Index

A

all_sc() (in module liger_iris_pipeline.utils.math) any_sc() (in module liger_iris_pipeline.utils.math) ap_interpret_bit_flags() (in module liger_iris_pipeline.datamodels.dqflags)

apply_flat_field() (in module liger_iris_pipeline.flat_field.flat_field) apply_norm() (in module liger_iris_pipeline.normalize.normalize) AssignWCSStep (class in liger_iris_pipeline.assign_wcs) (class in liger_iris_pipeline.assign_wcs.assign_wcs_step)

B

BiasModel (class in liger_iris_pipeline.datamodels.bias)

biweight_location() (in module liger_iris_pipeline.utils.math) biweight_midvariance() (in module liger_iris_pipeline.utils.math)

C

CalculateBackgroundImagerStep (class in liger_iris_pipeline.background.calc_background_imager_step) check_dimensions() (in module liger_iris_pipeline.dq_init.dq_initialization) class_alias (liger_iris_pipeline.assign_wcs.assign_wcs_step.AssignWCSStep attribute) (liger_iris_pipeline.assign_wcs.AssignWCSStep attribute) (liger_iris_pipeline.background.calc_background_imager_step.CalculateBackgroundImagerStep attribute) (liger_iris_pipeline.background.subtract_background_imager_step.SubtractBackgroundImagerStep attribute) (liger_iris_pipeline.combine_frames.combine_frames_step.CombineFramesStep attribute) (liger_iris_pipeline.combine_frames.CombineFramesStep attribute) (liger_iris_pipeline.dark_subtraction.dark_step.DarkSubtractionStep attribute) (liger_iris_pipeline.dark_subtraction.DarkSubtractionStep attribute) (liger_iris_pipeline.dq_init.dq_init_step.DQInitStep attribute) (liger_iris_pipeline.dq_init.DQInitStep attribute) (liger_iris_pipeline.flat_field.flat_field_step.FlatFieldStep attribute) (liger_iris_pipeline.flat_field.FlatFieldStep attribute) (liger_iris_pipeline.merge_subarrays.merge_subarrays_step.MergeSubarraysStep attribute) (liger_iris_pipeline.merge_subarrays.MergeSubarraysStep attribute) (liger_iris_pipeline.normalize.normalize_step.NormalizeStep attribute) (liger_iris_pipeline.normalize.NormalizeStep attribute) (liger_iris_pipeline.parse_subarray_map.parse_subarray_map_step.ParseSubarrayMapStep attribute) (liger_iris_pipeline.parse_subarray_map.ParseSubarrayMapStep attribute) (liger_iris_pipeline.readout.fit_ramp_step.FitRampStep attribute) (liger_iris_pipeline.readout.nonlincorr_step.NonlinearCorrectionStep attribute)

class_from_model_type() (in module liger_iris_pipeline.datamodels.utils) combine_frames() (in module liger_iris_pipeline.combine_frames.combine_frames_step) CombineFramesStep (class in liger_iris_pipeline.combine_frames) (class in liger_iris_pipeline.combine_frames.combine_frames_step) correct_model() (in module liger_iris_pipeline.dq_init.dq_initialization) correct_nonlinearity() (in module liger_iris_pipeline.readout.nonlinear_correction_numba) crds_observatory (liger_iris_pipeline.datamodels.model_base.LigerIRISDataModel property) CreateDark (class in liger_iris_pipeline.pipeline.create_dark) CreateFlatfield (class in liger_iris_pipeline.pipeline.create_flatfield)

D

DarkModel (class in liger_iris_pipeline.datamodels.dark) DarkSubtractionStep (class in liger_iris_pipeline.dark_subtraction) (class in liger_iris_pipeline.dark_subtraction.dark_step) do_correction() (in module liger_iris_pipeline.normalize.normalize)

do_dqinit() (in module liger_iris_pipeline.dq_init.dq_initialization) dqflags_to_mnemonics() (in module liger_iris_pipeline.datamodels.dqflags) DQInitStep (class in liger_iris_pipeline.dq_init) (class in liger_iris_pipeline.dq_init.dq_init_step) DQModel (class in liger_iris_pipeline.datamodels.dq)

E

exclude_spec (liger_iris_pipeline.base_step.LigerIRISStep attribute)

F

finalize_result() (liger_iris_pipeline.base_step.LigerIRISStep method) fit_ramps_mcds() (in module liger_iris_pipeline.readout.fit_ramp_numba) fit_ramps_ols() (in module liger_iris_pipeline.readout.fit_ramp_numba)

FitRampStep (class in liger_iris_pipeline.readout.fit_ramp_step) FlatFieldStep (class in liger_iris_pipeline.flat_field) (class in liger_iris_pipeline.flat_field.flat_field_step) FlatModel (class in liger_iris_pipeline.datamodels.flat)

G

generate_filename() (liger_iris_pipeline.datamodels.model_base.LigerIRISDataModel method) (liger_iris_pipeline.datamodels.referencefile.ReferenceFileModel method) get_pars() (liger_iris_pipeline.base_step.LigerIRISStep method) get_primary_array_name() (liger_iris_pipeline.datamodels.dq.DQModel method) (liger_iris_pipeline.datamodels.model_base.LigerIRISDataModel method)

get_resource_mappings() (in module liger_iris_pipeline.datamodels.integration) get_sem_id() (liger_iris_pipeline.datamodels.model_base.LigerIRISDataModel static method) get_subarray_model() (in module liger_iris_pipeline.utils.subarray)

I

IFUCubeModel (class in liger_iris_pipeline.datamodels.ifu) IFUImageModel (class in liger_iris_pipeline.datamodels.ifu) ImagerModel (class in liger_iris_pipeline.datamodels.imager)

ImagerStage2Pipeline (class in liger_iris_pipeline.pipeline.imager_stage2) init_logger() (liger_iris_pipeline.base_step.LigerIRISStep method) init_steps() (liger_iris_pipeline.pipeline.base_pipeline.LigerIRISPipeline method) interpret_bit_flags() (in module liger_iris_pipeline.datamodels.dqflags)

L

liger_iris_pipeline.assign_wcs module liger_iris_pipeline.assign_wcs.assign_wcs module liger_iris_pipeline.assign_wcs.assign_wcs_step module liger_iris_pipeline.background module liger_iris_pipeline.background.calc_background_imager_step module liger_iris_pipeline.background.subtract_background_imager_step module liger_iris_pipeline.base_step module liger_iris_pipeline.combine_frames module liger_iris_pipeline.combine_frames.combine_frames_step module liger_iris_pipeline.dark_subtraction module liger_iris_pipeline.dark_subtraction.dark_step module liger_iris_pipeline.dark_subtraction.dark_sub module liger_iris_pipeline.datamodels module liger_iris_pipeline.datamodels.bias module liger_iris_pipeline.datamodels.dark module liger_iris_pipeline.datamodels.dq module liger_iris_pipeline.datamodels.dqflags module liger_iris_pipeline.datamodels.flat module liger_iris_pipeline.datamodels.ifu module liger_iris_pipeline.datamodels.imager module liger_iris_pipeline.datamodels.integration module liger_iris_pipeline.datamodels.model_base module liger_iris_pipeline.datamodels.nonlin module liger_iris_pipeline.datamodels.ramp module liger_iris_pipeline.datamodels.referencefile module liger_iris_pipeline.datamodels.utils module liger_iris_pipeline.dq_init module liger_iris_pipeline.dq_init.dq_init_step module liger_iris_pipeline.dq_init.dq_initialization module

liger_iris_pipeline.flat_field module liger_iris_pipeline.flat_field.flat_field module liger_iris_pipeline.flat_field.flat_field_step module liger_iris_pipeline.merge_subarrays module liger_iris_pipeline.merge_subarrays.merge_subarrays_step module liger_iris_pipeline.normalize module liger_iris_pipeline.normalize.normalize module liger_iris_pipeline.normalize.normalize_step module liger_iris_pipeline.parse_subarray_map module liger_iris_pipeline.parse_subarray_map.parse_subarray_map_step module liger_iris_pipeline.pipeline module liger_iris_pipeline.pipeline.base_pipeline module liger_iris_pipeline.pipeline.create_dark module liger_iris_pipeline.pipeline.create_flatfield module liger_iris_pipeline.pipeline.imager_stage2 module liger_iris_pipeline.pipeline.stage1 module liger_iris_pipeline.readout module liger_iris_pipeline.readout.fit_ramp_numba module liger_iris_pipeline.readout.fit_ramp_step module liger_iris_pipeline.readout.nonlincorr_step module liger_iris_pipeline.readout.nonlinear_correction_numba module liger_iris_pipeline.utils module liger_iris_pipeline.utils.endian_utils module liger_iris_pipeline.utils.errors module liger_iris_pipeline.utils.math module liger_iris_pipeline.utils.subarray module LigerIRISDataModel (class in liger_iris_pipeline.datamodels.model_base) LigerIRISPipeline (class in liger_iris_pipeline.pipeline.base_pipeline) LigerIRISStep (class in liger_iris_pipeline.base_step) load_spec_file() (liger_iris_pipeline.base_step.LigerIRISStep class method) load_wcs() (in module liger_iris_pipeline.assign_wcs.assign_wcs)

M

mad() (in module liger_iris_pipeline.utils.math) make_output_path() (liger_iris_pipeline.base_step.LigerIRISStep method) measure_error() (in module liger_iris_pipeline.utils.errors) median_absolute_deviation() (in module liger_iris_pipeline.utils.math) MergeSubarraysStep (class in liger_iris_pipeline.merge_subarrays) (class in liger_iris_pipeline.merge_subarrays.merge_subarrays_step) module liger_iris_pipeline.assign_wcs liger_iris_pipeline.assign_wcs.assign_wcs liger_iris_pipeline.assign_wcs.assign_wcs_step liger_iris_pipeline.background liger_iris_pipeline.background.calc_background_imager_step liger_iris_pipeline.background.subtract_background_imager_step liger_iris_pipeline.base_step liger_iris_pipeline.combine_frames liger_iris_pipeline.combine_frames.combine_frames_step liger_iris_pipeline.dark_subtraction liger_iris_pipeline.dark_subtraction.dark_step liger_iris_pipeline.dark_subtraction.dark_sub liger_iris_pipeline.datamodels liger_iris_pipeline.datamodels.bias liger_iris_pipeline.datamodels.dark liger_iris_pipeline.datamodels.dq liger_iris_pipeline.datamodels.dqflags liger_iris_pipeline.datamodels.flat liger_iris_pipeline.datamodels.ifu liger_iris_pipeline.datamodels.imager liger_iris_pipeline.datamodels.integration liger_iris_pipeline.datamodels.model_base liger_iris_pipeline.datamodels.nonlin liger_iris_pipeline.datamodels.ramp liger_iris_pipeline.datamodels.referencefile liger_iris_pipeline.datamodels.utils liger_iris_pipeline.dq_init liger_iris_pipeline.dq_init.dq_init_step liger_iris_pipeline.dq_init.dq_initialization liger_iris_pipeline.flat_field liger_iris_pipeline.flat_field.flat_field liger_iris_pipeline.flat_field.flat_field_step liger_iris_pipeline.merge_subarrays liger_iris_pipeline.merge_subarrays.merge_subarrays_step liger_iris_pipeline.normalize liger_iris_pipeline.normalize.normalize liger_iris_pipeline.normalize.normalize_step liger_iris_pipeline.parse_subarray_map liger_iris_pipeline.parse_subarray_map.parse_subarray_map_step liger_iris_pipeline.pipeline liger_iris_pipeline.pipeline.base_pipeline liger_iris_pipeline.pipeline.create_dark liger_iris_pipeline.pipeline.create_flatfield liger_iris_pipeline.pipeline.imager_stage2 liger_iris_pipeline.pipeline.stage1 liger_iris_pipeline.readout liger_iris_pipeline.readout.fit_ramp_numba liger_iris_pipeline.readout.fit_ramp_step liger_iris_pipeline.readout.nonlincorr_step liger_iris_pipeline.readout.nonlinear_correction_numba liger_iris_pipeline.utils liger_iris_pipeline.utils.endian_utils liger_iris_pipeline.utils.errors liger_iris_pipeline.utils.math liger_iris_pipeline.utils.subarray

multiple_replace() (in module liger_iris_pipeline.datamodels.dqflags)

N

NonlinearCorrectionModel (class in liger_iris_pipeline.datamodels.nonlin) NonlinearCorrectionStep (class in liger_iris_pipeline.readout.nonlincorr_step)

normalize_dtype_array() (in module liger_iris_pipeline.utils.endian_utils) NormalizeStep (class in liger_iris_pipeline.normalize) (class in liger_iris_pipeline.normalize.normalize_step)

O

on_init() (liger_iris_pipeline.datamodels.model_base.LigerIRISDataModel method) (liger_iris_pipeline.datamodels.referencefile.ReferenceFileModel method) on_save() (liger_iris_pipeline.datamodels.model_base.LigerIRISDataModel method)

on_skip() (liger_iris_pipeline.base_step.LigerIRISStep method) open() (in module liger_iris_pipeline.datamodels.utils) open_model() (liger_iris_pipeline.base_step.LigerIRISStep method)

P

parse_config_kwarg() (liger_iris_pipeline.base_step.LigerIRISStep static method) ParseSubarrayMapStep (class in liger_iris_pipeline.parse_subarray_map) (class in liger_iris_pipeline.parse_subarray_map.parse_subarray_map_step) print_err() (liger_iris_pipeline.datamodels.referencefile.ReferenceFileModel method) process() (liger_iris_pipeline.assign_wcs.assign_wcs_step.AssignWCSStep method) (liger_iris_pipeline.assign_wcs.AssignWCSStep method) (liger_iris_pipeline.background.calc_background_imager_step.CalculateBackgroundImagerStep method) (liger_iris_pipeline.background.subtract_background_imager_step.SubtractBackgroundImagerStep method) (liger_iris_pipeline.base_step.LigerIRISStep method) (liger_iris_pipeline.combine_frames.combine_frames_step.CombineFramesStep method) (liger_iris_pipeline.combine_frames.CombineFramesStep method) (liger_iris_pipeline.dark_subtraction.dark_step.DarkSubtractionStep method) (liger_iris_pipeline.dark_subtraction.DarkSubtractionStep method) (liger_iris_pipeline.dq_init.dq_init_step.DQInitStep method) (liger_iris_pipeline.dq_init.DQInitStep method) (liger_iris_pipeline.flat_field.flat_field_step.FlatFieldStep method) (liger_iris_pipeline.flat_field.FlatFieldStep method) (liger_iris_pipeline.merge_subarrays.merge_subarrays_step.MergeSubarraysStep method) (liger_iris_pipeline.merge_subarrays.MergeSubarraysStep method) (liger_iris_pipeline.normalize.normalize_step.NormalizeStep method) (liger_iris_pipeline.normalize.NormalizeStep method) (liger_iris_pipeline.parse_subarray_map.parse_subarray_map_step.ParseSubarrayMapStep method) (liger_iris_pipeline.parse_subarray_map.ParseSubarrayMapStep method) (liger_iris_pipeline.pipeline.create_dark.CreateDark method) (liger_iris_pipeline.pipeline.create_flatfield.CreateFlatfield method) (liger_iris_pipeline.pipeline.imager_stage2.ImagerStage2Pipeline method) (liger_iris_pipeline.pipeline.stage1.Stage1Pipeline method) (liger_iris_pipeline.readout.fit_ramp_step.FitRampStep method) (liger_iris_pipeline.readout.nonlincorr_step.NonlinearCorrectionStep method)

propagate_error() (in module liger_iris_pipeline.utils.errors)

R

RampModel (class in liger_iris_pipeline.datamodels.ramp) reference_file_types (liger_iris_pipeline.assign_wcs.assign_wcs_step.AssignWCSStep attribute) (liger_iris_pipeline.assign_wcs.AssignWCSStep attribute) (liger_iris_pipeline.dark_subtraction.dark_step.DarkSubtractionStep attribute) (liger_iris_pipeline.dark_subtraction.DarkSubtractionStep attribute) (liger_iris_pipeline.dq_init.dq_init_step.DQInitStep attribute) (liger_iris_pipeline.dq_init.DQInitStep attribute) (liger_iris_pipeline.flat_field.flat_field_step.FlatFieldStep attribute) (liger_iris_pipeline.flat_field.FlatFieldStep attribute)

ReferenceFileModel (class in liger_iris_pipeline.datamodels.referencefile) robust_mean() (in module liger_iris_pipeline.utils.math) robust_stddev() (in module liger_iris_pipeline.utils.math) run() (liger_iris_pipeline.base_step.LigerIRISStep method)

S

save() (liger_iris_pipeline.datamodels.model_base.LigerIRISDataModel method) save_model() (liger_iris_pipeline.base_step.LigerIRISStep method) schema_url (liger_iris_pipeline.datamodels.bias.BiasModel attribute) (liger_iris_pipeline.datamodels.dark.DarkModel attribute) (liger_iris_pipeline.datamodels.dq.DQModel attribute) (liger_iris_pipeline.datamodels.flat.FlatModel attribute) (liger_iris_pipeline.datamodels.ifu.IFUCubeModel attribute) (liger_iris_pipeline.datamodels.ifu.IFUImageModel attribute) (liger_iris_pipeline.datamodels.imager.ImagerModel attribute) (liger_iris_pipeline.datamodels.model_base.LigerIRISDataModel attribute) (liger_iris_pipeline.datamodels.nonlin.NonlinearCorrectionModel attribute) (liger_iris_pipeline.datamodels.ramp.RampModel attribute) (liger_iris_pipeline.datamodels.referencefile.ReferenceFileModel attribute) spec (liger_iris_pipeline.background.calc_background_imager_step.CalculateBackgroundImagerStep attribute) (liger_iris_pipeline.background.subtract_background_imager_step.SubtractBackgroundImagerStep attribute) (liger_iris_pipeline.combine_frames.combine_frames_step.CombineFramesStep attribute) (liger_iris_pipeline.combine_frames.CombineFramesStep attribute) (liger_iris_pipeline.dark_subtraction.dark_step.DarkSubtractionStep attribute) (liger_iris_pipeline.dark_subtraction.DarkSubtractionStep attribute) (liger_iris_pipeline.flat_field.flat_field_step.FlatFieldStep attribute) (liger_iris_pipeline.flat_field.FlatFieldStep attribute) (liger_iris_pipeline.normalize.normalize_step.NormalizeStep attribute) (liger_iris_pipeline.normalize.NormalizeStep attribute) (liger_iris_pipeline.readout.fit_ramp_step.FitRampStep attribute) (liger_iris_pipeline.readout.nonlincorr_step.NonlinearCorrectionStep attribute)

Stage1Pipeline (class in liger_iris_pipeline.pipeline.stage1) step_defs (liger_iris_pipeline.pipeline.create_dark.CreateDark attribute) (liger_iris_pipeline.pipeline.create_flatfield.CreateFlatfield attribute) (liger_iris_pipeline.pipeline.imager_stage2.ImagerStage2Pipeline attribute) (liger_iris_pipeline.pipeline.stage1.Stage1Pipeline attribute) subtract_background_imager() (in module liger_iris_pipeline.background.subtract_background_imager_step) subtract_dark() (in module liger_iris_pipeline.dark_subtraction.dark_sub) SubtractBackgroundImagerStep (class in liger_iris_pipeline.background.subtract_background_imager_step)

T

to_fits() (liger_iris_pipeline.datamodels.model_base.LigerIRISDataModel method)

W

weighted_mean() (in module liger_iris_pipeline.utils.math)

weighted_quantile() (in module liger_iris_pipeline.utils.math) weighted_stddev() (in module liger_iris_pipeline.utils.math)