Merge Two XML Files in Java

I have two XML files of similar structure which I wish to merge into one file. Currently I am using EL4J XML Merge which I came across in this tutorial. However it does not merge as I expect it to for instances the main problem is its not merging the from both files into one element aka one that contains 1, 2, 3 and 4. Instead it just discards either 1 and 2 or 3 and 4 depending on which file is merged first.

So I would be grateful to anyone who has experience with XML Merge if they could tell me what I might be doing wrong or alternatively does anyone know of a good XML API for Java that would be capable of merging the files as I require?

Many Thanks for Your Help in Advance

Edit:

Could really do with some good suggestions on doing this so added a bounty. I've tried jdigital's suggestion but still having issues with XML merge.

Below is a sample of the type of structure of XML files that I am trying to merge.

<run xmloutputversion="1.02">
    <info type="a" />
    <debugging level="0" />
    <host starttime="1237144741" endtime="1237144751">
        <status state="up" reason="somereason"/>
        <something avalue="test" test="alpha" />
        <target>
            <system name="computer" />
        </target>
        <results>
            <result id="1">
                <state value="test" />
                <service value="gamma" />
            </result>
            <result id="2">
                <state value="test4" />
                <service value="gamma4" />
            </result>
        </results>
        <times something="0" />
    </host>
    <runstats>
        <finished time="1237144751" timestr="Sun Mar 15 19:19:11 2009"/>
        <result total="0" /&g