Check out this nice tutorial from Tim Sutton about clipping a raster using GDAL

http://linfiniti.com/2009/09/clipping-rasters-with-gdal-using-polygons/

At the last stage, you may want to pass the "-dstalpha" option to the gdalwarp 
command to make the rest of the raster transparent.

Regards,

Edward

Date: Wed, 13 Jul 2011 12:16:40 +0400
From: [email protected]
To: [email protected]
Subject: [Geoserver-users] How to mask a raster layer?

Hi list!
I've got a raster layer, which represents global temperature. I want to display 
it only within a certain region. Is it possible to send a parameter to a server 
(like a bbox, or a cql), which will tell it to render only within a polygon? 
For vector layers I can use cross-layer cql filter in WMS request, but what to 
do with a raster?
Cheers

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