Class: Rafflesia::CorpuReleaseSearchRequest

Inherits:
Types::BaseModel
  • Object
show all
Defined in:
lib/rafflesia/datasets/corpu_release_search_request.rb

Constant Summary collapse

HASH_ATTRS = 
{
  candidate_rank_strategy: :candidate_rank_strategy,
  corpus: :corpus,
  exact_rerank: :exact_rerank,
  exact_rerank_backend: :exact_rerank_backend,
  exact_rerank_rank_key: :exact_rerank_rank_key,
  family: :family,
  foldseek_binary_path: :foldseek_binary_path,
  max_candidates: :max_candidates,
  max_hits: :max_hits,
  max_object_bytes: :max_object_bytes,
  max_object_reads: :max_object_reads,
  max_query_posting_blocks: :max_query_posting_blocks,
  max_shards: :max_shards,
  max_verifications: :max_verifications,
  object_store_root: :object_store_root,
  postings_range_coalesce_gap_bytes: :postings_range_coalesce_gap_bytes,
  postings_range_coalesce_max_span_bytes: :postings_range_coalesce_max_span_bytes,
  query: :query,
  query_mode: :query_mode,
  query_sequence: :query_sequence,
  query_structure_file_name: :query_structure_file_name,
  query_structure_object_id: :query_structure_object_id,
  query_structure_path: :query_structure_path,
  ref: :ref,
  release_id: :release_id,
  require_zero_materialization: :require_zero_materialization,
  rerank_limit: :rerank_limit,
  routing_mode: :routing_mode,
  sequence_planner_calibration_path: :sequence_planner_calibration_path,
  sequence_planner_mode: :sequence_planner_mode,
  similar_kmer_max_variants: :similar_kmer_max_variants,
  similar_kmer_threshold: :similar_kmer_threshold,
  structure_pair_geometry_max_query_tokens: :structure_pair_geometry_max_query_tokens,
  structure_pair_geometry_min_shared_pairs: :structure_pair_geometry_min_shared_pairs,
  structure_pair_geometry_shift_bins: :structure_pair_geometry_shift_bins,
  structure_reverse_correction: :structure_reverse_correction,
  structure_search_preset: :structure_search_preset,
  structure_token_extractor: :structure_token_extractor,
  target_shard_score_coverage: :target_shard_score_coverage,
  target_structure_objects: :target_structure_objects,
  target_structure_paths: :target_structure_paths,
  tmalign_binary_path: :tmalign_binary_path,
  ungapped_diagonal_top_n: :ungapped_diagonal_top_n,
  use_structure_pair_geometry: :use_structure_pair_geometry,
  verification_band: :verification_band
}.freeze

Instance Attribute Summary collapse

Instance Method Summary collapse

Constructor Details

#initialize(json) ⇒ CorpuReleaseSearchRequest

Returns a new instance of CorpuReleaseSearchRequest.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 103

def initialize(json)
  super()
  hash = self.class.normalize(json)
  @candidate_rank_strategy = hash[:candidate_rank_strategy]
  @corpus = hash[:corpus]
  @exact_rerank = hash[:exact_rerank]
  @exact_rerank_backend = hash[:exact_rerank_backend]
  @exact_rerank_rank_key = hash[:exact_rerank_rank_key]
  @family = hash[:family]
  @foldseek_binary_path = hash[:foldseek_binary_path]
  @max_candidates = hash[:max_candidates]
  @max_hits = hash[:max_hits]
  @max_object_bytes = hash[:max_object_bytes]
  @max_object_reads = hash[:max_object_reads]
  @max_query_posting_blocks = hash[:max_query_posting_blocks]
  @max_shards = hash[:max_shards]
  @max_verifications = hash[:max_verifications]
  @object_store_root = hash[:object_store_root]
  @postings_range_coalesce_gap_bytes = hash[:postings_range_coalesce_gap_bytes]
  @postings_range_coalesce_max_span_bytes = hash[:postings_range_coalesce_max_span_bytes]
  @query = hash[:query]
  @query_mode = hash[:query_mode]
  @query_sequence = hash[:query_sequence]
  @query_structure_file_name = hash[:query_structure_file_name]
  @query_structure_object_id = hash[:query_structure_object_id]
  @query_structure_path = hash[:query_structure_path]
  @ref = hash[:ref]
  @release_id = hash[:release_id]
  @require_zero_materialization = hash[:require_zero_materialization]
  @rerank_limit = hash[:rerank_limit]
  @routing_mode = hash[:routing_mode]
  @sequence_planner_calibration_path = hash[:sequence_planner_calibration_path]
  @sequence_planner_mode = hash[:sequence_planner_mode]
  @similar_kmer_max_variants = hash[:similar_kmer_max_variants]
  @similar_kmer_threshold = hash[:similar_kmer_threshold]
  @structure_pair_geometry_max_query_tokens = hash[:structure_pair_geometry_max_query_tokens]
  @structure_pair_geometry_min_shared_pairs = hash[:structure_pair_geometry_min_shared_pairs]
  @structure_pair_geometry_shift_bins = hash[:structure_pair_geometry_shift_bins]
  @structure_reverse_correction = hash[:structure_reverse_correction]
  @structure_search_preset = hash[:structure_search_preset]
  @structure_token_extractor = hash[:structure_token_extractor]
  @target_shard_score_coverage = hash[:target_shard_score_coverage]
  @target_structure_objects = hash[:target_structure_objects] || {}
  @target_structure_paths = hash[:target_structure_paths] || {}
  @tmalign_binary_path = hash[:tmalign_binary_path]
  @ungapped_diagonal_top_n = hash[:ungapped_diagonal_top_n]
  @use_structure_pair_geometry = hash[:use_structure_pair_geometry]
  @verification_band = hash[:verification_band]
end

Instance Attribute Details

#candidate_rank_strategy ⇒ Object

Returns the value of attribute candidate_rank_strategy.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def candidate_rank_strategy
  @candidate_rank_strategy
end

#corpus ⇒ Object

Returns the value of attribute corpus.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def corpus
  @corpus
end

#exact_rerank ⇒ Object

Returns the value of attribute exact_rerank.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def exact_rerank
  @exact_rerank
end

#exact_rerank_backend ⇒ Object

Returns the value of attribute exact_rerank_backend.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def exact_rerank_backend
  @exact_rerank_backend
end

#exact_rerank_rank_key ⇒ Object

Returns the value of attribute exact_rerank_rank_key.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def exact_rerank_rank_key
  @exact_rerank_rank_key
end

#family ⇒ Object

Returns the value of attribute family.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def family
  @family
end

#foldseek_binary_path ⇒ Object

Returns the value of attribute foldseek_binary_path.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def foldseek_binary_path
  @foldseek_binary_path
end

#max_candidates ⇒ Object

Returns the value of attribute max_candidates.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def max_candidates
  @max_candidates
end

#max_hits ⇒ Object

Returns the value of attribute max_hits.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def max_hits
  @max_hits
end

#max_object_bytes ⇒ Object

Returns the value of attribute max_object_bytes.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def max_object_bytes
  @max_object_bytes
end

#max_object_reads ⇒ Object

Returns the value of attribute max_object_reads.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def max_object_reads
  @max_object_reads
end

#max_query_posting_blocks ⇒ Object

Returns the value of attribute max_query_posting_blocks.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def max_query_posting_blocks
  @max_query_posting_blocks
end

#max_shards ⇒ Object

Returns the value of attribute max_shards.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def max_shards
  @max_shards
end

#max_verifications ⇒ Object

Returns the value of attribute max_verifications.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def max_verifications
  @max_verifications
end

#object_store_root ⇒ Object

Returns the value of attribute object_store_root.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def object_store_root
  @object_store_root
end

#postings_range_coalesce_gap_bytes ⇒ Object

Returns the value of attribute postings_range_coalesce_gap_bytes.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def postings_range_coalesce_gap_bytes
  @postings_range_coalesce_gap_bytes
end

#postings_range_coalesce_max_span_bytes ⇒ Object

Returns the value of attribute postings_range_coalesce_max_span_bytes.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def postings_range_coalesce_max_span_bytes
  @postings_range_coalesce_max_span_bytes
end

#query ⇒ Object

Returns the value of attribute query.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def query
  @query
end

#query_mode ⇒ Object

Returns the value of attribute query_mode.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def query_mode
  @query_mode
end

#query_sequence ⇒ Object

Returns the value of attribute query_sequence.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def query_sequence
  @query_sequence
end

#query_structure_file_name ⇒ Object

Returns the value of attribute query_structure_file_name.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def query_structure_file_name
  @query_structure_file_name
end

#query_structure_object_id ⇒ Object

Returns the value of attribute query_structure_object_id.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def query_structure_object_id
  @query_structure_object_id
end

#query_structure_path ⇒ Object

Returns the value of attribute query_structure_path.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def query_structure_path
  @query_structure_path
end

#ref ⇒ Object

Returns the value of attribute ref.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def ref
  @ref
end

#release_id ⇒ Object

Returns the value of attribute release_id.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def release_id
  @release_id
end

#require_zero_materialization ⇒ Object

Returns the value of attribute require_zero_materialization.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def require_zero_materialization
  @require_zero_materialization
end

#rerank_limit ⇒ Object

Returns the value of attribute rerank_limit.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def rerank_limit
  @rerank_limit
end

#routing_mode ⇒ Object

Returns the value of attribute routing_mode.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def routing_mode
  @routing_mode
end

#sequence_planner_calibration_path ⇒ Object

Returns the value of attribute sequence_planner_calibration_path.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def sequence_planner_calibration_path
  @sequence_planner_calibration_path
end

#sequence_planner_mode ⇒ Object

Returns the value of attribute sequence_planner_mode.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def sequence_planner_mode
  @sequence_planner_mode
end

#similar_kmer_max_variants ⇒ Object

Returns the value of attribute similar_kmer_max_variants.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def similar_kmer_max_variants
  @similar_kmer_max_variants
end

#similar_kmer_threshold ⇒ Object

Returns the value of attribute similar_kmer_threshold.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def similar_kmer_threshold
  @similar_kmer_threshold
end

#structure_pair_geometry_max_query_tokens ⇒ Object

Returns the value of attribute structure_pair_geometry_max_query_tokens.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def structure_pair_geometry_max_query_tokens
  @structure_pair_geometry_max_query_tokens
end

#structure_pair_geometry_min_shared_pairs ⇒ Object

Returns the value of attribute structure_pair_geometry_min_shared_pairs.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def structure_pair_geometry_min_shared_pairs
  @structure_pair_geometry_min_shared_pairs
end

#structure_pair_geometry_shift_bins ⇒ Object

Returns the value of attribute structure_pair_geometry_shift_bins.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def structure_pair_geometry_shift_bins
  @structure_pair_geometry_shift_bins
end

#structure_reverse_correction ⇒ Object

Returns the value of attribute structure_reverse_correction.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def structure_reverse_correction
  @structure_reverse_correction
end

#structure_search_preset ⇒ Object

Returns the value of attribute structure_search_preset.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def structure_search_preset
  @structure_search_preset
end

#structure_token_extractor ⇒ Object

Returns the value of attribute structure_token_extractor.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def structure_token_extractor
  @structure_token_extractor
end

#target_shard_score_coverage ⇒ Object

Returns the value of attribute target_shard_score_coverage.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def target_shard_score_coverage
  @target_shard_score_coverage
end

#target_structure_objects ⇒ Object

Returns the value of attribute target_structure_objects.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def target_structure_objects
  @target_structure_objects
end

#target_structure_paths ⇒ Object

Returns the value of attribute target_structure_paths.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def target_structure_paths
  @target_structure_paths
end

#tmalign_binary_path ⇒ Object

Returns the value of attribute tmalign_binary_path.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def tmalign_binary_path
  @tmalign_binary_path
end

#ungapped_diagonal_top_n ⇒ Object

Returns the value of attribute ungapped_diagonal_top_n.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def ungapped_diagonal_top_n
  @ungapped_diagonal_top_n
end

#use_structure_pair_geometry ⇒ Object

Returns the value of attribute use_structure_pair_geometry.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def use_structure_pair_geometry
  @use_structure_pair_geometry
end

#verification_band ⇒ Object

Returns the value of attribute verification_band.



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# File 'lib/rafflesia/datasets/corpu_release_search_request.rb', line 56

def verification_band
  @verification_band
end