Hi, I am trying to run the preborder.sh freesurfer pipline script, on the "bert" sample data that comes with Freesurfer.
Line 242 has the following command: caret_command -surface-border-landmark-identification $SPACE $VOLUME_ANATOMY $FIDUCIAL $INFLATED $VINFLATED $ELLIPSOID $TOPO $GEOGRAPHY_PAINT $GEOGRAPHY_PAINT Geography $SHAPE Depth $AREACOLOR $AREACOLOR $VOCAB $VOCAB "" $OUTBORDERPROJ "" $BORDERCOLOR When running, this translates to: caret_command -surface-border-landmark-identification 711-2C-111 CorpusCallosum.nii.gz deformed_Human.bert.L.Midthickness_711-2B.coord Human.bert.L.Inflated.73730.coord Human.bert.L.VeryInflated.73730.coord Human.bert.L.Ellipsoid.73730.coord Human.bert.L.CLOSED.73730.topo Human.bert.L.Initial.73730.paint Human.bert.L.Initial.73730.paint Geography Human.bert.L.Initial.73730.surface_shape Depth Human.bert.L.Initial.areacolor Human.bert.L.Initial.areacolor Human.bert.L.Initial.vocabulary Human.bert.L.Initial.vocabulary '' Human.bert.L.LANDMARKS.borderproj '' ForSPHERICAL.REGISTRATION_Human.Class3.bordercolor and results in the following error message: SURFACE BORDER LANDMARK IDENTIFICATION ERROR: Parameter named "Input Border Color File Name" is missing. Any ideas what is going wrong? Cheers, - C *************************************** Colin Davey Scientist Senior Software Engineer Electrical Geodesics, Inc. 1600 Millrace Dr. St 307 Eugene, OR 97403 Learn Boogie Woogie Piano http://www.ColinDavey.com/BoogieWoogie ***************************************
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