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STYLE: Use CMAKE_PROJECT_NAME for setting command line package name
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Simon Rit authored and SimonRit committed Feb 19, 2025
1 parent be65a83 commit 18f08ec
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package "rtkadmmtotalvariation"
purpose "Performs an iterative 3D reconstruction with 3D TV regularization"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkadmmwavelets/rtkadmmwavelets.ggo
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package "rtkadmmwavelets"
purpose "Performs an iterative 3D reconstruction with Daubechies wavelets regularization"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkamsterdamshroud/rtkamsterdamshroud.ggo
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package "rtkamsterdamshroud"
purpose "Creates an Amsterdam Shroud image from a sequence of projections [Zijp et al, ICCR, 2004]."

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkbackprojections/rtkbackprojections.ggo
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package "rtkbackprojections"
purpose "Backprojects a volume according to a geometry file."

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkbioscangeometry/rtkbioscangeometry.ggo
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package "rtkbioscangeometry"
purpose "Creates an RTK geometry file from a sequence of x-ray projections of a Bioscan NanoSPECT/CT scanner."

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkcheckimagequality/rtkcheckimagequality.ggo
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package "rtkcheckimagequality"
purpose "Checks the MSE of a reconstructed image against a reference."

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkconjugategradient/rtkconjugategradient.ggo
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package "rtkconjugategradient"
purpose "Reconstructs a 3D volume from a sequence of projections with a conjugate gradient technique"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkdigisensgeometry/rtkdigisensgeometry.ggo
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package "rtkdigisensgeometry"
purpose "Creates an RTK geometry file from a Digisens geometry calibration."

option "verbose" v "Verbose execution" flag off
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package "rtkdrawgeometricphantom"
purpose "Computes a 3D voxelized phantom from a phantom description file"

option "verbose" v "Verbose execution" flag off
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package "rtkdrawshepploganphantom"
purpose "Computes a 3D voxelized Shepp & Logan phantom with noise [https://www.slaney.org/pct/pct-errata.html]"

option "verbose" v "Verbose execution" flag off
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package "rtkspectralforwardmodel"
purpose "Computes expected photon counts from incident spectrum, material attenuations, detector response and material-decomposed projections"

option "verbose" v "Verbose execution" flag off
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package "rtkdualenergysimplexdecomposition"
purpose "Decomposes dual energy projections into materials"

option "verbose" v "Verbose execution" flag off
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package "rtkelektasynergygeometry"
purpose "Creates an RTK geometry file from an Elekta Synergy acquisition."

option "verbose" v "Verbose execution" flag off
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package "rtkextractshroudsignal"
purpose "Extracts the phase from a signal."

option "verbose" v "Verbose execution" flag off
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package "rtkextractshroudsignal"
purpose "Extracts the breathing signal from a shroud image."

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkfdk/rtkfdk.ggo
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package "rtkfdk"
purpose "Reconstructs a 3D volume from a sequence of projections [Feldkamp, David, Kress, 1984]."

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkfdktwodweights/rtkfdktwodweights.ggo
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package "rtkfdktwodweights"
purpose "Weights projection stack with 2D weights of Feldkamp cone-beam reconstruction algorithm."

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkfieldofview/rtkfieldofview.ggo
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package "rtkfieldofview"
purpose "Computes the field of view of a reconstruction."

option "verbose" v "Verbose execution" flag off
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package "rtkforwardprojections"
purpose "Projects a volume according to a geometry file."

option "verbose" v "Verbose execution" flag off
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package "rtkfourdconjugategradient"
purpose "Reconstructs a 3D + time sequence of volumes from a projection stack and a respiratory/cardiac signal, with a conjugate gradient technique"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkfourdfdk/rtkfourdfdk.ggo
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package "rtkfourdfdk"
purpose "Reconstructs a 4D volume from a sequence of projections using FDK with one projection per respiratory cycle in each frame."

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkfourdrooster/rtkfourdrooster.ggo
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package "rtkfourdrooster"
purpose "Reconstructs a 3D + time sequence of volumes from a projection stack and a respiratory/cardiac signal, applying TV regularization in space and time, and restricting motion to a region of interest"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkfourdsart/rtkfourdsart.ggo
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package "rtkfourdsart"
purpose "Reconstructs a 4D sequence of volumes from a sequence of projections with a 4D version of the Simulatenous Algebraic Reconstruction Technique [Andersen, 1984]."

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkgaincorrection/rtkgaincorrection.ggo
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package "rtk"
purpose "Polynomial gain correction projections"

option "config" - "Config file" string no
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1 change: 0 additions & 1 deletion applications/rtki0estimation/rtki0estimation.ggo
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package "rtki0estimation"
purpose "Reads projection images and estimates the I0 value for each of them"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkimagxgeometry/rtkimagxgeometry.ggo
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package "rtkimagxgeometry"
purpose "Creates an RTK geometry file from an iMagX acquisition."

option "config" - "Config file" string no
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1 change: 0 additions & 1 deletion applications/rtkiterativefdk/rtkiterativefdk.ggo
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package "rtkiterativefdk"
purpose "Reconstructs a 3D volume from a sequence of projections [Feldkamp, David, Kress, 1984]."

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtklagcorrection/rtklagcorrection.ggo
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package "rtklagcorrection"
purpose "4th order LTI Lag correction"

option "config" - "Config file" string no
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package "rtklastdimensionl0gradientdenoising"
purpose "Performs denoising by minimizing the l0 norm of the gradient"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtklut/rtklut.ggo
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package "rtklut"
purpose "Converts pixel intensities of projection images according to lookup table"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkmaskcollimation/rtkmaskcollimation.ggo
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package "rtkmaskcollimation"
purpose "Masks out the collimator from the projections"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkmcrooster/rtkmcrooster.ggo
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package "rtkmcrooster"
purpose "Reconstructs a 3D + time sequence of volumes from a projection stack and a respiratory/cardiac signal, applying TV regularization in space and time, and restricting motion to a region of interest"

option "verbose" v "Verbose execution" flag off
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package "rtkmotioncompensatedfourdconjugategradient"
purpose "Performs a motion-compensated 4D reconstruction by the conjugate gradient method"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkorageometry/rtkorageometry.ggo
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package "rtkorageometry"
purpose "Creates an RTK geometry file from a sequence of ora.xml files (radART / medPhoton file format)."

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkosem/rtkosem.ggo
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package "rtkosem"
purpose "Reconstructs a 3D volume from a sequence of projections with Ordered subset expectation maximization."

option "verbose" v "Verbose execution" flag off
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package "rtkoverlayphaseandshroud"
purpose "Generates an RGB image showing the phase peaks on top of the shroud"

option "verbose" v "Verbose execution" flag off
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package "rtkparkershortscanweighting"
purpose "Weights projection stack with parker weights for short scan with a divergent geometry."

option "verbose" v "Verbose execution" flag off
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package "rtkprojectgeometricphantom"
purpose "Computes projections through a 3D phantom described by a file, according to a geometry"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkprojectionmatrix/rtkprojectionmatrix.ggo
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package "rtkprojectionmatrix"
purpose "Saves the sparse system matrix of rtk::JosephForwardProjectionImageFilter in a file. Only works in 2D."

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkprojections/rtkprojections.ggo
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package "rtkprojections"
purpose "Reads raw projection images, converts them to attenuation and stacks them into a single output image file"

option "verbose" v "Verbose execution" flag off
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package "rtkprojectshepploganphantom"
purpose "Computes projections through a 3D Shepp & Logan phantom, according to a geometry"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkramp/rtkramp.ggo
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package "rtkramp"
purpose "Reads raw projection images, converts to attenuation, ramp filters and stacks them into a single output image file"

option "verbose" v "Verbose execution" flag off
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package "rtkrayboxintersection"
purpose "Computes the intersection length between rays of 2D projections and a 3D volume."

option "verbose" v "Verbose execution" flag off
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package "rtkrayellipsoidintersection"
purpose "Computes the intersection length between rays of 2D projections and a 3D ellipsoid"

option "verbose" v "Verbose execution" flag off
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package "rtkrayquadricintersection"
purpose "Computes the intersection length between rays of 2D projections and a 3D quadric"

option "verbose" v "Verbose execution" flag off
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package "rtkregularizedconjugategradient"
purpose "Alternates between conjugate gradient reconstruction and regularization"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtksart/rtksart.ggo
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package "rtksart"
purpose "Reconstructs a 3D volume from a sequence of projections with Simulatenous Algebraic Reconstruction Technique [Andersen, 1984]."

option "verbose" v "Verbose execution" flag off
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package "rtkscatterglarecorrection"
purpose "Reads projection images and correct them for scatter glare"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtksimulatedgeometry/rtksimulatedgeometry.ggo
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package "rtksimulatedgeometry"
purpose "Creates an RTK geometry file from simulated/regular trajectory. See https://docs.openrtk.org/en/latest/documentation/docs/Geometry.html for more information."

option "verbose" v "Verbose execution" flag off
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package "rtkspectraldenoiseprojections"
purpose "Replaces aberrant pixels by the median in a small neighborhood around them. Pixels are aberrant if the difference between their value and the median is larger that threshold multiplier * the standard deviation in the neighborhood"

option "verbose" v "Verbose execution" flag off
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package "rtkspectralforwardmodel"
purpose "Computes expected photon counts from incident spectrum, material attenuations, detector response and material-decomposed projections"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkspectralonestep/rtkspectralonestep.ggo
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package "rtkconjugategradient"
purpose "Reconstructs a set of 3D volumes from a set of photon counts projections, using the method described by Mechlem et al. in IEEE TMI in 2017"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkspectralrooster/rtkspectralrooster.ggo
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package "rtkspectralrooster"
purpose "Reconstructs a 3D + material vector volume from a vector projection stack, alternating between conjugate gradient optimization and regularization, including between materials"

option "verbose" v "Verbose execution" flag off
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package "rtkspectralsimplexdecomposition"
purpose "Decomposes spectral projections into materials"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtksubselect/rtksubselect.ggo
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package "rtksubselect"
purpose "Subselects a few projections from a list of projection files and a geometry file."

option "verbose" v "Verbose execution" flag off
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package "rtktotalnuclearvariationdenoising"
purpose "Performs total nuclear variation denoising of a 3D + channels image."

option "verbose" v "Verbose execution" flag off
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package "rtktotalvariationdenoising"
purpose "Performs total variation denoising along the specified dimensions of a 3D image."

option "verbose" v "Verbose execution" flag off
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package "rtktutorialapplication"
purpose "A simple application you can use to train yourself to writing rtk programs"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkvarianobigeometry/rtkvarianobigeometry.ggo
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package "rtkvarianobigeometry"
purpose "Creates an RTK geometry file from a Varian OBI acquisition."

option "verbose" v "Verbose execution" flag off
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package "rtkvarianobigeometry"
purpose "Creates an RTK geometry file from a Varian ProBeam acquisition."

option "verbose" v "Verbose execution" flag off
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package "rtkvectorconjugategradient"
purpose "Reconstructs a 3D volume from a sequence of projections with a conjugate gradient technique"

option "verbose" v "Verbose execution" flag off
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package "rtkwangdisplaceddetectorweighting"
purpose "Weights projection stack with parker weights for displaced detector geometry."

option "verbose" v "Verbose execution" flag off
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package "rtkwarpedbackprojectsequence"
purpose "Backprojects a set of projections into a 4D volume, based on a respiratory/cardiac signal, and taking an a priori motion into account"

option "verbose" v "Verbose execution" flag off
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package "rtkwarpedforwardprojectsequence"
purpose "Projects a volume according to a geometry file."

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkwaveletsdenoising/rtkwaveletsdenoising.ggo
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package "rtkwaveletsdenoising"
purpose "Denoises a volume using Daubechies wavelets soft thresholding"

option "verbose" v "Verbose execution" flag off
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1 change: 0 additions & 1 deletion applications/rtkxradgeometry/rtkxradgeometry.ggo
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package "rtkxradgeometry"
purpose "Creates an RTK geometry file from an acquisition exported on the XRad system."

option "verbose" v "Verbose execution" flag off
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1 change: 1 addition & 0 deletions cmake/FindGengetopt.cmake
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Expand Up @@ -64,6 +64,7 @@ macro (WRAP_GGO GGO_SRCS)
--unamed-opts
--conf-parser
--include-getopt
--set-package ${CMAKE_PROJECT_NAME}
DEPENDS ${CMAKE_CURRENT_BINARY_DIR}/${FIRST_GGO_BASEFILENAME}
)
set(${GGO_SRCS} ${${GGO_SRCS}} ${GGO_OUTPUT})
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