BUG: Transposition of the confusion matrix to correctly compute parameters like precisions and recalls. Add a new test with baseline

TEST: Add a SQL request to REPACK the shapefile after stitching. This removes the shapes marked as deleted in the dbf file.

ENH: improve the progress reporting function to be compatible with GDAL API C and avoid windows segfault

ENH: change progress reporting of the overviews building to avoid segfault with win arch: use gdal progress reporting