Process to interface freesurfer command lines: here you launch the recon-all command with or without option just by selecting the subject with the AnatImage parameter.
AnatImage: RawFreesurferAnat ( input )Select a T1 MRI.
database: Directory ( input )
subject: String ( input )
force_fov_to_256: Boolean ( input )
qcache_for_group_analysis: Boolean ( input )
add_other_options: String ( optional, input )
nu: Nu FreesurferAnat ( output )
ribbon: Ribbon Freesurfer ( output )
leftPial: BaseFreesurferType ( output )Hidden parameter.
leftWhite: BaseFreesurferType ( output )Hidden parameter.
leftSphereReg: BaseFreesurferType ( output )Hidden parameter.
leftThickness: BaseFreesurferType ( output )Hidden parameter.
leftCurv: BaseFreesurferType ( output )Hidden parameter.
leftAvgCurv: BaseFreesurferType ( output )Hidden parameter.
leftCurvPial: BaseFreesurferType ( output )Hidden parameter.
leftGyri: FreesurferGyriTexture ( output )Hidden parameter.
leftSulciGyri: FreesurferSulciGyriTexture ( output )Hidden parameter.
rightPial: BaseFreesurferType ( output )Hidden parameter.
rightWhite: BaseFreesurferType ( output )Hidden parameter.
rightSphereReg: BaseFreesurferType ( output )Hidden parameter.
rightThickness: BaseFreesurferType ( output )Hidden parameter.
rightCurv: BaseFreesurferType ( output )Hidden parameter.
rightAvgCurv: BaseFreesurferType ( output )Hidden parameter.
rightCurvPial: BaseFreesurferType ( output )Hidden parameter.
rightGyri: FreesurferGyriTexture ( output )Hidden parameter.
rightSulciGyri: FreesurferSulciGyriTexture ( output )Hidden parameter.
Toolbox : Freesurfer
User level : 1
Identifier :
freesurferPipeline
File name :
brainvisa/toolboxes/freesurfer/processes/Tools/freesurferPipeline.py
Supported file formats :
AnatImage :FreesurferMGZ, FreesurferMGZdatabase :Directory, Directorynu :FreesurferMGZ, FreesurferMGZribbon :FreesurferMGZ, FreesurferMGZleftPial :FreesurferPial, FreesurferPialleftWhite :FreesurferWhite, FreesurferWhiteleftSphereReg :FreesurferSphereReg, FreesurferSphereRegleftThickness :FreesurferThickness, FreesurferThicknessleftCurv :FreesurferCurv, FreesurferCurvleftAvgCurv :FreesurferAvgCurv, FreesurferAvgCurvleftCurvPial :FreesurferCurvPial, FreesurferCurvPialleftGyri :FreesurferParcellation, FreesurferParcellationleftSulciGyri :FreesurferParcellation, FreesurferParcellationrightPial :FreesurferPial, FreesurferPialrightWhite :FreesurferWhite, FreesurferWhiterightSphereReg :FreesurferSphereReg, FreesurferSphereRegrightThickness :FreesurferThickness, FreesurferThicknessrightCurv :FreesurferCurv, FreesurferCurvrightAvgCurv :FreesurferAvgCurv, FreesurferAvgCurvrightCurvPial :FreesurferCurvPial, FreesurferCurvPialrightGyri :FreesurferParcellation, FreesurferParcellationrightSulciGyri :FreesurferParcellation, FreesurferParcellation