Brainvoyager batch .vtc creation example.

bv_vtc_creation.js

// Batch script for VTC creation.
// From native functional data space to an anatomical data to ACPC and to TAL
//
// For more information, check the scripting guide:
// http://support.brainvoyager.com/automation-aamp-development/46-writing-scripts/133-scripting-reference-guide.html

var bvqx = BrainVoyagerQX;
bvqx.PrintToLog("---");

//----------------------------------------------------------------
// Enter the following values:
var OutDataPath = "/path/to/your/subject/";
var NumberOfRuns = 4;
var AnatomicalData = "/path/to/your/subject/S01_T1_TAL.vmr";

var IA_TRFList = ["/path/to/your/subject/S01_RUN_01-TO-T1_IA.trf"];
var FA_TRFList = ["/path/to/your/subject/S01_RUN_01-TO-T1_FA.trf"];
var ACPC_TRFList = ["/path/to/your/subject/S01_T1_ACPC.trf"];
var TAL_List = ["/path/to/your/subject/S01_T1_ACPC.tal"];

// fmr file names usually get quite long after preprocessing
var InFmrList = [
    "/path/to/your/subject/RUN_1/S01_RUN_01_SCSTBL_3DMCTS_LTR_THPGLMF6c_TDTS2.0dp.fmr",
    "/path/to/your/subject/RUN_2/S01_RUN_02_SCSTBL_3DMCTS_LTR_THPGLMF6c_TDTS2.0dp.fmr",
    "/path/to/your/subject/RUN_3/S01_RUN_03_SCSTBL_3DMCTS_LTR_THPGLMF6c_TDTS2.0dp.fmr",
    "/path/to/your/subject/RUN_4/S01_RUN_04_SCSTBL_3DMCTS_LTR_THPGLMF6c_TDTS2.0dp.fmr"];

// Output Talairach vtc file names
var OutVTCNameList = [
    "S01_run1.vtc",
    "S01_run2.vtc",
    "S01_run3.vtc",
    "S01_run4.vtc"];

//----------------------------------------------------------------

// Open an anatomical data
var docVMR = bvqx.OpenDocument(AnatomicalData);

// Specify bounding box for target VTC
docVMR.ExtendedTALSpaceForVTCCreation = true;  // optional
docVMR.UseBoundingBoxForVTCCreation = true; // optional
docVMR.TargetVTCBoundingBoxXStart = 120;
docVMR.TargetVTCBoundingBoxXEnd   = 390;
docVMR.TargetVTCBoundingBoxYStart = 220;
docVMR.TargetVTCBoundingBoxYEnd   = 370;
docVMR.TargetVTCBoundingBoxZStart = 110;
docVMR.TargetVTCBoundingBoxZEnd   = 360;

for(count = 1; count <= NumberOfRuns; count++){
    var InFmrPath = InFmrList[count-1];
    var OutVTCName = OutDataPath + OutVTCNameList[count-1];
    var IA_Path = IA_TRFList[0];
    var FA_Path = FA_TRFList[0];

    // Create VTC from FMR in TAL Space
    docVMR.CreateVTCInTALSpace(InFmrPath,
                                IA_Path,  // IA.trf
                                FA_Path,  // FA.trf
                                ACPC_TRFList[0],  // *_ACPC.trf
                                TAL_List[0],  // *.tal
                                OutVTCName,  // output name
                                2,   // datatype integer 2-byte format:1 or float format:2
                                2,   // target resolution 1x1x1:1 or 2x2x2:2 or 3x3x3:3
                                2,   // nearest neighbour:0 or trilinear:1 or sinc:2
                                100  // threshold(Default value:100)
                                );

    bvqx.PrintToLog(OutVTCName + " is done.");
};

bvqx.PrintToLog("Finished.");