It looks like Zend Studio 9 "Remote Server Support" tool just ignores folders, beginning with a dot. And I hadn't found I it's possible to change this behavior.
Example:
Suppose we've got the following set of files on a local Win7 x64 machine:
a/
b/
b_file1
.c1/
c_file1
Create a "PHP Project from existing directory" (directory = "a")
Set up the connection (in Project properties -> Remote Server Support)
Agree to upload data to the server.
Results:
Question:
How do I upload c_file and .c1 folder too?
PS:
Just in case my description wasn't accurate enough, here's 3.5 minutes long screenvideo (exactly the same as "Example" above).
I've found a couple of ways to sync this folders anyway, regardless of "Remote Server Support"