Class: BioInterchange::Genomics::RDFWriter
- Defined in:
- lib/biointerchange/genomics/gff3_rdf_ntriples.rb
Overview
Serializes GFF3, GVF and VCF models.
Inputs:
-
biointerchange.gff3
-
biointerchange.gvf
-
biointerchange.vcf
Outputs:
-
rdf.biointerchange.gfvo
Instance Method Summary collapse
-
#initialize(ostream) ⇒ RDFWriter
constructor
Creates a new instance of a RDFWriter that will use the provided output stream to serialize RDF.
-
#serialize(model, uri_prefix = nil) ⇒ Object
Serialize a model as RDF.
Methods inherited from Writer
#add_prefix, #close, #create_triple, #set_base
Constructor Details
#initialize(ostream) ⇒ RDFWriter
Creates a new instance of a RDFWriter that will use the provided output stream to serialize RDF.
ostream
-
instance of an IO class or derivative that is used for RDF serialization
30 31 32 |
# File 'lib/biointerchange/genomics/gff3_rdf_ntriples.rb', line 30 def initialize(ostream) super(ostream) end |
Instance Method Details
#serialize(model, uri_prefix = nil) ⇒ Object
Serialize a model as RDF.
model
-
a generic representation of input data that is derived from BioInterchange::Genomics::GFF3FeatureSet
uri_prefix
-
optional URI prefix that replaces the default URI prefix for all set/feature/annotation URIs
38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 |
# File 'lib/biointerchange/genomics/gff3_rdf_ntriples.rb', line 38 def serialize(model, uri_prefix = nil) if model.instance_of?(BioInterchange::Genomics::GFF3FeatureSet) then @format = :gff3 elsif model.instance_of?(BioInterchange::Genomics::GVFFeatureSet) then @format = :gvf elsif model.instance_of?(BioInterchange::Genomics::VCFFeatureSet) then @format = :vcf else raise BioInterchange::Exceptions::ImplementationWriterError, 'The provided model cannot be serialized. ' + 'This writer supports serialization for BioInterchange::Genomics::GFF3FeatureSet, ' + 'BioInterchange::Genomics::GVFFeatureSet and BioInterchange::Genomics::VCFFeatureSet.' end @base = BioInterchange::GFVO serialize_model(model, uri_prefix) end |