Issues with apps/Readme.md instructions

From mironov:

> I am trying to follow instructions in readme.md. First, it seems that the permissions for script (.sh) files are not set to executable. Second, there seem to be some path problems - after I got to http://0.0.0.0:6789, which launches fine and click on "Choose file", the R script fails with  "cannot open file 'analysis/R/util.R': No such file or directory"
