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Example code for the SADI BMI Calculator Web Service

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Two versions of the code for the SADI Web Service demonstrated at the Using the Semantic Web for faster (Bio-)Research workshop hosted by the Swiss Institute for Bioinformatics, Geneva, December, 2015. The first version of the code is a bare-bones service that consumes individuals with height and weight and returns individuals with a BMI. The second piece of code is functionally identical to the first, but highlights the small changes required to make the service a NanoPublisher (NanoPublishing services respond to Accept n-quads HTTP headers by returning NanoPublications, rather than just a stream of triples)

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Example code for the SADI BMI Calculator Web Service

  1. 1. #!/usr/local/bin/perl package GetMyBMI; # a SADI Service for BMI Calculation use strict; use warnings; #use base 'SADI::Simple::AsyncService'; use base 'SADI::Simple::SyncService'; my $config = { ServiceName => 'GetMyBMI', # any name you like ServiceURI => 'http://linkeddata.systems/cgi-bin/SADI/GetMyBMI.pl', #URL of this script Description => 'A BMI calculator', InputClass => 'http://linkeddata.systems/ontologies/SADITutorial.owl#PatientData', OutputClass => 'http://linkeddata.systems/ontologies/SADITutorial.owl#PatientBMI', Authority => 'wilkinsonlab.info', # domain of organization providing service Provider => 'markw@illuminae.com', # contact e-mail address of service provider }; my $service = GetMyBMI->new(%$config); $service->handle_cgi_request; #----------------------------------------------------------------- # SERVICE IMPLEMENTATION #----------------------------------------------------------------- use RDF::Trine::Node::Resource; use RDF::Trine::Node::Literal; use RDF::Trine::Statement; sub process_it { my ($self, $inputs, $input_model, $output_model) = @_; # $inputs - ref to an array of RDF::Trine::Node::Resource # $input_model - an RDF::Trine::Model containing the input RDF data # $output_model - an RDF::Trine::Model containing the output RDF data my $heightp = RDF::Trine::Node::Resource->new( 'http://mged.sourceforge.net/ontologies/MGEDOntology.owl#has_height'); my $weightp = RDF::Trine::Node::Resource->new( 'http://linkeddata.systems/ontologies/SADITutorial.owl#has_mass'); my $BMIp = RDF::Trine::Node::Resource->new( 'http://sadiframework.org/examples/bmi.owl#BMI'); foreach my $input (@$inputs) { # retrieve the height and weight node from each input my ($height) = $input_model->objects($input, $heightp); my ($weight) = $input_model->objects($input, $weightp); $height = $height->value; $weight = $weight->value; my $BMI = $weight/($height * $height); my $BMI_literal = RDF::Trine::Node::Literal->new($BMI); # The output statement is about the $input as the subject node!! my $statement = RDF::Trine::Statement->new($input, $BMIp, $BMI_literal); $output_model->add_statement($statement); } }
  2. 2. #!/usr/local/bin/perl package GetMyBMI; use strict; use warnings; use base 'SADI::Simple::SyncService'; use Log::Log4perl qw(:easy); Log::Log4perl->easy_init($WARN); #Log::Log4perl->easy_init($DEBUG); my $config = { ServiceName => 'GetMyBMI', # any name you like ServiceURI => 'http://linkeddata.systems/cgi-bin/SADI/GetMyBMI.pl', Description => 'A BMI calculator', InputClass => 'http://linkeddata.systems/ontologies/SADITutorial.owl#PatientData', OutputClass => 'http://linkeddata.systems/ontologies/SADITutorial.owl#PatientBMI', Authority => 'wilkinsonlab.info', # domain of organization providing service Provider => 'markw@illuminae.com', # contact e-mail address of service provider NanoPublisher => 1, # I want to be a NanoPublisher }; my $service = GetMyBMI->new(%$config); $service->handle_cgi_request; use RDF::Trine::Node::Resource; use RDF::Trine::Node::Literal; use RDF::Trine::Statement; sub process_it { my ($self, $inputs, $input_model, $output_model) = @_; # $inputs - ref to an array of RDF::Trine::Node::Resource # $input_model - an RDF::Trine::Model containing the input RDF data # $output_model - an RDF::Trine::Model containing the output RDF data my $heightp = RDF::Trine::Node::Resource->new( 'http://mged.sourceforge.net/ontologies/MGEDOntology.owl#has_height'); my $weightp = RDF::Trine::Node::Resource->new( 'http://linkeddata.systems/ontologies/SADITutorial.owl#has_mass'); my $BMIp = RDF::Trine::Node::Resource->new( 'http://sadiframework.org/examples/bmi.owl#BMI'); foreach my $input (@$inputs) { my ($height) = $input_model->objects($input, $heightp); my ($weight) = $input_model->objects($input, $weightp); $height = $height->value; $weight = $weight->value; my $BMI = $weight/($height * $height); DEBUG("BMI $BMIn"); my $BMI_literal = RDF::Trine::Node::Literal->new($BMI); my $statement = RDF::Trine::Statement->new($input, $BMIp, $BMI_literal); $output_model->add_statement($statement, $input); $output_model->nanopublish_result_for($input); } }

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