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## What steps will reproduce the problem?
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install the latest linux snapshot of git-annex (http://downloads.kitenet.net/git-annex/linux/3.20121127/git-annex-standalone-amd64.tar.gz)
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## What is the expected output? What do you see instead?
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I would expect `~/.config/git-annex/program` to contain `/home/thedward/tmp/git-annex.linux/runshell`
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Instead it contains `/home/thedward/tmp/git-annex.linuxrunshell`, which causes a problem next time I start the webapp (unless I manually fix it first).
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## What version of git-annex are you using? On what operating system?
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git-annex=3.20121127 on Ubuntu 12.04 LTS
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## Please provide any additional information below.
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Otherwise it is working great.
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