Remove intermediate copy and use of temporary files

[thom4parisot]

By relying on archiver.glob method, we
can achieve a copy of fine tuned elements contained in the manifest.json folder.

It enables us to:

1. get rid of temp and wrench
2. save an initial time and i/o operations to copy the initial files in a temp directory
3. copy directly files in a streamed way, with a lower memory impact

It also enables us to:

1. deprecate the undocumented .writeFile() method
2. deprecate the use of .pack(buffer)

closes #59
refs #57
refs #55
refs #41