ABOVE/post_pro_logging_smooth.py at master · shijuanchen/ABOVE · GitHub

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# This script improve the change map for agriculture area.

from osgeo import gdal, gdal_array, osr, ogr
import numpy as np
import logging
import click
from scipy import stats
logger = logging.getLogger('post_pro_agr')
fill = -32767

def post_process_logging_smooth(tile_name, combine_folder, output_folder, window_size):

    year_avail = np.arange(2006, 2007, dtype=np.int16)
    nrows=6000
    ncols=6000

    for year in year_avail:

        cc_file = combine_folder+'/'+tile_name+'_FF_FN_NF_NN_' + str(year) + '_cl_5' +'.tif'
        cc_ds = gdal.Open(cc_file)
        cc_raster = cc_ds.ReadAsArray()
        cc_array = np.array(cc_raster)

        map_array = np.ones((nrows, ncols, 1), dtype=np.int16) * fill
        n = int(window_size)
        k = int((n-1)/2)

        #preserve the border
        map_array[0:k+1,:, 0] = cc_array[0:k+1, :]
        map_array[:,0:k+1, 0] = cc_array[:, 0:k+1]
        map_array[nrows-k:nrows,:,0] = cc_array[nrows-k:nrows, :]
        map_array[:, nrows-k:nrows,0] = cc_array[:, nrows-k:nrows]

        for i in np.arange(k, nrows-k):
            for j in np.arange(k,ncols-k):
                cc = int(cc_array[i, j])
                map_array[i, j, 0] = cc
                if cc==1 or cc==2 or cc==19 or cc==5:
                    window = np.array(cc_array[i-k:i+k+1, j-k:j+k+1])
                    window = np.reshape(window, n * n)
                    cc_win = []
                    cc_num = 0
                    logging_num = 0
                    for pix in window:
                        pix = int(pix)
                        if pix != fill :
                            cc_num += 1
                            if pix == 3:
                                logging_num += 1
                    if logging_num > (cc_num/2):
                        map_array[i, j, 0] = 3
                else:
                    map_array[i, j, 0] = cc

        outfile = output_folder+'/'+tile_name+'_FF_FN_NF_NN_' + str(year) +'_cl_' + str(window_size) + '.tif'

        img_file = gdal.Open(cc_file)
        geo_info = img_file.GetGeoTransform()
        ulx = geo_info[0]
        pix_x = geo_info[1]
        uly = geo_info[3]
        pix_y = geo_info[5]
        cols = img_file.RasterXSize
        rows = img_file.RasterYSize
        proj_info = img_file.GetProjection()
        grid_info = {'nrows':rows, 'ncols':cols, 'projection':proj_info,
                     'ulx':ulx, 'pix_x':pix_x, 'uly':uly, 'pix_y':pix_y}
        gdal_frmt = 'GTiff'
        write_output(map_array, outfile, grid_info, gdal_frmt, band_names=None, ndv=fill)

# MAPPING UTILITIES
def write_output(raster, output, grid_info, gdal_frmt, band_names=None, ndv=fill):
    """ Write raster to output file """


    logger.debug('Writing output to disk')
    driver = gdal.GetDriverByName(str(gdal_frmt))

    if len(raster.shape) > 2:
        nband = raster.shape[2]
    else:
        nband = 1

    ds = driver.Create(
        output,
        grid_info['ncols'], grid_info['nrows'], nband,
        gdal_array.NumericTypeCodeToGDALTypeCode(raster.dtype.type)
    )

    if band_names is not None:
        if len(band_names) != nband:
            logger.error('Did not get enough names for all bands')
            sys.exit(1)

    if raster.ndim > 2:
        for b in range(nband):
            logger.debug('    writing band {b}'.format(b=b + 1))
            ds.GetRasterBand(b + 1).WriteArray(raster[:, :, b])
            ds.GetRasterBand(b + 1).SetNoDataValue(ndv)

            if band_names is not None:
                ds.GetRasterBand(b + 1).SetDescription(band_names[b])
                ds.GetRasterBand(b + 1).SetMetadata({
                    'band_{i}'.format(i=b + 1): band_names[b]
                })
    else:
        logger.debug('    writing band')
        ds.GetRasterBand(1).WriteArray(raster)
        ds.GetRasterBand(1).SetNoDataValue(ndv)

        if band_names is not None:
            ds.GetRasterBand(1).SetDescription(band_names[0])
            ds.GetRasterBand(1).SetMetadata({'band_1': band_names[0]})
    #print(grid_info["projection"])
    ds.SetProjection(grid_info["projection"])
    ## the geo transform goes - ulx, pix_x(w-e pixel resolution), easting, uly, northing, pix_y(n-s pixel resolution, negative value)
    ds.SetGeoTransform((grid_info["ulx"],grid_info["pix_x"],0,
                        grid_info["uly"],0,grid_info["pix_y"]))

    ds = None

@click.command()
@click.option('--tile_name', default='Bh04v06', help='Name of the tile, for example: Bh04v06')
@click.option('--window_size', default='5', help='window size of fire filter')
def main(tile_name, window_size):
    #combine_folder = r'/projectnb/landsat/projects/ABOVE/CCDC/{0}/out_classes'.format(tile_name)
    combine_folder = r'/projectnb/landsat/users/shijuan/above/post_process/fire_filtering/{0}'.format(tile_name)
    output_folder = r'/projectnb/landsat/users/shijuan/above/post_process/logging_smooth/{0}'.format(tile_name)
    post_process_logging_smooth(tile_name, combine_folder, output_folder, window_size)

main()