Module: BELParser::Language::TermTransformation
Constant Summary
collapse
- ACTIVITIES =
{
'cat' => 'cat',
'catalyticActivity' => 'cat',
'chap' => 'chap',
'chaperoneActivity' => 'chap',
'gtp' => 'gtp',
'gtpBoundActivity' => 'gtp',
'kin' => 'kin',
'kinaseActivity' => 'kin',
'act' => 'act',
'molecularActivity' => 'act',
'pep' => 'pep',
'peptidaseActivity' => 'pep',
'phos' => 'phos',
'phosphataseActivity' => 'phos',
'ribo' => 'ribo',
'ribosylationActivity' => 'ribo',
'tscript' => 'tscript',
'transcriptionalActivity' => 'tscript',
'tport' => 'tport',
'transportActivity' => 'tport'
}
- PMODTYPES =
{
'P' => 'Ph',
'A' => 'Ac',
'F' => 'Farn',
'G' => 'Glyco',
'H' => 'Hy',
'M' => 'Me',
'R' => 'ADPRib',
'S' => 'Sumo',
'U' => 'Ub'
}
Instance Method Summary
collapse
#annotation_definition, #argument, #blank_line, #comment, #comment_line, #document_property, #domain, #function, #identifier, #keyword, #list, #list_item, #name, #namespace_definition, #nested_statement, #object, #observed_term, #parameter, #pattern, #prefix, #relationship, #set, #simple_statement, #statement, #string, #subject, #term, #unset, #uri, #url, #value
#handler_missing, #process, #process_all
Instance Method Details
#collapse(node) ⇒ Object
83
84
85
|
# File 'lib/bel_parser/language/term_transformation.rb', line 83
def collapse(node)
node.to_sexp(indent=0).gsub("\n", '')
end
|
#on_argument(argument_node) ⇒ Object
70
71
72
|
# File 'lib/bel_parser/language/term_transformation.rb', line 70
def on_argument(argument_node)
argument_node.updated([process(argument_node.child)])
end
|
#on_function(function_node) ⇒ Object
74
75
76
|
# File 'lib/bel_parser/language/term_transformation.rb', line 74
def on_function(function_node)
function_node.updated([process(function_node.identifier)])
end
|
#on_nested_statement(nested_statement_node) ⇒ Object
49
50
51
|
# File 'lib/bel_parser/language/term_transformation.rb', line 49
def on_nested_statement(nested_statement_node)
nested_statement_node.updated([process(nested_statement_node.statement)])
end
|
#on_object(object_node) ⇒ Object
65
66
67
68
|
# File 'lib/bel_parser/language/term_transformation.rb', line 65
def on_object(object_node)
return if object_node.nil?
object_node.updated([process(object_node.child)])
end
|
#on_observed_term(observed_term_node) ⇒ Object
45
46
47
|
# File 'lib/bel_parser/language/term_transformation.rb', line 45
def on_observed_term(observed_term_node)
observed_term_node.updated([process(observed_term_node.statement)])
end
|
#on_simple_statement(simple_statement_node) ⇒ Object
53
54
55
|
# File 'lib/bel_parser/language/term_transformation.rb', line 53
def on_simple_statement(simple_statement_node)
simple_statement_node.updated([process(simple_statement_node.statement)])
end
|
#on_statement(statement_node) ⇒ Object
57
58
59
|
# File 'lib/bel_parser/language/term_transformation.rb', line 57
def on_statement(statement_node)
statement_node.updated([process(statement_node.subject), statement_node.relationship, process(statement_node.object), statement_node.])
end
|
#on_subject(subject_node) ⇒ Object
61
62
63
|
# File 'lib/bel_parser/language/term_transformation.rb', line 61
def on_subject(subject_node)
subject_node.updated([process(subject_node.term)])
end
|
#on_term(term_node) ⇒ Object
Called when visiting nodes of type term
.
79
80
81
|
# File 'lib/bel_parser/language/term_transformation.rb', line 79
def on_term(term_node)
term_node.updated([process(term_node.function), term_node.arguments.map! {|arg| process(arg)}].flatten())
end
|