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kmcgregor123456 / CVNRimagingCore

CVNR Imaging Core Issues List
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Tshift #47

Closed awoodbu closed 6 years ago

awoodbu commented 6 years ago

We are having issues running Tshift. We have different issues depending on the computer used (lens vs. ralph vs. qb1).

On lens and qb1, Tshift will not run (per our earlier discussion). On ralph, the script will run and create an appropriately titled Tshift file with what appears to be 350 volumes in Afni, but in Afni, opens up "empty image" and we cannot see anything.

Here are the error messages we received when running the script: slice time correction for MB rest fMRI data extract raw slicetime pattern extract final slicetime pattern transpose final slicetime pattern ./Tshift_volreg_rsfcMRI_AW.sh: line 33: 3dTshift: command not found finish slice time correction for MB task fMRI data motion correction with reference of the middle volume of rest data ./Tshift_volreg_rsfcMRI_AW.sh: line 37: 3dvolreg: command not found finish motion correction

kmcgregor123456 commented 6 years ago

this was the change in path for the symlinks...sorry