Examples of ParameterTable


Examples of org.openbel.framework.common.protonetwork.model.ParameterTable

        // An initial capacity would be ideal for this set, but we don't
        // have any reasonable estimations.
        ret = new HashSet<TableEntry>();

        // Establish access to the relevant table objects
        final ParameterTable paramTbl = pn.getParameterTable();
        final TermTable termTbl = pn.getTermTable();
        final List<String> terms = termTbl.getTermValues();
        final NamespaceTable nsTbl = pn.getNamespaceTable();

        final int[][] indata = pn.getTermIndices();

        final Set<String> literalSet = constrainedHashSet(literals.length);
        for (final String s : literals) {
            literalSet.add(s);
        }

        // Search indata for elements of the term literal set
        for (int i = 0; i < indata.length; i++) {
            int tid = indata[i][TERM_INDEX];
            String string = terms.get(tid);
            if (!literalSet.contains(string)) {
                continue;
            }

            int pid = indata[i][PARAM_INDEX];
            final TableParameter tp = paramTbl.getTableParameter(pid);

            final String inval = tp.getValue();
            int nid = indata[i][NAMESPACE_INDEX];

            final TableNamespace tns = nsTbl.getTableNamespace(nid);
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Examples of org.openbel.framework.common.protonetwork.model.ParameterTable

        //          continue (orthologous statement intersects the proto network)

        // 1. Map parameter UUIDs to containing term ids in the proto network
        final TermTable tt = pn.getTermTable();
        final TermParameterMapTable tpmt = pn.getTermParameterMapTable();
        final ParameterTable pt = pn.getParameterTable();
        final Map<Integer, Integer> pglob = pt.getGlobalIndex();
        final Map<Integer, SkinnyUUID> puuid = pt.getGlobalUUIDs();
        final Set<Integer> tidset = tt.getIndexedTerms().keySet();
        final Map<SkinnyUUID, Set<Integer>> uuidterms = sizedHashMap(puuid
                .size());
        final Set<Term> pnterms = new HashSet<Term>(tt.getVisitedTerms().keySet());
        // for each term
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