wiki:rstat:rparale
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| + | ====== Parallel R using foreach ====== | ||
| + | \\ | ||
| + | Material prepared by Stephen Weston\\ | ||
| + | \\ | ||
| + | The object of the exercise is to calculate the Moran's I index (using R) inside the polygons of the poly\_fr\_10poly.shp shape file.\\ | ||
| + | \\ | ||
| + | http://www.spatial-ecology.net/ost4sem/lecture/pr.pdf | ||
| + | \\ | ||
| + | https://cran.r-project.org/web/packages/foreach/vignettes/foreach.pdf | ||
| + | |||
| + | \\ | ||
| + | \\ | ||
| + | {{:wiki:rstat:10poly.png?400|}} | ||
| + | \\ | ||
| + | for this exercise you can enter in this directory | ||
| + | |||
| + | cd /home/user/ost4sem/exercise/basic_adv_gdalogr/ | ||
| + | and download this scripts | ||
| + | wget https://raw.githubusercontent.com/selvaje/spatial-ecology-codes/master/wiki/R/moran_par1.R | ||
| + | wget https://raw.githubusercontent.com/selvaje/spatial-ecology-codes/master/wiki/R/moran_par2.R | ||
| + | wget https://raw.githubusercontent.com/selvaje/spatial-ecology-codes/master/wiki/R/moran_par3.R | ||
| + | wget https://raw.githubusercontent.com/selvaje/spatial-ecology-codes/master/wiki/R/moran_par4.R | ||
| + | wget https://raw.githubusercontent.com/selvaje/spatial-ecology-codes/master/wiki/R/moran_seq1.R | ||
| + | wget https://raw.githubusercontent.com/selvaje/spatial-ecology-codes/master/wiki/R/moran_seq2.R | ||
| + | \\ | ||
| + | cd /home/user/ost4sem/exercise/basic_adv_gdalogr/fagus_sylvatica/*10poly.* /home/user/ost4sem/exercise/basic_adv_gdalogr/ | ||
| + | \\ | ||
| + | |||
| + | === Sequential for loop === | ||
| + | |||
| + | {{gh> https://github.com/selvaje/spatial-ecology-codes/blob/master/wiki/R/moran_seq1.R}} | ||
| + | === Insert the xy crop in the Sequential for loop. The mask command now is performed on smaller raster dataset === | ||
| + | {{gh> https://github.com/selvaje/spatial-ecology-codes/blob/master/wiki/R/moran_seq2.R}} | ||
| + | === Foreach loop that "sends" the full shape file and the full raster to the workers === | ||
| + | {{gh> https://github.com/selvaje/spatial-ecology-codes/blob/master/wiki/R/moran_par1.R}} | ||
| + | === Foreach loop that "sends" only one polygon per task and the full raster to the workers === | ||
| + | {{gh> https://github.com/selvaje/spatial-ecology-codes/blob/master/wiki/R/moran_par2.R}} | ||
| + | === Foreach loop that "sends" a chunk of polygons and the full raster to the workers === | ||
| + | {{gh> https://github.com/selvaje/spatial-ecology-codes/blob/master/wiki/R/moran_par3.R}} | ||
| + | === Identify polygon groups, using the centroid in kmean cluster === | ||
| + | Foreach loop that "sends" polygons that belong to the same cluster and a cropped raster (rasterDp) to the workers | ||
| + | {{gh> https://github.com/selvaje/spatial-ecology-codes/blob/master/wiki/R/moran_par4.R}} | ||
| + | |||
wiki/rstat/rparale.txt ยท Last modified: 2019/04/05 20:22 (external edit)
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