Add ~/.node_modules to dependency_dirs

Previously the symlink from ~/.node_modules to
app-root/runtime/dependencies/nodejs/node_modules was created in the
install script - move it to managed_files.yml so we don't need to do it
in bash.
Disallow 'gear deploy' if deployment type is binary

Bug 1023512
Merge pull request #3996 from ncdc/fix-nodejs-managed-files

Merged by openshift-bot
Merge pull request #4000 from ncdc/bz1023512

Merged by openshift-bot