dina 0.4.1.0 → 0.4.2.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- checksums.yaml +4 -4
- data/lib/dina/json_api_client_patch.rb +11 -0
- data/lib/dina/models/{identifier.rb → agent/identifier.rb} +3 -1
- data/lib/dina/models/{organization.rb → agent/organization.rb} +1 -1
- data/lib/dina/models/{person.rb → agent/person.rb} +1 -1
- data/lib/dina/models/{collecting_event.rb → material_sample/collecting_event.rb} +1 -1
- data/lib/dina/models/{collecting_method.rb → material_sample/collecting_method.rb} +1 -1
- data/lib/dina/models/{collection.rb → material_sample/collection.rb} +1 -1
- data/lib/dina/models/{collection_sequence_generator.rb → material_sample/collection_sequence_generator.rb} +1 -1
- data/lib/dina/models/{material_sample.rb → material_sample/material_sample.rb} +1 -1
- data/lib/dina/models/{organism.rb → material_sample/organism.rb} +1 -1
- data/lib/dina/models/{preparation_method.rb → material_sample/preparation_method.rb} +1 -1
- data/lib/dina/models/{preparation_type.rb → material_sample/preparation_type.rb} +1 -1
- data/lib/dina/models/{project.rb → material_sample/project.rb} +1 -1
- data/lib/dina/models/{protocol.rb → material_sample/protocol.rb} +1 -1
- data/lib/dina/models/{derivative.rb → object_store/derivative.rb} +1 -1
- data/lib/dina/models/{file.rb → object_store/file.rb} +0 -0
- data/lib/dina/models/{object_store.rb → object_store/object_store.rb} +1 -1
- data/lib/dina/models/{object_store_managed_attribute.rb → object_store/object_store_managed_attribute.rb} +1 -1
- data/lib/dina/models/{object_subtype.rb → object_store/object_subtype.rb} +1 -1
- data/lib/dina/models/sequence/index_set.rb +19 -0
- data/lib/dina/models/sequence/molecular_sample.rb +19 -0
- data/lib/dina/models/sequence/ngs_workflow.rb +19 -0
- data/lib/dina/models/sequence/pcr_batch.rb +19 -0
- data/lib/dina/models/sequence/pcr_primer.rb +19 -0
- data/lib/dina/models/sequence/product.rb +19 -0
- data/lib/dina/models/sequence/region.rb +19 -0
- data/lib/dina/models/sequence/thermocycler_profile.rb +19 -0
- data/lib/dina/models/{storage_unit.rb → storage/storage_unit.rb} +1 -1
- data/lib/dina/models/{storage_unit_type.rb → storage/storage_unit_type.rb} +1 -1
- data/lib/dina/models/{transaction.rb → transaction/transaction.rb} +1 -1
- data/lib/dina/version.rb +1 -1
- metadata +32 -23
checksums.yaml
CHANGED
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@@ -1,7 +1,7 @@
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---
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SHA256:
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-
metadata.gz:
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data.tar.gz:
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metadata.gz: 868b096ec196f62ae6cf4507cadf08c277b26f462957873140abc93ecf88a1a6
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4
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data.tar.gz: 26c127ec2bf4e6e9c990b4361aff69d1ce9f6a5e578ae01065472e8ede524bf5
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SHA512:
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metadata.gz:
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data.tar.gz:
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metadata.gz: 9fcd3ceca0594b95caaea14870a0ff6ebc9284fab58eac5e98bd236c04e8235b4fb542c720cba9c394b63b719a4883642f82e0871b347a9a18c5225c8e42e5b6
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7
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data.tar.gz: 95d262c72d8955a9eb944886efcd0784af500f4f8235846bc062a69d5128652e0af0260d85f7243bd608e8d2bd3f895a309cc752baac6b742282f84db658f88e
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@@ -0,0 +1,11 @@
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# Monkeypatch the data method because the relations urls in the DINA JSON:API spec are incorrectly formed through its frontend proxy
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module JsonApiClient
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module Associations
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class BaseAssociation
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def data(url)
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url.sub!("/api/v1/", "/api/#{association_class.requestor.instance_variable_get(:@klass).endpoint_path}")
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from_result_set(association_class.requestor.linked(url))
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end
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end
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end
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end
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@@ -1,4 +1,4 @@
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-
require_rel 'base_model'
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require_rel '../base_model'
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module Dina
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class Identifier < BaseModel
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@@ -8,6 +8,8 @@ module Dina
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property :createdBy, type: :string
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property :createdOn, type: :time
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belongs_to :person, shallow_path: true, class_name: "Person"
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def self.endpoint_path
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"agent-api/"
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end
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File without changes
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require_rel '../base_model'
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module Dina
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class IndexSet < BaseModel
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property :id, type: :string, default: SecureRandom.uuid
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property :group, type: :string
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validates_presence_of :group, message: "group is required"
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def self.endpoint_path
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"seqdb-api/"
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end
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def self.table_name
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"index-set"
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end
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end
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end
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require_rel '../base_model'
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module Dina
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class MolecularSample < BaseModel
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property :id, type: :string, default: SecureRandom.uuid
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property :group, type: :string
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validates_presence_of :group, message: "group is required"
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def self.endpoint_path
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"seqdb-api/"
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end
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def self.table_name
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"molecular-sample"
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end
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end
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end
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require_rel '../base_model'
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module Dina
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class NgsWorkflow < BaseModel
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property :id, type: :string, default: SecureRandom.uuid
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property :group, type: :string
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validates_presence_of :group, message: "group is required"
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def self.endpoint_path
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"seqdb-api/"
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end
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def self.table_name
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"chain"
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end
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end
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end
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require_rel '../base_model'
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module Dina
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class PcrBatch < BaseModel
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property :id, type: :string, default: SecureRandom.uuid
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property :group, type: :string
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validates_presence_of :group, message: "group is required"
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def self.endpoint_path
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"seqdb-api/"
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end
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def self.table_name
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"pcr-batch"
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end
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end
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end
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require_rel '../base_model'
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module Dina
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class PcrPrimer < BaseModel
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property :id, type: :string, default: SecureRandom.uuid
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property :group, type: :string
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validates_presence_of :group, message: "group is required"
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def self.endpoint_path
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"seqdb-api/"
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end
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def self.table_name
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"pcr-primer"
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end
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end
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end
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require_rel '../base_model'
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module Dina
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class Product < BaseModel
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property :id, type: :string, default: SecureRandom.uuid
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property :group, type: :string
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validates_presence_of :group, message: "group is required"
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def self.endpoint_path
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"seqdb-api/"
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end
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def self.table_name
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"product"
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end
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end
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end
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require_rel '../base_model'
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module Dina
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class Region < BaseModel
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property :id, type: :string, default: SecureRandom.uuid
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property :group, type: :string
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validates_presence_of :group, message: "group is required"
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def self.endpoint_path
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"seqdb-api/"
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end
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def self.table_name
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"region"
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end
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end
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end
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require_rel '../base_model'
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module Dina
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class ThermocyclerProfile < BaseModel
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property :id, type: :string, default: SecureRandom.uuid
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property :group, type: :string
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validates_presence_of :group, message: "group is required"
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def self.endpoint_path
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"seqdb-api/"
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end
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def self.table_name
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"thermocycler-profile"
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end
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end
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end
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data/lib/dina/version.rb
CHANGED
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CHANGED
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--- !ruby/object:Gem::Specification
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name: dina
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version: !ruby/object:Gem::Version
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version: 0.4.
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version: 0.4.2.0
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platform: ruby
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authors:
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- David P. Shorthouse
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autorequire:
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bindir: bin
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cert_chain: []
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date: 2022-12-
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date: 2022-12-05 00:00:00.000000000 Z
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dependencies:
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- !ruby/object:Gem::Dependency
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name: json_api_client
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@@ -155,33 +155,42 @@ files:
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- lib/dina/components/georeference_assertion.rb
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- lib/dina/components/shipment.rb
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- lib/dina/exceptions.rb
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- lib/dina/json_api_client_patch.rb
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- lib/dina/models/acquisition_event.rb
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- lib/dina/models/agent/identifier.rb
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- lib/dina/models/agent/organization.rb
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- lib/dina/models/agent/person.rb
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- lib/dina/models/assemblage.rb
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- lib/dina/models/attachment.rb
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- lib/dina/models/base_model.rb
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- lib/dina/models/collecting_event.rb
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- lib/dina/models/collecting_method.rb
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- lib/dina/models/collection.rb
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- lib/dina/models/collection_sequence_generator.rb
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- lib/dina/models/derivative.rb
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- lib/dina/models/file.rb
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- lib/dina/models/identifier.rb
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- lib/dina/models/institution.rb
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- lib/dina/models/managed_attribute.rb
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- lib/dina/models/material_sample.rb
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- lib/dina/models/
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- lib/dina/models/
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- lib/dina/models/
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- lib/dina/models/
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- lib/dina/models/
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- lib/dina/models/
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- lib/dina/models/
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- lib/dina/models/
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- lib/dina/models/
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- lib/dina/models/
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- lib/dina/models/
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- lib/dina/models/
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- lib/dina/models/material_sample/collecting_event.rb
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- lib/dina/models/material_sample/collecting_method.rb
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- lib/dina/models/material_sample/collection.rb
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- lib/dina/models/material_sample/collection_sequence_generator.rb
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- lib/dina/models/material_sample/material_sample.rb
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- lib/dina/models/material_sample/organism.rb
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- lib/dina/models/material_sample/preparation_method.rb
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- lib/dina/models/material_sample/preparation_type.rb
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- lib/dina/models/material_sample/project.rb
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- lib/dina/models/material_sample/protocol.rb
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- lib/dina/models/object_store/derivative.rb
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- lib/dina/models/object_store/file.rb
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- lib/dina/models/object_store/object_store.rb
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- lib/dina/models/object_store/object_store_managed_attribute.rb
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- lib/dina/models/object_store/object_subtype.rb
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- lib/dina/models/sequence/index_set.rb
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- lib/dina/models/sequence/molecular_sample.rb
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- lib/dina/models/sequence/ngs_workflow.rb
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- lib/dina/models/sequence/pcr_batch.rb
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- lib/dina/models/sequence/pcr_primer.rb
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- lib/dina/models/sequence/product.rb
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- lib/dina/models/sequence/region.rb
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- lib/dina/models/sequence/thermocycler_profile.rb
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- lib/dina/models/storage/storage_unit.rb
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- lib/dina/models/storage/storage_unit_type.rb
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- lib/dina/models/transaction/transaction.rb
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- lib/dina/models/user.rb
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- lib/dina/search/base_search.rb
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- lib/dina/search/search.rb
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