I had errors similar to yours when I first tried to install/create a 7dtd server. Just like you I installed steamcmd and other stuff manually which, at least in my case, broke tons of dependencies, set the wrong folder permissions and so on. I ended up doing a clean reinstall of everything using only the scripts provided by Alloc; worked like a charm and was done in ten minutes, so if it is possible for you I would advise you to simple do a clean reinstall.