Just a reminder that providing specifics on, sharing links to, or naming websites where ROMs can be accessed is against the rules. If your post has any of this information it will be removed.
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I no longer develop this tool since it's quite old and I can no longer actively test it (since I run Linux now). However, I'll still answer your question. The Pokemon number is the internal Pokemon id. As of now though, it will not properly work with Hoenn pokemon.