Module: PubliSci::Metadata::Generator
Instance Method Summary
collapse
Methods included from RDFParser
#add_node, #bnode_value, #encode_value, #get_ary, #get_hashes, #is_complex?, #is_uri?, #load_string, #observation_hash, #sanitize, #sanitize_hash, #strip_prefixes, #strip_uri, #to_literal, #to_resource, #turtle_indent
Instance Method Details
#activity(entity, used, options = {}) ⇒ Object
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# File 'lib/publisci/metadata/generator.rb', line 191
def activity(entity, used, options={})
assoc_id = Time.now.nsec.to_s(32)
activity_id = Time.now.nsec.to_s(32)
plan_id = Time.now.nsec.to_s(32)
raise "NoEntityGiven: activity generation requires a subject entity" unless entity
entity_str = <<-EOF.unindent
<#{entity}> a prov:Entity ;
prov:wasGeneratredBy ns:activity-a_#{activity_id} ;
EOF
activity_str = <<-EOF.unindent
ns:activity-a_#{activity_id} a prov:Activity ;
prov:generated <#{entity}> ;
EOF
if used
entity_str << "\tprov:wasDerivedFrom <#{used}> . \n\n"
activity_str << "\tprov:used <#{used}> . \n\n"
else
entity_str[-2] = ".\n"
activity_str[-2] = ".\n"
end
activity_str << <<-EOF.unindent
ns:activity-a_#{activity_id} prov:qualifiedAssociation ns:assoc-s_#{assoc_id} .
ns:assoc-s_#{assoc_id} a prov:Assocation .
EOF
if options[:software]
activity_str << <<-EOF.unindent
<#{options[:software]}> a prov:Entity .
ns:assoc-s_#{assoc_id} prov:agent <#{options[:software]}> .
EOF
if options[:process]
options[:process] = IO.read(options[:process]) if File.exist? options[:process]
steps = '"' + options[:process].split("\n").join('" "') + '"'
activity_str << <<-EOF.unindent
ns:assoc-s_#{assoc_id} prov:hadPlan ns:plan-p_#{plan_id}.
ns:plan-p_#{plan_id} a prov:Plan ;
rdfs:comment (#{steps});
EOF
end
end
if options[:author]
entity_str << "<#{options[:author]}> a prov:Agent, prov:Person .\n"
entity_str << "<#{options[:author]}> foaf:givenName \"#{options[:author_name]}\" .\n" if options[:author_name]
activity_str << "ns:activity-a_#{activity_id} prov:wasAssociatedWith <#{options[:author]}> .\n"
activity_str << "ns:assoc-s_#{assoc_id} prov:agent <#{options[:author]}> .\n"
if options[:organization]
entity_str << "<#{options[:organization]}> a prov:Agent, prov:Organization .\n"
activity_str << "<#{options[:author]}> prov:actedOnBehalfOf <#{options[:organization]}> .\n\n"
if options[:organization_name]
entity_str << "<#{options[:organization]}> foaf:name \"#{options[:organization_name]}\" .\n\n"
end
else
activity_str << "\n"
end
end
entity_str + "\n" + activity_str
end
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#basic(fields) ⇒ Object
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# File 'lib/publisci/metadata/generator.rb', line 19
def basic(fields)
fields[:var] = sanitize([fields[:var]]).first
unless fields[:creator]
if ENV['USER']
fields[:creator] = ENV['USER']
elsif ENV['USERNAME']
fields[:creator] = ENV['USERNAME']
end
end
fields[:date] = Time.now.strftime("%Y-%m-%d") unless fields[:date]
str = <<-EOF.unindent
ns:dataset-#{fields[:var]} rdfs:label "#{fields[:title]}";
dct:title "#{fields[:title]}";
dct:creator "#{fields[:creator]}";
rdfs:comment "#{fields[:description]}";
dct:description "#{fields[:description]}";
dct:issued "#{fields[:date]}"^^xsd:date.
EOF
end_str = ""
if fields[:subject] && fields[:subject].size > 0
str << " dct:subject"
fields[:subject].each{|subject|
sub = RDF::Resource(subject)
sub = RDF::Literal(subject) unless sub.valid?
str << " " + sub.to_base + ",\n"
}
str[-2] = ";"
end
if fields[:publishers]
fields[:publishers].map{|publisher|
raise "No URI for publisher #{publisher}" unless publisher[:uri]
raise "No label for publisher #{publisher}" unless publisher[:label]
str << " dct:publisher <#{publisher[:uri]}> ;\n"
end_str << "<#{publisher[:uri]}> a org:Organization, foaf:Agent;\n rdfs:label \"#{publisher[:label]}\" .\n\n"
}
str[-2] = '.'
end
str + "\n" + end_str
end
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#defaults ⇒ Object
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# File 'lib/publisci/metadata/generator.rb', line 12
def defaults
{
encode_nulls: false,
base_url: "http://www.rqtl.org",
}
end
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# File 'lib/publisci/metadata/generator.rb', line 303
def metadata_help(topic=nil)
if topic
puts "This should display help information for #{topic}, but there's none here yet :("
else
puts <<-EOF.unindent
Available metadata fields:
(Field) (Ontology) (Description)
publishers dct/foaf/org The Organization/s responsible for publishing the dataset
subject dct The subject of this dataset. Use resources when possible
var dct The name of the datset resource (used internally)
creator dct The person or process responsible for creating the dataset
description dct/rdfs A descriptions of the dataset
issued dct The date of issuance for the dataset
EOF
end
end
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# File 'lib/publisci/metadata/generator.rb', line 295
def org_metadata
str <<-EOF.unindent
<http://sciruby.com/> a org:Organization, prov:Organization;
skos:prefLabel "SciRuby";
rdfs:description "A Project to Build and Improve Tools for Scientific Computing in Ruby".
EOF
end
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#process(id, step_string, software_resource, software_var, options = {}) ⇒ Object
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# File 'lib/publisci/metadata/generator.rb', line 266
def process(id, step_string, software_resource, software_var, options={})
steps = '"' + step_string.split("\n").join('" "') + '"'
assoc_id = Time.now.nsec.to_s(32)
str = <<-EOF.unindent
ns:activity-#{id} a prov:Activity ;
prov:qualifiedAssociation ns:assoc-#{assoc_id} ;
prov:used </ns/dataset/#{software_var}#var>.
ns:assoc-#{id}_#{assoc_id} a prov:Assocation ;
prov:entity <#{software_resource}>;
prov:hadPlan ns:plan-#{id}.
ns:plan-#{id} a prov:Plan ;
rdfs:comment (#{steps});
EOF
end
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#provenance(original, triplified, chain, options = {}) ⇒ Object
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# File 'lib/publisci/metadata/generator.rb', line 71
def provenance(original, triplified, chain, options={})
raise "MissingOriginal: must specify a provenance source" unless original && original[:resource]
str = <<-EOF.unindent
<#{original[:resource]}> a prov:Entity ;
prov:wasGeneratredBy ns:activity-1 .
ns:activity-1 a prov:Activity ;
prov:generated <#{original[:resource]}> .
EOF
if original[:software]
original_assoc_id = Time.now.nsec.to_s(32)
str << <<-EOF.unindent
<#{original[:software]}> a prov:Entity.
ns:activity-1 prov:qualifiedAssociation ns:assoc-1_#{original_assoc_id} .
ns:assoc-1_#{original_assoc_id} a prov:Assocation ;
prov:entity <#{original[:software]}> .
EOF
if original[:process]
original[:process] = IO.read(original[:process]) if File.exist? original[:process]
steps = '"' + original[:process].split("\n").join('" "') + '"'
str << <<-EOF.unindent
ns:assoc-1_#{original_assoc_id} prov:hadPlan ns:plan-1.
ns:plan-1 a prov:Plan ;
rdfs:comment (#{steps});
EOF
end
end
if original[:author]
str << "<#{original[:author]}> a prov:Agent, prov:Person .\n"
str << "ns:activity-1 prov:wasAssociatedWith <#{original[:author]}> .\n"
str << "<#{original[:author]}> foaf:givenName \"#{original[:author_name]}\" .\n" if original[:author_name]
if original[:organization]
str << "<#{original[:author]}> prov:actedOnBehalfOf <#{original[:organization]}> .\n\n"
str << "<#{original[:organization]}> a prov:Agent, prov:Organization.\n"
if original[:organization_name]
str << "<#{original[:organization]}> foaf:name \"#{original[:organization_name]}\" .\n\n"
else
str << "\n"
end
else
str << "\n"
end
end
if triplified
triples_assoc_id = Time.now.nsec.to_s(32)
str << <<-EOF.unindent
<#{triplified[:resource]}> a prov:Entity;
prov:wasGeneratredBy ns:activity-0 .
</ns/R2RDF> a prov:Agent, prov:SoftwareAgent ;
rdfs:label "Semantic Publishing Toolkit" .
ns:activity-0 a prov:Activity ;
prov:qualifiedAssociation ns:assoc-0_#{triples_assoc_id};
prov:generated <#{triplified[:resource]}> ;
prov:used <#{original[:resource]}> .
ns:assoc-0_#{triples_assoc_id} a prov:Assocation ;
prov:entity </ns/R2RDF>;
prov:hadPlan ns:plan-0.
ns:plan-0 a prov:Plan ;
rdfs:comment "generation of <#{triplified[:resource]}> by R2RDF gem" .
EOF
if triplified[:author]
str << "<#{triplified[:author]}> a prov:Agent, prov:Person .\n"
str << "<#{triplified[:author]}> foaf:givenName \"#{triplified[:author_name]}\" .\n" if triplified[:author_name]
if triplified[:organization]
str << "<#{triplified[:author]}> prov:actedOnBehalfOf <#{triplified[:organization]}> .\n\n"
str << "<#{triplified[:organization]}> a prov:Agent, prov:Organization.\n"
if triplified[:organization_name]
str << "<#{triplified[:organization]}> foaf:name \"#{triplified[:organization_name]}\" .\n\n"
else
str << "\n"
end
else
str << "\n"
end
end
end
if chain
str << "ns:activity-1 prov:used <#{chain.first[:resource]}> .\n"
str << "<#{original[:resource]}> prov:wasDerivedFrom <#{chain.first[:resource]}> .\n\n"
chain.each_with_index{ |src,i|
if i == chain.size-1
str << activity(src[:resource],nil,src)
else
str << activity(src[:resource],chain[i+1][:resource],src)
end
}
end
str
end
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# File 'lib/publisci/metadata/generator.rb', line 287
def r2rdf_metadata
str <<-EOF.unindent
<#{options[:base_url]}/ns/R2RDF> a foaf:Agent;
foaf:name "R2RDF Semantic Web Toolkit";
org:memberOf <http://sciruby.com/>
EOF
end
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