt" > > > Should say > leftVolFile="$resultsDirectory/$subjectName/mri/lh.${suffix}Volumes-${ > *prefix*}.v20.txt" > rightVolFile="$resultsDirectory/$subjectName/mri/rh.${suffix}Volumes-${ > *prefix*}.v20.txt" > > > because as specified "T1" is the ${prefix} which is how the subfields file > names end. Obviously, can flip suffix and prefix throughout so it is more > intuitive. Seems to work fine after this adjustment. > > Josh > -- > Joshua C. Gray, PhD > Psychology Instructor > Center for Deployment Psychology > Work: (301) 816-4768 > www.deploymentpsych.org > -- Joshua C. Gray, PhD Psychology Instructor Center for Deployment Psychology Work: (301) 816-4768 www.deploymentpsych.org
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