Script to (partially) convert TOPAS parameter files from v2.0 to v3.0

topas2to3

#!/bin/sh

# This script will (partially) convert TOPAS parameter files from v2.0 to v3.0.
# A backup of the original file is created with a .bak extension.
# WARNING: using this script twice on the same file will delete the backup file.

if [ "$#" -eq 0 ]; then
    echo "Usage: $0 filename"
fi

for file in "$@"; do
    sed -i.bak \
    -e 's,"G4Box","TsBox",g' \
    -e 's,"G4Tubs","TsCylinder",g' \
    -e 's,"G4Sphere","TsSphere",g' \
    -e 's,"Water","G4_WATER",g' \
    -e 's,"Flourine","Fluorine",g' \
    -e 's,"Dipole","DipoleMagnet",g' \
    -e 's,"Quadrupole","QuadrupoleMagnet",g' \
    -e 's,"\([A-Za-z0-9/][A-Za-z0-9/]*\)/PlusPhiSurface","\1/PhiPlusSurface",g' \
    -e 's,"\([A-Za-z0-9/][A-Za-z0-9/]*\)/MinusPhiSurface","\1/PhiMinusSurface",g' \
    -e 's,"\([A-Za-z0-9/][A-Za-z0-9/]*\)/PlusThetaSurface","\1/ThetaPlusSurface",g' \
    -e 's,"\([A-Za-z0-9/][A-Za-z0-9/]*\)/MinusThetaSurface","\1/ThetaMinusSurface",g' \
    -e 's,Ph/\([A-Za-z0-9/][A-Za-z0-9/]*\)/LamdaBins,Ph/\1/LambdaBins,g' \
    -e 's,Ge/\([A-Za-z0-9/][A-Za-z0-9/]*\)/HUtoMaterialConversionMethod,Ge/\1/ImagingToMaterialConverter,g' \
    -e 's,Ge/\([A-Za-z0-9/][A-Za-z0-9/]*\)/MagneticField,Ge/\1/Field,g' \
    -e 's,Ge/\([A-Za-z0-9/][A-Za-z0-9/]*\)/Strength,Ge/\1/MagneticFieldStrength,g' \
    -e 's,Ge/\([A-Za-z0-9/][A-Za-z0-9/]*\)/DirectionX,Ge/\1/MagneticFieldDirectionX,g' \
    -e 's,Ge/\([A-Za-z0-9/][A-Za-z0-9/]*\)/DirectionY,Ge/\1/MagneticFieldDirectionY,g' \
    -e 's,Ge/\([A-Za-z0-9/][A-Za-z0-9/]*\)/DirectionZ,Ge/\1/MagneticFieldDirectionZ,g' \
    -e 's,Ge/\([A-Za-z0-9/][A-Za-z0-9/]*\)/GradientX,Ge/\1/MagneticFieldGradientX,g' \
    -e 's,Ge/\([A-Za-z0-9/][A-Za-z0-9/]*\)/GradientY,Ge/\1/MagneticFieldGradientY,g' \
    -e 's,Ge/\([A-Za-z0-9/][A-Za-z0-9/]*\)/3DTable,Ge/\1/MagneticField3DTable,g' \
    -e 's,Ge/\([A-Za-z0-9/][A-Za-z0-9/]*\)/Stepper,Ge/\1/FieldStepper,g' \
    -e 's,Ge/\([A-Za-z0-9/][A-Za-z0-9/]*\)/StepMinimum,Ge/\1/FieldStepMinimum,g' \
    -e 's,Ge/\([A-Za-z0-9/][A-Za-z0-9/]*\)/DeltaChord,Ge/\1/FieldDeltaChord,g' \
    -e 's,Sc/\([A-Za-z0-9/][A-Za-z0-9/]*\)/PhaseSpaceBufferSize,Sc/\1/OutputBufferSize,g' \
    -e 's,So/\([A-Za-z0-9/][A-Za-z0-9/]*\)/BeamXYDistribution,So/\1/BeamPositionDistribution,g' \
    -e 's,So/\([A-Za-z0-9/][A-Za-z0-9/]*\)/BeamShape,So/\1/BeamPositionCutoffShape,g' \
    -e 's,So/\([A-Za-z0-9/][A-Za-z0-9/]*\)/BeamHWX,So/\1/BeamPositionCutoffX,g' \
    -e 's,So/\([A-Za-z0-9/][A-Za-z0-9/]*\)/BeamHWY,So/\1/BeamPositionCutoffY,g' \
    -e 's,So/\([A-Za-z0-9/][A-Za-z0-9/]*\)/BeamStandardDeviationX,So/\1/BeamPositionSpreadX,g' \
    -e 's,So/\([A-Za-z0-9/][A-Za-z0-9/]*\)/BeamStandardDeviationY,So/\1/BeamPositionSpreadY,g' \
    "$file"

    # remove backup if no modifications
    diff -q "$file" "${file}.bak" > /dev/null 2>&1
    if [ $? -eq 0 ]; then
        rm "${file}.bak"
    fi
done

Also need
Stepper->MagneticFieldStepper
StepMinimum->MagneticFieldStepMinimum
DeltaChord->MagneticFieldDeltaChord

Attaching new version to the git issue

You should be able to directly edit this gist document. Better to keep everything in one place.