pypath.internals.annot_formats.AnnotDef§

class pypath.internals.annot_formats.AnnotDef(name, resource, parent=None, aspect='functional', scope='specific', source='resource_specific', args=None, exclude=None, transmitter=None, receiver=None, resource_name=None, limit=None, avoid=None, enabled=True)[source]§

Bases: AnnotDefBase

Annotations are defined by a name, a resource and an args parameter. If the former is a string it will be first looked up among the annotation resources in pypath.annot.db. Otherwise among the keys of the classes in the CustomAnnotation object or in the dictionary of the class_definitions. If source is a set, it will be used as a category without further processing. If it is callable it will be called and should return a set. If bool(args) is False, in case of annotations in pypath.annot.db the to_set method will be called. Otherwise args will be passed to the get_subset method. If resource is callable, args will be passed if available.

__init__()§

Methods

`__init__`()
`count`(value, /)	Return number of occurrences of value.
`index`(value[, start, stop])	Return first index of value.

Attributes

`args`	Alias for field number 6
`aspect`	Alias for field number 3
`avoid`	Alias for field number 12
`enabled`	Alias for field number 13
`exclude`	Alias for field number 7
`key`
`limit`	Alias for field number 11
`name`	Alias for field number 0
`parent`	Alias for field number 2
`receiver`	Alias for field number 9
`resource`	Alias for field number 1
`resource_name`	Alias for field number 10
`scope`	Alias for field number 4
`source`	Alias for field number 5
`transmitter`	Alias for field number 8

args§: Alias for field number 6

aspect§: Alias for field number 3

avoid§: Alias for field number 12

count(value, /)§: Return number of occurrences of value.

enabled§: Alias for field number 13

exclude§: Alias for field number 7

index(value, start=0, stop=9223372036854775807, /)§

Return first index of value.

Raises ValueError if the value is not present.

limit§: Alias for field number 11

name§: Alias for field number 0

parent§: Alias for field number 2

receiver§: Alias for field number 9

resource§: Alias for field number 1

resource_name§: Alias for field number 10

scope§: Alias for field number 4

source§: Alias for field number 5

transmitter§: Alias for field number 8