rafflesia 0.1.0

data/rbi/rafflesia/sequence_candidate_verify_request.rbi

@@ -0,0 +1,108 @@
+# frozen_string_literal: true
+
+# This file is auto-generated by oagen. Do not edit.
+
+# typed: strong
+
+module Rafflesia
+  class SequenceCandidateVerifyRequest
+    sig { params(json: T.any(String, T::Hash[Symbol, T.untyped])).void }
+    def initialize(json); end
+
+    sig { returns(T.nilable(T::Boolean)) }
+    def check_gc_plan; end
+
+    sig { params(value: T.nilable(T::Boolean)).returns(T.nilable(T::Boolean)) }
+    def check_gc_plan=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def expected_source_sha_256; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def expected_source_sha_256=(value); end
+
+    sig { returns(T.nilable(Integer)) }
+    def max_gc_garbage_count; end
+
+    sig { params(value: T.nilable(Integer)).returns(T.nilable(Integer)) }
+    def max_gc_garbage_count=(value); end
+
+    sig { returns(T.nilable(Integer)) }
+    def max_object_bytes; end
+
+    sig { params(value: T.nilable(Integer)).returns(T.nilable(Integer)) }
+    def max_object_bytes=(value); end
+
+    sig { returns(T.nilable(Integer)) }
+    def max_object_reads; end
+
+    sig { params(value: T.nilable(Integer)).returns(T.nilable(Integer)) }
+    def max_object_reads=(value); end
+
+    sig { returns(T.nilable(Integer)) }
+    def min_record_count; end
+
+    sig { params(value: T.nilable(Integer)).returns(T.nilable(Integer)) }
+    def min_record_count=(value); end
+
+    sig { returns(T.nilable(Float)) }
+    def min_top_hit_identity; end
+
+    sig { params(value: T.nilable(Float)).returns(T.nilable(Float)) }
+    def min_top_hit_identity=(value); end
+
+    sig { returns(String) }
+    def namespace; end
+
+    sig { params(value: String).returns(String) }
+    def namespace=(value); end
+
+    sig { returns(T.nilable(Integer)) }
+    def probe_max_hits; end
+
+    sig { params(value: T.nilable(Integer)).returns(T.nilable(Integer)) }
+    def probe_max_hits=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def probe_query; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def probe_query=(value); end
+
+    sig { returns(T.nilable(T::Boolean)) }
+    def require_payload_shards; end
+
+    sig { params(value: T.nilable(T::Boolean)).returns(T.nilable(T::Boolean)) }
+    def require_payload_shards=(value); end
+
+    sig { returns(T.nilable(T::Boolean)) }
+    def require_posting_segment; end
+
+    sig { params(value: T.nilable(T::Boolean)).returns(T.nilable(T::Boolean)) }
+    def require_posting_segment=(value); end
+
+    sig { returns(T.nilable(T::Boolean)) }
+    def require_probe_hit; end
+
+    sig { params(value: T.nilable(T::Boolean)).returns(T.nilable(T::Boolean)) }
+    def require_probe_hit=(value); end
+
+    sig { returns(T.nilable(T::Boolean)) }
+    def require_zero_materialization; end
+
+    sig { params(value: T.nilable(T::Boolean)).returns(T.nilable(T::Boolean)) }
+    def require_zero_materialization=(value); end
+
+    sig { returns(T.nilable(Integer)) }
+    def timeout_ms; end
+
+    sig { params(value: T.nilable(Integer)).returns(T.nilable(Integer)) }
+    def timeout_ms=(value); end
+
+    sig { returns(T::Hash[Symbol, T.untyped]) }
+    def to_h; end
+
+    sig { params(args: T.untyped).returns(String) }
+    def to_json(*args); end
+  end
+end

data/rbi/rafflesia/sequence_catalog_build_data.rbi

@@ -0,0 +1,102 @@
+# frozen_string_literal: true
+
+# This file is auto-generated by oagen. Do not edit.
+
+# typed: strong
+
+module Rafflesia
+  class SequenceCatalogBuildData
+    sig { params(json: T.any(String, T::Hash[Symbol, T.untyped])).void }
+    def initialize(json); end
+
+    sig { returns(String) }
+    def catalog_id; end
+
+    sig { params(value: String).returns(String) }
+    def catalog_id=(value); end
+
+    sig { returns(String) }
+    def content_sha_256; end
+
+    sig { params(value: String).returns(String) }
+    def content_sha_256=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def dataset_name; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def dataset_name=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def dataset_version; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def dataset_version=(value); end
+
+    sig { returns(T.nilable(T::Array[Rafflesia::SequenceCatalogEntry])) }
+    def entries; end
+
+    sig { params(value: T.nilable(T::Array[Rafflesia::SequenceCatalogEntry])).returns(T.nilable(T::Array[Rafflesia::SequenceCatalogEntry])) }
+    def entries=(value); end
+
+    sig { returns(Rafflesia::ObjectRef) }
+    def fasta_object; end
+
+    sig { params(value: Rafflesia::ObjectRef).returns(Rafflesia::ObjectRef) }
+    def fasta_object=(value); end
+
+    sig { returns(Rafflesia::SequenceCatalogManifest) }
+    def manifest; end
+
+    sig { params(value: Rafflesia::SequenceCatalogManifest).returns(Rafflesia::SequenceCatalogManifest) }
+    def manifest=(value); end
+
+    sig { returns(Rafflesia::ObjectRef) }
+    def manifest_object; end
+
+    sig { params(value: Rafflesia::ObjectRef).returns(Rafflesia::ObjectRef) }
+    def manifest_object=(value); end
+
+    sig { returns(String) }
+    def name; end
+
+    sig { params(value: String).returns(String) }
+    def name=(value); end
+
+    sig { returns(Integer) }
+    def sequence_count; end
+
+    sig { params(value: Integer).returns(Integer) }
+    def sequence_count=(value); end
+
+    sig { returns(T.nilable(Rafflesia::ObjectRef)) }
+    def source_object; end
+
+    sig { params(value: T.nilable(Rafflesia::ObjectRef)).returns(T.nilable(Rafflesia::ObjectRef)) }
+    def source_object=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def source_object_id; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def source_object_id=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def source_path; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def source_path=(value); end
+
+    sig { returns(String) }
+    def version; end
+
+    sig { params(value: String).returns(String) }
+    def version=(value); end
+
+    sig { returns(T::Hash[Symbol, T.untyped]) }
+    def to_h; end
+
+    sig { params(args: T.untyped).returns(String) }
+    def to_json(*args); end
+  end
+end

data/rbi/rafflesia/sequence_catalog_build_request.rbi

@@ -0,0 +1,66 @@
+# frozen_string_literal: true
+
+# This file is auto-generated by oagen. Do not edit.
+
+# typed: strong
+
+module Rafflesia
+  class SequenceCatalogBuildRequest
+    sig { params(json: T.any(String, T::Hash[Symbol, T.untyped])).void }
+    def initialize(json); end
+
+    sig { returns(T.nilable(String)) }
+    def dataset_name; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def dataset_name=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def dataset_version; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def dataset_version=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def input_object_id; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def input_object_id=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def input_path; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def input_path=(value); end
+
+    sig { returns(String) }
+    def name; end
+
+    sig { params(value: String).returns(String) }
+    def name=(value); end
+
+    sig { returns(T.nilable(Rafflesia::DatabaseSnapshot)) }
+    def source_database_snapshot; end
+
+    sig { params(value: T.nilable(Rafflesia::DatabaseSnapshot)).returns(T.nilable(Rafflesia::DatabaseSnapshot)) }
+    def source_database_snapshot=(value); end
+
+    sig { returns(T.nilable(Rafflesia::ToolVersion)) }
+    def source_tool_version; end
+
+    sig { params(value: T.nilable(Rafflesia::ToolVersion)).returns(T.nilable(Rafflesia::ToolVersion)) }
+    def source_tool_version=(value); end
+
+    sig { returns(String) }
+    def version; end
+
+    sig { params(value: String).returns(String) }
+    def version=(value); end
+
+    sig { returns(T::Hash[Symbol, T.untyped]) }
+    def to_h; end
+
+    sig { params(args: T.untyped).returns(String) }
+    def to_json(*args); end
+  end
+end

data/rbi/rafflesia/sequence_catalog_entry.rbi

@@ -0,0 +1,54 @@
+# frozen_string_literal: true
+
+# This file is auto-generated by oagen. Do not edit.
+
+# typed: strong
+
+module Rafflesia
+  class SequenceCatalogEntry
+    sig { params(json: T.any(String, T::Hash[Symbol, T.untyped])).void }
+    def initialize(json); end
+
+    sig { returns(T.nilable(T::Array[String])) }
+    def aliases; end
+
+    sig { params(value: T.nilable(T::Array[String])).returns(T.nilable(T::Array[String])) }
+    def aliases=(value); end
+
+    sig { returns(String) }
+    def header; end
+
+    sig { params(value: String).returns(String) }
+    def header=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def header_first_token; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def header_first_token=(value); end
+
+    sig { returns(Integer) }
+    def length; end
+
+    sig { params(value: Integer).returns(Integer) }
+    def length=(value); end
+
+    sig { returns(String) }
+    def sequence_id; end
+
+    sig { params(value: String).returns(String) }
+    def sequence_id=(value); end
+
+    sig { returns(String) }
+    def sha_256; end
+
+    sig { params(value: String).returns(String) }
+    def sha_256=(value); end
+
+    sig { returns(T::Hash[Symbol, T.untyped]) }
+    def to_h; end
+
+    sig { params(args: T.untyped).returns(String) }
+    def to_json(*args); end
+  end
+end

data/rbi/rafflesia/sequence_catalog_inspect_data.rbi

@@ -0,0 +1,108 @@
+# frozen_string_literal: true
+
+# This file is auto-generated by oagen. Do not edit.
+
+# typed: strong
+
+module Rafflesia
+  class SequenceCatalogInspectData
+    sig { params(json: T.any(String, T::Hash[Symbol, T.untyped])).void }
+    def initialize(json); end
+
+    sig { returns(String) }
+    def catalog_id; end
+
+    sig { params(value: String).returns(String) }
+    def catalog_id=(value); end
+
+    sig { returns(String) }
+    def content_sha_256; end
+
+    sig { params(value: String).returns(String) }
+    def content_sha_256=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def dataset_name; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def dataset_name=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def dataset_version; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def dataset_version=(value); end
+
+    sig { returns(T.nilable(T::Array[Rafflesia::SequenceCatalogEntry])) }
+    def entries; end
+
+    sig { params(value: T.nilable(T::Array[Rafflesia::SequenceCatalogEntry])).returns(T.nilable(T::Array[Rafflesia::SequenceCatalogEntry])) }
+    def entries=(value); end
+
+    sig { returns(Rafflesia::ObjectRef) }
+    def fasta_object; end
+
+    sig { params(value: Rafflesia::ObjectRef).returns(Rafflesia::ObjectRef) }
+    def fasta_object=(value); end
+
+    sig { returns(Rafflesia::SequenceCatalogManifest) }
+    def manifest; end
+
+    sig { params(value: Rafflesia::SequenceCatalogManifest).returns(Rafflesia::SequenceCatalogManifest) }
+    def manifest=(value); end
+
+    sig { returns(T.nilable(Rafflesia::ObjectRef)) }
+    def manifest_object; end
+
+    sig { params(value: T.nilable(Rafflesia::ObjectRef)).returns(T.nilable(Rafflesia::ObjectRef)) }
+    def manifest_object=(value); end
+
+    sig { returns(String) }
+    def name; end
+
+    sig { params(value: String).returns(String) }
+    def name=(value); end
+
+    sig { returns(T.nilable(Rafflesia::SequenceCatalogRegistryRecord)) }
+    def registry_record; end
+
+    sig { params(value: T.nilable(Rafflesia::SequenceCatalogRegistryRecord)).returns(T.nilable(Rafflesia::SequenceCatalogRegistryRecord)) }
+    def registry_record=(value); end
+
+    sig { returns(Integer) }
+    def sequence_count; end
+
+    sig { params(value: Integer).returns(Integer) }
+    def sequence_count=(value); end
+
+    sig { returns(T.nilable(Rafflesia::ObjectRef)) }
+    def source_object; end
+
+    sig { params(value: T.nilable(Rafflesia::ObjectRef)).returns(T.nilable(Rafflesia::ObjectRef)) }
+    def source_object=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def source_object_id; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def source_object_id=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def source_path; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def source_path=(value); end
+
+    sig { returns(String) }
+    def version; end
+
+    sig { params(value: String).returns(String) }
+    def version=(value); end
+
+    sig { returns(T::Hash[Symbol, T.untyped]) }
+    def to_h; end
+
+    sig { params(args: T.untyped).returns(String) }
+    def to_json(*args); end
+  end
+end

data/rbi/rafflesia/sequence_catalog_inspect_request.rbi

@@ -0,0 +1,42 @@
+# frozen_string_literal: true
+
+# This file is auto-generated by oagen. Do not edit.
+
+# typed: strong
+
+module Rafflesia
+  class SequenceCatalogInspectRequest
+    sig { params(json: T.any(String, T::Hash[Symbol, T.untyped])).void }
+    def initialize(json); end
+
+    sig { returns(T.nilable(String)) }
+    def catalog_id; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def catalog_id=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def catalog_object_id; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def catalog_object_id=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def name; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def name=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def version; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def version=(value); end
+
+    sig { returns(T::Hash[Symbol, T.untyped]) }
+    def to_h; end
+
+    sig { params(args: T.untyped).returns(String) }
+    def to_json(*args); end
+  end
+end

data/rbi/rafflesia/sequence_catalog_list_data.rbi

@@ -0,0 +1,30 @@
+# frozen_string_literal: true
+
+# This file is auto-generated by oagen. Do not edit.
+
+# typed: strong
+
+module Rafflesia
+  class SequenceCatalogListData
+    sig { params(json: T.any(String, T::Hash[Symbol, T.untyped])).void }
+    def initialize(json); end
+
+    sig { returns(T.nilable(T::Array[Rafflesia::SequenceCatalogRegistryRecord])) }
+    def catalogs; end
+
+    sig { params(value: T.nilable(T::Array[Rafflesia::SequenceCatalogRegistryRecord])).returns(T.nilable(T::Array[Rafflesia::SequenceCatalogRegistryRecord])) }
+    def catalogs=(value); end
+
+    sig { returns(Integer) }
+    def row_count; end
+
+    sig { params(value: Integer).returns(Integer) }
+    def row_count=(value); end
+
+    sig { returns(T::Hash[Symbol, T.untyped]) }
+    def to_h; end
+
+    sig { params(args: T.untyped).returns(String) }
+    def to_json(*args); end
+  end
+end

data/rbi/rafflesia/sequence_catalog_manifest.rbi

@@ -0,0 +1,120 @@
+# frozen_string_literal: true
+
+# This file is auto-generated by oagen. Do not edit.
+
+# typed: strong
+
+module Rafflesia
+  class SequenceCatalogManifest
+    sig { params(json: T.any(String, T::Hash[Symbol, T.untyped])).void }
+    def initialize(json); end
+
+    sig { returns(String) }
+    def catalog_id; end
+
+    sig { params(value: String).returns(String) }
+    def catalog_id=(value); end
+
+    sig { returns(String) }
+    def content_sha_256; end
+
+    sig { params(value: String).returns(String) }
+    def content_sha_256=(value); end
+
+    sig { returns(String) }
+    def created_at; end
+
+    sig { params(value: String).returns(String) }
+    def created_at=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def dataset_name; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def dataset_name=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def dataset_version; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def dataset_version=(value); end
+
+    sig { returns(T.nilable(T::Array[Rafflesia::SequenceCatalogEntry])) }
+    def entries; end
+
+    sig { params(value: T.nilable(T::Array[Rafflesia::SequenceCatalogEntry])).returns(T.nilable(T::Array[Rafflesia::SequenceCatalogEntry])) }
+    def entries=(value); end
+
+    sig { returns(Rafflesia::ObjectRef) }
+    def fasta_object; end
+
+    sig { params(value: Rafflesia::ObjectRef).returns(Rafflesia::ObjectRef) }
+    def fasta_object=(value); end
+
+    sig { returns(String) }
+    def kind; end
+
+    sig { params(value: String).returns(String) }
+    def kind=(value); end
+
+    sig { returns(Integer) }
+    def manifest_version; end
+
+    sig { params(value: Integer).returns(Integer) }
+    def manifest_version=(value); end
+
+    sig { returns(String) }
+    def name; end
+
+    sig { params(value: String).returns(String) }
+    def name=(value); end
+
+    sig { returns(Integer) }
+    def sequence_count; end
+
+    sig { params(value: Integer).returns(Integer) }
+    def sequence_count=(value); end
+
+    sig { returns(T.nilable(Rafflesia::DatabaseSnapshot)) }
+    def source_database_snapshot; end
+
+    sig { params(value: T.nilable(Rafflesia::DatabaseSnapshot)).returns(T.nilable(Rafflesia::DatabaseSnapshot)) }
+    def source_database_snapshot=(value); end
+
+    sig { returns(T.nilable(Rafflesia::ObjectRef)) }
+    def source_object; end
+
+    sig { params(value: T.nilable(Rafflesia::ObjectRef)).returns(T.nilable(Rafflesia::ObjectRef)) }
+    def source_object=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def source_object_id; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def source_object_id=(value); end
+
+    sig { returns(T.nilable(String)) }
+    def source_path; end
+
+    sig { params(value: T.nilable(String)).returns(T.nilable(String)) }
+    def source_path=(value); end
+
+    sig { returns(T.nilable(Rafflesia::ToolVersion)) }
+    def source_tool_version; end
+
+    sig { params(value: T.nilable(Rafflesia::ToolVersion)).returns(T.nilable(Rafflesia::ToolVersion)) }
+    def source_tool_version=(value); end
+
+    sig { returns(String) }
+    def version; end
+
+    sig { params(value: String).returns(String) }
+    def version=(value); end
+
+    sig { returns(T::Hash[Symbol, T.untyped]) }
+    def to_h; end
+
+    sig { params(args: T.untyped).returns(String) }
+    def to_json(*args); end
+  end
+end