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In my opinion, ezknitr does a bit too much:
At the moment, ezknitr always generates HTML output via markdown::markdownToHTML. I’d argue that this shouldn’t happen by default (it’s fundamentally a separate concern from knitting a file). However, such a change would break backwards compatibility.
At the very least it should be optional though, because the user (= yours truly) may want to have more control over how the HTML is generated (or, indeed, not generate any HTML output at all). The only recourse at the moment is to delete the generated HTML and re-generate it differently, a wasteful process.
The same, to a lesser extent, is true for the generation of an .md file (when the user calls ezspin).
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