fastobo-graphs 0.2.0

use fastobo::ast::HeaderClause;
use fastobo::ast::HeaderFrame;
use fastobo::ast::EntityFrame;
use fastobo::ast::Ident;
use fastobo::ast::QuotedString;
use fastobo::ast::Synonym;
use fastobo::ast::OboDoc;
use fastobo::ast::SynonymScope;
use fastobo::ast::TermClause;
use fastobo::ast::TypedefClause;
use fastobo::ast::InstanceClause;
use fastobo::ast::TermFrame;
use fastobo::ast::IsoDateTime;
use fastobo::ast::InstanceFrame;
use fastobo::ast::TypedefFrame;
use fastobo::ast::Line;
use fastobo::ast::UnquotedString;
use fastobo::ast::Xref;
use fastobo::ast::XrefList;
use fastobo::ast::RelationIdent;
use fastobo::ast::PrefixedIdent;
use fastobo::ast::SubsetIdent;
use fastobo::ast::InstanceIdent;
use fastobo::ast::PropertyValue;
use fastobo::ast::Url;
use fastobo::semantics::Identified;
use fastobo::semantics::Orderable;

use crate::constants::property::dc;
use crate::constants::property::iao;
use crate::constants::property::obo_in_owl;
use crate::constants::property::rdfs;
use crate::error::Result;
use crate::model::Graph;
use crate::model::Meta;
use crate::model::Node;
use crate::model::NodeType;
use crate::model::BasicPropertyValue;
use crate::model::DefinitionPropertyValue;
use crate::model::SynonymPropertyValue;
use crate::model::XrefPropertyValue;

use super::Context;
use super::IntoGraphCtx;

impl IntoGraphCtx<Meta> for HeaderFrame {
    fn into_graph_ctx(self, ctx: &mut Context) -> Result<Meta> {
        use fastobo::ast::HeaderClause::*;

        let mut definition = None;
        let mut comments = Vec::new();
        let mut subsets = Vec::new();
        let mut xrefs = Vec::new();
        let mut synonyms = Vec::new();
        let mut basic_property_values = Vec::new();
        let mut version = None;
        let mut deprecated = false;

        for clause in self.into_iter() {
            match clause {
                FormatVersion(v) => {
                    basic_property_values.push(
                        BasicPropertyValue::new(
                            obo_in_owl::HAS_OBO_FORMAT_VERSION.to_string(),
                            v.into_string(),
                        )
                    );
                },
                DataVersion(v) => {
                    // FIXME: use OBO URL instead of OBO short name ?
                    version = Some(v.into_string());
                },
                Date(dt) => {
                    basic_property_values.push(
                        BasicPropertyValue::new(
                            obo_in_owl::HAS_DATE.to_string(),
                            dt.to_string(),
                        )
                    );
                },
                SavedBy(name) => {
                    basic_property_values.push(
                        BasicPropertyValue::new(
                            obo_in_owl::SAVED_BY.to_string(),
                            name.into_string(),
                        )
                    );
                },
                AutoGeneratedBy(name) => {
                    basic_property_values.push(
                        BasicPropertyValue::new(
                            obo_in_owl::AUTO_GENERATED_BY.to_string(),
                            name.into_string(),
                        )
                    );
                },
                // NB: Import processed in the header: all imports are merged
                // together as separate graphs into the same graph document.
                Import(import) => (),
                Subsetdef(id, def) => {
                    subsets.push(id.to_string());
                },
                // FIXME: declare a new entity.
                SynonymTypedef(ty, def, optscope) => (),
                DefaultNamespace(ns) => {
                    basic_property_values.push(
                        BasicPropertyValue::new(
                            obo_in_owl::HAS_DEFAULT_NAMESPACE.to_string(),
                            ns.to_string(),
                        )
                    );
                },
                NamespaceIdRule(idrule) => {
                    basic_property_values.push(
                        BasicPropertyValue::new(
                            obo_in_owl::NAMESPACE_ID_RULE.to_string(),
                            idrule.into_string(),
                        )
                    );
                },
                Idspace(prefix, url, optdef) => (),
                TreatXrefsAsEquivalent(prefix) => (),
                TreatXrefsAsGenusDifferentia(prefix, rid, cid) => (),
                TreatXrefsAsReverseGenusDifferentia(prefix, rid, cid) => (),
                TreatXrefsAsRelationship(prefix, rid) => (),
                TreatXrefsAsIsA(prefix) => (),
                TreatXrefsAsHasSubclass(prefix) => (),
                PropertyValue(pv) => {
                    basic_property_values.push(pv.into_graph_ctx(ctx)?);
                },
                Remark(remark) => {
                    comments.push(remark.into_string());
                },
                Ontology(ontology) => (),
                OwlAxioms(axioms) => (),
                Unreserved(key, value) => (),
            }
        }

        Ok(Meta {
            definition,
            comments,
            subsets,
            xrefs,
            synonyms,
            basic_property_values,
            version,
            deprecated,
        })
    }
}