Integrating all needed config files into the container's file system

[profgrumpy]

When using
./run.sh up something file:///home/username/myconfig.params

We need to make sure all the *.params files referred to from inside this param file (and others) are available from inside the container in /app/DATA.out/. This way, we can refer to them with file:///app/DATA.out/nameoffile.params

Right now, we need to drop the other config files, like s19.preset, sp19.ecj.params, and sp19.pre.params by hand into the folder shared between the container and the host.

We can improve things by modifying run.sh so that, when we detect that the argument to the script is a local file, then we parse them all recursively and copy all files referred to by a file:// URI into the container's file system, under /app/