Index

_

__call__() (dcnum.logic.slot_register.count_time method) __commit_id__ (in module dcnum._version) __contains__() (dcnum.read.hdf5_data.HDF5Data method) (dcnum.read.HDF5Data method) __enter__() (dcnum.feat.feat_background.Background method) (dcnum.feat.feat_background.BackgroundRollMed method) (dcnum.feat.feat_background.BackgroundSparseMed method) (dcnum.feat.feat_background.base.Background method) (dcnum.feat.feat_background.bg_roll_median.BackgroundRollMed method) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed method) (dcnum.logic.ctrl.DCNumJobRunner method) (dcnum.logic.DCNumJobRunner method) (dcnum.logic.slot_register.StateWarden method) (dcnum.os_env_st.RequestSingleThreaded method) (dcnum.read.hdf5_data.HDF5Data method) (dcnum.read.HDF5Data method) (dcnum.segm.MPOSegmenter method) (dcnum.segm.segmenter_mpo.MPOSegmenter method) (dcnum.write.HDF5Writer method) (dcnum.write.writer.HDF5Writer method) __exit__() (dcnum.feat.feat_background.Background method) (dcnum.feat.feat_background.BackgroundRollMed method) (dcnum.feat.feat_background.BackgroundSparseMed method) (dcnum.feat.feat_background.base.Background method) (dcnum.feat.feat_background.bg_roll_median.BackgroundRollMed method) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed method) (dcnum.logic.ctrl.DCNumJobRunner method) (dcnum.logic.DCNumJobRunner method) (dcnum.logic.slot_register.StateWarden method) (dcnum.os_env_st.RequestSingleThreaded method) (dcnum.read.hdf5_data.HDF5Data method) (dcnum.read.HDF5Data method) (dcnum.segm.MPOSegmenter method) (dcnum.segm.segmenter_mpo.MPOSegmenter method) (dcnum.write.HDF5Writer method) (dcnum.write.writer.HDF5Writer method) __getattr__() (dcnum.common.LazyLoader method) __getitem__() (dcnum.logic.DCNumPipelineJob method) (dcnum.logic.job.DCNumPipelineJob method) (dcnum.logic.slot_register.SlotRegister method) (dcnum.logic.SlotRegister method) (dcnum.meta.ppid.AbrvStr method) (dcnum.read.cache.BaseImageChunkCache method) (dcnum.read.hdf5_data.HDF5Data method) (dcnum.read.HDF5Data method) (dcnum.read.mapped.MappedHDF5Dataset method) __getstate__() (dcnum.logic.DCNumPipelineJob method) (dcnum.logic.job.DCNumPipelineJob method) (dcnum.read.hdf5_data.HDF5Data method) (dcnum.read.HDF5Data method) (dcnum.segm.MPOSegmenter method) (dcnum.segm.segmenter_mpo.MPOSegmenter method) __iter__() (dcnum.logic.slot_register.SlotRegister method) (dcnum.logic.SlotRegister method) __len__() (dcnum.logic.slot_register.SlotRegister method) (dcnum.logic.SlotRegister method) (dcnum.read.cache.BaseImageChunkCache method) (dcnum.read.hdf5_data.HDF5Data method) (dcnum.read.HDF5Data method) (dcnum.read.mapped.MappedHDF5Dataset method) __repr__() (dcnum.logic.chunk_slot.ChunkSlot method) (dcnum.logic.ChunkSlot method) (dcnum.logic.slot_register.StateWarden method) __setstate__() (dcnum.logic.DCNumPipelineJob method) (dcnum.logic.job.DCNumPipelineJob method) (dcnum.read.hdf5_data.HDF5Data method) (dcnum.read.HDF5Data method) (dcnum.segm.MPOSegmenter method) (dcnum.segm.segmenter_mpo.MPOSegmenter method)

__version__ (in module dcnum) (in module dcnum._version) __version_tuple__ (in module dcnum) (in module dcnum._version) _action (dcnum.common.LazyLoader attribute) _chunk (dcnum.logic.chunk_slot_data.ChunkSlotData attribute) _data_raw (dcnum.logic.ctrl.DCNumJobRunner attribute) (dcnum.logic.DCNumJobRunner attribute) _data_temp_in (dcnum.logic.ctrl.DCNumJobRunner attribute) (dcnum.logic.DCNumJobRunner attribute) _default_size_thresh_mask (dcnum.feat.Gate attribute) (dcnum.feat.gate.Gate attribute) _dtype (dcnum.read.cache.BaseImageChunkCache attribute) _extract_online_gates() (dcnum.feat.Gate method) (dcnum.feat.gate.Gate method) _get_basin_data_file() (dcnum.read.hdf5_data.HDF5Data method) (dcnum.read.HDF5Data method) _get_basin_data_internal() (dcnum.read.hdf5_data.HDF5Data method) (dcnum.read.HDF5Data method) _get_chunk_data() (dcnum.read.cache.BaseImageChunkCache method) (dcnum.read.cache.HDF5ImageCache method) (dcnum.read.cache.ImageCorrCache method) (dcnum.read.HDF5ImageCache method) _get_chunk_index_for_index() (dcnum.read.cache.BaseImageChunkCache method) _get_mapping_indices_cached() (in module dcnum.read.mapped) _instance_counter (dcnum.logic.chunk_slot.ChunkSlot attribute) (dcnum.logic.ChunkSlot attribute) _len (dcnum.read.cache.BaseImageChunkCache attribute) _log_file_handler (dcnum.logic.ctrl.DCNumJobRunner attribute) (dcnum.logic.DCNumJobRunner attribute) _mod (dcnum.common.LazyLoader attribute) _modname (dcnum.common.LazyLoader attribute) _progress_bg (dcnum.logic.ctrl.DCNumJobRunner attribute) (dcnum.logic.DCNumJobRunner attribute) _progress_bn (dcnum.logic.ctrl.DCNumJobRunner attribute) (dcnum.logic.DCNumJobRunner attribute) _progress_ex (dcnum.logic.ctrl.DCNumJobRunner attribute) (dcnum.logic.DCNumJobRunner attribute) _qlisten (dcnum.logic.ctrl.DCNumJobRunner attribute) (dcnum.logic.DCNumJobRunner attribute) _segm_rate (dcnum.logic.ctrl.DCNumJobRunner attribute) (dcnum.logic.DCNumJobRunner attribute) _segment_in_batches() (dcnum.segm.segm_torch.segm_torch_sto.SegmentTorchSTO static method) (dcnum.segm.segm_torch.SegmentTorchSTO static method) _slots (dcnum.logic.slot_register.SlotRegister attribute) (dcnum.logic.SlotRegister attribute) _state (dcnum.logic.chunk_slot_data.ChunkSlotData attribute) (dcnum.logic.ctrl.DCNumJobRunner attribute) (dcnum.logic.DCNumJobRunner attribute) (dcnum.logic.slot_register.SlotRegister attribute) (dcnum.logic.SlotRegister attribute) _task_progress_array (dcnum.logic.chunk_slot_data.ChunkSlotData attribute) _task_reserve_array (dcnum.logic.chunk_slot_data.ChunkSlotData attribute) _task_reserve_lock (dcnum.logic.chunk_slot_data.ChunkSlotData attribute) _tracker (dcnum.write.event_stash.EventStash attribute) (dcnum.write.EventStash attribute) _validate_applicability_item() (dcnum.segm.segm_torch.segm_torch_base.TorchSegmenterBase static method) _worker_starter (dcnum.segm.MPOSegmenter attribute) (dcnum.segm.segmenter_mpo.MPOSegmenter attribute) _workers (dcnum.segm.MPOSegmenter attribute) (dcnum.segm.segmenter_mpo.MPOSegmenter attribute)

A

abort_loop() (dcnum.write.chunk_writer.ChunkWriter method) (dcnum.write.ChunkWriter method) abrv (dcnum.meta.ppid.AbrvStr property) abrv_lengths (dcnum.meta.ppid.AbrvStr attribute) AbrvStr (class in dcnum.meta.ppid)

acquire_task_lock() (dcnum.logic.chunk_slot_data.ChunkSlotData method) add_events() (dcnum.write.event_stash.EventStash method) (dcnum.write.EventStash method) assert_labels() (in module dcnum.segm.segmenter) assert_pp_codes() (dcnum.logic.DCNumPipelineJob method) (dcnum.logic.job.DCNumPipelineJob method)

B

Background (class in dcnum.feat.feat_background) (class in dcnum.feat.feat_background.base) BackgroundCopy (class in dcnum.feat.feat_background) (class in dcnum.feat.feat_background.bg_copy) BackgroundRollMed (class in dcnum.feat.feat_background) (class in dcnum.feat.feat_background.bg_roll_median) BackgroundSparseMed (class in dcnum.feat.feat_background) (class in dcnum.feat.feat_background.bg_sparse_median) BaseImageChunkCache (class in dcnum.read.cache) BasinIdentifierMismatchError, [1] batch_range (dcnum.logic.slot_register.StateWarden attribute) batch_size (dcnum.feat.feat_background.BackgroundRollMed attribute) (dcnum.feat.feat_background.bg_roll_median.BackgroundRollMed attribute) (dcnum.feat.feat_background.bg_roll_median.WorkerRollMed attribute) (dcnum.logic.slot_register.StateWarden attribute)

bg_images (dcnum.feat.feat_background.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed attribute) bg_off (dcnum.logic.chunk_slot_data.ChunkSlotData property) boolean (dcnum.read.cache.HDF5ImageCache attribute) (dcnum.read.HDF5ImageCache attribute) box_gates (dcnum.feat.Gate attribute) (dcnum.feat.gate.Gate attribute) brightness_features() (in module dcnum.feat.feat_brightness) (in module dcnum.feat.feat_brightness.bright_all) brightness_names (in module dcnum.feat.feat_brightness) (in module dcnum.feat.feat_brightness.common)

C

cache (dcnum.read.cache.BaseImageChunkCache attribute) cache_size (dcnum.read.cache.BaseImageChunkCache attribute) check_md5sum() (in module dcnum.segm.segm_torch.torch_model) check_user_kwargs() (dcnum.feat.feat_background.Background method) (dcnum.feat.feat_background.BackgroundCopy static method) (dcnum.feat.feat_background.BackgroundRollMed static method) (dcnum.feat.feat_background.BackgroundSparseMed static method) (dcnum.feat.feat_background.base.Background method) (dcnum.feat.feat_background.bg_copy.BackgroundCopy static method) (dcnum.feat.feat_background.bg_roll_median.BackgroundRollMed static method) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed static method) chunk (dcnum.logic.chunk_slot_data.ChunkSlotData property) chunk_shape (dcnum.read.cache.BaseImageChunkCache attribute) chunk_size (dcnum.logic.slot_register.SlotRegister attribute) (dcnum.logic.SlotRegister attribute) (dcnum.read.cache.BaseImageChunkCache attribute) chunk_slot (dcnum.logic.slot_register.StateWarden attribute) chunks_loaded (dcnum.logic.slot_register.SlotRegister property) (dcnum.logic.SlotRegister property) ChunkSlot (class in dcnum.logic) (class in dcnum.logic.chunk_slot) ChunkSlotData (class in dcnum.logic.chunk_slot_data) ChunkWriter (class in dcnum.write) (class in dcnum.write.chunk_writer) ClassWithPPIDCapabilities (class in dcnum.meta.ppid) close() (dcnum.logic.ctrl.DCNumJobRunner method) (dcnum.logic.DCNumJobRunner method) (dcnum.logic.slot_register.SlotRegister method) (dcnum.logic.SlotRegister method) (dcnum.read.hdf5_data.HDF5Data method) (dcnum.read.HDF5Data method) (dcnum.segm.MPOSegmenter method) (dcnum.segm.Segmenter method) (dcnum.segm.segmenter.Segmenter method) (dcnum.segm.segmenter_mpo.MPOSegmenter method) (dcnum.write.HDF5Writer method) (dcnum.write.writer.HDF5Writer method)

commit_id (in module dcnum._version) compute_avg_sd_masked_int16() (in module dcnum.feat.feat_brightness.bright_all) compute_avg_sd_masked_uint8() (in module dcnum.feat.feat_brightness.bright_all) compute_median() (in module dcnum.feat.feat_brightness.bright_all) compute_median_for_slice() (in module dcnum.feat.feat_background.bg_roll_median) compute_percentiles_10_90() (in module dcnum.feat.feat_brightness.bright_all) compute_pipeline_hash() (in module dcnum.meta.ppid) concatenated_hdf5_data() (in module dcnum.read) (in module dcnum.read.hdf5_concat) (in module dcnum.read.hdf5_data) confirm_single_threaded() (in module dcnum.os_env_st) contour_single_opencv() (in module dcnum.feat.feat_contour.contour) convert_to_dtype() (in module dcnum.meta.ppid) copy_basins() (in module dcnum.write) (in module dcnum.write.writer) copy_features() (in module dcnum.write) (in module dcnum.write.writer) copy_metadata() (in module dcnum.write) (in module dcnum.write.writer) count_time (class in dcnum.logic.slot_register) counter (dcnum.feat.feat_background.bg_roll_median.WorkerRollMed attribute) (dcnum.feat.feat_background.bg_sparse_median.WorkerSparseMed attribute) counters (dcnum.logic.slot_register.SlotRegister attribute) (dcnum.logic.SlotRegister attribute) cpu_count() (in module dcnum.common) create_with_basins() (in module dcnum.write) (in module dcnum.write.writer) CreatingFileWithoutBasinWarning current_batch (dcnum.feat.feat_background.BackgroundRollMed attribute) (dcnum.feat.feat_background.bg_roll_median.BackgroundRollMed attribute) current_state (dcnum.logic.slot_register.StateWarden attribute) cv2 (in module dcnum.feat.feat_contour.contour) (in module dcnum.feat.feat_contour.moments) (in module dcnum.segm.segmenter)

D

data (dcnum.logic.chunk_slot.ChunkSlot attribute) (dcnum.logic.ChunkSlot attribute) (dcnum.logic.slot_register.SlotRegister attribute) (dcnum.logic.SlotRegister attribute) dcnum module dcnum._version module dcnum.common module dcnum.external module dcnum.external.skimage_morphology module dcnum.feat module dcnum.feat.feat_background module dcnum.feat.feat_background.base module dcnum.feat.feat_background.bg_copy module dcnum.feat.feat_background.bg_roll_median module dcnum.feat.feat_background.bg_sparse_median module dcnum.feat.feat_brightness module dcnum.feat.feat_brightness.bright_all module dcnum.feat.feat_brightness.common module dcnum.feat.feat_contour module dcnum.feat.feat_contour.contour module dcnum.feat.feat_contour.moments module dcnum.feat.feat_contour.volume module dcnum.feat.feat_texture module dcnum.feat.feat_texture.common module dcnum.feat.feat_texture.tex_all module dcnum.feat.gate module dcnum.feat.queue_event_extractor module dcnum.logic module dcnum.logic.chunk_slot module dcnum.logic.chunk_slot_data module dcnum.logic.ctrl module dcnum.logic.job module dcnum.logic.json_encoder module dcnum.logic.slot_register module dcnum.logic.universal_worker module dcnum.meta module dcnum.meta.paths module dcnum.meta.ppid module dcnum.os_env_st module dcnum.read module

dcnum.read.cache module dcnum.read.const module dcnum.read.detect_flicker module dcnum.read.hdf5_concat module dcnum.read.hdf5_data module dcnum.read.mapped module dcnum.segm module dcnum.segm.segm_thresh module dcnum.segm.segm_torch module dcnum.segm.segm_torch.segm_torch_base module dcnum.segm.segm_torch.segm_torch_mpo module dcnum.segm.segm_torch.segm_torch_sto module dcnum.segm.segm_torch.torch_model module dcnum.segm.segm_torch.torch_postproc module dcnum.segm.segm_torch.torch_preproc module dcnum.segm.segm_torch.torch_setup module dcnum.segm.segmenter module dcnum.segm.segmenter_manager_thread module dcnum.segm.segmenter_mpo module dcnum.segm.segmenter_sto module dcnum.write module dcnum.write.chunk_writer module dcnum.write.event_stash module dcnum.write.queue_writer_base module dcnum.write.queue_writer_process module dcnum.write.queue_writer_thread module dcnum.write.writer module DCNUM_PPID_GENERATION (in module dcnum.meta.ppid) DCNumJobRunner (class in dcnum.logic) (class in dcnum.logic.ctrl) DCNumPipelineJob (class in dcnum.logic) (class in dcnum.logic.job) debug (dcnum.segm.Segmenter attribute) (dcnum.segm.segmenter.Segmenter attribute) default() (dcnum.logic.ExtendedJSONEncoder method) (dcnum.logic.json_encoder.ExtendedJSONEncoder method) detect_flickering() (in module dcnum.read) (in module dcnum.read.detect_flicker) disk() (in module dcnum.external.skimage_morphology) dq (dcnum.write.chunk_writer.ChunkWriter attribute) (dcnum.write.ChunkWriter attribute) draw (dcnum.logic.ctrl.DCNumJobRunner property) (dcnum.logic.DCNumJobRunner property) ds_kwds (dcnum.write.HDF5Writer attribute) (dcnum.write.writer.HDF5Writer attribute) dtin (dcnum.logic.ctrl.DCNumJobRunner property) (dcnum.logic.DCNumJobRunner property) dtype (dcnum.read.cache.BaseImageChunkCache property) duration (dcnum.feat.feat_background.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed attribute)

E

EmptyDatasetWarning error_tb (dcnum.logic.ctrl.DCNumJobRunner attribute) (dcnum.logic.DCNumJobRunner attribute) event_count (dcnum.logic.ctrl.DCNumJobRunner attribute) (dcnum.logic.DCNumJobRunner attribute) event_queue (dcnum.feat.queue_event_extractor.QueueEventExtractor attribute) (dcnum.feat.QueueEventExtractor attribute) (dcnum.logic.slot_register.SlotRegister attribute) (dcnum.logic.SlotRegister attribute) (dcnum.write.queue_writer_base.QueueWriterBase attribute) events (dcnum.write.event_stash.EventStash attribute) (dcnum.write.EventStash attribute) (dcnum.write.HDF5Writer attribute) (dcnum.write.writer.HDF5Writer attribute)

EventStash (class in dcnum.write) (class in dcnum.write.event_stash) ExtendedJSONEncoder (class in dcnum.logic) (class in dcnum.logic.json_encoder) extract_basin_dicts() (dcnum.read.hdf5_data.HDF5Data static method) (dcnum.read.HDF5Data static method) extract_kwargs (dcnum.feat.queue_event_extractor.QueueEventExtractor attribute) (dcnum.feat.QueueEventExtractor attribute)

F

feat_brightness (in module dcnum.feat.queue_event_extractor) feat_contour (in module dcnum.feat.queue_event_extractor) feat_nevents (dcnum.logic.slot_register.SlotRegister attribute) (dcnum.logic.SlotRegister attribute) (dcnum.write.event_stash.EventStash attribute) (dcnum.write.EventStash attribute) (dcnum.write.queue_writer_base.QueueWriterBase attribute) feat_texture (in module dcnum.feat.queue_event_extractor) features (dcnum.feat.Gate property) (dcnum.feat.gate.Gate property)

features_scalar_frame (dcnum.read.hdf5_data.HDF5Data property) (dcnum.read.HDF5Data property) find_file() (in module dcnum.meta.paths) find_slot() (dcnum.logic.slot_register.SlotRegister method) (dcnum.logic.SlotRegister method) finished_when_queue_empty() (dcnum.write.chunk_writer.ChunkWriter method) (dcnum.write.ChunkWriter method) frac_cleansing (dcnum.feat.feat_background.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed attribute)

G

Gate (class in dcnum.feat) (class in dcnum.feat.gate) gate (dcnum.feat.queue_event_extractor.QueueEventExtractor attribute) (dcnum.feat.QueueEventExtractor attribute) gate_event() (dcnum.feat.Gate method) (dcnum.feat.gate.Gate method) gate_events() (dcnum.feat.Gate method) (dcnum.feat.gate.Gate method) gate_feature() (dcnum.feat.Gate method) (dcnum.feat.gate.Gate method) gate_mask() (dcnum.feat.Gate method) (dcnum.feat.gate.Gate method) get_available_background_methods() (in module dcnum.feat.feat_background) (in module dcnum.feat.feat_background.base) get_available_segmenters() (in module dcnum.segm) (in module dcnum.segm.segmenter) get_basin_data() (dcnum.read.hdf5_data.HDF5Data method) (dcnum.read.HDF5Data method) get_best_nd_chunks() (dcnum.write.HDF5Writer static method) (dcnum.write.writer.HDF5Writer static method) get_border() (dcnum.segm.Segmenter static method) (dcnum.segm.segmenter.Segmenter static method) get_chunk() (dcnum.read.cache.BaseImageChunkCache method) get_chunk_size() (dcnum.read.cache.BaseImageChunkCache method) get_chunk_slice() (dcnum.read.cache.BaseImageChunkCache method) get_class_method_info() (in module dcnum.meta.ppid) get_counter_lock() (dcnum.logic.slot_register.SlotRegister method) (dcnum.logic.SlotRegister method) get_disk() (dcnum.segm.Segmenter static method) (dcnum.segm.segmenter.Segmenter static method) get_events_from_masks() (dcnum.feat.queue_event_extractor.QueueEventExtractor method) (dcnum.feat.QueueEventExtractor method) get_hdf5_dataset_kwargs() (dcnum.logic.DCNumPipelineJob method) (dcnum.logic.job.DCNumPipelineJob method) get_image_cache() (dcnum.read.hdf5_data.HDF5Data method) (dcnum.read.HDF5Data method) get_library_versions_dict() (in module dcnum.logic.ctrl) get_logger() (dcnum.write.queue_writer_base.QueueWriterBase method) get_mapped_object() (in module dcnum.read) (in module dcnum.read.mapped) get_mapping_indices() (in module dcnum.read) (in module dcnum.read.mapped) get_masks_from_label() (dcnum.feat.queue_event_extractor.QueueEventExtractor method) (dcnum.feat.QueueEventExtractor method) get_measurement_identifier() (in module dcnum.read) (in module dcnum.read.hdf5_data) get_ppid() (dcnum.feat.feat_background.Background method) (dcnum.feat.feat_background.base.Background method) (dcnum.feat.Gate method) (dcnum.feat.gate.Gate method) (dcnum.feat.queue_event_extractor.QueueEventExtractor method) (dcnum.feat.QueueEventExtractor method) (dcnum.logic.DCNumPipelineJob method) (dcnum.logic.job.DCNumPipelineJob method) (dcnum.meta.ppid.ClassWithPPIDCapabilities method) (dcnum.read.hdf5_data.HDF5Data method) (dcnum.read.HDF5Data method) (dcnum.segm.Segmenter method) (dcnum.segm.segmenter.Segmenter method)

get_ppid_code() (dcnum.feat.feat_background.Background class method) (dcnum.feat.feat_background.base.Background class method) (dcnum.feat.Gate class method) (dcnum.feat.gate.Gate class method) (dcnum.feat.queue_event_extractor.QueueEventExtractor class method) (dcnum.feat.QueueEventExtractor class method) (dcnum.meta.ppid.ClassWithPPIDCapabilities method) (dcnum.read.hdf5_data.HDF5Data class method) (dcnum.read.HDF5Data class method) (dcnum.segm.Segmenter class method) (dcnum.segm.segmenter.Segmenter class method) get_ppid_from_ppkw() (dcnum.feat.feat_background.Background class method) (dcnum.feat.feat_background.base.Background class method) (dcnum.feat.Gate class method) (dcnum.feat.gate.Gate class method) (dcnum.feat.queue_event_extractor.QueueEventExtractor class method) (dcnum.feat.QueueEventExtractor class method) (dcnum.meta.ppid.ClassWithPPIDCapabilities method) (dcnum.read.hdf5_data.HDF5Data class method) (dcnum.read.HDF5Data class method) (dcnum.segm.segm_torch.segm_torch_base.TorchSegmenterBase class method) (dcnum.segm.Segmenter class method) (dcnum.segm.segmenter.Segmenter class method) get_ppid_index_mapping() (dcnum.read.hdf5_data.HDF5Data static method) (dcnum.read.HDF5Data static method) get_ppkw_from_ppid() (dcnum.feat.feat_background.Background static method) (dcnum.feat.feat_background.base.Background static method) (dcnum.feat.Gate static method) (dcnum.feat.gate.Gate static method) (dcnum.feat.queue_event_extractor.QueueEventExtractor static method) (dcnum.feat.QueueEventExtractor static method) (dcnum.meta.ppid.ClassWithPPIDCapabilities method) (dcnum.read.hdf5_data.HDF5Data static method) (dcnum.read.HDF5Data static method) (dcnum.segm.Segmenter static method) (dcnum.segm.segmenter.Segmenter static method) get_progress() (dcnum.feat.feat_background.Background method) (dcnum.feat.feat_background.base.Background method) (dcnum.logic.chunk_slot_data.ChunkSlotData method) get_segmenter_class() (dcnum.logic.DCNumPipelineJob method) (dcnum.logic.job.DCNumPipelineJob method) get_segmenters() (in module dcnum.segm) (in module dcnum.segm.segmenter) get_slices_for_batch() (dcnum.feat.feat_background.BackgroundRollMed method) (dcnum.feat.feat_background.bg_roll_median.BackgroundRollMed method) get_status() (dcnum.logic.ctrl.DCNumJobRunner method) (dcnum.logic.DCNumJobRunner method) get_time() (dcnum.logic.slot_register.SlotRegister method) (dcnum.logic.SlotRegister method) get_unique_prefix() (in module dcnum.meta.ppid)

H

h5 (dcnum.read.hdf5_data.HDF5Data property) (dcnum.read.HDF5Data property) h5ds (dcnum.read.cache.HDF5ImageCache attribute) (dcnum.read.HDF5ImageCache attribute) (dcnum.read.mapped.MappedHDF5Dataset attribute) h5in (dcnum.feat.feat_background.Background attribute) (dcnum.feat.feat_background.base.Background attribute) h5out (dcnum.feat.feat_background.Background attribute) (dcnum.feat.feat_background.base.Background attribute) h5py (in module dcnum.common) haralick_names (in module dcnum.feat.feat_texture) (in module dcnum.feat.feat_texture.common) haralick_texture_features() (in module dcnum.feat.feat_texture) (in module dcnum.feat.feat_texture.tex_all) hardware_processor (dcnum.segm.MPOSegmenter attribute) (dcnum.segm.Segmenter attribute) (dcnum.segm.segmenter.Segmenter attribute) (dcnum.segm.segmenter_mpo.MPOSegmenter attribute) (dcnum.segm.segmenter_sto.STOSegmenter attribute) (dcnum.segm.STOSegmenter attribute)

hdf5_dataset_kwargs (dcnum.write.queue_writer_base.QueueWriterBase attribute) HDF5Data (class in dcnum.read) (class in dcnum.read.hdf5_data) HDF5ImageCache (class in dcnum.read) (class in dcnum.read.cache) hdf5plugin (in module dcnum.logic.job) (in module dcnum.write.writer) HDF5Writer (class in dcnum.write) (class in dcnum.write.writer) hdin (dcnum.feat.feat_background.Background attribute) (dcnum.feat.feat_background.base.Background attribute)

I

IgnoringBasinTypeWarning image (dcnum.logic.chunk_slot_data.ChunkSlotData property) (dcnum.read.cache.ImageCorrCache attribute) (dcnum.read.hdf5_data.HDF5Data property) (dcnum.read.HDF5Data property) image_bg (dcnum.logic.chunk_slot_data.ChunkSlotData property) (dcnum.read.cache.ImageCorrCache attribute) (dcnum.read.hdf5_data.HDF5Data property) (dcnum.read.HDF5Data property) image_corr (dcnum.logic.chunk_slot_data.ChunkSlotData property) (dcnum.read.hdf5_data.HDF5Data property) (dcnum.read.HDF5Data property) image_count (dcnum.feat.feat_background.Background attribute) (dcnum.feat.feat_background.base.Background attribute) image_num_chunks (dcnum.read.hdf5_data.HDF5Data property) (dcnum.read.HDF5Data property) image_proc (dcnum.feat.feat_background.Background attribute) (dcnum.feat.feat_background.base.Background attribute) image_shape (dcnum.feat.feat_background.Background attribute) (dcnum.feat.feat_background.base.Background attribute) (dcnum.read.cache.BaseImageChunkCache attribute)

ImageCorrCache (class in dcnum.read.cache) index (dcnum.logic.chunk_slot.ChunkSlot attribute) (dcnum.logic.ChunkSlot attribute) index_offset (dcnum.write.event_stash.EventStash attribute) (dcnum.write.EventStash attribute) indices_for_data (dcnum.write.event_stash.EventStash attribute) (dcnum.write.EventStash attribute) is_available() (dcnum.segm.segm_torch.segm_torch_base.TorchSegmenterBase static method) (dcnum.segm.segm_torch.segm_torch_sto.SegmentTorchSTO static method) (dcnum.segm.segm_torch.SegmentTorchSTO static method) (dcnum.segm.Segmenter static method) (dcnum.segm.segmenter.Segmenter static method) is_complete() (dcnum.write.event_stash.EventStash method) (dcnum.write.EventStash method) is_remainder (dcnum.logic.chunk_slot.ChunkSlot attribute) (dcnum.logic.ChunkSlot attribute) iter_chunks() (dcnum.read.cache.BaseImageChunkCache method)

J

job (dcnum.logic.chunk_slot.ChunkSlot attribute) (dcnum.logic.ChunkSlot attribute) (dcnum.logic.ctrl.DCNumJobRunner attribute) (dcnum.logic.DCNumJobRunner attribute) (dcnum.logic.slot_register.SlotRegister attribute) (dcnum.logic.SlotRegister attribute)

join() (dcnum.logic.ctrl.DCNumJobRunner method) (dcnum.logic.DCNumJobRunner method) join_worker() (in module dcnum.common) join_workers() (dcnum.segm.MPOSegmenter method) (dcnum.segm.segmenter_mpo.MPOSegmenter method)

K

kernel_size (dcnum.feat.feat_background.BackgroundRollMed attribute) (dcnum.feat.feat_background.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_roll_median.BackgroundRollMed attribute) (dcnum.feat.feat_background.bg_roll_median.WorkerRollMed attribute) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_sparse_median.WorkerSparseMed attribute) keys() (dcnum.read.hdf5_data.HDF5Data method) (dcnum.read.HDF5Data method) kwargs (dcnum.feat.feat_background.Background attribute) (dcnum.feat.feat_background.base.Background attribute) (dcnum.feat.Gate attribute) (dcnum.feat.gate.Gate attribute) (dcnum.logic.DCNumPipelineJob attribute) (dcnum.logic.job.DCNumPipelineJob attribute) (dcnum.segm.Segmenter attribute) (dcnum.segm.segmenter.Segmenter attribute)

kwargs_mask (dcnum.segm.Segmenter attribute) (dcnum.segm.segmenter.Segmenter attribute) kwargs_to_ppid() (in module dcnum.meta.ppid)

L

labels (dcnum.logic.chunk_slot_data.ChunkSlotData property) LazyLoader (class in dcnum.common) length (dcnum.logic.chunk_slot_data.ChunkSlotData attribute) load() (dcnum.logic.chunk_slot.ChunkSlot method) (dcnum.logic.ChunkSlot method) load_model() (in module dcnum.segm.segm_torch.torch_model) log_info() (dcnum.segm.segm_torch.segm_torch_sto.SegmentTorchSTO method) (dcnum.segm.segm_torch.SegmentTorchSTO method) (dcnum.segm.Segmenter method) (dcnum.segm.segmenter.Segmenter method) log_level (dcnum.logic.universal_worker.UniversalWorker attribute) (dcnum.write.queue_writer_base.QueueWriterBase attribute) log_queue (dcnum.logic.ctrl.DCNumJobRunner attribute) (dcnum.logic.DCNumJobRunner attribute) (dcnum.logic.universal_worker.UniversalWorker attribute) (dcnum.write.queue_writer_process.QueueWriterProcess attribute) (dcnum.write.QueueWriterProcess attribute)

logger (dcnum.feat.feat_background.Background attribute) (dcnum.feat.feat_background.base.Background attribute) (dcnum.feat.queue_event_extractor.QueueEventExtractor attribute) (dcnum.feat.QueueEventExtractor attribute) (dcnum.logic.ctrl.DCNumJobRunner attribute) (dcnum.logic.DCNumJobRunner attribute) (dcnum.segm.Segmenter attribute) (dcnum.segm.segmenter.Segmenter attribute) (dcnum.segm.segmenter_manager_thread.SegmenterManagerThread attribute) (dcnum.segm.SegmenterManagerThread attribute) (in module dcnum.segm.segm_torch.torch_model)

M

main_logger (dcnum.logic.ctrl.DCNumJobRunner attribute) (dcnum.logic.DCNumJobRunner attribute) map_iterator() (dcnum.feat.feat_background.BackgroundRollMed method) (dcnum.feat.feat_background.bg_roll_median.BackgroundRollMed method) MappedHDF5Dataset (class in dcnum.read.mapped) mapping_indices (dcnum.read.mapped.MappedHDF5Dataset attribute) mask (dcnum.logic.chunk_slot_data.ChunkSlotData property) (dcnum.read.hdf5_data.HDF5Data property) (dcnum.read.HDF5Data property) mask_default_kwargs (dcnum.segm.segm_thresh.SegmentThresh attribute) (dcnum.segm.segm_torch.segm_torch_base.TorchSegmenterBase attribute) (dcnum.segm.Segmenter attribute) (dcnum.segm.segmenter.Segmenter attribute) mask_postprocessing (dcnum.segm.segm_thresh.SegmentThresh attribute) (dcnum.segm.segm_torch.segm_torch_base.TorchSegmenterBase attribute) (dcnum.segm.Segmenter attribute) (dcnum.segm.segmenter.Segmenter attribute) masks_dropped (dcnum.logic.slot_register.SlotRegister property) (dcnum.logic.SlotRegister property) may_stop_loop (dcnum.write.chunk_writer.ChunkWriter attribute) (dcnum.write.ChunkWriter attribute) md5sum() (in module dcnum.read) (in module dcnum.read.cache) meet() (dcnum.meta.ppid.AbrvStr method) meta_nest (dcnum.read.hdf5_data.HDF5Data property) (dcnum.read.HDF5Data property) module dcnum dcnum._version dcnum.common dcnum.external dcnum.external.skimage_morphology dcnum.feat dcnum.feat.feat_background dcnum.feat.feat_background.base dcnum.feat.feat_background.bg_copy dcnum.feat.feat_background.bg_roll_median dcnum.feat.feat_background.bg_sparse_median dcnum.feat.feat_brightness dcnum.feat.feat_brightness.bright_all dcnum.feat.feat_brightness.common dcnum.feat.feat_contour dcnum.feat.feat_contour.contour dcnum.feat.feat_contour.moments dcnum.feat.feat_contour.volume dcnum.feat.feat_texture dcnum.feat.feat_texture.common dcnum.feat.feat_texture.tex_all dcnum.feat.gate dcnum.feat.queue_event_extractor dcnum.logic dcnum.logic.chunk_slot dcnum.logic.chunk_slot_data dcnum.logic.ctrl dcnum.logic.job dcnum.logic.json_encoder dcnum.logic.slot_register dcnum.logic.universal_worker dcnum.meta dcnum.meta.paths dcnum.meta.ppid dcnum.os_env_st dcnum.read dcnum.read.cache dcnum.read.const dcnum.read.detect_flicker dcnum.read.hdf5_concat dcnum.read.hdf5_data dcnum.read.mapped dcnum.segm dcnum.segm.segm_thresh dcnum.segm.segm_torch dcnum.segm.segm_torch.segm_torch_base dcnum.segm.segm_torch.segm_torch_mpo dcnum.segm.segm_torch.segm_torch_sto dcnum.segm.segm_torch.torch_model dcnum.segm.segm_torch.torch_postproc dcnum.segm.segm_torch.torch_preproc dcnum.segm.segm_torch.torch_setup dcnum.segm.segmenter dcnum.segm.segmenter_manager_thread dcnum.segm.segmenter_mpo dcnum.segm.segmenter_sto dcnum.write dcnum.write.chunk_writer dcnum.write.event_stash dcnum.write.queue_writer_base dcnum.write.queue_writer_process dcnum.write.queue_writer_thread dcnum.write.writer

moments_based_features() (in module dcnum.feat.feat_contour) (in module dcnum.feat.feat_contour.moments) mp_active (dcnum.segm.MPOSegmenter attribute) (dcnum.segm.segmenter_mpo.MPOSegmenter attribute) (dcnum.segm.segmenter_mpo.MPOSegmenterWorker attribute) mp_num_workers_done (dcnum.segm.MPOSegmenter attribute) (dcnum.segm.segmenter_mpo.MPOSegmenter attribute) (dcnum.segm.segmenter_mpo.MPOSegmenterWorker attribute) mp_shutdown (dcnum.segm.MPOSegmenter attribute) (dcnum.segm.segmenter_mpo.MPOSegmenter attribute) (dcnum.segm.segmenter_mpo.MPOSegmenterWorker attribute) mp_slot_index (dcnum.segm.MPOSegmenter attribute) (dcnum.segm.segmenter_mpo.MPOSegmenter attribute) (dcnum.segm.segmenter_mpo.MPOSegmenterWorker attribute) mp_spawn (in module dcnum.feat.feat_background.base) (in module dcnum.logic.chunk_slot) (in module dcnum.logic.chunk_slot_data) (in module dcnum.logic.ctrl) (in module dcnum.logic.slot_register) (in module dcnum.logic.universal_worker) (in module dcnum.segm.segmenter_mpo) (in module dcnum.write.queue_writer_base) (in module dcnum.write.queue_writer_process) MPOSegmenter (class in dcnum.segm) (class in dcnum.segm.segmenter_mpo) MPOSegmenterWorker (class in dcnum.segm.segmenter_mpo) MPOSegmenterWorkerProcess (class in dcnum.segm.segmenter_mpo) MPOSegmenterWorkerThread (class in dcnum.segm.segmenter_mpo) must_stop_loop (dcnum.write.chunk_writer.ChunkWriter attribute) (dcnum.write.ChunkWriter attribute)

N

ndi (in module dcnum.feat.feat_background.bg_roll_median) (in module dcnum.feat.feat_background.bg_sparse_median) (in module dcnum.logic.slot_register) (in module dcnum.segm.segm_torch.torch_postproc) (in module dcnum.segm.segmenter) nev_idx (dcnum.write.event_stash.EventStash attribute) (dcnum.write.EventStash attribute) next_state (dcnum.logic.slot_register.StateWarden attribute) num_chunks (dcnum.logic.slot_register.SlotRegister attribute) (dcnum.logic.SlotRegister attribute) (dcnum.read.cache.BaseImageChunkCache attribute)

num_cpus (dcnum.feat.feat_background.Background attribute) (dcnum.feat.feat_background.base.Background attribute) num_frames (dcnum.logic.slot_register.SlotRegister attribute) (dcnum.logic.SlotRegister attribute) (dcnum.write.event_stash.EventStash attribute) (dcnum.write.EventStash attribute) num_workers (dcnum.segm.MPOSegmenter attribute) (dcnum.segm.segmenter_mpo.MPOSegmenter attribute)

O

offset_correction (dcnum.feat.feat_background.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed attribute)

os_env_threading (in module dcnum.os_env_st) output_path (dcnum.feat.feat_background.Background attribute) (dcnum.feat.feat_background.base.Background attribute)

P

path_log (dcnum.logic.ctrl.DCNumJobRunner attribute) (dcnum.logic.DCNumJobRunner attribute) path_out (dcnum.write.queue_writer_base.QueueWriterBase attribute) path_temp_in (dcnum.logic.ctrl.DCNumJobRunner property) (dcnum.logic.DCNumJobRunner property) path_temp_out (dcnum.logic.ctrl.DCNumJobRunner property) (dcnum.logic.DCNumJobRunner property) paths_ref (dcnum.feat.feat_background.Background attribute) (dcnum.feat.feat_background.base.Background attribute) pixel_size (dcnum.feat.queue_event_extractor.QueueEventExtractor attribute) (dcnum.feat.QueueEventExtractor attribute) (dcnum.read.hdf5_data.HDF5Data property) (dcnum.read.HDF5Data property) postprocess_masks() (in module dcnum.segm.segm_torch.torch_postproc) ppid_to_kwargs() (in module dcnum.meta.ppid) preprocess_images() (in module dcnum.segm.segm_torch.torch_preproc) previous_env (dcnum.os_env_st.RequestSingleThreaded attribute) process() (dcnum.feat.feat_background.Background method) (dcnum.feat.feat_background.BackgroundCopy method) (dcnum.feat.feat_background.base.Background method) (dcnum.feat.feat_background.bg_copy.BackgroundCopy method)

process_approach() (dcnum.feat.feat_background.Background method) (dcnum.feat.feat_background.BackgroundCopy method) (dcnum.feat.feat_background.BackgroundRollMed method) (dcnum.feat.feat_background.BackgroundSparseMed method) (dcnum.feat.feat_background.base.Background method) (dcnum.feat.feat_background.bg_copy.BackgroundCopy method) (dcnum.feat.feat_background.bg_roll_median.BackgroundRollMed method) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed method) process_label() (dcnum.feat.queue_event_extractor.QueueEventExtractor method) (dcnum.feat.QueueEventExtractor method) process_labels() (dcnum.segm.Segmenter static method) (dcnum.segm.segmenter.Segmenter static method) process_next_batch() (dcnum.feat.feat_background.BackgroundRollMed method) (dcnum.feat.feat_background.bg_roll_median.BackgroundRollMed method) process_second() (dcnum.feat.feat_background.BackgroundSparseMed method) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed method) PROTECTED_FEATURES (in module dcnum.read) (in module dcnum.read.const)

Q

queue (dcnum.feat.feat_background.BackgroundRollMed attribute) (dcnum.feat.feat_background.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_roll_median.BackgroundRollMed attribute) (dcnum.feat.feat_background.bg_roll_median.WorkerRollMed attribute) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_sparse_median.WorkerSparseMed attribute)

QueueEventExtractor (class in dcnum.feat) (class in dcnum.feat.queue_event_extractor) QueueWriterBase (class in dcnum.write.queue_writer_base) QueueWriterProcess (class in dcnum.write) (class in dcnum.write.queue_writer_process) QueueWriterThread (class in dcnum.write) (class in dcnum.write.queue_writer_thread)

R

reasons_list (dcnum.segm.segmenter.SegmenterNotApplicableError attribute) (dcnum.segm.SegmenterNotApplicableError attribute) register_search_path() (in module dcnum.meta.paths) reinitialize_workers() (dcnum.segm.MPOSegmenter method) (dcnum.segm.segmenter_mpo.MPOSegmenter method) release_task_lock() (dcnum.logic.chunk_slot_data.ChunkSlotData method) request_single_threaded() (in module dcnum.os_env_st) RequestSingleThreaded (class in dcnum.os_env_st) require_feature() (dcnum.write.event_stash.EventStash method) (dcnum.write.EventStash method) (dcnum.write.HDF5Writer method) (dcnum.write.writer.HDF5Writer method) requires_background_correction (dcnum.segm.segm_thresh.SegmentThresh attribute) (dcnum.segm.segm_torch.segm_torch_base.TorchSegmenterBase attribute) (dcnum.segm.Segmenter attribute) (dcnum.segm.segmenter.Segmenter attribute) reserve_slot_for_task() (dcnum.logic.slot_register.SlotRegister method) (dcnum.logic.SlotRegister method)

retrieve_model_file() (in module dcnum.segm.segm_torch.torch_model) run() (dcnum.feat.feat_background.bg_roll_median.WorkerRollMed method) (dcnum.feat.feat_background.bg_sparse_median.WorkerSparseMed method) (dcnum.logic.ctrl.DCNumJobRunner method) (dcnum.logic.DCNumJobRunner method) (dcnum.logic.universal_worker.UniversalWorker method) (dcnum.segm.segmenter_manager_thread.SegmenterManagerThread method) (dcnum.segm.segmenter_mpo.MPOSegmenterWorker method) (dcnum.segm.SegmenterManagerThread method) (dcnum.write.chunk_writer.ChunkWriter method) (dcnum.write.ChunkWriter method) (dcnum.write.queue_writer_base.QueueWriterBase method) (dcnum.write.queue_writer_process.QueueWriterProcess method) (dcnum.write.QueueWriterProcess method) run_pipeline() (dcnum.logic.ctrl.DCNumJobRunner method) (dcnum.logic.DCNumJobRunner method)

S

search_path_registry (in module dcnum.meta.paths) seg_cls (dcnum.logic.chunk_slot.ChunkSlot attribute) (dcnum.logic.ChunkSlot attribute) segment_algorithm() (dcnum.segm.segm_thresh.SegmentThresh static method) (dcnum.segm.segm_torch.segm_torch_mpo.SegmentTorchMPO static method) (dcnum.segm.segm_torch.segm_torch_sto.SegmentTorchSTO static method) (dcnum.segm.segm_torch.SegmentTorchMPO static method) (dcnum.segm.segm_torch.SegmentTorchSTO static method) (dcnum.segm.Segmenter static method) (dcnum.segm.segmenter.Segmenter static method) segment_algorithm_wrapper() (dcnum.segm.Segmenter method) (dcnum.segm.segmenter.Segmenter method) segment_batch() (dcnum.segm.MPOSegmenter method) (dcnum.segm.Segmenter method) (dcnum.segm.segmenter.Segmenter method) (dcnum.segm.segmenter_mpo.MPOSegmenter method) (dcnum.segm.segmenter_sto.STOSegmenter method) (dcnum.segm.STOSegmenter method) segment_batch_with_labeling() (dcnum.segm.Segmenter method) (dcnum.segm.segmenter.Segmenter method) segment_chunk() (dcnum.segm.MPOSegmenter method) (dcnum.segm.Segmenter method) (dcnum.segm.segmenter.Segmenter method) (dcnum.segm.segmenter_mpo.MPOSegmenter method) segment_single() (dcnum.segm.MPOSegmenter method) (dcnum.segm.Segmenter method) (dcnum.segm.segmenter.Segmenter method) (dcnum.segm.segmenter_mpo.MPOSegmenter method) (dcnum.segm.segmenter_sto.STOSegmenter method) (dcnum.segm.STOSegmenter method) segment_single_with_labeling() (dcnum.segm.Segmenter method) (dcnum.segm.segmenter.Segmenter method) Segmenter (class in dcnum.segm) (class in dcnum.segm.segmenter) segmenter (dcnum.segm.segmenter_manager_thread.SegmenterManagerThread attribute) (dcnum.segm.segmenter_mpo.MPOSegmenterWorker attribute) (dcnum.segm.SegmenterManagerThread attribute) segmenter_class (dcnum.segm.segmenter.SegmenterNotApplicableError attribute) (dcnum.segm.SegmenterNotApplicableError attribute) SegmenterManagerThread (class in dcnum.segm) (class in dcnum.segm.segmenter_manager_thread) SegmenterNotApplicableError, [1] SegmentThresh (class in dcnum.segm.segm_thresh) SegmentTorchMPO (class in dcnum.segm.segm_torch) (class in dcnum.segm.segm_torch.segm_torch_mpo) SegmentTorchSTO (class in dcnum.segm.segm_torch) (class in dcnum.segm.segm_torch.segm_torch_sto) set_default_filter_kwargs() (in module dcnum.write) (in module dcnum.write.writer) setup_h5py() (in module dcnum.common) setup_torch() (in module dcnum.segm.segm_torch.torch_setup) shape (dcnum.logic.chunk_slot_data.ChunkSlotData attribute) (dcnum.read.cache.BaseImageChunkCache attribute) (dcnum.read.mapped.MappedHDF5Dataset attribute) shared_input (dcnum.feat.feat_background.BackgroundRollMed attribute) (dcnum.feat.feat_background.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_roll_median.BackgroundRollMed attribute) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed attribute)

shared_input_raw (dcnum.feat.feat_background.BackgroundRollMed attribute) (dcnum.feat.feat_background.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_roll_median.BackgroundRollMed attribute) (dcnum.feat.feat_background.bg_roll_median.WorkerRollMed attribute) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_sparse_median.WorkerSparseMed attribute) shared_output (dcnum.feat.feat_background.BackgroundRollMed attribute) (dcnum.feat.feat_background.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_roll_median.BackgroundRollMed attribute) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed attribute) shared_output_raw (dcnum.feat.feat_background.BackgroundRollMed attribute) (dcnum.feat.feat_background.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_roll_median.BackgroundRollMed attribute) (dcnum.feat.feat_background.bg_roll_median.WorkerRollMed attribute) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_sparse_median.WorkerSparseMed attribute) simple_type_eval() (in module dcnum.meta.ppid) size (dcnum.write.event_stash.EventStash attribute) (dcnum.write.EventStash attribute) sl_start (dcnum.segm.segmenter_mpo.MPOSegmenterWorker attribute) sl_stop (dcnum.segm.segmenter_mpo.MPOSegmenterWorker attribute) slot_list (dcnum.segm.MPOSegmenter attribute) (dcnum.segm.segmenter_mpo.MPOSegmenter attribute) (dcnum.segm.segmenter_mpo.MPOSegmenterWorker attribute) slot_register (dcnum.feat.queue_event_extractor.QueueEventExtractor attribute) (dcnum.feat.QueueEventExtractor attribute) (dcnum.logic.universal_worker.UniversalWorker attribute) (dcnum.segm.segmenter_manager_thread.SegmenterManagerThread attribute) (dcnum.segm.SegmenterManagerThread attribute) SlotRegister (class in dcnum.logic) (class in dcnum.logic.slot_register) slots (dcnum.logic.slot_register.SlotRegister property) (dcnum.logic.SlotRegister property) split_time (dcnum.feat.feat_background.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed attribute) start() (dcnum.feat.feat_background.bg_roll_median.WorkerRollMed method) (dcnum.feat.feat_background.bg_sparse_median.WorkerSparseMed method) (dcnum.logic.universal_worker.UniversalWorkerProcess method) (dcnum.logic.UniversalWorkerProcess method) (dcnum.segm.segmenter_mpo.MPOSegmenterWorkerProcess method) start_workers_threaded() (in module dcnum.common) state (dcnum.logic.chunk_slot_data.ChunkSlotData property) (dcnum.logic.ctrl.DCNumJobRunner property) (dcnum.logic.DCNumJobRunner property) (dcnum.logic.slot_register.SlotRegister property) (dcnum.logic.SlotRegister property) StateWarden (class in dcnum.logic.slot_register) step_times (dcnum.feat.feat_background.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed attribute) store_basin() (dcnum.write.HDF5Writer method) (dcnum.write.writer.HDF5Writer method) store_feature_chunk() (dcnum.write.HDF5Writer method) (dcnum.write.writer.HDF5Writer method) store_log() (dcnum.write.HDF5Writer method) (dcnum.write.writer.HDF5Writer method) STOSegmenter (class in dcnum.segm) (class in dcnum.segm.segmenter_sto) string (dcnum.meta.ppid.AbrvStr attribute) STRUCTURING_ELEMENT (in module dcnum.segm.segmenter)

T

t_segm (dcnum.segm.segmenter_manager_thread.SegmenterManagerThread attribute) (dcnum.segm.SegmenterManagerThread attribute) t_wait (dcnum.segm.segmenter_manager_thread.SegmenterManagerThread attribute) (dcnum.segm.SegmenterManagerThread attribute) task_background() (dcnum.logic.ctrl.DCNumJobRunner method) (dcnum.logic.DCNumJobRunner method) task_enforce_basin_strategy() (dcnum.logic.ctrl.DCNumJobRunner method) (dcnum.logic.DCNumJobRunner method) task_extract_features() (dcnum.logic.slot_register.SlotRegister method) (dcnum.logic.SlotRegister method) task_label_masks() (dcnum.logic.slot_register.SlotRegister method) (dcnum.logic.SlotRegister method) task_load_all() (dcnum.logic.slot_register.SlotRegister method) (dcnum.logic.SlotRegister method)

task_process_labels() (dcnum.logic.slot_register.SlotRegister method) (dcnum.logic.SlotRegister method) task_segment_extract() (dcnum.logic.ctrl.DCNumJobRunner method) (dcnum.logic.DCNumJobRunner method) thresh_cleansing (dcnum.feat.feat_background.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed attribute) time (dcnum.feat.feat_background.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed attribute) timers (dcnum.logic.slot_register.SlotRegister attribute) (dcnum.logic.SlotRegister attribute) tmp_suffix (dcnum.logic.ctrl.DCNumJobRunner attribute) (dcnum.logic.DCNumJobRunner attribute) torch (in module dcnum.segm.segm_torch.torch_setup) TorchSegmenterBase (class in dcnum.segm.segm_torch.segm_torch_base)

U

UniversalWorker (class in dcnum.logic.universal_worker) UniversalWorkerProcess (class in dcnum.logic) (class in dcnum.logic.universal_worker)

UniversalWorkerThread (class in dcnum.logic) (class in dcnum.logic.universal_worker)

V

valid_states (in module dcnum.logic.ctrl) validate() (dcnum.logic.DCNumPipelineJob method) (dcnum.logic.job.DCNumPipelineJob method) validate_applicability() (dcnum.segm.segm_torch.segm_torch_base.TorchSegmenterBase class method) (dcnum.segm.Segmenter class method) (dcnum.segm.segmenter.Segmenter class method)

version (in module dcnum._version) version_tuple (in module dcnum._version) vol_revolve() (in module dcnum.feat.feat_contour.volume) volume_from_contours() (in module dcnum.feat.feat_contour) (in module dcnum.feat.feat_contour.volume)

W

worker_counter (dcnum.feat.feat_background.BackgroundRollMed attribute) (dcnum.feat.feat_background.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_roll_median.BackgroundRollMed attribute) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed attribute) WorkerRollMed (class in dcnum.feat.feat_background.bg_roll_median) workers (dcnum.feat.feat_background.BackgroundRollMed attribute) (dcnum.feat.feat_background.BackgroundSparseMed attribute) (dcnum.feat.feat_background.bg_roll_median.BackgroundRollMed attribute) (dcnum.feat.feat_background.bg_sparse_median.BackgroundSparseMed attribute) WorkerSparseMed (class in dcnum.feat.feat_background.bg_sparse_median) write_queue_size (dcnum.logic.slot_register.SlotRegister property) (dcnum.logic.SlotRegister property) (dcnum.write.chunk_writer.ChunkWriter attribute) (dcnum.write.ChunkWriter attribute) (dcnum.write.queue_writer_base.QueueWriterBase attribute)

write_threshold (dcnum.write.queue_writer_base.QueueWriterBase attribute) writer (dcnum.feat.feat_background.Background attribute) (dcnum.feat.feat_background.base.Background attribute) (dcnum.write.chunk_writer.ChunkWriter attribute) (dcnum.write.ChunkWriter attribute) written_events (dcnum.write.queue_writer_base.QueueWriterBase attribute) written_frames (dcnum.write.queue_writer_base.QueueWriterBase attribute)