source: java/main/src/main/java/com/framsticks/examples/GenotypeBrowser.java @ 85

package com.framsticks.examples;

import com.framsticks.core.Instance;
import com.framsticks.core.Node;
import com.framsticks.dumping.PrintWriterSink;
import com.framsticks.model.*;
import com.framsticks.model.Package;
import com.framsticks.params.*;
import com.framsticks.parsers.F0Parser;
import com.framsticks.parsers.F0Writer;
import com.framsticks.parsers.Schema;

import org.apache.commons.configuration.Configuration;
import org.apache.log4j.Logger;

import java.io.PrintWriter;
import java.io.StringWriter;
import java.util.List;

/**
 * Author: Piotr Śniegowski
 */
public class GenotypeBrowser extends Instance {

        private static final Logger log = Logger
                        .getLogger(Instance.class.getName());
        protected Schema schema;

        public GenotypeBrowser() {
                log.info("model builder created");
        }

        @Override
        public void configure(Configuration config) {
                super.configure(config);
                try {
                        schema = new Schema(Schema.getDefaultDefinitionAsStream());
                } catch (Exception e) {
                        log.error("failed to load schema: " + e);
                }
                this.registry = schema.getRegistry();
                Package.register(this.getRegistry());

                registry.putInfoIntoCache(new FramsClass("ModelBuilderRoot", "ModelBuilderRoot", null)
                                .append(Param.build().type("o Model").id("model").name("model"))
                                .append(Param.build().type("s 1").id("genotype").name("genotype"))
                );
                root = new Node((CompositeParam)Param.build().type("o ModelBuilderRoot").id(name).name("Instance").finish(), PropertiesAccess.createPropertiesMap());
        }

        @Override
        protected void run() {
                assert isActive();

                try {
                        List<AccessInterface> accesses = new F0Parser(schema, GenotypeBrowser.class.getResourceAsStream("/examples/f0_example.txt")).parse();
                        List<Object> objects = Util.stripAccessInterface(accesses);
                        Model model = Model.build(objects);

                        AccessInterface rootAccess = bindAccess(this.getRootPath());

                        rootAccess.set("model", model);

                        StringWriter w = new StringWriter();
                        new F0Writer(schema, model, new PrintWriterSink(new PrintWriter(w))).write();
                        rootAccess.set("genotype", w.getBuffer().toString());

                } catch (Exception e) {
                        log.error("exception caught: " + e);
                }
                //done();
        }

}