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Hi,
If you want to use the latest pcl 1.4, download the perception_pcl_unstable package to your ros_workspace so that its looked on top of the perception_pcl path. So in that case the pcl 1.4 will be used in all your compilation. Use the following command to download the package onto the workspace.
svn co https://svn.pointclouds.org/ros/trunk/perception_pcl_unstable perception_pcl_unstable
This is what i did and it worked
Hope this helps,
Karthik