I'm a relative novice at Galaxy administration, but at first blush it looks
like you're missing (or the Galaxy user doesn't have permissions on) the
paste process. You can try a GIT status or diff to see if something just
didn't download right. Otherwise, check to make sure that your entire
galaxy install directory is owned by the Galaxy user and the group that the
Galaxy user belongs to.
Hope this helps!
Scott B. Szakonyi
*Center for Research Computing*
107 Information Technology Center
Notre Dame, IN 46556
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