Package org.openbel.framework.api

Examples of org.openbel.framework.api.Kam.findNode()

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        Set<Entry<KamNode, KamNode>> set = collapsed.entrySet();
        for (Entry<KamNode, KamNode> e : set) {
            KamNode collapsing = e.getKey();
            KamNode collapseTo = e.getValue();

            collapsing = kam.findNode(collapsing.getId());
            collapseTo = kam.findNode(collapseTo.getId());
            kamstore.collapseKamNode(info, collapsing, collapseTo);
        }

        // remove orthologous edges/statements
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        for (Entry<KamNode, KamNode> e : set) {
            KamNode collapsing = e.getKey();
            KamNode collapseTo = e.getValue();

            collapsing = kam.findNode(collapsing.getId());
            collapseTo = kam.findNode(collapseTo.getId());
            kamstore.collapseKamNode(info, collapsing, collapseTo);
        }

        // remove orthologous edges/statements
        kamstore.removeKamEdges(info, ORTHOLOGOUS);
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