Thank you! I will backslash the colons in the file as a fix for now.  - 
Robert.

On Sunday, August 6, 2017 at 12:02:43 PM UTC-4, John MacFarlane wrote:
>
> Thanks (and apologies if I missed the files before). 
>
> Simple repro here: 
>
> ``` 
> hi[^fn3] 
>
> [^fn3]: [@Alhazen1572-qk, V.9]: "competentius est et rationabilius, ut 
> appareat supra perpendiculum, quam extra eam." 
> ``` 
>
> This yields an empty footnote.  Why?  Because the footnote 
> contains: 
>
> ``` 
> [@Alhazen1572-qk, V.9]: "competentius est et rationabilius, ut appareat 
> supra perpendiculum, quam extra eam." 
> ``` 
>
> which pandoc is parsing as a reference link definition! 
>
> Perhaps pandoc should not allow reference link definitions 
> that start with `@`, since these conflict with citations? 
> Anyone have thoughts about this?  Someone should probably 
> put an issue on the bug tracker for this. 
>
> In the mean time, a workaround is to backslash-escape the 
> colon: 
>
>     [@Alhazen1572-qk, V.9]\: "competentius... 
>
>
>

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