I figured out what was going wrong.   Figure I'll share for posterity.

I found the following in the toolshed webapp log: "Not trusting file 
/galaxy-dist/database/community_files/000/repo_4/.hg/hgrc from untrusted user 
x, group x".  Turns out this is usually caused when user invoking hg isn't the 
same user that owns the repo.  Sure enough for some reason my startup script 
was running .run_toolshed.sh as a root.  Fixed that and everything's working 

From: <Stewart>, Andrew Stewart <stewa...@si.edu<mailto:stewa...@si.edu>>
Date: Monday, October 21, 2013 11:55 PM
To: "galaxy-dev@lists.bx.psu.edu<mailto:galaxy-dev@lists.bx.psu.edu>" 
Subject: No "Upload files to repository" button

No "Upload files to repository" button after creating repository in self-hosted 

screenshot: http://imgur.com/AlQB1jL

Any ideas what could be wrong?

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