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Supporting or switching to MultiMarkdown would take care of a few of the outstanding feature requests. Quoting from the MultiMarkdown site:
>MultiMarkdown is a modification of John Gruber's original Markdown.pl file. It uses the same basic syntax, with several additions:
> 1. I have added a basic metadata feature, to allow the inclusion of
> metadata within a document that can be used in different ways based
> on the output format.
> 2. I have allowed the automatic use of cross-references within a Markdown
> document. For instance, you can easily jump to
> [the Introduction][Introduction].
> 3. I have incorporated John's proposed syntax for footnotes. Since he
> has not determined the output format, I created my own. Mainly, I
> wanted to be able to add footnotes to the LaTeX output; I was less
> concerned with the XHTML formatting.
> 4. Most importantly, however, I have changed the way that the processed
> output is created, so that it is quite simple to export Markdown syntax
> to a variety of outputs. By setting the `Format` metadata to `complete`,
> you generate a well-formed XHTML page. You can then use XSLT to convert
> to virtually any format you like.
MultiMarkdown would solve the BibTex request and the multiple output formats would make the print_link request an easy fix. MultiMarkdown is actively developed and can be found at:
[MultiMarkdown Homepage](http://fletcher.freeshell.org/wiki/MultiMarkdown)
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