SystematicNameFormatTag.java

package org.genedb.web.tags.misc;

import java.io.IOException;

import javax.servlet.jsp.JspException;
import javax.servlet.jsp.JspWriter;
import javax.servlet.jsp.tagext.SimpleTagSupport;
/**
 * Tag to Re-format the systematic name to remove the :pep or :mRNA suffix if found in the Systematic Name
 * @author LOke
 *
 */
public class SystematicNameFormatTag extends SimpleTagSupport {

    private String name;

    public String getName() {
        return name;
    }

    public void setName(String name) {
        this.name = name;
    }

    @Override
    public void doTag() throws JspException, IOException {
        JspWriter out = getJspContext().getOut();
        String[] suffixes = {":pep", ":mRNA", ":pseudogenic_transcript", ":rRNA", ":snRNA", ":snoRNA", ":tRNA"};
        name = removeSuffixes(name, suffixes);
        out.print(name);
    }

    private String removeSuffixes(String name, String suffixes[]){
        for(int i=0; i<suffixes.length; ++i){
            if (name.toLowerCase().endsWith(suffixes[i].toLowerCase())){
                int removeIndex = name.toLowerCase().indexOf(suffixes[i].toLowerCase());
                return name.substring(0, removeIndex);
            }
        }
        return name;
    }
}