Index _ | A | B | C | D | E | F | G | H | I | J | K | L | M | N | O | P | Q | R | S | T | U | V | W | X | Z _ __init__() (ptypy.core.classes.Base method) (ptypy.core.classes.Container method) (ptypy.core.classes.POD method) (ptypy.core.classes.Storage method) (ptypy.core.classes.View method) (ptypy.core.data.MoonFlowerScan method) (ptypy.core.data.PtydScan method) (ptypy.core.data.PtyScan method) (ptypy.core.data.QuickScan method) (ptypy.core.geometry.BasicFarfieldPropagator method) (ptypy.core.geometry.BasicNearfieldPropagator method) (ptypy.core.geometry.FFTchooser method) (ptypy.core.geometry.Geo method) (ptypy.core.manager.BlockFull method) (ptypy.core.manager.BlockGradFull method) (ptypy.core.manager.BlockOPRModel method) (ptypy.core.manager.BlockScanModel method) (ptypy.core.manager.BlockVanilla method) (ptypy.core.manager.Bragg3dModel method) (ptypy.core.manager.Full method) (ptypy.core.manager.GradFull method) (ptypy.core.manager.ModelManager method) (ptypy.core.manager.OPRModel method) (ptypy.core.manager.ScanModel method) (ptypy.core.manager.Vanilla method) (ptypy.core.paths.Paths method) (ptypy.core.ptycho.Ptycho method) (ptypy.custom.DM_object_regul.DM_object_regul method) (ptypy.custom.DMOPR.DMOPR method) (ptypy.custom.ePIE_parallel.EPIEParallel method) (ptypy.custom.MLOPR.MLOPR method) (ptypy.custom.threepie.ThreePIE method) (ptypy.custom.WASP.WASP method) (ptypy.debug.ipython_kernel.IPythonKernelThread method) (ptypy.engines.base.Base3dBraggEngine method) (ptypy.engines.base.BaseEngine method) (ptypy.engines.base.PositionCorrectionEngine method) (ptypy.engines.Bragg3d_engines.DM_3dBragg method) (ptypy.engines.ML.BaseModel method) (ptypy.engines.ML.EuclidModel method) (ptypy.engines.ML.GaussianModel method) (ptypy.engines.ML.ML method) (ptypy.engines.ML.PoissonModel method) (ptypy.engines.ML.Regul_del2 method) (ptypy.engines.posref.AnnealingRefine method) (ptypy.engines.posref.GridSearchRefine method) (ptypy.engines.posref.PositionRefine method) (ptypy.engines.projectional.DM method) (ptypy.engines.projectional.DMMixin method) (ptypy.engines.projectional.RAAR method) (ptypy.engines.projectional.RAARMixin method) (ptypy.engines.stochastic.EPIE method) (ptypy.engines.stochastic.EPIEMixin method) (ptypy.engines.stochastic.SDR method) (ptypy.engines.stochastic.SDRMixin method) (ptypy.experiment.ALS_5321.ALS5321Scan method) (ptypy.experiment.AMO_LCLS.AMOScan method) (ptypy.experiment.cSAXS.cSAXSScan method) (ptypy.experiment.diamond_nexus.DiamondNexus method) (ptypy.experiment.diamond_streaming.DiamondZMQLoader method) (ptypy.experiment.DiProI_FERMI.DiProIFERMIScan method) (ptypy.experiment.epsic_loader.EpsicHdf5Loader method) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast method) (ptypy.experiment.hdf5_loader.Hdf5Loader method) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast method) (ptypy.experiment.ID16Anfp.ID16AScan method) (ptypy.experiment.nanomax.NanomaxContrast method) (ptypy.experiment.nanomax.NanomaxFlyscanDec2019 method) (ptypy.experiment.nanomax.NanomaxFlyscanMay2019 method) (ptypy.experiment.nanomax.NanomaxStepscanNov2018 method) (ptypy.experiment.nanomax.NanomaxStepscanSep2019 method) (ptypy.experiment.nanomax3d.NanomaxBraggJune2017 method) (ptypy.experiment.nanomax_streaming.NanomaxZmqScan method) (ptypy.experiment.optiklabor.FliSpecScanMultexp method) (ptypy.experiment.savu.Savu method) (ptypy.experiment.spec.SpecInfo method) (ptypy.experiment.spec.SpecScan method) (ptypy.experiment.swmr_loader.SwmrLoader method) (ptypy.experiment.UCL.UCLLaserScan method) (ptypy.io.h5rw.Str_to_Slice method) (ptypy.io.interaction.Client method) (ptypy.io.interaction.NumpyEncoder method) (ptypy.io.interaction.Server method) (ptypy.io.json_rw.NumpyEncoder method) (ptypy.io.json_rw.Str_to_Slice method) (ptypy.simulations.detector.Detector method) (ptypy.simulations.simscan.SimScan method) (ptypy.utils.descriptor.ArgParseDescriptor method) (ptypy.utils.descriptor.CODES method) (ptypy.utils.descriptor.Descriptor method) (ptypy.utils.descriptor.EvalDescriptor method) (ptypy.utils.misc.Table method) (ptypy.utils.parallel.LoadManager method) (ptypy.utils.parameters.Param method) (ptypy.utils.plot_client.Bragg3dClient method) (ptypy.utils.plot_client.MPLClient method) (ptypy.utils.plot_client.MPLplotter method) (ptypy.utils.plot_client.PlotClient method) (ptypy.utils.plot_utils.PtyAxis method) (ptypy.utils.verbose.CustomFormatter method) (ptypy.utils.verbose.LogTime method) (ptypy.utils.verbose.MPIFilter method) A abs2() (in module ptypy.utils.math_utils) activate() (ptypy.io.interaction.Client method) (ptypy.io.interaction.Server method) active (ptypy.core.classes.POD property) (ptypy.core.classes.View property) add2argparser() (ptypy.utils.descriptor.ArgParseDescriptor method) (ptypy.utils.descriptor.EvalDescriptor method) add_records() (ptypy.utils.misc.Table method) all_subclasses() (in module ptypy.utils.misc) allgather_dict() (in module ptypy.utils.parallel) allreduce() (in module ptypy.utils.parallel) (ptypy.core.classes.Container method) (ptypy.core.classes.Storage method) allreduceC() (in module ptypy.utils.parallel) ALS5321Scan (class in ptypy.experiment.ALS_5321) AMOScan (class in ptypy.experiment.AMO_LCLS) AnnealingRefine (class in ptypy.engines.posref) aperture() (in module ptypy.core.illumination) ArgParseDescriptor (class in ptypy.utils.descriptor) asParam() (in module ptypy.utils.parameters) assign() (ptypy.utils.parallel.LoadManager method) augment_to_coordlist() (in module ptypy.core.xy) (in module ptypy.simulations.ptysim_utils) auto() (ptypy.core.data.MoonFlowerScan method) (ptypy.core.data.PtydScan method) (ptypy.core.data.PtyScan method) (ptypy.core.data.QuickScan method) (ptypy.experiment.ALS_5321.ALS5321Scan method) (ptypy.experiment.AMO_LCLS.AMOScan method) (ptypy.experiment.cSAXS.cSAXSScan method) (ptypy.experiment.diamond_nexus.DiamondNexus method) (ptypy.experiment.diamond_streaming.DiamondZMQLoader method) (ptypy.experiment.DiProI_FERMI.DiProIFERMIScan method) (ptypy.experiment.epsic_loader.EpsicHdf5Loader method) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast method) (ptypy.experiment.hdf5_loader.Hdf5Loader method) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast method) (ptypy.experiment.ID16Anfp.ID16AScan method) (ptypy.experiment.nanomax.NanomaxContrast method) (ptypy.experiment.nanomax.NanomaxFlyscanDec2019 method) (ptypy.experiment.nanomax.NanomaxFlyscanMay2019 method) (ptypy.experiment.nanomax.NanomaxStepscanNov2018 method) (ptypy.experiment.nanomax.NanomaxStepscanSep2019 method) (ptypy.experiment.nanomax3d.NanomaxBraggJune2017 method) (ptypy.experiment.nanomax_streaming.NanomaxZmqScan method) (ptypy.experiment.optiklabor.FliSpecScanMultexp method) (ptypy.experiment.savu.Savu method) (ptypy.experiment.swmr_loader.SwmrLoader method) (ptypy.experiment.UCL.UCLLaserScan method) (ptypy.simulations.simscan.SimScan method) auto_file() (ptypy.core.paths.Paths method) avail() (ptypy.io.interaction.Client method) B barrier() (in module ptypy.utils.parallel) Base (class in ptypy.core.classes) Base3dBraggEngine (class in ptypy.engines.base) BaseEngine (class in ptypy.engines.base) BaseModel (class in ptypy.engines.ML) basic_fourier_update() (in module ptypy.engines.utils) basic_fourier_update_LEGACY() (in module ptypy.engines.utils) BasicFarfieldPropagator (class in ptypy.core.geometry) BasicNearfieldPropagator (class in ptypy.core.geometry) bcast() (in module ptypy.utils.parallel) bcast_dict() (in module ptypy.utils.parallel) BlockFull (built-in variable) (class in ptypy.core.manager) BlockFull.coherence (built-in variable) BlockFull.coherence.energies (built-in variable) BlockFull.coherence.num_object_modes (built-in variable) BlockFull.coherence.num_probe_modes (built-in variable) BlockFull.coherence.object_dispersion (built-in variable) BlockFull.coherence.probe_dispersion (built-in variable) BlockFull.coherence.spectrum (built-in variable) BlockFull.data (built-in variable) BlockFull.data.name (built-in variable) BlockFull.ffttype (built-in variable) BlockFull.illumination (built-in variable) BlockFull.illumination.aperture (built-in variable) BlockFull.illumination.aperture.central_stop (built-in variable) BlockFull.illumination.aperture.diffuser (built-in variable) BlockFull.illumination.aperture.edge (built-in variable) BlockFull.illumination.aperture.form (built-in variable) BlockFull.illumination.aperture.offset (built-in variable) BlockFull.illumination.aperture.rotate (built-in variable) BlockFull.illumination.aperture.size (built-in variable) BlockFull.illumination.diversity (built-in variable) BlockFull.illumination.diversity.noise (built-in variable) BlockFull.illumination.diversity.power (built-in variable) BlockFull.illumination.diversity.shift (built-in variable) BlockFull.illumination.model (built-in variable) BlockFull.illumination.photons (built-in variable) BlockFull.illumination.propagation (built-in variable) BlockFull.illumination.propagation.antialiasing (built-in variable) BlockFull.illumination.propagation.focussed (built-in variable) BlockFull.illumination.propagation.parallel (built-in variable) BlockFull.illumination.propagation.spot_size (built-in variable) BlockFull.illumination.recon (built-in variable) BlockFull.illumination.recon.label (built-in variable) BlockFull.illumination.recon.rfile (built-in variable) BlockFull.name (built-in variable) BlockFull.propagation (built-in variable) BlockFull.resample (built-in variable) BlockFull.resolution (built-in variable) BlockFull.sample (built-in variable) BlockFull.sample.diversity (built-in variable) BlockFull.sample.diversity.noise (built-in variable) BlockFull.sample.diversity.power (built-in variable) BlockFull.sample.diversity.shift (built-in variable) BlockFull.sample.fill (built-in variable) BlockFull.sample.model (built-in variable) BlockFull.sample.process (built-in variable) BlockFull.sample.process.density (built-in variable) BlockFull.sample.process.formula (built-in variable) BlockFull.sample.process.offset (built-in variable) BlockFull.sample.process.ref_index (built-in variable) BlockFull.sample.process.smoothing (built-in variable) BlockFull.sample.process.thickness (built-in variable) BlockFull.sample.process.zoom (built-in variable) BlockFull.sample.recon (built-in variable) BlockFull.sample.recon.rfile (built-in variable) BlockFull.sample.stxm (built-in variable) BlockFull.sample.stxm.label (built-in variable) BlockFull.tags (built-in variable) BlockGradFull (built-in variable) (class in ptypy.core.manager) BlockGradFull.coherence (built-in variable) BlockGradFull.coherence.energies (built-in variable) BlockGradFull.coherence.num_object_modes (built-in variable) BlockGradFull.coherence.num_probe_modes (built-in variable) BlockGradFull.coherence.object_dispersion (built-in variable) BlockGradFull.coherence.probe_dispersion (built-in variable) BlockGradFull.coherence.spectrum (built-in variable) BlockGradFull.data (built-in variable) BlockGradFull.data.name (built-in variable) BlockGradFull.ffttype (built-in variable) BlockGradFull.illumination (built-in variable) BlockGradFull.name (built-in variable) BlockGradFull.propagation (built-in variable) BlockGradFull.resample (built-in variable) BlockGradFull.resolution (built-in variable) BlockGradFull.sample (built-in variable) BlockGradFull.tags (built-in variable) BlockOPRModel (built-in variable) (class in ptypy.core.manager) BlockOPRModel.coherence (built-in variable) BlockOPRModel.coherence.energies (built-in variable) BlockOPRModel.coherence.num_object_modes (built-in variable) BlockOPRModel.coherence.num_probe_modes (built-in variable) BlockOPRModel.coherence.object_dispersion (built-in variable) BlockOPRModel.coherence.probe_dispersion (built-in variable) BlockOPRModel.coherence.spectrum (built-in variable) BlockOPRModel.data (built-in variable) BlockOPRModel.data.name (built-in variable) BlockOPRModel.ffttype (built-in variable) BlockOPRModel.illumination (built-in variable) BlockOPRModel.name (built-in variable) BlockOPRModel.propagation (built-in variable) BlockOPRModel.resample (built-in variable) BlockOPRModel.resolution (built-in variable) BlockOPRModel.sample (built-in variable) BlockOPRModel.tags (built-in variable) BlockScanModel (built-in variable) (class in ptypy.core.manager) BlockScanModel.data (built-in variable) BlockScanModel.data.name (built-in variable) BlockScanModel.ffttype (built-in variable) BlockScanModel.illumination (built-in variable) BlockScanModel.propagation (built-in variable) BlockScanModel.resample (built-in variable) BlockScanModel.sample (built-in variable) BlockScanModel.tags (built-in variable) BlockVanilla (built-in variable) (class in ptypy.core.manager) BlockVanilla.data (built-in variable) BlockVanilla.data.name (built-in variable) BlockVanilla.ffttype (built-in variable) BlockVanilla.illumination (built-in variable) BlockVanilla.illumination.size (built-in variable) BlockVanilla.name (built-in variable) BlockVanilla.propagation (built-in variable) BlockVanilla.resample (built-in variable) BlockVanilla.sample (built-in variable) BlockVanilla.sample.fill (built-in variable) BlockVanilla.tags (built-in variable) Bragg3dClient (class in ptypy.utils.plot_client) Bragg3dModel (built-in variable) (class in ptypy.core.manager) Bragg3dModel.data (built-in variable) Bragg3dModel.data.name (built-in variable) Bragg3dModel.ffttype (built-in variable) Bragg3dModel.illumination (built-in variable) Bragg3dModel.illumination.aperture (built-in variable) Bragg3dModel.illumination.aperture.central_stop (built-in variable) Bragg3dModel.illumination.aperture.diffuser (built-in variable) Bragg3dModel.illumination.aperture.edge (built-in variable) Bragg3dModel.illumination.aperture.form (built-in variable) Bragg3dModel.illumination.aperture.offset (built-in variable) Bragg3dModel.illumination.aperture.rotate (built-in variable) Bragg3dModel.illumination.aperture.size (built-in variable) Bragg3dModel.illumination.model (built-in variable) Bragg3dModel.illumination.photons (built-in variable) Bragg3dModel.illumination.propagation (built-in variable) Bragg3dModel.illumination.propagation.antialiasing (built-in variable) Bragg3dModel.illumination.propagation.focussed (built-in variable) Bragg3dModel.illumination.propagation.parallel (built-in variable) Bragg3dModel.illumination.propagation.spot_size (built-in variable) Bragg3dModel.illumination.recon (built-in variable) Bragg3dModel.illumination.recon.label (built-in variable) Bragg3dModel.illumination.recon.rfile (built-in variable) Bragg3dModel.illumination.size (built-in variable) Bragg3dModel.name (built-in variable) Bragg3dModel.propagation (built-in variable) Bragg3dModel.resample (built-in variable) Bragg3dModel.sample (built-in variable) Bragg3dModel.sample.fill (built-in variable) Bragg3dModel.tags (built-in variable) bw (ptypy.core.classes.POD property) bw() (ptypy.core.geometry.BasicFarfieldPropagator method) (ptypy.core.geometry.BasicNearfieldPropagator method) C c_zoom() (in module ptypy.utils.array_utils) cabs2() (in module ptypy.utils.math_utils) Cdot() (in module ptypy.engines.utils) center (ptypy.core.classes.Storage property) center_probe() (ptypy.custom.ePIE_parallel.EPIEParallel method) (ptypy.custom.WASP.WASP method) check() (ptypy.core.data.MoonFlowerScan method) (ptypy.core.data.PtydScan method) (ptypy.core.data.PtyScan method) (ptypy.core.data.QuickScan method) (ptypy.experiment.ALS_5321.ALS5321Scan method) (ptypy.experiment.AMO_LCLS.AMOScan method) (ptypy.experiment.cSAXS.cSAXSScan method) (ptypy.experiment.diamond_nexus.DiamondNexus method) (ptypy.experiment.diamond_streaming.DiamondZMQLoader method) (ptypy.experiment.DiProI_FERMI.DiProIFERMIScan method) (ptypy.experiment.epsic_loader.EpsicHdf5Loader method) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast method) (ptypy.experiment.hdf5_loader.Hdf5Loader method) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast method) (ptypy.experiment.ID16Anfp.ID16AScan method) (ptypy.experiment.nanomax.NanomaxContrast method) (ptypy.experiment.nanomax.NanomaxFlyscanDec2019 method) (ptypy.experiment.nanomax.NanomaxFlyscanMay2019 method) (ptypy.experiment.nanomax.NanomaxStepscanNov2018 method) (ptypy.experiment.nanomax.NanomaxStepscanSep2019 method) (ptypy.experiment.nanomax3d.NanomaxBraggJune2017 method) (ptypy.experiment.nanomax_streaming.NanomaxZmqScan method) (ptypy.experiment.optiklabor.FliSpecScanMultexp method) (ptypy.experiment.savu.Savu method) (ptypy.experiment.swmr_loader.SwmrLoader method) (ptypy.experiment.UCL.UCLLaserScan method) (ptypy.simulations.simscan.SimScan method) (ptypy.utils.descriptor.EvalDescriptor method) children (ptypy.utils.descriptor.ArgParseDescriptor attribute) (ptypy.utils.descriptor.Descriptor attribute) (ptypy.utils.descriptor.EvalDescriptor attribute) choices (ptypy.utils.descriptor.ArgParseDescriptor property) (ptypy.utils.descriptor.EvalDescriptor property) clean_path() (in module ptypy.utils.misc) cleanup() (ptypy.engines.posref.AnnealingRefine method) (ptypy.engines.posref.GridSearchRefine method) (ptypy.engines.posref.PositionRefine method) clear() (ptypy.core.classes.Container method) (ptypy.utils.parameters.Param method) Client (class in ptypy.io.interaction) clip_object() (ptypy.custom.WASP.WASP method) Cnorm2() (in module ptypy.engines.utils) CODES (class in ptypy.utils.descriptor) complex2hsv() (in module ptypy.utils.plot_utils) complex2rgb() (in module ptypy.utils.plot_utils) complex_overload() (in module ptypy.utils.misc) compute_scan_mapping_and_trajectory() (ptypy.experiment.diamond_nexus.DiamondNexus method) (ptypy.experiment.epsic_loader.EpsicHdf5Loader method) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast method) (ptypy.experiment.hdf5_loader.Hdf5Loader method) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast method) (ptypy.experiment.swmr_loader.SwmrLoader method) Container (class in ptypy.core.classes) containers (ptypy.core.ptycho.Ptycho property) conv() (in module ptypy.simulations.detector) converter() (ptypy.utils.verbose.CustomFormatter method) convertStr() (in module ptypy.io.edfIO) coord (ptypy.core.classes.View property) copies (ptypy.core.classes.Container property) copy() (ptypy.core.classes.Container method) (ptypy.core.classes.Storage method) (ptypy.utils.parameters.Param method) copy_state() (ptypy.core.ptycho.Ptycho method) correct() (ptypy.core.data.MoonFlowerScan method) (ptypy.core.data.PtydScan method) (ptypy.core.data.PtyScan method) (ptypy.core.data.QuickScan method) (ptypy.experiment.ALS_5321.ALS5321Scan method) (ptypy.experiment.AMO_LCLS.AMOScan method) (ptypy.experiment.cSAXS.cSAXSScan method) (ptypy.experiment.diamond_nexus.DiamondNexus method) (ptypy.experiment.diamond_streaming.DiamondZMQLoader method) (ptypy.experiment.DiProI_FERMI.DiProIFERMIScan method) (ptypy.experiment.epsic_loader.EpsicHdf5Loader method) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast method) (ptypy.experiment.hdf5_loader.Hdf5Loader method) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast method) (ptypy.experiment.ID16Anfp.ID16AScan method) (ptypy.experiment.nanomax.NanomaxContrast method) (ptypy.experiment.nanomax.NanomaxFlyscanDec2019 method) (ptypy.experiment.nanomax.NanomaxFlyscanMay2019 method) (ptypy.experiment.nanomax.NanomaxStepscanNov2018 method) (ptypy.experiment.nanomax.NanomaxStepscanSep2019 method) (ptypy.experiment.nanomax3d.NanomaxBraggJune2017 method) (ptypy.experiment.nanomax_streaming.NanomaxZmqScan method) (ptypy.experiment.optiklabor.FliSpecScanMultexp method) (ptypy.experiment.savu.Savu method) (ptypy.experiment.swmr_loader.SwmrLoader method) (ptypy.experiment.UCL.UCLLaserScan method) (ptypy.simulations.simscan.SimScan method) create_template() (ptypy.utils.descriptor.EvalDescriptor method) crop_pad() (in module ptypy.utils.array_utils) crop_pad_axis() (in module ptypy.utils.array_utils) crop_pad_symmetric_2d() (in module ptypy.utils.array_utils) cSAXSScan (class in ptypy.experiment.cSAXS) CustomFormatter (class in ptypy.utils.verbose) cxro_iref() (in module ptypy.utils.scripts) czoom() (in module ptypy.simulations.ptysim_utils) D data (ptypy.core.classes.Storage attribute) (ptypy.core.classes.View property) data_type (ptypy.core.classes.Container attribute) dcoord (ptypy.core.classes.View property) DEBUG() (in module ptypy.io.interaction) decompress() (in module ptypy.experiment.nanomax_streaming) default (ptypy.utils.descriptor.ArgParseDescriptor property) (ptypy.utils.descriptor.EvalDescriptor property) default() (ptypy.io.interaction.NumpyEncoder method) (ptypy.io.json_rw.NumpyEncoder method) DEFAULT_VIEWS (ptypy.core.classes.POD attribute) delete_copy() (ptypy.core.classes.Container method) delxb() (in module ptypy.utils.math_utils) delxc() (in module ptypy.utils.math_utils) delxf() (in module ptypy.utils.math_utils) descendants (ptypy.utils.descriptor.ArgParseDescriptor property) (ptypy.utils.descriptor.Descriptor property) (ptypy.utils.descriptor.EvalDescriptor property) Descriptor (class in ptypy.utils.descriptor) Detector (class in ptypy.simulations.detector) dhigh (ptypy.core.classes.View property) DiamondNexus (class in ptypy.experiment.diamond_nexus) DiamondZMQLoader (class in ptypy.experiment.diamond_streaming) diff (ptypy.core.classes.POD property) DiProIFERMIScan (class in ptypy.experiment.DiProI_FERMI) disconnect() (ptypy.utils.plot_client.PlotClient method) distance (ptypy.core.geometry.Geo property) diversify() (in module ptypy.utils.scripts) dlayer (ptypy.core.classes.View property) dlow (ptypy.core.classes.View property) DM (built-in variable) (class in ptypy.engines.projectional) DM.alpha (built-in variable) DM.clip_object (built-in variable) DM.compute_log_likelihood (built-in variable) DM.fourier_power_bound (built-in variable) DM.fourier_relax_factor (built-in variable) DM.name (built-in variable) DM.numiter (built-in variable) DM.numiter_contiguous (built-in variable) DM.obj_smooth_std (built-in variable) DM.object_inertia (built-in variable) DM.overlap_converge_factor (built-in variable) DM.overlap_max_iterations (built-in variable) DM.position_refinement (built-in variable) DM.position_refinement.amplitude (built-in variable) DM.position_refinement.amplitude_decay (built-in variable) DM.position_refinement.interval (built-in variable) DM.position_refinement.max_shift (built-in variable) DM.position_refinement.method (built-in variable) DM.position_refinement.metric (built-in variable) DM.position_refinement.nshifts (built-in variable) DM.position_refinement.record (built-in variable) DM.position_refinement.start (built-in variable) DM.position_refinement.stop (built-in variable) DM.probe_center_tol (built-in variable) DM.probe_fourier_support (built-in variable) DM.probe_inertia (built-in variable) DM.probe_support (built-in variable) DM.probe_update_start (built-in variable) DM.record_local_error (built-in variable) DM.subpix (built-in variable) DM.subpix_start (built-in variable) DM.update_object_first (built-in variable) DM_3dBragg (built-in variable) (class in ptypy.engines.Bragg3d_engines) DM_3dBragg.alpha (built-in variable) DM_3dBragg.clip_object (built-in variable) DM_3dBragg.compute_log_likelihood (built-in variable) DM_3dBragg.fourier_power_bound (built-in variable) DM_3dBragg.fourier_relax_factor (built-in variable) DM_3dBragg.name (built-in variable) DM_3dBragg.numiter (built-in variable) DM_3dBragg.numiter_contiguous (built-in variable) DM_3dBragg.obj_smooth_std (built-in variable) DM_3dBragg.object_inertia (built-in variable) DM_3dBragg.overlap_converge_factor (built-in variable) DM_3dBragg.overlap_max_iterations (built-in variable) DM_3dBragg.position_refinement (built-in variable) DM_3dBragg.position_refinement.amplitude (built-in variable) DM_3dBragg.position_refinement.amplitude_decay (built-in variable) DM_3dBragg.position_refinement.interval (built-in variable) DM_3dBragg.position_refinement.max_shift (built-in variable) DM_3dBragg.position_refinement.method (built-in variable) DM_3dBragg.position_refinement.metric (built-in variable) DM_3dBragg.position_refinement.nshifts (built-in variable) DM_3dBragg.position_refinement.record (built-in variable) DM_3dBragg.position_refinement.start (built-in variable) DM_3dBragg.position_refinement.stop (built-in variable) DM_3dBragg.probe_center_tol (built-in variable) DM_3dBragg.probe_fourier_support (built-in variable) DM_3dBragg.probe_inertia (built-in variable) DM_3dBragg.probe_support (built-in variable) DM_3dBragg.probe_update_start (built-in variable) DM_3dBragg.record_local_error (built-in variable) DM_3dBragg.sample_support (built-in variable) DM_3dBragg.sample_support.coefficient (built-in variable) DM_3dBragg.sample_support.shrinkwrap (built-in variable) DM_3dBragg.sample_support.shrinkwrap.cutoff (built-in variable) DM_3dBragg.sample_support.shrinkwrap.monotonic (built-in variable) DM_3dBragg.sample_support.shrinkwrap.plot (built-in variable) DM_3dBragg.sample_support.shrinkwrap.smooth (built-in variable) DM_3dBragg.sample_support.shrinkwrap.start (built-in variable) DM_3dBragg.sample_support.size (built-in variable) DM_3dBragg.sample_support.type (built-in variable) DM_3dBragg.subpix (built-in variable) DM_3dBragg.subpix_start (built-in variable) DM_3dBragg.update_object_first (built-in variable) DM_object_regul (class in ptypy.custom.DM_object_regul) DMMixin (class in ptypy.engines.projectional) DMOPR (class in ptypy.custom.DMOPR) do() (ptypy.io.interaction.Client method) doc (ptypy.utils.descriptor.EvalDescriptor property) downsample (ptypy.core.classes.POD property) downsample() (ptypy.core.geometry.Geo method) dtype (ptypy.core.classes.Container property) dynamic_load() (in module ptypy.engines.utils) E edfread() (in module ptypy.io.edfIO) electron_wavelength() (in module ptypy.utils.misc) ellipsis() (in module ptypy.utils.array_utils) encode() (ptypy.io.interaction.NumpyEncoder method) (ptypy.io.json_rw.NumpyEncoder method) energy (ptypy.core.geometry.Geo property) engine_finalize() (ptypy.custom.DM_object_regul.DM_object_regul method) (ptypy.custom.DMOPR.DMOPR method) (ptypy.custom.ePIE_parallel.EPIEParallel method) (ptypy.custom.MLOPR.MLOPR method) (ptypy.custom.threepie.ThreePIE method) (ptypy.custom.WASP.WASP method) (ptypy.engines.base.Base3dBraggEngine method) (ptypy.engines.base.BaseEngine method) (ptypy.engines.base.PositionCorrectionEngine method) (ptypy.engines.Bragg3d_engines.DM_3dBragg method) (ptypy.engines.ML.ML method) (ptypy.engines.projectional.DM method) (ptypy.engines.projectional.RAAR method) (ptypy.engines.stochastic.EPIE method) (ptypy.engines.stochastic.SDR method) engine_initialize() (ptypy.custom.DM_object_regul.DM_object_regul method) (ptypy.custom.DMOPR.DMOPR method) (ptypy.custom.ePIE_parallel.EPIEParallel method) (ptypy.custom.MLOPR.MLOPR method) (ptypy.custom.threepie.ThreePIE method) (ptypy.custom.WASP.WASP method) (ptypy.engines.base.Base3dBraggEngine method) (ptypy.engines.base.BaseEngine method) (ptypy.engines.base.PositionCorrectionEngine method) (ptypy.engines.Bragg3d_engines.DM_3dBragg method) (ptypy.engines.ML.ML method) (ptypy.engines.projectional.DM method) (ptypy.engines.projectional.RAAR method) (ptypy.engines.stochastic.EPIE method) (ptypy.engines.stochastic.SDR method) engine_iterate() (ptypy.custom.DM_object_regul.DM_object_regul method) (ptypy.custom.DMOPR.DMOPR method) (ptypy.custom.ePIE_parallel.EPIEParallel method) (ptypy.custom.MLOPR.MLOPR method) (ptypy.custom.threepie.ThreePIE method) (ptypy.custom.WASP.WASP method) (ptypy.engines.base.Base3dBraggEngine method) (ptypy.engines.base.BaseEngine method) (ptypy.engines.base.PositionCorrectionEngine method) (ptypy.engines.Bragg3d_engines.DM_3dBragg method) (ptypy.engines.ML.ML method) (ptypy.engines.projectional.DM method) (ptypy.engines.projectional.RAAR method) (ptypy.engines.stochastic.EPIE method) (ptypy.engines.stochastic.SDR method) engine_prepare() (ptypy.custom.DM_object_regul.DM_object_regul method) (ptypy.custom.DMOPR.DMOPR method) (ptypy.custom.ePIE_parallel.EPIEParallel method) (ptypy.custom.MLOPR.MLOPR method) (ptypy.custom.threepie.ThreePIE method) (ptypy.custom.WASP.WASP method) (ptypy.engines.base.Base3dBraggEngine method) (ptypy.engines.base.BaseEngine method) (ptypy.engines.base.PositionCorrectionEngine method) (ptypy.engines.Bragg3d_engines.DM_3dBragg method) (ptypy.engines.ML.ML method) (ptypy.engines.projectional.DM method) (ptypy.engines.projectional.RAAR method) (ptypy.engines.stochastic.EPIE method) (ptypy.engines.stochastic.SDR method) EPIE (built-in variable) (class in ptypy.engines.stochastic) EPIE.alpha (built-in variable) EPIE.beta (built-in variable) EPIE.compute_log_likelihood (built-in variable) EPIE.name (built-in variable) EPIE.numiter (built-in variable) EPIE.numiter_contiguous (built-in variable) EPIE.object_norm_is_global (built-in variable) EPIE.position_refinement (built-in variable) EPIE.position_refinement.amplitude (built-in variable) EPIE.position_refinement.amplitude_decay (built-in variable) EPIE.position_refinement.interval (built-in variable) EPIE.position_refinement.max_shift (built-in variable) EPIE.position_refinement.method (built-in variable) EPIE.position_refinement.metric (built-in variable) EPIE.position_refinement.nshifts (built-in variable) EPIE.position_refinement.record (built-in variable) EPIE.position_refinement.start (built-in variable) EPIE.position_refinement.stop (built-in variable) EPIE.probe_center_tol (built-in variable) EPIE.probe_fourier_support (built-in variable) EPIE.probe_support (built-in variable) EPIE.probe_update_start (built-in variable) EPIE.record_local_error (built-in variable) EPIEMixin (class in ptypy.engines.stochastic) EPIEParallel (class in ptypy.custom.ePIE_parallel) EpsicHdf5Loader (class in ptypy.experiment.epsic_loader) EpsicHdf5LoaderFast (class in ptypy.experiment.epsic_loader) estimate_fourier_metric() (ptypy.engines.posref.AnnealingRefine method) (ptypy.engines.posref.GridSearchRefine method) (ptypy.engines.posref.PositionRefine method) estimate_photon_metric() (ptypy.engines.posref.AnnealingRefine method) (ptypy.engines.posref.GridSearchRefine method) (ptypy.engines.posref.PositionRefine method) EuclidModel (class in ptypy.engines.ML) eval() (ptypy.utils.descriptor.ArgParseDescriptor method) (ptypy.utils.descriptor.EvalDescriptor method) EvalDescriptor (class in ptypy.utils.descriptor) exit (ptypy.core.classes.POD property) exp_positions() (in module ptypy.simulations.ptysim_utils) expect2() (in module ptypy.simulations.detector) (in module ptypy.utils.misc) expect3() (in module ptypy.utils.misc) expectN() (in module ptypy.utils.misc) F FFTchooser (class in ptypy.core.geometry) figure_from_ptycho() (in module ptypy.utils.plot_client) figure_from_ptyr() (in module ptypy.utils.plot_client) fill() (ptypy.core.classes.Container method) (ptypy.core.classes.Storage method) fill2D() (in module ptypy.simulations.detector) fill3D() (in module ptypy.utils.array_utils) fill_value (ptypy.core.classes.Storage attribute) filter() (ptypy.utils.verbose.MPIFilter method) finalize() (ptypy.core.ptycho.Ptycho method) (ptypy.custom.DM_object_regul.DM_object_regul method) (ptypy.custom.DMOPR.DMOPR method) (ptypy.custom.ePIE_parallel.EPIEParallel method) (ptypy.custom.MLOPR.MLOPR method) (ptypy.custom.threepie.ThreePIE method) (ptypy.custom.WASP.WASP method) (ptypy.engines.base.Base3dBraggEngine method) (ptypy.engines.base.BaseEngine method) (ptypy.engines.base.PositionCorrectionEngine method) (ptypy.engines.Bragg3d_engines.DM_3dBragg method) (ptypy.engines.ML.ML method) (ptypy.engines.projectional.DM method) (ptypy.engines.projectional.RAAR method) (ptypy.engines.stochastic.EPIE method) (ptypy.engines.stochastic.SDR method) FliSpecScanMultexp (class in ptypy.experiment.optiklabor) flower_obj() (in module ptypy.resources) flush() (ptypy.io.interaction.Client method) format() (ptypy.utils.verbose.CustomFormatter method) format_standard_param() (in module ptypy.utils.parameters) formatException() (ptypy.utils.verbose.CustomFormatter method) formatStack() (ptypy.utils.verbose.CustomFormatter method) formatted_report() (ptypy.core.classes.Container method) (ptypy.core.classes.Storage method) formatTime() (ptypy.utils.verbose.CustomFormatter method) fourier_update() (ptypy.custom.DM_object_regul.DM_object_regul method) (ptypy.custom.DMOPR.DMOPR method) (ptypy.custom.threepie.ThreePIE method) (ptypy.custom.WASP.WASP method) (ptypy.engines.Bragg3d_engines.DM_3dBragg method) (ptypy.engines.projectional.DM method) (ptypy.engines.projectional.RAAR method) (ptypy.engines.stochastic.EPIE method) (ptypy.engines.stochastic.SDR method) franzmap() (in module ptypy.utils.plot_utils) from_h5() (in module ptypy.core.save_load) from_pars() (in module ptypy.core.xy) from_string() (ptypy.utils.descriptor.ArgParseDescriptor method) (ptypy.utils.descriptor.Descriptor method) (ptypy.utils.descriptor.EvalDescriptor method) fromkeys() (ptypy.utils.parameters.Param class method) Full (built-in variable) (class in ptypy.core.manager) Full.coherence (built-in variable) Full.coherence.energies (built-in variable) Full.coherence.num_object_modes (built-in variable) Full.coherence.num_probe_modes (built-in variable) Full.coherence.object_dispersion (built-in variable) Full.coherence.probe_dispersion (built-in variable) Full.coherence.spectrum (built-in variable) Full.data (built-in variable) Full.data.name (built-in variable) Full.ffttype (built-in variable) Full.illumination (built-in variable) Full.illumination.aperture (built-in variable) Full.illumination.aperture.central_stop (built-in variable) Full.illumination.aperture.diffuser (built-in variable) Full.illumination.aperture.edge (built-in variable) Full.illumination.aperture.form (built-in variable) Full.illumination.aperture.offset (built-in variable) Full.illumination.aperture.rotate (built-in variable) Full.illumination.aperture.size (built-in variable) Full.illumination.diversity (built-in variable) Full.illumination.diversity.noise (built-in variable) Full.illumination.diversity.power (built-in variable) Full.illumination.diversity.shift (built-in variable) Full.illumination.model (built-in variable) Full.illumination.photons (built-in variable) Full.illumination.propagation (built-in variable) Full.illumination.propagation.antialiasing (built-in variable) Full.illumination.propagation.focussed (built-in variable) Full.illumination.propagation.parallel (built-in variable) Full.illumination.propagation.spot_size (built-in variable) Full.illumination.recon (built-in variable) Full.illumination.recon.label (built-in variable) Full.illumination.recon.rfile (built-in variable) Full.name (built-in variable) Full.propagation (built-in variable) Full.resample (built-in variable) Full.resolution (built-in variable) Full.sample (built-in variable) Full.sample.diversity (built-in variable) Full.sample.diversity.noise (built-in variable) Full.sample.diversity.power (built-in variable) Full.sample.diversity.shift (built-in variable) Full.sample.fill (built-in variable) Full.sample.model (built-in variable) Full.sample.process (built-in variable) Full.sample.process.density (built-in variable) Full.sample.process.formula (built-in variable) Full.sample.process.offset (built-in variable) Full.sample.process.ref_index (built-in variable) Full.sample.process.smoothing (built-in variable) Full.sample.process.thickness (built-in variable) Full.sample.process.zoom (built-in variable) Full.sample.recon (built-in variable) Full.sample.recon.rfile (built-in variable) Full.sample.stxm (built-in variable) Full.sample.stxm.label (built-in variable) Full.tags (built-in variable) fw (ptypy.core.classes.POD property) fw() (ptypy.core.geometry.BasicFarfieldPropagator method) (ptypy.core.geometry.BasicNearfieldPropagator method) G gather_dict() (in module ptypy.utils.parallel) gather_list() (in module ptypy.utils.parallel) gauss_fwhm() (in module ptypy.utils.math_utils) gaussian() (in module ptypy.utils.math_utils) gaussian2D() (in module ptypy.utils.math_utils) GaussianModel (class in ptypy.engines.ML) Geo (class in ptypy.core.geometry) geometry (ptypy.core.classes.POD attribute) get() (ptypy.io.interaction.Client method) (ptypy.utils.descriptor.ArgParseDescriptor method) (ptypy.utils.descriptor.Descriptor method) (ptypy.utils.descriptor.EvalDescriptor method) (ptypy.utils.parameters.Param method) get_class() (in module ptypy.core.classes) get_corrected_intensities() (ptypy.experiment.diamond_nexus.DiamondNexus method) (ptypy.experiment.epsic_loader.EpsicHdf5Loader method) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast method) (ptypy.experiment.hdf5_loader.Hdf5Loader method) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast method) (ptypy.experiment.swmr_loader.SwmrLoader method) get_data() (ptypy.utils.plot_client.PlotClient method) get_data_chunk() (ptypy.core.data.MoonFlowerScan method) (ptypy.core.data.PtydScan method) (ptypy.core.data.PtyScan method) (ptypy.core.data.QuickScan method) (ptypy.experiment.ALS_5321.ALS5321Scan method) (ptypy.experiment.AMO_LCLS.AMOScan method) (ptypy.experiment.cSAXS.cSAXSScan method) (ptypy.experiment.diamond_nexus.DiamondNexus method) (ptypy.experiment.diamond_streaming.DiamondZMQLoader method) (ptypy.experiment.DiProI_FERMI.DiProIFERMIScan method) (ptypy.experiment.epsic_loader.EpsicHdf5Loader method) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast method) (ptypy.experiment.hdf5_loader.Hdf5Loader method) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast method) (ptypy.experiment.ID16Anfp.ID16AScan method) (ptypy.experiment.nanomax.NanomaxContrast method) (ptypy.experiment.nanomax.NanomaxFlyscanDec2019 method) (ptypy.experiment.nanomax.NanomaxFlyscanMay2019 method) (ptypy.experiment.nanomax.NanomaxStepscanNov2018 method) (ptypy.experiment.nanomax.NanomaxStepscanSep2019 method) (ptypy.experiment.nanomax3d.NanomaxBraggJune2017 method) (ptypy.experiment.nanomax_streaming.NanomaxZmqScan method) (ptypy.experiment.optiklabor.FliSpecScanMultexp method) (ptypy.experiment.savu.Savu method) (ptypy.experiment.swmr_loader.SwmrLoader method) (ptypy.experiment.UCL.UCLLaserScan method) (ptypy.simulations.simscan.SimScan method) get_data_object() (in module ptypy.experiment.cSAXS) get_data_path() (in module ptypy.experiment.cSAXS) get_level() (in module ptypy.utils.verbose) get_mask_path() (in module ptypy.experiment.cSAXS) get_now() (ptypy.io.interaction.Client method) get_position_path() (in module ptypy.experiment.cSAXS) get_positions() (in module ptypy.experiment.cSAXS) get_propagator() (in module ptypy.core.geometry) get_view_coverage() (ptypy.core.classes.Storage method) gf() (in module ptypy.utils.math_utils) gf_2d() (in module ptypy.utils.math_utils) grad() (ptypy.engines.ML.Regul_del2 method) GradFull (built-in variable) (class in ptypy.core.manager) GradFull.coherence (built-in variable) GradFull.coherence.energies (built-in variable) GradFull.coherence.num_object_modes (built-in variable) GradFull.coherence.num_probe_modes (built-in variable) GradFull.coherence.object_dispersion (built-in variable) GradFull.coherence.probe_dispersion (built-in variable) GradFull.coherence.spectrum (built-in variable) GradFull.data (built-in variable) GradFull.data.name (built-in variable) GradFull.ffttype (built-in variable) GradFull.illumination (built-in variable) GradFull.name (built-in variable) GradFull.propagation (built-in variable) GradFull.resample (built-in variable) GradFull.resolution (built-in variable) GradFull.sample (built-in variable) GradFull.tags (built-in variable) grids() (in module ptypy.utils.array_utils) (ptypy.core.classes.Storage method) GridSearchRefine (class in ptypy.engines.posref) H h5append() (in module ptypy.io.h5rw) h5info() (in module ptypy.io.h5rw) h5read() (in module ptypy.io.h5rw) h5write() (in module ptypy.io.h5rw) Hdf5Loader (class in ptypy.experiment.hdf5_loader) Hdf5LoaderFast (class in ptypy.experiment.hdf5_loader) hdr_image() (in module ptypy.utils.scripts) headerline() (in module ptypy.utils.verbose) help (ptypy.utils.descriptor.ArgParseDescriptor property) (ptypy.utils.descriptor.EvalDescriptor property) hsv2complex() (in module ptypy.utils.plot_utils) hsv2rgb() (in module ptypy.utils.plot_utils) HSV_to_P1A() (in module ptypy.utils.plot_utils) HSV_to_RGB() (in module ptypy.utils.plot_utils) I ID16AScan (class in ptypy.experiment.ID16Anfp) ID_generator() (in module ptypy.io.interaction) ilog_message() (in module ptypy.utils.verbose) ilog_newline() (in module ptypy.utils.verbose) ilog_streamer() (in module ptypy.utils.verbose) imload() (in module ptypy.utils.plot_utils) imread() (in module ptypy.io.imageIO) imsave() (in module ptypy.utils.plot_utils) info (ptypy.core.data.MoonFlowerScan attribute) (ptypy.core.data.PtydScan attribute) (ptypy.core.data.PtyScan attribute) (ptypy.core.data.QuickScan attribute) (ptypy.experiment.ALS_5321.ALS5321Scan attribute) (ptypy.experiment.AMO_LCLS.AMOScan attribute) (ptypy.experiment.cSAXS.cSAXSScan attribute) (ptypy.experiment.diamond_nexus.DiamondNexus attribute) (ptypy.experiment.diamond_streaming.DiamondZMQLoader attribute) (ptypy.experiment.DiProI_FERMI.DiProIFERMIScan attribute) (ptypy.experiment.epsic_loader.EpsicHdf5Loader attribute) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast attribute) (ptypy.experiment.hdf5_loader.Hdf5Loader attribute) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast attribute) (ptypy.experiment.ID16Anfp.ID16AScan attribute) (ptypy.experiment.nanomax.NanomaxContrast attribute) (ptypy.experiment.nanomax.NanomaxFlyscanDec2019 attribute) (ptypy.experiment.nanomax.NanomaxFlyscanMay2019 attribute) (ptypy.experiment.nanomax.NanomaxStepscanNov2018 attribute) (ptypy.experiment.nanomax.NanomaxStepscanSep2019 attribute) (ptypy.experiment.nanomax3d.NanomaxBraggJune2017 attribute) (ptypy.experiment.nanomax_streaming.NanomaxZmqScan attribute) (ptypy.experiment.optiklabor.FliSpecScanMultexp attribute) (ptypy.experiment.savu.Savu attribute) (ptypy.experiment.swmr_loader.SwmrLoader attribute) (ptypy.experiment.UCL.UCLLaserScan attribute) (ptypy.simulations.simscan.SimScan attribute) info() (ptypy.core.classes.Container method) init_communication() (ptypy.core.ptycho.Ptycho method) init_data() (ptypy.core.ptycho.Ptycho method) init_engine() (ptypy.core.ptycho.Ptycho method) init_storage() (in module ptypy.core.illumination) (in module ptypy.core.sample) init_structures() (ptypy.core.ptycho.Ptycho method) initialize() (ptypy.core.data.MoonFlowerScan method) (ptypy.core.data.PtydScan method) (ptypy.core.data.PtyScan method) (ptypy.core.data.QuickScan method) (ptypy.custom.DM_object_regul.DM_object_regul method) (ptypy.custom.DMOPR.DMOPR method) (ptypy.custom.ePIE_parallel.EPIEParallel method) (ptypy.custom.MLOPR.MLOPR method) (ptypy.custom.threepie.ThreePIE method) (ptypy.custom.WASP.WASP method) (ptypy.engines.base.Base3dBraggEngine method) (ptypy.engines.base.BaseEngine method) (ptypy.engines.base.PositionCorrectionEngine method) (ptypy.engines.Bragg3d_engines.DM_3dBragg method) (ptypy.engines.ML.ML method) (ptypy.engines.projectional.DM method) (ptypy.engines.projectional.RAAR method) (ptypy.engines.stochastic.EPIE method) (ptypy.engines.stochastic.SDR method) (ptypy.experiment.ALS_5321.ALS5321Scan method) (ptypy.experiment.AMO_LCLS.AMOScan method) (ptypy.experiment.cSAXS.cSAXSScan method) (ptypy.experiment.diamond_nexus.DiamondNexus method) (ptypy.experiment.diamond_streaming.DiamondZMQLoader method) (ptypy.experiment.DiProI_FERMI.DiProIFERMIScan method) (ptypy.experiment.epsic_loader.EpsicHdf5Loader method) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast method) (ptypy.experiment.hdf5_loader.Hdf5Loader method) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast method) (ptypy.experiment.ID16Anfp.ID16AScan method) (ptypy.experiment.nanomax.NanomaxContrast method) (ptypy.experiment.nanomax.NanomaxFlyscanDec2019 method) (ptypy.experiment.nanomax.NanomaxFlyscanMay2019 method) (ptypy.experiment.nanomax.NanomaxStepscanNov2018 method) (ptypy.experiment.nanomax.NanomaxStepscanSep2019 method) (ptypy.experiment.nanomax3d.NanomaxBraggJune2017 method) (ptypy.experiment.nanomax_streaming.NanomaxZmqScan method) (ptypy.experiment.optiklabor.FliSpecScanMultexp method) (ptypy.experiment.savu.Savu method) (ptypy.experiment.swmr_loader.SwmrLoader method) (ptypy.experiment.UCL.UCLLaserScan method) (ptypy.simulations.simscan.SimScan method) insert_records() (ptypy.utils.misc.Table method) interact (ptypy.core.geometry.Geo attribute) interaction (built-in variable) interaction.client (built-in variable) interaction.client.address (built-in variable) interaction.client.connection_timeout (built-in variable) interaction.client.pinginterval (built-in variable) interaction.client.poll_timeout (built-in variable) interaction.client.port (built-in variable) interaction.server (built-in variable) interaction.server.active (built-in variable) interaction.server.address (built-in variable) interaction.server.connections (built-in variable) interaction.server.pinginterval (built-in variable) interaction.server.pingtimeout (built-in variable) interaction.server.poll_timeout (built-in variable) interaction.server.port (built-in variable) interactor (ptypy.core.ptycho.Ptycho attribute) ipshell() (in module ptypy.debug.embedded_shell) IPythonKernelThread (class in ptypy.debug.ipython_kernel) is_child (ptypy.utils.descriptor.ArgParseDescriptor property) (ptypy.utils.descriptor.Descriptor property) (ptypy.utils.descriptor.EvalDescriptor property) is_str() (in module ptypy.io.interaction) is_symlink (ptypy.utils.descriptor.EvalDescriptor property) is_target (ptypy.utils.descriptor.EvalDescriptor property) isstr() (in module ptypy.utils.misc) items() (ptypy.utils.parameters.Param method) iterate() (ptypy.custom.DM_object_regul.DM_object_regul method) (ptypy.custom.DMOPR.DMOPR method) (ptypy.custom.ePIE_parallel.EPIEParallel method) (ptypy.custom.MLOPR.MLOPR method) (ptypy.custom.threepie.ThreePIE method) (ptypy.custom.WASP.WASP method) (ptypy.engines.base.Base3dBraggEngine method) (ptypy.engines.base.BaseEngine method) (ptypy.engines.base.PositionCorrectionEngine method) (ptypy.engines.Bragg3d_engines.DM_3dBragg method) (ptypy.engines.ML.ML method) (ptypy.engines.projectional.DM method) (ptypy.engines.projectional.RAAR method) (ptypy.engines.stochastic.EPIE method) (ptypy.engines.stochastic.SDR method) iterencode() (ptypy.io.interaction.NumpyEncoder method) (ptypy.io.json_rw.NumpyEncoder method) J jread() (in module ptypy.io.json_rw) json_numpy_obj_hook() (in module ptypy.io.json_rw) jwrite() (in module ptypy.io.json_rw) K keV2m() (in module ptypy.utils.misc) keV2nm() (in module ptypy.utils.misc) keys() (ptypy.utils.parameters.Param method) L lam (ptypy.core.geometry.Geo property) length_units() (in module ptypy.utils.plot_utils) limits (ptypy.utils.descriptor.EvalDescriptor property) link() (in module ptypy.core.save_load) load (ptypy.utils.parallel.LoadManager attribute) load() (in module ptypy.utils.parameters) (ptypy.core.data.MoonFlowerScan method) (ptypy.core.data.PtydScan method) (ptypy.core.data.PtyScan method) (ptypy.core.data.QuickScan method) (ptypy.experiment.ALS_5321.ALS5321Scan method) (ptypy.experiment.AMO_LCLS.AMOScan method) (ptypy.experiment.cSAXS.cSAXSScan method) (ptypy.experiment.diamond_nexus.DiamondNexus method) (ptypy.experiment.diamond_streaming.DiamondZMQLoader method) (ptypy.experiment.DiProI_FERMI.DiProIFERMIScan method) (ptypy.experiment.epsic_loader.EpsicHdf5Loader method) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast method) (ptypy.experiment.hdf5_loader.Hdf5Loader method) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast method) (ptypy.experiment.ID16Anfp.ID16AScan method) (ptypy.experiment.nanomax.NanomaxContrast method) (ptypy.experiment.nanomax.NanomaxFlyscanDec2019 method) (ptypy.experiment.nanomax.NanomaxFlyscanMay2019 method) (ptypy.experiment.nanomax.NanomaxStepscanNov2018 method) (ptypy.experiment.nanomax.NanomaxStepscanSep2019 method) (ptypy.experiment.nanomax3d.NanomaxBraggJune2017 method) (ptypy.experiment.nanomax_streaming.NanomaxZmqScan method) (ptypy.experiment.optiklabor.FliSpecScanMultexp method) (ptypy.experiment.savu.Savu method) (ptypy.experiment.swmr_loader.SwmrLoader method) (ptypy.experiment.UCL.UCLLaserScan method) (ptypy.simulations.simscan.SimScan method) load_all() (in module ptypy) load_all_ptyscan_modules() (in module ptypy) load_common() (ptypy.core.data.MoonFlowerScan method) (ptypy.core.data.PtydScan method) (ptypy.core.data.PtyScan method) (ptypy.core.data.QuickScan method) (ptypy.experiment.ALS_5321.ALS5321Scan method) (ptypy.experiment.AMO_LCLS.AMOScan method) (ptypy.experiment.cSAXS.cSAXSScan method) (ptypy.experiment.diamond_nexus.DiamondNexus method) (ptypy.experiment.diamond_streaming.DiamondZMQLoader method) (ptypy.experiment.DiProI_FERMI.DiProIFERMIScan method) (ptypy.experiment.epsic_loader.EpsicHdf5Loader method) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast method) (ptypy.experiment.hdf5_loader.Hdf5Loader method) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast method) (ptypy.experiment.ID16Anfp.ID16AScan method) (ptypy.experiment.nanomax.NanomaxContrast method) (ptypy.experiment.nanomax.NanomaxFlyscanDec2019 method) (ptypy.experiment.nanomax.NanomaxFlyscanMay2019 method) (ptypy.experiment.nanomax.NanomaxStepscanNov2018 method) (ptypy.experiment.nanomax.NanomaxStepscanSep2019 method) (ptypy.experiment.nanomax3d.NanomaxBraggJune2017 method) (ptypy.experiment.nanomax_streaming.NanomaxZmqScan method) (ptypy.experiment.optiklabor.FliSpecScanMultexp method) (ptypy.experiment.savu.Savu method) (ptypy.experiment.swmr_loader.SwmrLoader method) (ptypy.experiment.UCL.UCLLaserScan method) (ptypy.simulations.simscan.SimScan method) load_conf_parser() (ptypy.utils.descriptor.ArgParseDescriptor method) (ptypy.utils.descriptor.Descriptor method) (ptypy.utils.descriptor.EvalDescriptor method) load_csv() (ptypy.utils.descriptor.ArgParseDescriptor method) (ptypy.utils.descriptor.Descriptor method) (ptypy.utils.descriptor.EvalDescriptor method) load_from_ptyr() (in module ptypy.utils.scripts) load_gpu_engines() (in module ptypy) load_positions() (ptypy.core.data.MoonFlowerScan method) (ptypy.core.data.PtydScan method) (ptypy.core.data.PtyScan method) (ptypy.core.data.QuickScan method) (ptypy.experiment.ALS_5321.ALS5321Scan method) (ptypy.experiment.AMO_LCLS.AMOScan method) (ptypy.experiment.cSAXS.cSAXSScan method) (ptypy.experiment.diamond_nexus.DiamondNexus method) (ptypy.experiment.diamond_streaming.DiamondZMQLoader method) (ptypy.experiment.DiProI_FERMI.DiProIFERMIScan method) (ptypy.experiment.epsic_loader.EpsicHdf5Loader method) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast method) (ptypy.experiment.hdf5_loader.Hdf5Loader method) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast method) (ptypy.experiment.ID16Anfp.ID16AScan method) (ptypy.experiment.nanomax.NanomaxContrast method) (ptypy.experiment.nanomax.NanomaxFlyscanDec2019 method) (ptypy.experiment.nanomax.NanomaxFlyscanMay2019 method) (ptypy.experiment.nanomax.NanomaxStepscanNov2018 method) (ptypy.experiment.nanomax.NanomaxStepscanSep2019 method) (ptypy.experiment.nanomax3d.NanomaxBraggJune2017 method) (ptypy.experiment.nanomax_streaming.NanomaxZmqScan method) (ptypy.experiment.optiklabor.FliSpecScanMultexp method) (ptypy.experiment.savu.Savu method) (ptypy.experiment.swmr_loader.SwmrLoader method) (ptypy.experiment.UCL.UCLLaserScan method) (ptypy.simulations.simscan.SimScan method) load_ptyscan_module() (in module ptypy) load_run() (ptypy.core.ptycho.Ptycho class method) load_weight() (ptypy.core.data.MoonFlowerScan method) (ptypy.core.data.PtydScan method) (ptypy.core.data.PtyScan method) (ptypy.core.data.QuickScan method) (ptypy.experiment.ALS_5321.ALS5321Scan method) (ptypy.experiment.AMO_LCLS.AMOScan method) (ptypy.experiment.cSAXS.cSAXSScan method) (ptypy.experiment.diamond_nexus.DiamondNexus method) (ptypy.experiment.diamond_streaming.DiamondZMQLoader method) (ptypy.experiment.DiProI_FERMI.DiProIFERMIScan method) (ptypy.experiment.epsic_loader.EpsicHdf5Loader method) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast method) (ptypy.experiment.hdf5_loader.Hdf5Loader method) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast method) (ptypy.experiment.ID16Anfp.ID16AScan method) (ptypy.experiment.nanomax.NanomaxContrast method) (ptypy.experiment.nanomax.NanomaxFlyscanDec2019 method) (ptypy.experiment.nanomax.NanomaxFlyscanMay2019 method) (ptypy.experiment.nanomax.NanomaxStepscanNov2018 method) (ptypy.experiment.nanomax.NanomaxStepscanSep2019 method) (ptypy.experiment.nanomax3d.NanomaxBraggJune2017 method) (ptypy.experiment.nanomax_streaming.NanomaxZmqScan method) (ptypy.experiment.optiklabor.FliSpecScanMultexp method) (ptypy.experiment.savu.Savu method) (ptypy.experiment.swmr_loader.SwmrLoader method) (ptypy.experiment.UCL.UCLLaserScan method) (ptypy.simulations.simscan.SimScan method) LoadManager (class in ptypy.utils.parallel) log() (in module ptypy.utils.verbose) log_likelihood() (in module ptypy.engines.utils) LogTime (class in ptypy.utils.verbose) loop_plot() (ptypy.utils.plot_client.Bragg3dClient method) (ptypy.utils.plot_client.MPLClient method) lz (ptypy.core.geometry.Geo property) M m2keV() (in module ptypy.utils.misc) make_default() (in module ptypy.utils.parameters) (ptypy.utils.descriptor.EvalDescriptor method) make_doc_rst() (ptypy.utils.descriptor.EvalDescriptor method) makePtyScan() (ptypy.core.manager.BlockFull class method) (ptypy.core.manager.BlockGradFull class method) (ptypy.core.manager.BlockOPRModel class method) (ptypy.core.manager.BlockScanModel class method) (ptypy.core.manager.BlockVanilla class method) (ptypy.core.manager.Bragg3dModel class method) (ptypy.core.manager.Full class method) (ptypy.core.manager.GradFull class method) (ptypy.core.manager.OPRModel class method) (ptypy.core.manager.ScanModel class method) (ptypy.core.manager.Vanilla class method) makeScanPlugin() (in module ptypy.experiment.plugin) manipulate_ptycho() (ptypy.simulations.simscan.SimScan method) mask (ptypy.core.classes.POD property) mass_center() (in module ptypy.utils.scripts) METAKEYS (ptypy.core.data.MoonFlowerScan attribute) (ptypy.core.data.PtydScan attribute) (ptypy.core.data.PtyScan attribute) (ptypy.core.data.QuickScan attribute) (ptypy.experiment.ALS_5321.ALS5321Scan attribute) (ptypy.experiment.AMO_LCLS.AMOScan attribute) (ptypy.experiment.cSAXS.cSAXSScan attribute) (ptypy.experiment.diamond_nexus.DiamondNexus attribute) (ptypy.experiment.diamond_streaming.DiamondZMQLoader attribute) (ptypy.experiment.DiProI_FERMI.DiProIFERMIScan attribute) (ptypy.experiment.epsic_loader.EpsicHdf5Loader attribute) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast attribute) (ptypy.experiment.hdf5_loader.Hdf5Loader attribute) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast attribute) (ptypy.experiment.ID16Anfp.ID16AScan attribute) (ptypy.experiment.nanomax.NanomaxContrast attribute) (ptypy.experiment.nanomax.NanomaxFlyscanDec2019 attribute) (ptypy.experiment.nanomax.NanomaxFlyscanMay2019 attribute) (ptypy.experiment.nanomax.NanomaxStepscanNov2018 attribute) (ptypy.experiment.nanomax.NanomaxStepscanSep2019 attribute) (ptypy.experiment.nanomax3d.NanomaxBraggJune2017 attribute) (ptypy.experiment.nanomax_streaming.NanomaxZmqScan attribute) (ptypy.experiment.optiklabor.FliSpecScanMultexp attribute) (ptypy.experiment.savu.Savu attribute) (ptypy.experiment.swmr_loader.SwmrLoader attribute) (ptypy.experiment.UCL.UCLLaserScan attribute) (ptypy.simulations.simscan.SimScan attribute) min_frames (ptypy.core.data.MoonFlowerScan attribute) (ptypy.core.data.PtydScan attribute) (ptypy.core.data.PtyScan attribute) (ptypy.core.data.QuickScan attribute) (ptypy.experiment.ALS_5321.ALS5321Scan attribute) (ptypy.experiment.AMO_LCLS.AMOScan attribute) (ptypy.experiment.cSAXS.cSAXSScan attribute) (ptypy.experiment.diamond_nexus.DiamondNexus attribute) (ptypy.experiment.diamond_streaming.DiamondZMQLoader attribute) (ptypy.experiment.DiProI_FERMI.DiProIFERMIScan attribute) (ptypy.experiment.epsic_loader.EpsicHdf5Loader attribute) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast attribute) (ptypy.experiment.hdf5_loader.Hdf5Loader attribute) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast attribute) (ptypy.experiment.ID16Anfp.ID16AScan attribute) (ptypy.experiment.nanomax.NanomaxContrast attribute) (ptypy.experiment.nanomax.NanomaxFlyscanDec2019 attribute) (ptypy.experiment.nanomax.NanomaxFlyscanMay2019 attribute) (ptypy.experiment.nanomax.NanomaxStepscanNov2018 attribute) (ptypy.experiment.nanomax.NanomaxStepscanSep2019 attribute) (ptypy.experiment.nanomax3d.NanomaxBraggJune2017 attribute) (ptypy.experiment.nanomax_streaming.NanomaxZmqScan attribute) (ptypy.experiment.optiklabor.FliSpecScanMultexp attribute) (ptypy.experiment.savu.Savu attribute) (ptypy.experiment.swmr_loader.SwmrLoader attribute) (ptypy.experiment.UCL.UCLLaserScan attribute) (ptypy.simulations.simscan.SimScan attribute) mirror() (in module ptypy.utils.array_utils) ML (built-in variable) (class in ptypy.engines.ML) ML.floating_intensities (built-in variable) ML.intensity_renormalization (built-in variable) ML.ML_type (built-in variable) ML.name (built-in variable) ML.numiter (built-in variable) ML.numiter_contiguous (built-in variable) ML.poly_line_coeffs (built-in variable) ML.position_refinement (built-in variable) ML.position_refinement.amplitude (built-in variable) ML.position_refinement.amplitude_decay (built-in variable) ML.position_refinement.interval (built-in variable) ML.position_refinement.max_shift (built-in variable) ML.position_refinement.method (built-in variable) ML.position_refinement.metric (built-in variable) ML.position_refinement.nshifts (built-in variable) ML.position_refinement.record (built-in variable) ML.position_refinement.start (built-in variable) ML.position_refinement.stop (built-in variable) ML.probe_fourier_support (built-in variable) ML.probe_support (built-in variable) ML.probe_update_start (built-in variable) ML.record_local_error (built-in variable) ML.reg_del2 (built-in variable) ML.reg_del2_amplitude (built-in variable) ML.scale_precond (built-in variable) ML.scale_probe_object (built-in variable) ML.smooth_gradient (built-in variable) ML.smooth_gradient_decay (built-in variable) MLOPR (class in ptypy.custom.MLOPR) ModelManager (class in ptypy.core.manager) modify_add() (ptypy.utils.misc.Table method) module ptypy ptypy.core.classes ptypy.core.data ptypy.core.geometry ptypy.core.illumination ptypy.core.manager ptypy.core.paths ptypy.core.ptycho ptypy.core.sample ptypy.core.save_load ptypy.core.xy ptypy.custom.DM_object_regul ptypy.custom.DMOPR ptypy.custom.ePIE_parallel ptypy.custom.MLOPR ptypy.custom.threepie ptypy.custom.WASP ptypy.debug.embedded_shell ptypy.debug.ipython_kernel ptypy.engines.base ptypy.engines.Bragg3d_engines ptypy.engines.ML ptypy.engines.posref ptypy.engines.projectional ptypy.engines.stochastic ptypy.engines.utils ptypy.experiment.ALS_5321 ptypy.experiment.AMO_LCLS ptypy.experiment.cSAXS ptypy.experiment.diamond_nexus ptypy.experiment.diamond_streaming ptypy.experiment.DiProI_FERMI ptypy.experiment.epsic_loader ptypy.experiment.hdf5_loader ptypy.experiment.ID16Anfp ptypy.experiment.nanomax ptypy.experiment.nanomax3d ptypy.experiment.nanomax_streaming ptypy.experiment.optiklabor ptypy.experiment.plugin ptypy.experiment.savu ptypy.experiment.spec ptypy.experiment.swmr_loader ptypy.experiment.UCL ptypy.io.edfIO ptypy.io.h5rw ptypy.io.image_read ptypy.io.imageIO ptypy.io.interaction ptypy.io.json_rw ptypy.io.rawIO ptypy.resources ptypy.simulations.detector ptypy.simulations.ptysim_utils ptypy.simulations.simscan ptypy.utils.array_utils ptypy.utils.descriptor ptypy.utils.math_utils ptypy.utils.misc ptypy.utils.parallel ptypy.utils.parameters ptypy.utils.plot_client ptypy.utils.plot_utils ptypy.utils.scripts ptypy.utils.verbose moon_pr() (in module ptypy.resources) MoonFlowerScan (built-in variable) (class in ptypy.core.data) MoonFlowerScan.add_poisson_noise (built-in variable) MoonFlowerScan.auto_center (built-in variable) MoonFlowerScan.block_wait_count (built-in variable) MoonFlowerScan.center (built-in variable) MoonFlowerScan.chunk_format (built-in variable) MoonFlowerScan.density (built-in variable) MoonFlowerScan.dfile (built-in variable) MoonFlowerScan.distance (built-in variable) MoonFlowerScan.energy (built-in variable) MoonFlowerScan.experimentID (built-in variable) MoonFlowerScan.label (built-in variable) MoonFlowerScan.load_parallel (built-in variable) MoonFlowerScan.min_frames (built-in variable) MoonFlowerScan.model (built-in variable) MoonFlowerScan.name (built-in variable) MoonFlowerScan.num_frames (built-in variable) MoonFlowerScan.orientation (built-in variable) MoonFlowerScan.photons (built-in variable) MoonFlowerScan.positions_theory (built-in variable) MoonFlowerScan.psf (built-in variable) MoonFlowerScan.psize (built-in variable) MoonFlowerScan.rebin (built-in variable) MoonFlowerScan.save (built-in variable) MoonFlowerScan.shape (built-in variable) MoonFlowerScan.version (built-in variable) MPIFilter (class in ptypy.utils.verbose) MPImax() (in module ptypy.utils.parallel) MPImin() (in module ptypy.utils.parallel) MPInoise2d() (in module ptypy.utils.parallel) MPIprod() (in module ptypy.utils.parallel) MPIrand_normal() (in module ptypy.utils.parallel) MPIrand_uniform() (in module ptypy.utils.parallel) MPIsum() (in module ptypy.utils.parallel) MPLClient (class in ptypy.utils.plot_client) MPLplotter (class in ptypy.utils.plot_client) multislice_update() (ptypy.custom.threepie.ThreePIE method) N name (ptypy.utils.descriptor.ArgParseDescriptor attribute) (ptypy.utils.descriptor.Descriptor attribute) (ptypy.utils.descriptor.EvalDescriptor attribute) NanomaxBraggJune2017 (class in ptypy.experiment.nanomax3d) NanomaxContrast (class in ptypy.experiment.nanomax) NanomaxFlyscanDec2019 (class in ptypy.experiment.nanomax) NanomaxFlyscanMay2019 (class in ptypy.experiment.nanomax) NanomaxStepscanNov2018 (class in ptypy.experiment.nanomax) NanomaxStepscanSep2019 (class in ptypy.experiment.nanomax) NanomaxZmqScan (class in ptypy.experiment.nanomax_streaming) nbytes (ptypy.core.classes.Container property) ndim (ptypy.core.classes.Container attribute) (ptypy.core.classes.Storage property) new_child() (ptypy.utils.descriptor.ArgParseDescriptor method) (ptypy.utils.descriptor.Descriptor method) (ptypy.utils.descriptor.EvalDescriptor method) new_data() (ptypy.core.manager.BlockFull method) (ptypy.core.manager.BlockGradFull method) (ptypy.core.manager.BlockOPRModel method) (ptypy.core.manager.BlockScanModel method) (ptypy.core.manager.BlockVanilla method) (ptypy.core.manager.Bragg3dModel method) (ptypy.core.manager.Full method) (ptypy.core.manager.GradFull method) (ptypy.core.manager.ModelManager method) (ptypy.core.manager.OPRModel method) (ptypy.core.manager.ScanModel method) (ptypy.core.manager.Vanilla method) new_fields() (ptypy.utils.misc.Table method) new_grad() (ptypy.engines.ML.BaseModel method) (ptypy.engines.ML.EuclidModel method) (ptypy.engines.ML.GaussianModel method) (ptypy.engines.ML.PoissonModel method) new_storage() (ptypy.core.classes.Container method) newdata() (ptypy.io.interaction.Client method) nm2keV() (in module ptypy.utils.misc) norm() (in module ptypy.utils.math_utils) norm2() (in module ptypy.utils.math_utils) num_frames (ptypy.core.data.MoonFlowerScan attribute) (ptypy.core.data.PtydScan attribute) (ptypy.core.data.PtyScan attribute) (ptypy.core.data.QuickScan attribute) (ptypy.experiment.ALS_5321.ALS5321Scan attribute) (ptypy.experiment.AMO_LCLS.AMOScan attribute) (ptypy.experiment.cSAXS.cSAXSScan attribute) (ptypy.experiment.diamond_nexus.DiamondNexus attribute) (ptypy.experiment.diamond_streaming.DiamondZMQLoader attribute) (ptypy.experiment.DiProI_FERMI.DiProIFERMIScan attribute) (ptypy.experiment.epsic_loader.EpsicHdf5Loader attribute) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast attribute) (ptypy.experiment.hdf5_loader.Hdf5Loader attribute) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast attribute) (ptypy.experiment.ID16Anfp.ID16AScan attribute) (ptypy.experiment.nanomax.NanomaxContrast attribute) (ptypy.experiment.nanomax.NanomaxFlyscanDec2019 attribute) (ptypy.experiment.nanomax.NanomaxFlyscanMay2019 attribute) (ptypy.experiment.nanomax.NanomaxStepscanNov2018 attribute) (ptypy.experiment.nanomax.NanomaxStepscanSep2019 attribute) (ptypy.experiment.nanomax3d.NanomaxBraggJune2017 attribute) (ptypy.experiment.nanomax_streaming.NanomaxZmqScan attribute) (ptypy.experiment.optiklabor.FliSpecScanMultexp attribute) (ptypy.experiment.savu.Savu attribute) (ptypy.experiment.swmr_loader.SwmrLoader attribute) (ptypy.experiment.UCL.UCLLaserScan attribute) (ptypy.simulations.simscan.SimScan attribute) numpy_replace() (in module ptypy.io.interaction) numpy_zmq_recv() (in module ptypy.io.interaction) numpy_zmq_send() (in module ptypy.io.interaction) NumpyEncoder (class in ptypy.io.interaction) (class in ptypy.io.json_rw) O object (ptypy.core.classes.POD property) object_update() (ptypy.custom.DM_object_regul.DM_object_regul method) (ptypy.custom.DMOPR.DMOPR method) (ptypy.custom.threepie.ThreePIE method) (ptypy.engines.Bragg3d_engines.DM_3dBragg method) (ptypy.engines.projectional.DM method) (ptypy.engines.projectional.RAAR method) (ptypy.engines.stochastic.EPIE method) (ptypy.engines.stochastic.SDR method) OPRModel (built-in variable) (class in ptypy.core.manager) OPRModel.coherence (built-in variable) OPRModel.coherence.energies (built-in variable) OPRModel.coherence.num_object_modes (built-in variable) OPRModel.coherence.num_probe_modes (built-in variable) OPRModel.coherence.object_dispersion (built-in variable) OPRModel.coherence.probe_dispersion (built-in variable) OPRModel.coherence.spectrum (built-in variable) OPRModel.data (built-in variable) OPRModel.data.name (built-in variable) OPRModel.ffttype (built-in variable) OPRModel.illumination (built-in variable) OPRModel.name (built-in variable) OPRModel.propagation (built-in variable) OPRModel.resample (built-in variable) OPRModel.resolution (built-in variable) OPRModel.sample (built-in variable) OPRModel.tags (built-in variable) options (ptypy.utils.descriptor.ArgParseDescriptor attribute) (ptypy.utils.descriptor.Descriptor attribute) (ptypy.utils.descriptor.EvalDescriptor attribute) OPTIONS_DEF (ptypy.utils.descriptor.Descriptor attribute) origin (ptypy.core.classes.Storage property) original (ptypy.core.classes.Container attribute) ortho() (in module ptypy.utils.math_utils) overlap_update() (ptypy.custom.DM_object_regul.DM_object_regul method) (ptypy.custom.DMOPR.DMOPR method) (ptypy.engines.Bragg3d_engines.DM_3dBragg method) (ptypy.engines.projectional.DM method) (ptypy.engines.projectional.RAAR method) P P1A_to_HSV() (in module ptypy.utils.plot_utils) pad_lr() (in module ptypy.utils.array_utils) Param (class in ptypy.utils.parameters) param_from_json() (in module ptypy.utils.parameters) param_from_yaml() (in module ptypy.utils.parameters) parent (ptypy.utils.descriptor.ArgParseDescriptor attribute) (ptypy.utils.descriptor.Descriptor attribute) (ptypy.utils.descriptor.EvalDescriptor attribute) parse() (ptypy.experiment.spec.SpecInfo method) parse_doc() (ptypy.utils.descriptor.EvalDescriptor method) path (ptypy.utils.descriptor.ArgParseDescriptor property) (ptypy.utils.descriptor.Descriptor property) (ptypy.utils.descriptor.EvalDescriptor property) Paths (class in ptypy.core.paths) pcoord (ptypy.core.classes.View property) phase_from_dpc() (in module ptypy.utils.scripts) plot_data() (in module ptypy.utils.plot_utils) plot_file() (ptypy.core.paths.Paths method) plot_overview() (ptypy.core.ptycho.Ptycho method) plot_storage() (in module ptypy.utils.plot_utils) PlotClient (class in ptypy.utils.plot_client) png2mpg() (in module ptypy.utils.scripts) POD (class in ptypy.core.classes) pod (ptypy.core.classes.View property) pods (ptypy.core.classes.View property) (ptypy.core.ptycho.Ptycho property) PoissonModel (class in ptypy.engines.ML) poll() (ptypy.io.interaction.Client method) poly_line_all_coeffs() (ptypy.engines.ML.BaseModel method) (ptypy.engines.ML.EuclidModel method) (ptypy.engines.ML.GaussianModel method) (ptypy.engines.ML.PoissonModel method) poly_line_coeffs() (ptypy.engines.ML.BaseModel method) (ptypy.engines.ML.EuclidModel method) (ptypy.engines.ML.GaussianModel method) (ptypy.engines.ML.PoissonModel method) pop() (ptypy.utils.parameters.Param method) popitem() (ptypy.utils.parameters.Param method) position_update() (ptypy.custom.DM_object_regul.DM_object_regul method) (ptypy.custom.DMOPR.DMOPR method) (ptypy.custom.MLOPR.MLOPR method) (ptypy.custom.threepie.ThreePIE method) (ptypy.custom.WASP.WASP method) (ptypy.engines.base.PositionCorrectionEngine method) (ptypy.engines.Bragg3d_engines.DM_3dBragg method) (ptypy.engines.ML.ML method) (ptypy.engines.projectional.DM method) (ptypy.engines.projectional.RAAR method) (ptypy.engines.stochastic.EPIE method) (ptypy.engines.stochastic.SDR method) position_update_local() (ptypy.custom.threepie.ThreePIE method) (ptypy.engines.stochastic.EPIE method) (ptypy.engines.stochastic.SDR method) PositionCorrectionEngine (class in ptypy.engines.base) PositionRefine (class in ptypy.engines.posref) post_initialize() (ptypy.core.data.MoonFlowerScan method) (ptypy.core.data.PtydScan method) (ptypy.core.data.PtyScan method) (ptypy.core.data.QuickScan method) (ptypy.experiment.ALS_5321.ALS5321Scan method) (ptypy.experiment.AMO_LCLS.AMOScan method) (ptypy.experiment.cSAXS.cSAXSScan method) (ptypy.experiment.diamond_nexus.DiamondNexus method) (ptypy.experiment.diamond_streaming.DiamondZMQLoader method) (ptypy.experiment.DiProI_FERMI.DiProIFERMIScan method) (ptypy.experiment.epsic_loader.EpsicHdf5Loader method) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast method) (ptypy.experiment.hdf5_loader.Hdf5Loader method) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast method) (ptypy.experiment.ID16Anfp.ID16AScan method) (ptypy.experiment.nanomax.NanomaxContrast method) (ptypy.experiment.nanomax.NanomaxFlyscanDec2019 method) (ptypy.experiment.nanomax.NanomaxFlyscanMay2019 method) (ptypy.experiment.nanomax.NanomaxStepscanNov2018 method) (ptypy.experiment.nanomax.NanomaxStepscanSep2019 method) (ptypy.experiment.nanomax3d.NanomaxBraggJune2017 method) (ptypy.experiment.nanomax_streaming.NanomaxZmqScan method) (ptypy.experiment.optiklabor.FliSpecScanMultexp method) (ptypy.experiment.savu.Savu method) (ptypy.experiment.swmr_loader.SwmrLoader method) (ptypy.experiment.UCL.UCLLaserScan method) (ptypy.simulations.simscan.SimScan method) pr_view (ptypy.core.classes.POD attribute) prepare() (ptypy.custom.DM_object_regul.DM_object_regul method) (ptypy.custom.DMOPR.DMOPR method) (ptypy.custom.ePIE_parallel.EPIEParallel method) (ptypy.custom.MLOPR.MLOPR method) (ptypy.custom.threepie.ThreePIE method) (ptypy.custom.WASP.WASP method) (ptypy.engines.base.Base3dBraggEngine method) (ptypy.engines.base.BaseEngine method) (ptypy.engines.base.PositionCorrectionEngine method) (ptypy.engines.Bragg3d_engines.DM_3dBragg method) (ptypy.engines.ML.ML method) (ptypy.engines.projectional.DM method) (ptypy.engines.projectional.RAAR method) (ptypy.engines.stochastic.EPIE method) (ptypy.engines.stochastic.SDR method) prepare_smoothing_preconditioner() (in module ptypy.engines.ML) pretty_length() (in module ptypy.utils.plot_utils) print_stats() (ptypy.core.ptycho.Ptycho method) probe (ptypy.core.classes.POD property) probe_update() (ptypy.custom.DM_object_regul.DM_object_regul method) (ptypy.custom.DMOPR.DMOPR method) (ptypy.custom.threepie.ThreePIE method) (ptypy.engines.Bragg3d_engines.DM_3dBragg method) (ptypy.engines.projectional.DM method) (ptypy.engines.projectional.RAAR method) (ptypy.engines.stochastic.EPIE method) (ptypy.engines.stochastic.SDR method) process_requests() (ptypy.io.interaction.Server method) projection_update_DM_AP() (in module ptypy.engines.utils) projection_update_generalized() (in module ptypy.engines.utils) propagator (ptypy.core.geometry.Geo property) prune_child() (ptypy.utils.descriptor.ArgParseDescriptor method) (ptypy.utils.descriptor.Descriptor method) (ptypy.utils.descriptor.EvalDescriptor method) psize (ptypy.core.classes.Storage property) (ptypy.core.classes.View property) (ptypy.core.geometry.Geo property) PtyAxis (class in ptypy.utils.plot_utils) Ptycho (class in ptypy.core.ptycho) PtydScan (built-in variable) (class in ptypy.core.data) PtydScan.add_poisson_noise (built-in variable) PtydScan.auto_center (built-in variable) PtydScan.center (built-in variable) PtydScan.chunk_format (built-in variable) PtydScan.dfile (built-in variable) PtydScan.distance (built-in variable) PtydScan.energy (built-in variable) PtydScan.experimentID (built-in variable) PtydScan.label (built-in variable) PtydScan.load_parallel (built-in variable) PtydScan.min_frames (built-in variable) PtydScan.name (built-in variable) PtydScan.num_frames (built-in variable) PtydScan.orientation (built-in variable) PtydScan.positions_theory (built-in variable) PtydScan.psize (built-in variable) PtydScan.rebin (built-in variable) PtydScan.save (built-in variable) PtydScan.shape (built-in variable) PtydScan.source (built-in variable) PtydScan.version (built-in variable) ptypy module ptypy.core.classes module ptypy.core.data module ptypy.core.geometry module ptypy.core.illumination module ptypy.core.manager module ptypy.core.paths module ptypy.core.ptycho module ptypy.core.sample module ptypy.core.save_load module ptypy.core.xy module ptypy.custom.DM_object_regul module ptypy.custom.DMOPR module ptypy.custom.ePIE_parallel module ptypy.custom.MLOPR module ptypy.custom.threepie module ptypy.custom.WASP module ptypy.debug.embedded_shell module ptypy.debug.ipython_kernel module ptypy.engines.base module ptypy.engines.Bragg3d_engines module ptypy.engines.ML module ptypy.engines.posref module ptypy.engines.projectional module ptypy.engines.stochastic module ptypy.engines.utils module ptypy.experiment.ALS_5321 module ptypy.experiment.AMO_LCLS module ptypy.experiment.cSAXS module ptypy.experiment.diamond_nexus module ptypy.experiment.diamond_streaming module ptypy.experiment.DiProI_FERMI module ptypy.experiment.epsic_loader module ptypy.experiment.hdf5_loader module ptypy.experiment.ID16Anfp module ptypy.experiment.nanomax module ptypy.experiment.nanomax3d module ptypy.experiment.nanomax_streaming module ptypy.experiment.optiklabor module ptypy.experiment.plugin module ptypy.experiment.savu module ptypy.experiment.spec module ptypy.experiment.swmr_loader module ptypy.experiment.UCL module ptypy.io.edfIO module ptypy.io.h5rw module ptypy.io.image_read module ptypy.io.imageIO module ptypy.io.interaction module ptypy.io.json_rw module ptypy.io.rawIO module ptypy.resources module ptypy.simulations.detector module ptypy.simulations.ptysim_utils module ptypy.simulations.simscan module ptypy.utils.array_utils module ptypy.utils.descriptor module ptypy.utils.math_utils module ptypy.utils.misc module ptypy.utils.parallel module ptypy.utils.parameters module ptypy.utils.plot_client module ptypy.utils.plot_utils module ptypy.utils.scripts module ptypy.utils.verbose module PtyScan (built-in variable) (class in ptypy.core.data) PtyScan.add_poisson_noise (built-in variable) PtyScan.auto_center (built-in variable) PtyScan.center (built-in variable) PtyScan.chunk_format (built-in variable) PtyScan.dfile (built-in variable) PtyScan.distance (built-in variable) PtyScan.energy (built-in variable) PtyScan.experimentID (built-in variable) PtyScan.label (built-in variable) PtyScan.load_parallel (built-in variable) PtyScan.min_frames (built-in variable) PtyScan.name (built-in variable) PtyScan.num_frames (built-in variable) PtyScan.orientation (built-in variable) PtyScan.positions_theory (built-in variable) PtyScan.psize (built-in variable) PtyScan.rebin (built-in variable) PtyScan.save (built-in variable) PtyScan.shape (built-in variable) PtyScan.version (built-in variable) Q QuickScan (built-in variable) (class in ptypy.core.data) QuickScan.add_poisson_noise (built-in variable) QuickScan.auto_center (built-in variable) QuickScan.center (built-in variable) QuickScan.chunk_format (built-in variable) QuickScan.density (built-in variable) QuickScan.dfile (built-in variable) QuickScan.distance (built-in variable) QuickScan.energy (built-in variable) QuickScan.experimentID (built-in variable) QuickScan.label (built-in variable) QuickScan.load_parallel (built-in variable) QuickScan.min_frames (built-in variable) QuickScan.name (built-in variable) QuickScan.num_frames (built-in variable) QuickScan.orientation (built-in variable) QuickScan.positions_theory (built-in variable) QuickScan.psize (built-in variable) QuickScan.rebin (built-in variable) QuickScan.save (built-in variable) QuickScan.shape (built-in variable) QuickScan.version (built-in variable) R RAAR (built-in variable) (class in ptypy.engines.projectional) RAAR.beta (built-in variable) RAAR.clip_object (built-in variable) RAAR.compute_log_likelihood (built-in variable) RAAR.fourier_power_bound (built-in variable) RAAR.fourier_relax_factor (built-in variable) RAAR.name (built-in variable) RAAR.numiter (built-in variable) RAAR.numiter_contiguous (built-in variable) RAAR.obj_smooth_std (built-in variable) RAAR.object_inertia (built-in variable) RAAR.overlap_converge_factor (built-in variable) RAAR.overlap_max_iterations (built-in variable) RAAR.position_refinement (built-in variable) RAAR.position_refinement.amplitude (built-in variable) RAAR.position_refinement.amplitude_decay (built-in variable) RAAR.position_refinement.interval (built-in variable) RAAR.position_refinement.max_shift (built-in variable) RAAR.position_refinement.method (built-in variable) RAAR.position_refinement.metric (built-in variable) RAAR.position_refinement.nshifts (built-in variable) RAAR.position_refinement.record (built-in variable) RAAR.position_refinement.start (built-in variable) RAAR.position_refinement.stop (built-in variable) RAAR.probe_center_tol (built-in variable) RAAR.probe_fourier_support (built-in variable) RAAR.probe_inertia (built-in variable) RAAR.probe_support (built-in variable) RAAR.probe_update_start (built-in variable) RAAR.record_local_error (built-in variable) RAAR.subpix (built-in variable) RAAR.subpix_start (built-in variable) RAAR.update_object_first (built-in variable) RAARMixin (class in ptypy.engines.projectional) radial_distribution() (in module ptypy.utils.scripts) rank_of (ptypy.utils.parallel.LoadManager attribute) raster_scan() (in module ptypy.core.xy) rawread() (in module ptypy.io.rawIO) readData() (in module ptypy.io.edfIO) readHeader() (in module ptypy.io.edfIO) (in module ptypy.io.imageIO) rebin() (in module ptypy.utils.array_utils) rebin_2d() (in module ptypy.utils.array_utils) receive() (in module ptypy.utils.parallel) recon_file() (ptypy.core.paths.Paths method) rectangle() (in module ptypy.utils.array_utils) reduce_dimension() (in module ptypy.engines.utils) reformat() (ptypy.core.classes.Container method) (ptypy.core.classes.Storage method) register() (ptypy.io.interaction.Server method) Regul_del2 (class in ptypy.engines.ML) remove_hot_pixels() (in module ptypy.utils.scripts) report() (in module ptypy.utils.verbose) (ptypy.core.classes.Container method) (ptypy.core.classes.Storage method) (ptypy.core.data.MoonFlowerScan method) (ptypy.core.data.PtydScan method) (ptypy.core.data.PtyScan method) (ptypy.core.data.QuickScan method) (ptypy.experiment.ALS_5321.ALS5321Scan method) (ptypy.experiment.AMO_LCLS.AMOScan method) (ptypy.experiment.cSAXS.cSAXSScan method) (ptypy.experiment.diamond_nexus.DiamondNexus method) (ptypy.experiment.diamond_streaming.DiamondZMQLoader method) (ptypy.experiment.DiProI_FERMI.DiProIFERMIScan method) (ptypy.experiment.epsic_loader.EpsicHdf5Loader method) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast method) (ptypy.experiment.hdf5_loader.Hdf5Loader method) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast method) (ptypy.experiment.ID16Anfp.ID16AScan method) (ptypy.experiment.nanomax.NanomaxContrast method) (ptypy.experiment.nanomax.NanomaxFlyscanDec2019 method) (ptypy.experiment.nanomax.NanomaxFlyscanMay2019 method) (ptypy.experiment.nanomax.NanomaxStepscanNov2018 method) (ptypy.experiment.nanomax.NanomaxStepscanSep2019 method) (ptypy.experiment.nanomax3d.NanomaxBraggJune2017 method) (ptypy.experiment.nanomax_streaming.NanomaxZmqScan method) (ptypy.experiment.optiklabor.FliSpecScanMultexp method) (ptypy.experiment.savu.Savu method) (ptypy.experiment.swmr_loader.SwmrLoader method) (ptypy.experiment.UCL.UCLLaserScan method) (ptypy.simulations.simscan.SimScan method) reset() (ptypy.utils.parallel.LoadManager method) resolution (ptypy.core.geometry.Geo property) restore_state() (ptypy.core.ptycho.Ptycho method) rgb2complex() (in module ptypy.utils.plot_utils) rgb2hsv() (in module ptypy.utils.plot_utils) RGB_to_HSV() (in module ptypy.utils.plot_utils) rl_deconvolution() (in module ptypy.utils.math_utils) rmphaseramp() (in module ptypy.utils.plot_utils) root (ptypy.utils.descriptor.ArgParseDescriptor property) (ptypy.utils.descriptor.Descriptor property) (ptypy.utils.descriptor.EvalDescriptor property) round_scan() (in module ptypy.core.xy) run() (ptypy.core.paths.Paths method) (ptypy.core.ptycho.Ptycho method) runtime (ptypy.core.ptycho.Ptycho attribute) S S (ptypy.core.classes.Container property) sanity_check() (ptypy.utils.descriptor.EvalDescriptor method) save_conf_parser() (ptypy.utils.descriptor.ArgParseDescriptor method) (ptypy.utils.descriptor.Descriptor method) (ptypy.utils.descriptor.EvalDescriptor method) save_csv() (ptypy.utils.descriptor.ArgParseDescriptor method) (ptypy.utils.descriptor.Descriptor method) (ptypy.utils.descriptor.EvalDescriptor method) save_run() (ptypy.core.ptycho.Ptycho method) Savu (class in ptypy.experiment.savu) ScanModel (built-in variable) (class in ptypy.core.manager) ScanModel.data (built-in variable) ScanModel.data.name (built-in variable) ScanModel.ffttype (built-in variable) ScanModel.illumination (built-in variable) ScanModel.propagation (built-in variable) ScanModel.resample (built-in variable) ScanModel.sample (built-in variable) ScanModel.tags (built-in variable) sdebug() (in module ptypy.io.h5rw) SDR (built-in variable) (class in ptypy.engines.stochastic) SDR.beta_object (built-in variable) SDR.beta_probe (built-in variable) SDR.compute_log_likelihood (built-in variable) SDR.name (built-in variable) SDR.numiter (built-in variable) SDR.numiter_contiguous (built-in variable) SDR.position_refinement (built-in variable) SDR.position_refinement.amplitude (built-in variable) SDR.position_refinement.amplitude_decay (built-in variable) SDR.position_refinement.interval (built-in variable) SDR.position_refinement.max_shift (built-in variable) SDR.position_refinement.method (built-in variable) SDR.position_refinement.metric (built-in variable) SDR.position_refinement.nshifts (built-in variable) SDR.position_refinement.record (built-in variable) SDR.position_refinement.start (built-in variable) SDR.position_refinement.stop (built-in variable) SDR.probe_center_tol (built-in variable) SDR.probe_fourier_support (built-in variable) SDR.probe_support (built-in variable) SDR.probe_update_start (built-in variable) SDR.record_local_error (built-in variable) SDR.sigma (built-in variable) SDR.tau (built-in variable) SDRMixin (class in ptypy.engines.stochastic) select_func() (ptypy.utils.misc.Table method) select_match() (ptypy.utils.misc.Table method) select_range() (ptypy.utils.misc.Table method) send() (in module ptypy.utils.parallel) send_error() (ptypy.io.interaction.Server method) send_warning() (ptypy.io.interaction.Server method) Server (class in ptypy.io.interaction) set() (ptypy.io.interaction.Client method) set_level() (in module ptypy.utils.verbose) setdefault() (ptypy.utils.parameters.Param method) shape (ptypy.core.classes.View property) (ptypy.core.geometry.Geo property) shift() (in module ptypy.core.classes) shift_zoom() (in module ptypy.utils.array_utils) shot() (in module ptypy.simulations.detector) SimScan (built-in variable) (class in ptypy.simulations.simscan) SimScan.add_poisson_noise (built-in variable) SimScan.auto_center (built-in variable) SimScan.center (built-in variable) SimScan.chunk_format (built-in variable) SimScan.detector (built-in variable) SimScan.dfile (built-in variable) SimScan.distance (built-in variable) SimScan.energy (built-in variable) SimScan.experimentID (built-in variable) SimScan.frame_size (built-in variable) SimScan.illumination (built-in variable) SimScan.illumination.aperture (built-in variable) SimScan.illumination.aperture.central_stop (built-in variable) SimScan.illumination.aperture.diffuser (built-in variable) SimScan.illumination.aperture.edge (built-in variable) SimScan.illumination.aperture.form (built-in variable) SimScan.illumination.aperture.offset (built-in variable) SimScan.illumination.aperture.rotate (built-in variable) SimScan.illumination.aperture.size (built-in variable) SimScan.illumination.diversity (built-in variable) SimScan.illumination.diversity.noise (built-in variable) SimScan.illumination.diversity.power (built-in variable) SimScan.illumination.diversity.shift (built-in variable) SimScan.illumination.model (built-in variable) SimScan.illumination.photons (built-in variable) SimScan.illumination.propagation (built-in variable) SimScan.illumination.propagation.antialiasing (built-in variable) SimScan.illumination.propagation.focussed (built-in variable) SimScan.illumination.propagation.parallel (built-in variable) SimScan.illumination.propagation.spot_size (built-in variable) SimScan.illumination.recon (built-in variable) SimScan.illumination.recon.label (built-in variable) SimScan.illumination.recon.rfile (built-in variable) SimScan.label (built-in variable) SimScan.load_parallel (built-in variable) SimScan.min_frames (built-in variable) SimScan.name (built-in variable) SimScan.num_frames (built-in variable) SimScan.orientation (built-in variable) SimScan.plot (built-in variable) SimScan.pos_drift (built-in variable) SimScan.pos_noise (built-in variable) SimScan.pos_scale (built-in variable) SimScan.positions_theory (built-in variable) SimScan.propagation (built-in variable) SimScan.psf (built-in variable) SimScan.psize (built-in variable) SimScan.rebin (built-in variable) SimScan.sample (built-in variable) SimScan.sample.diversity (built-in variable) SimScan.sample.diversity.noise (built-in variable) SimScan.sample.diversity.power (built-in variable) SimScan.sample.diversity.shift (built-in variable) SimScan.sample.fill (built-in variable) SimScan.sample.model (built-in variable) SimScan.sample.process (built-in variable) SimScan.sample.process.density (built-in variable) SimScan.sample.process.formula (built-in variable) SimScan.sample.process.offset (built-in variable) SimScan.sample.process.ref_index (built-in variable) SimScan.sample.process.smoothing (built-in variable) SimScan.sample.process.thickness (built-in variable) SimScan.sample.process.zoom (built-in variable) SimScan.sample.recon (built-in variable) SimScan.sample.recon.rfile (built-in variable) SimScan.sample.stxm (built-in variable) SimScan.sample.stxm.label (built-in variable) SimScan.save (built-in variable) SimScan.shape (built-in variable) SimScan.verbose_level (built-in variable) SimScan.version (built-in variable) SimScan.xy (built-in variable) SimScan.xy.count (built-in variable) SimScan.xy.extent (built-in variable) SimScan.xy.jitter (built-in variable) SimScan.xy.model (built-in variable) SimScan.xy.offset (built-in variable) SimScan.xy.override (built-in variable) SimScan.xy.spacing (built-in variable) SimScan.xy.steps (built-in variable) simulate() (in module ptypy.core.sample) size (ptypy.core.classes.Container property) slice (ptypy.core.classes.View property) smooth_step() (in module ptypy.simulations.detector) (in module ptypy.utils.math_utils) Sp (ptypy.core.classes.Container property) sp (ptypy.core.classes.View property) spawn_MPLClient() (in module ptypy.utils.plot_client) SpecInfo (class in ptypy.experiment.spec) SpecScan (class in ptypy.experiment.spec) spiral_scan() (in module ptypy.core.xy) start() (ptypy.utils.plot_client.PlotClient method) start_ipython_kernel() (in module ptypy.debug.ipython_kernel) status (ptypy.utils.plot_client.PlotClient property) stop() (ptypy.utils.plot_client.PlotClient method) stop_server() (ptypy.io.interaction.Client method) Storage (class in ptypy.core.classes) storage (ptypy.core.classes.View attribute) storageID (ptypy.core.classes.View attribute) storages (ptypy.core.classes.Container property) str2index() (in module ptypy.utils.misc) str2int() (in module ptypy.utils.misc) str2range() (in module ptypy.utils.misc) Str_to_Slice (class in ptypy.io.h5rw) (class in ptypy.io.json_rw) stxm_analysis() (in module ptypy.utils.scripts) stxm_init() (in module ptypy.utils.scripts) subtract_dark() (ptypy.experiment.epsic_loader.EpsicHdf5Loader method) (ptypy.experiment.epsic_loader.EpsicHdf5LoaderFast static method) (ptypy.experiment.hdf5_loader.Hdf5Loader method) (ptypy.experiment.hdf5_loader.Hdf5LoaderFast static method) (ptypy.experiment.swmr_loader.SwmrLoader method) support_constraint() (ptypy.custom.DM_object_regul.DM_object_regul method) (ptypy.custom.DMOPR.DMOPR method) (ptypy.custom.ePIE_parallel.EPIEParallel method) (ptypy.custom.MLOPR.MLOPR method) (ptypy.custom.threepie.ThreePIE method) (ptypy.custom.WASP.WASP method) (ptypy.engines.base.Base3dBraggEngine method) (ptypy.engines.base.BaseEngine method) (ptypy.engines.base.PositionCorrectionEngine method) (ptypy.engines.Bragg3d_engines.DM_3dBragg method) (ptypy.engines.ML.ML method) (ptypy.engines.projectional.DM method) (ptypy.engines.projectional.RAAR method) (ptypy.engines.stochastic.EPIE method) (ptypy.engines.stochastic.SDR method) switch_orientation() (in module ptypy.utils.array_utils) SwmrLoader (class in ptypy.experiment.swmr_loader) T Table (class in ptypy.utils.misc) ThreePIE (class in ptypy.custom.threepie) to_h5() (in module ptypy.core.save_load) to_string() (ptypy.utils.descriptor.ArgParseDescriptor method) (ptypy.utils.descriptor.Descriptor method) (ptypy.utils.descriptor.EvalDescriptor method) translate_to_pix() (in module ptypy.core.geometry) tree_obj() (in module ptypy.resources) type (ptypy.utils.descriptor.EvalDescriptor property) U UCLLaserScan (class in ptypy.experiment.UCL) undistort() (in module ptypy.experiment.ID16Anfp) unexpected_ticket() (ptypy.io.interaction.Client method) unique_path() (in module ptypy.utils.misc) unlink() (in module ptypy.core.save_load) update() (ptypy.core.classes.Storage method) (ptypy.core.geometry.BasicFarfieldPropagator method) (ptypy.core.geometry.BasicNearfieldPropagator method) (ptypy.core.geometry.Geo method) (ptypy.utils.parameters.Param method) update_constraints() (ptypy.engines.posref.AnnealingRefine method) (ptypy.engines.posref.GridSearchRefine method) (ptypy.engines.posref.PositionRefine method) update_plot_layout() (ptypy.utils.plot_client.MPLClient method) (ptypy.utils.plot_client.MPLplotter method) update_view_position() (ptypy.engines.posref.AnnealingRefine method) (ptypy.engines.posref.GridSearchRefine method) (ptypy.engines.posref.PositionRefine method) update_views() (ptypy.core.classes.Storage method) upsample (ptypy.core.classes.POD property) upsample() (ptypy.core.geometry.Geo method) useMPI() (in module ptypy.utils.parallel) userlevel (ptypy.utils.descriptor.EvalDescriptor property) usesTime() (ptypy.utils.verbose.CustomFormatter method) V V (ptypy.core.classes.Container property) valid_ID() (in module ptypy.core.classes) validate() (ptypy.utils.descriptor.EvalDescriptor method) validate_standard_param() (in module ptypy.utils.parameters) values() (ptypy.utils.parameters.Param method) Vanilla (built-in variable) (class in ptypy.core.manager) Vanilla.data (built-in variable) Vanilla.data.name (built-in variable) Vanilla.ffttype (built-in variable) Vanilla.illumination (built-in variable) Vanilla.illumination.size (built-in variable) Vanilla.name (built-in variable) Vanilla.propagation (built-in variable) Vanilla.resample (built-in variable) Vanilla.sample (built-in variable) Vanilla.sample.fill (built-in variable) Vanilla.tags (built-in variable) verbose() (in module ptypy.experiment.spec) View (class in ptypy.core.classes) views (ptypy.core.classes.Container property) (ptypy.core.classes.Storage property) views_in_storage() (ptypy.core.classes.Container method) Vp (ptypy.core.classes.Container property) W wait() (ptypy.io.interaction.Client method) WASP (class in ptypy.custom.WASP) writeData() (in module ptypy.io.edfIO) X xradia_star() (in module ptypy.utils.scripts) Z zoom() (in module ptypy.utils.array_utils) zoom_to_psize() (ptypy.core.classes.Storage method)
