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I know this answer might be a little late but since your question is referenced. I Think it might help other peoples.

I've had the same problem has you and I found the solution.

You have to make sure that all GStreamer dependencies are installed

i found missing dependencies by typing the following command :

apt-file find gstreamer-video

if you don't have apt-file you can install it with

sudo apt-get install apt-file

it returned the following :

libgstreamer-plugins-base1.0-dev: /usr/lib/x86_64-linux-gnu/pkgconfig/gstreamer-video-1.0.pc

so that i deduced that i had to install libgstreamer-plugins-base1.0-dev.

the following command has all the missing dependencies for my configuration :

apt-get install libgstreamer-plugins-bad1.0-0 libgstreamer-plugins-base1.0-0 libgstreamer-plugins-base1.0-0-dev libgstreamer1.0 libgstreamer1.0dev libgstreamer-plugins-base1.0-dev libgtk-3-dev

Then when i try to build with the following command

cmake -D CMAKE_BUILD_TYPE=Release -D CMAKE_INSTALL_PREFIX=/usr/local -D OPENCV_EXTRA_MODULES_PATH=../../opencv_contrib/modules -D WITH_GSTREAMER=ON ..

I've got the following output :

--     GStreamer:                   
--       base:                      YES (ver 1.4.4)
--       video:                     YES (ver 1.4.4)
--       app:                       YES (ver 1.4.4)
--       riff:                      YES (ver 1.4.4)
--       pbutils:                   YES (ver 1.4.4)

I hope this will help some people.