Getting FileSystemNotFoundException from ZipFileSystemProvider when creating a path to a resource

You need to create the file system before you can access the path within the zip like

final URI uri = getClass().getResource("/my-folder").toURI();
Map<String, String> env = new HashMap<>(); 
env.put("create", "true");
FileSystem zipfs = FileSystems.newFileSystem(uri, env);
Path myFolderPath = Paths.get(uri);

This is not done automatically.

See http://docs.oracle.com/javase/7/docs/technotes/guides/io/fsp/zipfilesystemprovider.html