rename manifest.xml before running rosdep

rosdep confuses manifest.xml and package.xml.
this is a solution to solve that problem by renaming manifest.xml.

* rename manifest.xml before running rosdep
* rename those files to manifest.xml again after running rosdep
* run rosdep also with manifest.xml
* run rosdep with -i option to ignore packages which included in source code

this PR solves the following tickets:
* https://github.com/jsk-ros-pkg/jsk_visualization/issues/5
* https://github.com/jsk-ros-pkg/jsk_roseus/issues/3
* https://github.com/jsk-ros-pkg/jsk_common/issues/310