Index _ | A | B | C | D | E | F | G | H | I | K | L | M | N | O | P | Q | R | S | T | U | V | W | X | Z _ __call__() (cil.optimisation.functions.BlockFunction method) (cil.plugins.ccpi_regularisation.functions.FGP_dTV method) (cil.plugins.ccpi_regularisation.functions.TGV method) (cil.plugins.ccpi_regularisation.functions.TNV method) __delattr__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __dir__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __eq__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __format__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __ge__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __getattribute__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __getitem__() (cil.optimisation.operators.BlockOperator method) __getstate__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __gt__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __hash__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __iadd__() (cil.framework.BlockDataContainer method) __idiv__() (cil.framework.BlockDataContainer method) __imul__() (cil.framework.BlockDataContainer method) __init__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) (cil.optimisation.functions.BlockFunction method) (cil.optimisation.operators.BlockOperator method) (cil.plugins.ccpi_regularisation.functions.FGP_dTV method) (cil.plugins.ccpi_regularisation.functions.TGV method) (cil.plugins.ccpi_regularisation.functions.TNV method) __init_subclass__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __isub__() (cil.framework.BlockDataContainer method) __iter__() (cil.framework.BlockDataContainer method) (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __itruediv__() (cil.framework.BlockDataContainer method) __le__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __lt__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __ne__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __neg__() (cil.framework.BlockDataContainer method) __new__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __next__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __radd__() (cil.framework.BlockDataContainer method) __rdiv__() (cil.framework.BlockDataContainer method) __reduce__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __reduce_ex__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __repr__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __rmul__() (cil.framework.BlockDataContainer method) (cil.optimisation.functions.BlockFunction method) (cil.optimisation.operators.BlockOperator method) (cil.plugins.ccpi_regularisation.functions.FGP_dTV method) (cil.plugins.ccpi_regularisation.functions.TGV method) (cil.plugins.ccpi_regularisation.functions.TNV method) __rpow__() (cil.framework.BlockDataContainer method) __rsub__() (cil.framework.BlockDataContainer method) __rtruediv__() (cil.framework.BlockDataContainer method) __setattr__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __sizeof__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __str__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __subclasshook__() (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.ISTA method) __weakref__ (cil.framework.BlockDataContainer attribute) (cil.optimisation.algorithms.FISTA attribute) (cil.optimisation.algorithms.ISTA attribute) A AbsorptionTransmissionConverter (class in cil.processors) AcquisitionData (class in cil.framework) AcquisitionGeometry (class in cil.framework) AdaptiveSensitivity (class in cil.optimisation.utilities.preconditioner) add() (cil.framework.BlockDataContainer method), [1] adjoint() (cil.optimisation.operators.BlockOperator method) (cil.optimisation.operators.ChannelwiseOperator method) (cil.optimisation.operators.CompositionOperator method) (cil.optimisation.operators.DiagonalOperator method) (cil.optimisation.operators.FiniteDifferenceOperator method) (cil.optimisation.operators.GradientOperator method) (cil.optimisation.operators.IdentityOperator method) (cil.optimisation.operators.LinearOperator method) (cil.optimisation.operators.MatrixOperator method) (cil.optimisation.operators.ProjectionMap method) (cil.optimisation.operators.ScaledOperator method) (cil.optimisation.operators.SumOperator method) (cil.optimisation.operators.SymmetrisedGradientOperator method) (cil.optimisation.operators.WaveletOperator method) (cil.optimisation.operators.ZeroOperator method) Algorithm (class in cil.optimisation.algorithms) allocate() (cil.framework.AcquisitionGeometry method) (cil.framework.BlockGeometry method) (cil.framework.ImageGeometry method) apply() (cil.optimisation.utilities.preconditioner.AdaptiveSensitivity method) (cil.optimisation.utilities.preconditioner.Preconditioner method), [1] (cil.optimisation.utilities.preconditioner.Sensitivity method) apply_circular_mask() (cil.framework.ImageData method) approximate_gradient() (cil.optimisation.functions.ApproximateGradientSumFunction method) (cil.optimisation.functions.SGFunction method) ApproximateGradientSumFunction (class in cil.optimisation.functions) ArmijoStepSizeRule (class in cil.optimisation.utilities.StepSizeMethods) as_array() (cil.framework.AcquisitionData method) (cil.framework.DataContainer method) (cil.framework.ImageData method) (cil.framework.VectorData method) axpby() (cil.framework.BlockDataContainer method), [1] B binary_operations() (cil.framework.BlockDataContainer method), [1] Binner (class in cil.processors) BlockDataContainer (class in cil.framework), [1] BlockFunction (class in cil.optimisation.functions) BlockGeometry (class in cil.framework) BlockOperator (class in cil.optimisation.operators) C calculate_Lipschitz() (cil.optimisation.functions.TotalVariation method) calculate_norm() (cil.optimisation.operators.ChannelwiseOperator method) (cil.optimisation.operators.DiagonalOperator method) (cil.optimisation.operators.GradientOperator method) (cil.optimisation.operators.IdentityOperator method) (cil.optimisation.operators.LinearOperator method) (cil.optimisation.operators.Operator method) (cil.optimisation.operators.WaveletOperator method) (cil.optimisation.operators.ZeroOperator method) Callback (class in cil.optimisation.utilities.callbacks) centered_at() (cil.optimisation.functions.ApproximateGradientSumFunction method) (cil.optimisation.functions.ConstantFunction method) (cil.optimisation.functions.Function method) (cil.optimisation.functions.IndicatorBox method) (cil.optimisation.functions.KullbackLeibler method) (cil.optimisation.functions.L1Norm method) (cil.optimisation.functions.L1Sparsity method) (cil.optimisation.functions.L2NormSquared method) (cil.optimisation.functions.LeastSquares method) (cil.optimisation.functions.MixedL11Norm method) (cil.optimisation.functions.MixedL21Norm method) (cil.optimisation.functions.OperatorCompositionFunction method) (cil.optimisation.functions.Rosenbrock method) (cil.optimisation.functions.ScaledFunction method) (cil.optimisation.functions.SGFunction method) (cil.optimisation.functions.SmoothMixedL21Norm method) (cil.optimisation.functions.SumFunction method) (cil.optimisation.functions.SumScalarFunction method) (cil.optimisation.functions.TotalVariation method) (cil.optimisation.functions.TranslateFunction method) (cil.optimisation.functions.WeightedL2NormSquared method) (cil.optimisation.functions.ZeroFunction method) CentreOfRotationCorrector (class in cil.processors) CGLS (class in cil.optimisation.algorithms) ChannelwiseOperator (class in cil.optimisation.operators) check_convergence() (cil.optimisation.algorithms.PDHG method) check_input() (cil.framework.DataProcessor method) (cil.framework.Processor method) (cil.plugins.ccpi_regularisation.functions.TNV method) cil.utilities.quality_measures module clone() (cil.framework.AcquisitionData method) (cil.framework.DataContainer method) (cil.framework.ImageData method) (cil.framework.ImageGeometry method) (cil.framework.VectorData method) column_wise_compatible() (cil.optimisation.operators.BlockOperator method) CompositionOperator (class in cil.optimisation.operators) compute_preconditioner_matrix() (cil.optimisation.utilities.preconditioner.Sensitivity method) constant() (cil.processors.Padder static method) ConstantFunction (class in cil.optimisation.functions) ConstantStepSize (class in cil.optimisation.utilities.StepSizeMethods) convex_conjugate() (cil.optimisation.functions.ApproximateGradientSumFunction method) (cil.optimisation.functions.BlockFunction method) (cil.optimisation.functions.ConstantFunction method) (cil.optimisation.functions.Function method) (cil.optimisation.functions.IndicatorBox method) (cil.optimisation.functions.KullbackLeibler method) (cil.optimisation.functions.L1Norm method) (cil.optimisation.functions.L1Sparsity method) (cil.optimisation.functions.L2NormSquared method) (cil.optimisation.functions.LeastSquares method) (cil.optimisation.functions.MixedL11Norm method) (cil.optimisation.functions.MixedL21Norm method) (cil.optimisation.functions.OperatorCompositionFunction method) (cil.optimisation.functions.Rosenbrock method) (cil.optimisation.functions.ScaledFunction method) (cil.optimisation.functions.SGFunction method) (cil.optimisation.functions.SmoothMixedL21Norm method) (cil.optimisation.functions.SumFunction method) (cil.optimisation.functions.SumScalarFunction method) (cil.optimisation.functions.TotalVariation method) (cil.optimisation.functions.TranslateFunction method) (cil.optimisation.functions.WeightedL2NormSquared method) (cil.optimisation.functions.ZeroFunction method) (cil.plugins.ccpi_regularisation.functions.FGP_dTV method) (cil.plugins.ccpi_regularisation.functions.TGV method) (cil.plugins.ccpi_regularisation.functions.TNV method) copy() (cil.framework.AcquisitionData method) (cil.framework.BlockDataContainer method), [1] (cil.framework.DataContainer method) (cil.framework.ImageData method) (cil.framework.ImageGeometry method) (cil.framework.VectorData method) create_Cone2D() (cil.framework.AcquisitionGeometry static method) create_Cone3D() (cil.framework.AcquisitionGeometry static method) create_Parallel2D() (cil.framework.AcquisitionGeometry static method) create_Parallel3D() (cil.framework.AcquisitionGeometry static method) D data_passes (cil.optimisation.functions.ApproximateGradientSumFunction property) (cil.optimisation.functions.SGFunction property) data_passes_indices (cil.optimisation.functions.ApproximateGradientSumFunction property) (cil.optimisation.functions.SGFunction property) DataContainer (class in cil.framework) DataOrder (class in cil.framework) DataProcessor (class in cil.framework) DiagonalOperator (class in cil.optimisation.operators) direct() (cil.optimisation.operators.BlockOperator method) (cil.optimisation.operators.ChannelwiseOperator method) (cil.optimisation.operators.CompositionOperator method) (cil.optimisation.operators.DiagonalOperator method) (cil.optimisation.operators.FiniteDifferenceOperator method) (cil.optimisation.operators.GradientOperator method) (cil.optimisation.operators.IdentityOperator method) (cil.optimisation.operators.MatrixOperator method) (cil.optimisation.operators.Operator method) (cil.optimisation.operators.ProjectionMap method) (cil.optimisation.operators.ScaledOperator method) (cil.optimisation.operators.SparseFiniteDifferenceOperator method) (cil.optimisation.operators.SumOperator method) (cil.optimisation.operators.SymmetrisedGradientOperator method) (cil.optimisation.operators.WaveletOperator method) (cil.optimisation.operators.ZeroOperator method) divide() (cil.framework.BlockDataContainer method), [1] domain_geometry() (cil.optimisation.operators.BlockOperator method) (cil.optimisation.operators.Operator method) dot() (cil.framework.AcquisitionData method) (cil.framework.DataContainer method) (cil.framework.ImageData method) (cil.framework.VectorData method) dot_test() (cil.optimisation.operators.LinearOperator static method) dtype (cil.framework.AcquisitionData property) (cil.framework.DataContainer property) (cil.framework.ImageData property) (cil.framework.VectorData property) E edge() (cil.processors.Padder static method) estimate_normalised_error() (cil.processors.Normaliser static method) exp() (cil.framework.AcquisitionData method) (cil.framework.DataContainer method) (cil.framework.ImageData method) (cil.framework.VectorData method) F FBP (class in cil.plugins.astra) (class in cil.plugins.tigre) (class in cil.recon) FDK (class in cil.recon) FGP_dTV (class in cil.plugins.ccpi_regularisation.functions) FGP_TV (class in cil.plugins.ccpi_regularisation.functions) figure (cil.utilities.display.show1D attribute) fill() (cil.framework.AcquisitionData method) (cil.framework.DataContainer method) (cil.framework.ImageData method) (cil.framework.VectorData method) FiniteDifferenceOperator (class in cil.optimisation.operators) FISTA (class in cil.optimisation.algorithms) flag() (cil.optimisation.algorithms.CGLS method) from_function() (cil.optimisation.utilities.Sampler static method), [1] full_gradient() (cil.optimisation.functions.ApproximateGradientSumFunction method) (cil.optimisation.functions.SGFunction method) Function (class in cil.optimisation.functions) G GD (class in cil.optimisation.algorithms) get() (cil.utilities.dataexample.SIMULATED_CONE_BEAM_DATA class method), [1] (cil.utilities.dataexample.SIMULATED_PARALLEL_BEAM_DATA class method) (cil.utilities.dataexample.SYNCHROTRON_PARALLEL_BEAM_DATA class method) get_as_list() (cil.optimisation.operators.BlockOperator method) get_data_axes_order() (cil.framework.AcquisitionData method) (cil.framework.DataContainer method) (cil.framework.ImageData method) (cil.framework.VectorData method) get_data_offset() (cil.io.NEXUSDataReader method) get_data_scale() (cil.io.NEXUSDataReader method) get_dataset_metadata() (cil.io.utilities.HDF5_utilities static method) get_dimension_axis() (cil.framework.AcquisitionData method) (cil.framework.DataContainer method) (cil.framework.ImageData method) (cil.framework.VectorData method) get_filter_array() (cil.recon.FBP method) (cil.recon.FDK method) get_geometry() (cil.io.NEXUSDataReader method) (cil.io.NikonDataReader method) (cil.io.ZEISSDataReader method) get_ImageData() (in module cil.plugins.TomoPhantom) get_ImageGeometry() (cil.framework.AcquisitionGeometry method) get_input() (cil.framework.DataProcessor method) (cil.framework.Processor method) get_item() (cil.framework.BlockGeometry method) (cil.optimisation.operators.BlockOperator method) get_last_loss() (cil.optimisation.algorithms.Algorithm method) (cil.optimisation.algorithms.CGLS method) (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.GD method) (cil.optimisation.algorithms.ISTA method) (cil.optimisation.algorithms.LADMM method) (cil.optimisation.algorithms.PDHG method) (cil.optimisation.algorithms.SIRT method) (cil.optimisation.algorithms.SPDHG method) get_last_objective() (cil.optimisation.algorithms.Algorithm method) (cil.optimisation.algorithms.CGLS method) (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.GD method) (cil.optimisation.algorithms.ISTA method) (cil.optimisation.algorithms.LADMM method) (cil.optimisation.algorithms.PDHG method) (cil.optimisation.algorithms.SIRT method) (cil.optimisation.algorithms.SPDHG method) get_metadata() (cil.io.ZEISSDataReader method) get_norms_as_list() (cil.optimisation.operators.BlockOperator method) get_output() (cil.framework.DataProcessor method) (cil.framework.Processor method) (cil.optimisation.algorithms.Algorithm method) (cil.optimisation.algorithms.CGLS method) (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.GD method) (cil.optimisation.algorithms.ISTA method) (cil.optimisation.algorithms.LADMM method) (cil.optimisation.algorithms.PDHG method) (cil.optimisation.algorithms.SIRT method) (cil.optimisation.algorithms.SPDHG method) (cil.plugins.astra.FBP method) (cil.plugins.tigre.FBP method) (cil.processors.AbsorptionTransmissionConverter method) (cil.processors.Binner method) (cil.processors.CentreOfRotationCorrector method) (cil.processors.Masker method) (cil.processors.MaskGenerator method) (cil.processors.Normaliser method) (cil.processors.Padder method) (cil.processors.PaganinProcessor method) (cil.processors.RingRemover method) (cil.processors.Slicer method) (cil.processors.TransmissionAbsorptionConverter method) get_output_shape() (cil.optimisation.operators.BlockOperator method) get_roi() (cil.io.NikonDataReader method) get_samples() (cil.optimisation.utilities.Sampler method) (cil.optimisation.utilities.SamplerRandom method) get_slice() (cil.framework.AcquisitionData method) (cil.framework.AcquisitionGeometry method) (cil.framework.DataContainer method) (cil.framework.ImageData method) (cil.framework.ImageGeometry method) (cil.framework.VectorData method) get_step_size() (cil.optimisation.utilities.StepSizeMethods.ArmijoStepSizeRule method) (cil.optimisation.utilities.StepSizeMethods.ConstantStepSize method) (cil.optimisation.utilities.StepSizeMethods.StepSizeRule method) gradient() (cil.optimisation.functions.ApproximateGradientSumFunction method) (cil.optimisation.functions.BlockFunction method) (cil.optimisation.functions.ConstantFunction method) (cil.optimisation.functions.Function method) (cil.optimisation.functions.IndicatorBox method) (cil.optimisation.functions.KullbackLeibler method) (cil.optimisation.functions.L1Norm method) (cil.optimisation.functions.L1Sparsity method) (cil.optimisation.functions.L2NormSquared method) (cil.optimisation.functions.LeastSquares method) (cil.optimisation.functions.MixedL11Norm method) (cil.optimisation.functions.MixedL21Norm method) (cil.optimisation.functions.OperatorCompositionFunction method) (cil.optimisation.functions.Rosenbrock method) (cil.optimisation.functions.ScaledFunction method) (cil.optimisation.functions.SGFunction method) (cil.optimisation.functions.SmoothMixedL21Norm method) (cil.optimisation.functions.SumFunction method) (cil.optimisation.functions.SumScalarFunction method) (cil.optimisation.functions.TotalVariation method) (cil.optimisation.functions.TranslateFunction method) (cil.optimisation.functions.WeightedL2NormSquared method) (cil.optimisation.functions.ZeroFunction method) gradient_operator (cil.optimisation.functions.TotalVariation property) GradientOperator (class in cil.optimisation.operators) H HDF5_utilities (class in cil.io.utilities) herman_meyer() (cil.optimisation.utilities.Sampler static method), [1] I IdentityOperator (class in cil.optimisation.operators) image_sharpness() (cil.processors.CentreOfRotationCorrector static method) ImageData (class in cil.framework) ImageGeometry (class in cil.framework) IndicatorBox (class in cil.optimisation.functions) interpolate() (cil.processors.Masker static method) is_compatible() (cil.framework.BlockDataContainer method), [1] is_linear() (cil.optimisation.operators.BlockOperator method) (cil.optimisation.operators.CompositionOperator method) (cil.optimisation.operators.LinearOperator method) (cil.optimisation.operators.Operator method) (cil.optimisation.operators.ScaledOperator method) (cil.optimisation.operators.SumOperator method) is_orthogonal() (cil.optimisation.operators.IdentityOperator method) (cil.optimisation.operators.Operator method) (cil.optimisation.operators.WaveletOperator method) is_provably_convergent() (cil.optimisation.algorithms.Algorithm method) (cil.optimisation.algorithms.CGLS method) (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.GD method) (cil.optimisation.algorithms.ISTA method) (cil.optimisation.algorithms.LADMM method) (cil.optimisation.algorithms.PDHG method) (cil.optimisation.algorithms.SIRT method) (cil.optimisation.algorithms.SPDHG method) islicer (class in cil.utilities.jupyter) ISTA (class in cil.optimisation.algorithms) iterations (cil.optimisation.algorithms.Algorithm property) (cil.optimisation.algorithms.CGLS property) (cil.optimisation.algorithms.FISTA property) (cil.optimisation.algorithms.GD property) (cil.optimisation.algorithms.ISTA property) (cil.optimisation.algorithms.LADMM property) (cil.optimisation.algorithms.PDHG property) (cil.optimisation.algorithms.SIRT property) (cil.optimisation.algorithms.SPDHG property) K KullbackLeibler (class in cil.optimisation.functions) L L (cil.optimisation.functions.ApproximateGradientSumFunction property) (cil.optimisation.functions.BlockFunction property) (cil.optimisation.functions.ConstantFunction property) (cil.optimisation.functions.Function property) (cil.optimisation.functions.IndicatorBox property) (cil.optimisation.functions.KullbackLeibler property) (cil.optimisation.functions.L1Norm property) (cil.optimisation.functions.L1Sparsity property) (cil.optimisation.functions.L2NormSquared property) (cil.optimisation.functions.LeastSquares property) (cil.optimisation.functions.MixedL11Norm property) (cil.optimisation.functions.MixedL21Norm property) (cil.optimisation.functions.OperatorCompositionFunction property) (cil.optimisation.functions.Rosenbrock property) (cil.optimisation.functions.ScaledFunction property) (cil.optimisation.functions.SGFunction property) (cil.optimisation.functions.SmoothMixedL21Norm property) (cil.optimisation.functions.SumFunction property) (cil.optimisation.functions.SumScalarFunction property) (cil.optimisation.functions.TotalVariation property) (cil.optimisation.functions.TranslateFunction property) (cil.optimisation.functions.WeightedL2NormSquared property) (cil.optimisation.functions.ZeroFunction property) L1Norm (class in cil.optimisation.functions) L1Sparsity (class in cil.optimisation.functions) L2NormSquared (class in cil.optimisation.functions) LADMM (class in cil.optimisation.algorithms) LeastSquares (class in cil.optimisation.functions) linear_ramp() (cil.processors.Padder static method) LinearOperator (class in cil.optimisation.operators) link_islicer (class in cil.utilities.jupyter) Lmax (cil.optimisation.functions.ApproximateGradientSumFunction property) (cil.optimisation.functions.SGFunction property) (cil.optimisation.functions.SumFunction property) (cil.optimisation.functions.SumScalarFunction property) load() (cil.utilities.dataexample.TestData method) load_data() (cil.io.NEXUSDataReader method) load_projections() (cil.io.NikonDataReader method) log() (cil.framework.AcquisitionData method) (cil.framework.DataContainer method) (cil.framework.ImageData method) (cil.framework.VectorData method) LogfileCallback (class in cil.optimisation.utilities.callbacks) loss (cil.optimisation.algorithms.Algorithm property) (cil.optimisation.algorithms.CGLS property) (cil.optimisation.algorithms.FISTA property) (cil.optimisation.algorithms.GD property) (cil.optimisation.algorithms.ISTA property) (cil.optimisation.algorithms.LADMM property) (cil.optimisation.algorithms.PDHG property) (cil.optimisation.algorithms.SIRT property) (cil.optimisation.algorithms.SPDHG property) M mae() (in module cil.utilities.quality_measures) Masker (class in cil.processors) MaskGenerator (class in cil.processors) MaskOperator (class in cil.optimisation.operators) MatrixOperator (class in cil.optimisation.operators) max() (cil.framework.AcquisitionData method) (cil.framework.DataContainer method) (cil.framework.ImageData method) (cil.framework.VectorData method) max_iteration (cil.optimisation.algorithms.Algorithm property) (cil.optimisation.algorithms.CGLS property) (cil.optimisation.algorithms.FISTA property) (cil.optimisation.algorithms.GD property) (cil.optimisation.algorithms.ISTA property) (cil.optimisation.algorithms.LADMM property) (cil.optimisation.algorithms.PDHG property) (cil.optimisation.algorithms.SIRT property) (cil.optimisation.algorithms.SPDHG property) maximum() (cil.framework.BlockDataContainer method), [1] mean() (cil.framework.AcquisitionData method) (cil.framework.DataContainer method) (cil.framework.ImageData method) (cil.framework.VectorData method) (cil.processors.Masker static method) (cil.processors.MaskGenerator static method) median() (cil.processors.Masker static method) (cil.processors.MaskGenerator static method) min() (cil.framework.AcquisitionData method) (cil.framework.DataContainer method) (cil.framework.ImageData method) (cil.framework.VectorData method) minimum() (cil.framework.BlockDataContainer method), [1] MixedL11Norm (class in cil.optimisation.functions) MixedL21Norm (class in cil.optimisation.functions) module cil.utilities.quality_measures mse() (in module cil.utilities.quality_measures) multiply() (cil.framework.BlockDataContainer method), [1] N ndim (cil.framework.AcquisitionData property) (cil.framework.DataContainer property) (cil.framework.ImageData property) (cil.framework.VectorData property) next() (cil.framework.BlockDataContainer method), [1] (cil.optimisation.utilities.Sampler method) NEXUSDataReader (class in cil.io) NEXUSDataWriter (class in cil.io) NikonDataReader (class in cil.io) norm() (cil.framework.AcquisitionData method) (cil.framework.DataContainer method) (cil.framework.ImageData method) (cil.framework.VectorData method) (cil.optimisation.operators.BlockOperator method) (cil.optimisation.operators.Operator method) (cil.optimisation.operators.ScaledOperator method) Normaliser (class in cil.processors) num_threads (cil.optimisation.functions.IndicatorBox property) number_of_dimensions (cil.framework.AcquisitionData property) (cil.framework.DataContainer property) (cil.framework.ImageData property) (cil.framework.VectorData property) O objective (cil.optimisation.algorithms.Algorithm property) (cil.optimisation.algorithms.CGLS property) (cil.optimisation.algorithms.FISTA property) (cil.optimisation.algorithms.GD property) (cil.optimisation.algorithms.ISTA property) (cil.optimisation.algorithms.LADMM property) (cil.optimisation.algorithms.PDHG property) (cil.optimisation.algorithms.SIRT property) (cil.optimisation.algorithms.SPDHG property) Operator (class in cil.optimisation.operators) OperatorCompositionFunction (class in cil.optimisation.functions) P Padder (class in cil.processors) PaganinProcessor (class in cil.processors) partition() (cil.framework.AcquisitionData method) (cil.framework.Partitioner method) Partitioner (class in cil.framework) PDHG (class in cil.optimisation.algorithms) plot_filter() (cil.recon.FBP method) (cil.recon.FDK method) power() (cil.framework.BlockDataContainer method), [1] PowerMethod() (cil.optimisation.operators.LinearOperator static method) Preconditioner (class in cil.optimisation.utilities.preconditioner) print_metadata() (cil.io.utilities.HDF5_utilities static method) process() (cil.processors.Binner method) (cil.processors.Slicer method) Processor (class in cil.framework) ProgressCallback (class in cil.optimisation.utilities.callbacks) ProjectionMap (class in cil.optimisation.operators) ProjectionOperator (class in cil.plugins.astra) (class in cil.plugins.tigre) proximal() (cil.optimisation.functions.ApproximateGradientSumFunction method) (cil.optimisation.functions.BlockFunction method) (cil.optimisation.functions.ConstantFunction method) (cil.optimisation.functions.Function method) (cil.optimisation.functions.IndicatorBox method) (cil.optimisation.functions.KullbackLeibler method) (cil.optimisation.functions.L1Norm method) (cil.optimisation.functions.L1Sparsity method) (cil.optimisation.functions.L2NormSquared method) (cil.optimisation.functions.LeastSquares method) (cil.optimisation.functions.MixedL11Norm method) (cil.optimisation.functions.MixedL21Norm method) (cil.optimisation.functions.OperatorCompositionFunction method) (cil.optimisation.functions.Rosenbrock method) (cil.optimisation.functions.ScaledFunction method) (cil.optimisation.functions.SGFunction method) (cil.optimisation.functions.SmoothMixedL21Norm method) (cil.optimisation.functions.SumFunction method) (cil.optimisation.functions.SumScalarFunction method) (cil.optimisation.functions.TotalVariation method) (cil.optimisation.functions.TranslateFunction method) (cil.optimisation.functions.WeightedL2NormSquared method) (cil.optimisation.functions.ZeroFunction method) proximal_conjugate() (cil.optimisation.functions.ApproximateGradientSumFunction method) (cil.optimisation.functions.BlockFunction method) (cil.optimisation.functions.ConstantFunction method) (cil.optimisation.functions.Function method) (cil.optimisation.functions.IndicatorBox method) (cil.optimisation.functions.KullbackLeibler method) (cil.optimisation.functions.L1Norm method) (cil.optimisation.functions.L1Sparsity method) (cil.optimisation.functions.L2NormSquared method) (cil.optimisation.functions.LeastSquares method) (cil.optimisation.functions.MixedL11Norm method) (cil.optimisation.functions.MixedL21Norm method) (cil.optimisation.functions.OperatorCompositionFunction method) (cil.optimisation.functions.Rosenbrock method) (cil.optimisation.functions.ScaledFunction method) (cil.optimisation.functions.SGFunction method) (cil.optimisation.functions.SmoothMixedL21Norm method) (cil.optimisation.functions.SumFunction method) (cil.optimisation.functions.SumScalarFunction method) (cil.optimisation.functions.TotalVariation method) (cil.optimisation.functions.TranslateFunction method) (cil.optimisation.functions.WeightedL2NormSquared method) (cil.optimisation.functions.ZeroFunction method) psnr() (in module cil.utilities.quality_measures) Q quantile() (cil.processors.MaskGenerator static method) R random_noise() (cil.utilities.dataexample.TestData static method) random_with_replacement() (cil.optimisation.utilities.Sampler static method), [1] random_without_replacement() (cil.optimisation.utilities.Sampler static method), [1] range_geometry() (cil.optimisation.operators.BlockOperator method) (cil.optimisation.operators.Operator method) RAWFileWriter (class in cil.io) read() (cil.io.NEXUSDataReader method) (cil.io.NikonDataReader method) (cil.io.TIFFStackReader method) (cil.io.utilities.HDF5_utilities static method) (cil.io.ZEISSDataReader method) read_as_AcquisitionData() (cil.io.TIFFStackReader method) read_as_ImageData() (cil.io.TIFFStackReader method) read_as_original() (cil.io.NEXUSDataReader method) read_rescaled() (cil.io.TIFFStackReader method) read_scale_offset() (cil.io.TIFFStackReader method) read_to() (cil.io.utilities.HDF5_utilities static method) reflect() (cil.processors.Padder static method) reorder() (cil.framework.AcquisitionData method) (cil.framework.DataContainer method) (cil.framework.ImageData method) (cil.framework.VectorData method) reset() (cil.recon.FBP method) (cil.recon.FDK method) RingRemover (class in cil.processors) Rosenbrock (class in cil.optimisation.functions) row_wise_compatible() (cil.optimisation.operators.BlockOperator method) run() (cil.optimisation.algorithms.Algorithm method) (cil.optimisation.algorithms.CGLS method) (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.GD method) (cil.optimisation.algorithms.ISTA method) (cil.optimisation.algorithms.LADMM method) (cil.optimisation.algorithms.PDHG method) (cil.optimisation.algorithms.SIRT method) (cil.optimisation.algorithms.SPDHG method) (cil.recon.FBP method) (cil.recon.FBP.FBP method) (cil.recon.FDK method) S Sampler (class in cil.optimisation.utilities) SamplerRandom (class in cil.optimisation.utilities) sapyb() (cil.framework.AcquisitionData method) (cil.framework.BlockDataContainer method), [1] (cil.framework.DataContainer method) (cil.framework.ImageData method) (cil.framework.VectorData method) save() (cil.utilities.display.show1D method) (cil.utilities.display.show2D method) (cil.utilities.display.show_geometry method) ScaledFunction (class in cil.optimisation.functions) ScaledOperator (class in cil.optimisation.operators) scikit_random_noise() (cil.utilities.dataexample.TestData static method) Sensitivity (class in cil.optimisation.utilities.preconditioner) sequential() (cil.optimisation.utilities.Sampler static method), [1] set_angles() (cil.framework.AcquisitionGeometry method) set_channels() (cil.framework.AcquisitionGeometry method) set_data_partition_weights() (cil.optimisation.functions.ApproximateGradientSumFunction method) (cil.optimisation.functions.SGFunction method) set_fft_order() (cil.recon.FBP method) (cil.recon.FDK method) set_filter() (cil.recon.FBP method) (cil.recon.FDK method) set_filter_inplace() (cil.recon.FBP method) (cil.recon.FDK method) set_gamma_fconj() (cil.optimisation.algorithms.PDHG method) set_gamma_g() (cil.optimisation.algorithms.PDHG method) set_image_geometry() (cil.recon.FBP method) (cil.recon.FDK method) set_input() (cil.framework.DataProcessor method) (cil.framework.Processor method) (cil.plugins.astra.FBP method) (cil.plugins.tigre.FBP method) (cil.processors.AbsorptionTransmissionConverter method) (cil.processors.Binner method) (cil.processors.CentreOfRotationCorrector method) (cil.processors.Masker method) (cil.processors.MaskGenerator method) (cil.processors.Normaliser method) (cil.processors.Padder method) (cil.processors.PaganinProcessor method) (cil.processors.RingRemover method) (cil.processors.Slicer method) (cil.processors.TransmissionAbsorptionConverter method) (cil.recon.FBP method) (cil.recon.FDK method) set_labels() (cil.framework.AcquisitionGeometry method) set_norm() (cil.optimisation.operators.Operator method) set_norms() (cil.optimisation.operators.BlockOperator method) set_num_threads() (cil.optimisation.functions.IndicatorBox method) set_panel() (cil.framework.AcquisitionGeometry method) set_relaxation_parameter() (cil.optimisation.algorithms.SIRT method) set_split_processing() (cil.recon.FBP method) set_step_sizes() (cil.optimisation.algorithms.PDHG method) set_suppress_evaluation() (cil.optimisation.functions.IndicatorBox method) set_up() (cil.io.NEXUSDataReader method) (cil.io.NEXUSDataWriter method) (cil.io.ZEISSDataReader method) (cil.optimisation.algorithms.Algorithm method) (cil.optimisation.algorithms.CGLS method) (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.GD method) (cil.optimisation.algorithms.ISTA method) (cil.optimisation.algorithms.LADMM method) (cil.optimisation.algorithms.PDHG method) (cil.optimisation.algorithms.SIRT method) (cil.optimisation.algorithms.SPDHG method) SGFunction (class in cil.optimisation.functions) shape (cil.framework.AcquisitionData property) (cil.framework.DataContainer property) (cil.framework.ImageData property) (cil.framework.VectorData property) should_stop() (cil.optimisation.algorithms.Algorithm method) (cil.optimisation.algorithms.CGLS method) (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.GD method) (cil.optimisation.algorithms.ISTA method) (cil.optimisation.algorithms.LADMM method) (cil.optimisation.algorithms.PDHG method) (cil.optimisation.algorithms.SIRT method) (cil.optimisation.algorithms.SPDHG method) show1D (class in cil.utilities.display) show2D (class in cil.utilities.display) show_geometry (class in cil.utilities.display) SIMULATED_CONE_BEAM_DATA (class in cil.utilities.dataexample), [1] SIMULATED_PARALLEL_BEAM_DATA (class in cil.utilities.dataexample) SIRT (class in cil.optimisation.algorithms) size (cil.framework.AcquisitionData property) (cil.framework.DataContainer property) (cil.framework.ImageData property) (cil.framework.VectorData property) slice_metadata() (cil.io.ZEISSDataReader method) Slicer (class in cil.processors) SmoothMixedL21Norm (class in cil.optimisation.functions) SparseFiniteDifferenceOperator (class in cil.optimisation.operators) SPDHG (class in cil.optimisation.algorithms) special_values() (cil.processors.MaskGenerator static method) squared_norm() (cil.framework.AcquisitionData method) (cil.framework.DataContainer method) (cil.framework.ImageData method) (cil.framework.VectorData method) staggered() (cil.optimisation.utilities.Sampler static method), [1] StepSizeRule (class in cil.optimisation.utilities.StepSizeMethods) subtract() (cil.framework.BlockDataContainer method), [1] sum() (cil.framework.AcquisitionData method) (cil.framework.DataContainer method) (cil.framework.ImageData method) (cil.framework.VectorData method) SumFunction (class in cil.optimisation.functions) SumOperator (class in cil.optimisation.operators) SumScalarFunction (class in cil.optimisation.functions) symmetric() (cil.processors.Padder static method) SymmetrisedGradientOperator (class in cil.optimisation.operators) SYNCHROTRON_PARALLEL_BEAM_DATA (class in cil.utilities.dataexample) T T (cil.optimisation.operators.BlockOperator property) TestData (class in cil.utilities.dataexample) TextProgressCallback (class in cil.optimisation.utilities.callbacks) TGV (class in cil.plugins.ccpi_regularisation.functions) threshold() (cil.processors.MaskGenerator static method) TIFFStackReader (class in cil.io) TIFFWriter (class in cil.io) TNV (class in cil.plugins.ccpi_regularisation.functions) TotalVariation (class in cil.optimisation.functions) TranslateFunction (class in cil.optimisation.functions) TransmissionAbsorptionConverter (class in cil.processors) U unary_operations() (cil.framework.BlockDataContainer method), [1] update() (cil.optimisation.algorithms.Algorithm method) (cil.optimisation.algorithms.CGLS method) (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.GD method) (cil.optimisation.algorithms.ISTA method) (cil.optimisation.algorithms.LADMM method) (cil.optimisation.algorithms.PDHG method) (cil.optimisation.algorithms.SIRT method) (cil.optimisation.algorithms.SPDHG method) update_objective() (cil.optimisation.algorithms.Algorithm method) (cil.optimisation.algorithms.CGLS method) (cil.optimisation.algorithms.FISTA method) (cil.optimisation.algorithms.GD method) (cil.optimisation.algorithms.ISTA method) (cil.optimisation.algorithms.LADMM method) (cil.optimisation.algorithms.PDHG method) (cil.optimisation.algorithms.SIRT method) (cil.optimisation.algorithms.SPDHG method) update_step_sizes() (cil.optimisation.algorithms.PDHG method) V value() (cil.processors.Masker static method) VectorData (class in cil.framework) W WaveletOperator (class in cil.optimisation.operators) WeightedL2NormSquared (class in cil.optimisation.functions) wrap() (cil.processors.Padder static method) write() (cil.io.NEXUSDataWriter method) (cil.io.RAWFileWriter method) (cil.io.TIFFWriter method) X xcorrelation() (cil.processors.CentreOfRotationCorrector static method) Z ZEISSDataReader (class in cil.io) ZeroFunction (class in cil.optimisation.functions) ZeroOperator (class in cil.optimisation.operators)
