Check out this solution:
http://kitchingroup.cheme.cmu.edu/blog/2015/01/04/Redirecting-stderr-in-org-mode-shell-blocks/
I think it does what you want, and uses the idea below.
Samuel Wales <samolog...@gmail.com> writes:
> hi karl,
>
> i always wrap as follows and it works for me.
>
> {
> your code
> } 2>&1
> :
>
> the : eliminates fancy error handling. i find that much less confusing.
>
>
> samuel
--
-----------------------------------
John Kitchin
Professor
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http://kitchingroup.cheme.cmu.edu
