But when I try to upload a SMALL BAM file (~5 MB), it just hangs there and never completes...

When I look at the error.log I see the following error message:

2011/12/09 19:27:32 [error] 929#0: *1204 client intended to send too large body: 4719398 bytes, client: 173.195.189.92, server: localhost, request: "POST /tool_runner/index HTTP/1.1", host: "ec2-50-17-113-5.compute-1.amazonaws.com", referrer: "http://ec2-50-17-113-5.compute-1.amazonaws.com/tool_runner?tool_id=upload1"

It seems to have a problem with the size of the body...

Anyone have an idea how to fix this?

I am using ami-da58aab3