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  • Are your mangroves and extent in the same spatial reference? Normally ogr2ogr with -clipsrc is extremely fast (even faster than Esri) which makes me think that there's a warp going on.. On scripting in python, have a look at subprocess.Popen to run a command line tool from python (and then process.wait() to wait for the command to finish before executing the next one) Commented Jun 17, 2015 at 1:05
  • Sure my both shapefiles are in the same crs. It works with QGIS (vector > geoprocessing tools > clip), in less than 30s. Commented Jun 17, 2015 at 16:37
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    The subprocess works when I am trying a different random shapefile, containing only 1 polygon in the attribute table however, to clip (different from the mangroves' one) Eventually, after letting the script run yesterday evening, the result is there, but it took 3,7 hours (I used time() to check). I also tried just the command line I posted in my first message, and I have the same result than with subprocess in python. But it is as long as with the python script, I'll give a try with popen but if it takes the same time in pure command line than in python, it should not change anything... Commented Jun 17, 2015 at 16:47