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​Dear Doug:


I am trying to get a table containing pc1 values for each subject in a longitudinal study and failed to extract this. I use the code below:


long_mris_slopes --qdec ./qdec/long.qdec.table.2.dat --meas thickness --hemi lh --do-avg --do-rate --do-pc1 --do-spc --do-stack --do-label --time years --qcache fsaverage --sd /Users/richardaviv/Desktop/Longitudinal_FS --out-pc1 out-pc1.dat

It says 

long_mris_slopes: error: no such option: --out-pc1



However in the --help file it says:

Within-Subject Output:

    Pass these to overwrite the default names:


    --out-avg=OUT_AVG   filename to store temporal average in

                        <template>/stats/<OUT_AVG> (default:

                        long.<stats>.<meas>-avg.dat)

    --out-rate=OUT_RATE

                        filename to store rate in <template>/stats/<OUT_RATE>

                        (default: long.<stats>.<meas>-rate.dat)

    --out-pc1fit=OUT_PC1FIT

                        filename to store pct. change (to tp1fit) in

                        <template>/stats/<OUT_PC1FIT> (default:

                        long.<stats>.<meas>-pc1fit.dat)

    --out-pc1=OUT_PC1   filename to store pct. change (to tp1) in

                        <template>/stats/<OUT_PC1> (default:

                        long.<stats>.<meas>-pc1.dat)

    --out-spc=OUT_SPC   filename to store sym. pct. change in

                        <template>/stats/<OUT_SPC> (default:

                        long.<stats>.<meas>-spc.dat)

    --out-resid=OUT_RESID

                        filename to store residual in

                        <template>/stats/<OUT_RESID> (default:

                        long.<stats>.<meas>-resid<resid>.dat), requires

                        --resid <int>

    --out-stack=OUT_STACK

                        filename to store stacked measure file

                        <template>/stats/<OUT_STACK> (default:

                        long.<stats>.<meas>-stack.dat)


  Stacked Tables:

    To output tables with results from all subjects


    --stack-avg=STACK_AVG

                        full filename to stack temporal average tables

                        (default no stacking)

    --stack-rate=STACK_RATE

                        full filename to stack rate tables (default no

                        stacking)

    --stack-pc1fit=STACK_PC1FIT

                        full filename to stack pct. change to tp1fit tables

                        (default no stacking)

    --stack-pc1=STACK_PC1

                        full filename to stack pct. change to tp1 tables

                        (default no stacking)

    --stack-spc=STACK_SPC

                        full filename to stack sym. pct. tables (default no

                        stacking)

    --stack-resid=STACK_RESID

                        full filename to stack residual tables (default no

                        stacking)​



Am I writing the code wrong?? I never got any long.<stats>.<meas>-pc1.dat file in <template>/stats/ folder except bunch of mgh files in <template>/surf/ folder.


Thanks,


Anwar

--

Anwar S. Shatil

Research Assistant
Department of Medical Imaging
Sunnybrook Health Sciences Centre
Room AB204, 2075 Bayview Avenue
Toronto, ON M4N 3M5
Tel: 416.480.6100 ext. 89617
Email: anwar.shatil@sunnybrook.ca

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