Class: GatewaySource

Represents the source of a sequence that is generated by Gateway cloning

classDiagram class GatewaySource click GatewaySource href "../GatewaySource" AssemblySource <|-- GatewaySource click AssemblySource href "../AssemblySource" GatewaySource : assembly GatewaySource --> "*" AssemblyFragment : assembly click AssemblyFragment href "../AssemblyFragment" GatewaySource : circular GatewaySource : database_id GatewaySource : greedy GatewaySource : id GatewaySource : input GatewaySource --> "*" Sequence : input click Sequence href "../Sequence" GatewaySource : output GatewaySource --> "0..1" Sequence : output click Sequence href "../Sequence" GatewaySource : output_name GatewaySource : reaction_type GatewaySource --> "1" GatewayReactionType : reaction_type click GatewayReactionType href "../GatewayReactionType" GatewaySource : type

Inheritance

NamedThing
- Source
  - AssemblySource
    - GatewaySource

Slots

Name	Cardinality and Range	Description	Inheritance
reaction_type	1 GatewayReactionType		direct
greedy	0..1 Boolean	Whether to use a greedy consensus sequence for att sites (see https://github	direct
circular	0..1 Boolean	Whether the assembly is circular or not	AssemblySource
assembly	* AssemblyFragment	A list of the fragments that are assembled, in order	AssemblySource
input	* Sequence	The sequences that are an input to this source	Source
output	0..1 Sequence	Identifier of the sequence that is the output of this source	Source
type	0..1 String	Designates the class	Source
output_name	0..1 String	Used to specify the name of the output sequence	Source
database_id	0..1 Integer	The id of an entity in a database	Source
id	1 Integer	A unique identifier for a thing	NamedThing

Identifier and Mapping Information

Schema Source

from schema: https://opencloning.github.io/OpenCloning_LinkML

Mappings

Mapping Type	Mapped Value
self	opencloning_linkml:GatewaySource
native	opencloning_linkml:GatewaySource

LinkML Source

Direct

name: GatewaySource
description: Represents the source of a sequence that is generated by Gateway cloning
from_schema: https://opencloning.github.io/OpenCloning_LinkML
is_a: AssemblySource
attributes:
  reaction_type:
    name: reaction_type
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    rank: 1000
    domain_of:
    - GatewaySource
    range: GatewayReactionType
    required: true
  greedy:
    name: greedy
    description: Whether to use a greedy consensus sequence for att sites (see https://github.com/manulera/GateWayMine)
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    rank: 1000
    ifabsent: boolean(false)
    domain_of:
    - GatewaySource
    range: boolean

Induced

name: GatewaySource
description: Represents the source of a sequence that is generated by Gateway cloning
from_schema: https://opencloning.github.io/OpenCloning_LinkML
is_a: AssemblySource
attributes:
  reaction_type:
    name: reaction_type
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    rank: 1000
    alias: reaction_type
    owner: GatewaySource
    domain_of:
    - GatewaySource
    range: GatewayReactionType
    required: true
  greedy:
    name: greedy
    description: Whether to use a greedy consensus sequence for att sites (see https://github.com/manulera/GateWayMine)
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    rank: 1000
    ifabsent: boolean(false)
    alias: greedy
    owner: GatewaySource
    domain_of:
    - GatewaySource
    range: boolean
  circular:
    name: circular
    description: Whether the assembly is circular or not
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    alias: circular
    owner: GatewaySource
    domain_of:
    - TemplateSequence
    - ManuallyTypedSource
    - AssemblySource
    range: boolean
  assembly:
    name: assembly
    description: A list of the fragments that are assembled, in order
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    rank: 1000
    alias: assembly
    owner: GatewaySource
    domain_of:
    - AssemblySource
    range: AssemblyFragment
    required: false
    multivalued: true
    inlined: true
    inlined_as_list: true
  input:
    name: input
    description: The sequences that are an input to this source. If the source represents
      external import of a sequence, it's empty.
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    rank: 1000
    slot_uri: schema:object
    alias: input
    owner: GatewaySource
    domain_of:
    - Source
    range: Sequence
    required: false
    multivalued: true
    inlined_as_list: false
  output:
    name: output
    description: Identifier of the sequence that is the output of this source.
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    rank: 1000
    slot_uri: schema:result
    alias: output
    owner: GatewaySource
    domain_of:
    - Source
    range: Sequence
    required: false
    inlined: false
  type:
    name: type
    description: Designates the class
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    rank: 1000
    designates_type: true
    alias: type
    owner: GatewaySource
    domain_of:
    - Sequence
    - Source
    - CollectionOptionInfo
    - AnnotationReport
    - AssociatedFile
    range: string
  output_name:
    name: output_name
    description: Used to specify the name of the output sequence
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    rank: 1000
    alias: output_name
    owner: GatewaySource
    domain_of:
    - Source
    range: string
    required: false
  database_id:
    name: database_id
    description: The id of an entity in a database
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    rank: 1000
    slot_uri: schema:identifier
    alias: database_id
    owner: GatewaySource
    domain_of:
    - Primer
    - Source
    - DatabaseSource
    range: integer
    required: false
  id:
    name: id
    description: A unique identifier for a thing
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    rank: 1000
    slot_uri: schema:identifier
    identifier: true
    alias: id
    owner: GatewaySource
    domain_of:
    - NamedThing
    - Sequence
    range: integer
    required: true