def write_las_file(self):
""" Create and write a new lidar file with the desirable points
"""
if self.surfaces:
self.out_full_path = os.path.join(
self.out_dir,
('Surfaces_' + self.templates_dict['las'].format(self.name)))
elif self.terrain:
self.out_full_path = os.path.join(
self.out_dir,
('Terrain_' + self.templates_dict['las'].format(self.name)))
out_file = File(self.out_full_path,
mode='w',
header=self.in_file.header)
if self.terrain:
class_2_points, class_2_bool = self.get_points_by_class(
self.class_flag)
out_file.points = self.in_file.points[class_2_bool]
elif self.surfaces:
out_file.points = self.in_file.points[self.in_file.return_num == 1]
out_file.close()
def do_hm(target_tile_path):
# load tile for matching
target_tile_name = target_tile_path.stem + target_tile_path.suffix
try:
target_tile = File(target_tile_path, mode='r') # this can take some time
# use global to get the info, apologize to programming teachers
global ref_tile
global ky_lidar_fix_path
# match histograms
new_dist = hist_match(target_tile.intensity, ref_tile.intensity)
# apply transformation
new_tile_path = ky_lidar_fix_path / target_tile_name
new_tile = File(new_tile_path, mode='w', header=target_tile.header)
new_tile.points = target_tile.points
new_tile.intensity = new_dist
new_tile.close()
return (True, new_tile_path)
except:
# if we can't load the file, that's a big problem, but it seems to happen
# sometimes.
return (False, target_tile_path)
def write(self):
output = self.configs["paths"]["output"]
points = np.array(self.points, dtype=self.dtype)
#print self.header
outfile = File(output + self.filename, mode="w", header=self.header)
outfile.points = points
outfile.close()
def write_las_file(self):
""" Create and write a new lidar file with the desirable points
"""
self.dirs.set_output_dir()
full_path = self.dirs.out_paths['las_terrain']
self.dirs.create_dir(self.dirs.out_dirs['las'])
out_file = File(full_path, mode='w', header=self.in_file.header)
class_2_points, class_2_bool = self.get_points_by_class(
self.class_flag)
out_file.points = self.in_file.points[class_2_bool]
out_file.close()
def z_adjustData(tile, source_data,target_data,filetype,outputfolder):
tilename = tile.name
source_tile = os.path.join(source_data, '{0}.{1}'.format(tilename,filetype)).replace('\\','/')
target_tile = os.path.join(target_data, '{0}.{1}'.format(tilename,filetype)).replace('\\','/')
temp_outputfile = os.path.join(outputfolder, '{0}.{1}'.format(tilename,'las')).replace('\\','/')
outputfile = os.path.join(outputfolder, '{0}.{1}'.format(tilename,filetype)).replace('\\','/')
#read the obfuscated tile
sourcefile = File(source_tile, mode='r')
targetfile = File(target_tile, mode='r')
#get z values from source
z_values=sourcefile.get_z_scaled()
outfile = File(temp_outputfile, mode="w", header=targetfile.header)
outfile.points=targetfile.points
#Replace the z values from source file
outfile.set_z_scaled(z_values)
outfile.close()
sourcefile.close()
targetfile.close()
#lascopy all x,y,z,classification based on the corrected gps time
subprocessargs=['C:/LAStools/bin/las2las.exe', '-i', temp_outputfile, '-olaz', '-o', outputfile]
subprocessargs=list(map(str,subprocessargs))
p = subprocess.run(subprocessargs,stdout=subprocess.PIPE, stderr=subprocess.STDOUT, shell=False, check=True, universal_newlines=True)
if os.path.isfile(outputfile):
#read the obfuscated tile
log = f'Z replaced from {source_tile} -> {target_tile}'
os.remove(temp_outputfile)
print(log)
return(True,outputfile,log)
else:
log = f'Failed replacing Z from {source_tile} -> {target_tile}'
#os.remove(temp_outputfile)
print(log)
return(False,None,log)
def get_first_returns_array(self):
# Guardo el archivo para poder leerlo
if self.partials_create:
full_path = self.dirs.out_paths['las_surfaces']
self.dirs.create_dir(self.dirs.out_dirs['las'])
else:
full_path = self.dirs.temp_full_paths['las_surfaces']
self.dirs.create_dir(self.dirs.temp_dirs['temp_dir'])
out_file = File(full_path, mode='w', header=self.in_file.header)
out_file.points = self.in_file.points[
self.in_file.return_num == 1]
out_file.close()
#leo el archivo
in_file = File(full_path, mode='r')
scale = in_file.header.scale
offset = in_file.header.offset
x = in_file.X
y = in_file.Y
z = in_file.Z
x_dimension = x * scale[0] + offset[0]
y_dimension = y * scale[1] + offset[1]
z_dimension = z * scale[-1] + offset[-1]
size = x_dimension.shape[0]
x_array = x_dimension.reshape(size, 1)
y_array = y_dimension.reshape(size, 1)
z_array = z_dimension
# Cerrar archivo para poder eliminarlo
in_file.close()
if not self.partials_create:
self.dirs.remove_temp_file(full_path)
self.dirs.remove_temp_dir(self.dirs.temp_dirs['temp_dir'])
xy_array = np.concatenate((x_array, y_array), axis=1)
self.surfaces_arrays_list = [xy_array, z_array]
def get_points_arrays(self):
""" Creates arrays for a given class (default=2) with the coordinates
of the points classificated by that class flag
"""
# class_flags = 2, 3, 4, 5 para suelo, vegetación baja, media y alta respectivamente
if self.terrain:
class_2_points, class_2_bool = self.get_points_by_class(
self.class_flag)
size = class_2_points.shape[0]
x_array = self.x_dimension[class_2_bool].reshape(size, 1)
y_array = self.y_dimension[class_2_bool].reshape(size, 1)
z_array = self.z_dimension[class_2_bool]
elif self.surfaces:
# Guardo el archivo para poder leerlo
self.out_dir = os.path.join(self.out_path, 'intermediate_results',
'las')
filename = ('Surfaces_' +
self.templates_dict['las'].format(self.name))
full_path = os.path.join(self.out_dir, filename)
self.files_utils.create_dir(self.out_dir)
out_file = File(full_path, mode='w', header=self.in_file.header)
out_file.points = self.in_file.points[self.in_file.return_num == 1]
out_file.close()
#leo el archivo
in_file = File(full_path, mode='r')
scale = in_file.header.scale
offset = in_file.header.offset
x = in_file.X
y = in_file.Y
z = in_file.Z
x_dimension = x * scale[0] + offset[0]
y_dimension = y * scale[1] + offset[1]
z_dimension = z * scale[-1] + offset[-1]
size = x_dimension.shape[0]
x_array = x_dimension.reshape(size, 1)
y_array = y_dimension.reshape(size, 1)
z_array = z_dimension
# Cerrar archivo para poder eliminarlo
in_file.close()
if not self.partials_create:
self.files_utils.remove_temp_file(full_path)
try:
self.files_utils.remove_temp_dir(self.out_dir)
except OSError:
pass
xy_array = np.concatenate((x_array, y_array), axis=1)
self.lidar_arrays_list = [xy_array, z_array]
def obfuscate_data(tile, inputfolder, originx, originy, rotation, xoffset,
yoffset, zoffset, toffset, outputfolder, filetype,
outtilename, buffer):
"""Rotate a point around a given point.
x and y are numpy lists
"""
tilename = tile.name
input_file = os.path.join(outputfolder,
'{0}.{1}'.format(tilename,
filetype)).replace('\\', '/')
buffered_file = os.path.join(outputfolder,
'{0}_buff.laz'.format(tilename)).replace(
'\\', '/')
temp_outputfile = os.path.join(outputfolder,
'{0}.{1}'.format(outtilename,
'las')).replace('\\', '/')
outputfile = os.path.join(outputfolder,
'{0}.{1}'.format(outtilename,
filetype)).replace('\\', '/')
log = ''
try:
neighbours = tile.getneighbours(buffer)
neighbourfiles = []
for fi in neighbours:
nfi = os.path.join(inputfolder,
'{0}.{1}'.format(fi,
filetype)).replace('\\', '/')
if os.path.isfile(nfi):
neighbourfiles.append(nfi)
keep = '-keep_xy {0} {1} {2} {3}'.format(str(tile.xmin - buffer),
str(tile.ymin - buffer),
str(tile.xmax + buffer),
str(tile.ymax + buffer))
keep = keep.split()
subprocessargs = [
'C:/LAStools/bin/las2las.exe', '-i'
] + neighbourfiles + ['-olaz', '-o', buffered_file, '-merged'] + keep
subprocessargs = list(map(str, subprocessargs))
p = subprocess.run(subprocessargs,
stdout=subprocess.PIPE,
stderr=subprocess.STDOUT,
shell=False,
check=True,
universal_newlines=True)
infile = File(buffered_file, mode='r')
xvalues = infile.get_x_scaled()
yvalues = infile.get_y_scaled()
zvalues = infile.get_z_scaled()
tvalues = infile.get_gps_time()
print(
f"\ntilename={tilename:s} xoffset={xoffset:0.4f} yoffset={yoffset:0.4f} zoffset={zoffset:0.4f} rotation={rotation:0.4f} toffset={toffset:0.4f}"
)
#rotate points
xvalues, yvalues = rotate_about_origin(xvalues, yvalues,
math.radians(rotation), originx,
originy)
#print(tilename,xvalues[0],yvalues[0],zvalues[0])
#offset points
newxvals = xvalues + xoffset
newyvals = yvalues + yoffset
newzvals = zvalues + zoffset
newtvals = tvalues + toffset
#print(tilename,newxvals[0],newyvals[0],newzvals[0])
outfile = File(temp_outputfile, mode="w", header=infile.header)
outfile.points = infile.points
outfile.set_x_scaled(newxvals)
outfile.set_y_scaled(newyvals)
outfile.set_z_scaled(newzvals)
outfile.set_gps_time(newtvals)
outfile.close()
infile.close()
subprocessargs = [
'C:/LAStools/bin/las2las.exe', '-i', temp_outputfile, '-olaz',
'-o', outputfile
]
subprocessargs = list(map(str, subprocessargs))
p = subprocess.run(subprocessargs,
stdout=subprocess.PIPE,
stderr=subprocess.STDOUT,
shell=False,
check=True,
universal_newlines=True)
if os.path.isfile(outputfile):
log = f'Succesfully Obfuscated {tilename}'
os.remove(temp_outputfile)
os.remove(buffered_file)
return (True, outputfile, log)
except:
log = f"{tilename} : Obfuscation Failed"
print(log)
#outfile.close()
#infile.close()
return (False, tilename, log)
del res['angle']
del res['raw_classification']
del res['raw_classificationT']
res.columns = ['raw_classification']
# Writing the new las
for row in res.itertuples():
class1_points[row.Index]['point'][
'raw_classification'] = row.raw_classification
point_copy_ori[(inFile1.raw_classification == 1)] = class1_points
#point_copy_ori[(inFile1.raw_classification == 1) | (inFile1.raw_classification == 2) | (inFile1.raw_classification == 5) | (inFile1.raw_classification == 6) | (inFile1.raw_classification == 7)]= class1_points
outFile1 = File(dirout + '\\' + filename,
mode="w",
header=inFile1.header)
outFile1.points = point_copy_ori
outFile1.close()
inFile1.close()
inFile2.close()
update_progress(ci / int(D1))
if eR > 0:
print('Process finnihed :' + str(eR) +
' errors read Comp-result.txt in the source folder')
else:
print('Process finnihed with no errors')
exit(0)
mini = i
# Keeping all points in 0.5 unit distance radius
pos = dataset[index_pos[0][mini]]
distances = np.sum((dataset - pos)**2, axis=1)
keep_points = distances < 0.5
points_kept = inFile.points[keep_points]
print("We're keeping %i points out of %i total in the new AOI point cloud" %
(len(points_kept), len(inFile)))
# Creating a webpage and naming it according to the user_name
trimmedLAS = user_name + '.las'
htmlDOC = user_name + '.html'
outFile = File(trimmedLAS, mode="w", header=inFile.header)
outFile.points = points_kept
outFile.close()
# Creating a text file log of all variables and observations
save_path = 'C:/CrowdData/'
name_of_file = user_name
completeName = save_path + name_of_file + ".txt"
file1 = open(completeName, "w")
toFile = ("\bUser Name:\b \n" + str(user_name) + "\n\bUser Occupation:\b \n" +
str(user_occupation) + "\n\bPoint1 Data:\b0 \n" + str(rc) +
"\n\bPoint2 Data:\b \n" + str(rc2) + "\n\b3D Point1:\b \n" +
str(results[0]) + "\n\b3D Point2:\b \n" + str(results[1]) +
"\n\b3D distance in point cloud:\b \n" + str(dist_3d) +
"\n\bActual distance:\b \n" + str(act_dist) +
"\n\bScaling Factor:\b \n" + str(scl_fct))
file1.write(toFile)
from laspy.file import File
import copy
inFile = File("autzen-dd.las", mode="r")
header = inFile.header
points = copy.deepcopy(inFile.points)
import numpy as np
X = inFile.X
Y = inFile.Y
minx = np.min(X)
miny = np.min(Y)
maxx = np.max(X)
maxy = np.max(Y)
print minx, miny, maxx, maxy
x = ((maxx - minx) / 2.0 + minx) - 1.0 / header.scale[0]
y = (maxy - miny) / 2.0 + miny
print x, y
points[0][0][0] = x
print points[0][0][0]
outfile = File("spurious.las", mode='w', header=header)
outfile.points = points
import pdb
pdb.set_trace()
from laspy.file import File
import copy
inFile = File("autzen-dd.las", mode = "r")
header = inFile.header
points = copy.deepcopy(inFile.points)
import numpy as np
X = inFile.X
Y = inFile.Y
minx = np.min(X)
miny = np.min(Y)
maxx = np.max(X)
maxy = np.max(Y)
print minx, miny, maxx, maxy
x = ((maxx - minx)/2.0 + minx) - 1.0/header.scale[0]
y = (maxy - miny)/2.0 + miny
print x, y
points[0][0][0] = x
print points[0][0][0]
outfile = File("spurious.las", mode='w', header = header)
outfile.points = points
import pdb;pdb.set_trace()
def clarifydata(tile, obfuscated_data, original_data, filetype, outputfolder):
tilename = tile.name
obfuscated_name = tile.params['obfsname']
toffset = tile.params['toffset']
obfuscated_tile = os.path.join(obfuscated_data, '{0}.{1}'.format(
obfuscated_name, filetype)).replace('\\', '/')
ori_tile = os.path.join(original_data,
'{0}.{1}'.format(tilename,
filetype)).replace('\\', '/')
temp_outputfile = os.path.join(outputfolder,
'{0}.{1}'.format(tilename,
'las')).replace('\\', '/')
outputfile = os.path.join(outputfolder,
'{0}.{1}'.format(tilename,
filetype)).replace('\\', '/')
#read the obfuscated tile
infile = File(obfuscated_tile, mode='r')
#get the gps times
tvalues = infile.get_gps_time()
#reset to original times
newtvals = tvalues - toffset
outfile = File(temp_outputfile, mode="w", header=infile.header)
outfile.points = infile.points
outfile.set_gps_time(newtvals)
outfile.close()
infile.close()
#lascopy all x,y,z,classification based on the corrected gps time
subprocessargs = [
'C:/LAStools/bin/lascopy.exe', '-i', temp_outputfile, '-i', ori_tile,
'-olaz', '-o', outputfile
]
subprocessargs = list(map(str, subprocessargs))
p = subprocess.run(subprocessargs,
stdout=subprocess.PIPE,
stderr=subprocess.STDOUT,
shell=False,
check=True,
universal_newlines=True)
if os.path.isfile(outputfile):
#read the obfuscated tile
nfile = File(outputfile, mode='r')
classification = nfile.classification
#print(classification)
#get the class 0
if not 0 in classification:
log = f'Succesfully coverted {obfuscated_name} -> {tilename}'
os.remove(temp_outputfile)
print(log)
ofile = File(ori_tile, mode='r')
return (True, outputfile, log)
else:
log = f'Failed coverting {obfuscated_name} -> {tilename}- class 0 points in tile'
#os.remove(temp_outputfile)
print(log)
return (False, outputfile, log)
else:
log = f'Failed coverting {obfuscated_name} -> {tilename}'
#os.remove(temp_outputfile)
print(log)
return (False, outputfile, log)
def convertFile(tilename, inputfolder, outputfolder, filetype, Xorigin,
Yorigin, Xoffset, Yoffset, costheta, sintheta):
inputfile = os.path.join(inputfolder,
'{0}.{1}'.format(tilename,
filetype)).replace('\\', '/')
temp_outputfile = os.path.join(outputfolder,
'{0}.{1}'.format(tilename,
'las')).replace('\\', '/')
outputfile = os.path.join(outputfolder,
'{0}.{1}'.format(tilename,
filetype)).replace('\\', '/')
try:
inFile = File(inputfile, mode='r')
header = inFile.header
outfile = File(
temp_outputfile,
mode="w",
header=header,
)
tic = time.perf_counter()
X = inFile.get_x_scaled()
Y = inFile.get_y_scaled()
X, Y = Translate(X, Y, -1 * Xorigin, -1 * Yorigin)
X, Y = Rotate(X, Y, sintheta, costheta)
X, Y = Translate(X, Y, Xorigin, Yorigin)
X, Y = Translate(X, Y, Xoffset, Yoffset)
outfile.points = inFile.points
outfile.set_x_scaled(X)
outfile.set_y_scaled(Y)
toc = time.perf_counter()
outfile.close()
subprocessargs = [
'C:/LAStools/bin/las2las.exe', '-i', temp_outputfile, '-olaz',
'-o', outputfile
]
subprocessargs = list(map(str, subprocessargs))
p = subprocess.run(subprocessargs,
stdout=subprocess.PIPE,
stderr=subprocess.STDOUT,
shell=False,
check=True,
universal_newlines=True)
log = f"{tilename} : Convertion completed in {toc - tic:0.4f}s"
print(log)
if os.path.isfile(outputfile):
os.remove(temp_outputfile)
return (True, outputfile, log)
except:
log = f"{tilename} : Convertion Failed"
print(log)
outfile.close()
return (False, tilename, log)
withehelds_points = inFile.get_withheld()
try:
overlap = inFile.get_overlap()
except laspy.util.LaspyException as err:
print("Overlap error: {0}".format(err))
#print(format(err))
angle_rank = inFile.get_scan_angle_rank()
try:
scan_angle = inFile.get_scan_angle()
except laspy.util.LaspyException as err:
print("\nScan angle error: {0}".format(err))
user_data = inFile.get_user_data()
try:
reds = inFile.get_red()
greens = inFile.get_green()
blues = inFile.get_blue()
except laspy.util.LaspyException as err:
print("\nColor: {0}".format(err))
#wv_desc_indices = inFile.get_wave_packet_desc_index()
#inFile.get_nir()
outFile = File('output.las', mode='w', header=inFile.header)
print("outFile type",type(outFile))
outFile.points = inFile.points[I]
outFile.close()
distances = np.sum((coords - first_point)**2, axis=1)
# Create an array of indicators for whether or not a point is less than
# 500000 units away from the first point
keep_points = distances < 500000
# Grab an array of all points which meet this threshold
points_kept = inFile.points[keep_points]
print("We're keeping %i points out of %i total" %
(len(points_kept), len(inFile)))
print("Find ground points...")
# Grab the return_num and num_returns dimensions
num_returns = inFile.num_returns
return_num = inFile.return_num
ground_points = inFile.points[num_returns == return_num]
print("%i points out of %i were ground points." %
(len(ground_points), len(inFile)))
print("Writing output files...")
outFile2 = File("../data/las/ground_points.las",
mode="w",
header=inFile.header)
outFile2.points = ground_points
outFile2.close()
inFile = File(dirname1 + '\\' + filename, mode='r')
num_avant = len(inFile.points)
coords = np.vstack((inFile.x, inFile.y, inFile.z)).transpose()
unique, index = np.unique(coords, axis=0, return_index=True)
points_kept = inFile.points[index]
num_apres = len(points_kept)
if (num_avant != num_apres):
num_dupli = num_avant - num_apres
nom = os.path.splitext(filename)[0]
outFile1 = File(dirout + '\\' + nom + '.las',
mode="w",
header=inFile.header)
outFile1.points = points_kept
outFile1.close()
file.write(filename + ' ' + str(num_dupli) +
' duplicated (xyz) : sur ' + str(num_avant) +
' points\n')
inFile.close()
update_progress(ci / int(D1))
if eR > 0:
print('Process finnihed :' + str(eR) +
' errors read Comp-result.txt in the source folder')
else:
print('Process finnihed with no errors')
def convertFile(tilename, inputfolder, outputfolder, filetype):
inputfile = os.path.join(inputfolder,
'{0}.{1}'.format(tilename,
filetype)).replace('\\', '/')
temp_outputfile = os.path.join(outputfolder,
'{0}.{1}'.format(tilename,
'las')).replace('\\', '/')
outputfile = os.path.join(outputfolder,
'{0}.{1}'.format(tilename,
filetype)).replace('\\', '/')
try:
inFile = File(inputfile, mode='r')
header = inFile.header
outfile = File(
temp_outputfile,
mode="w",
header=header,
)
outfile.header.offset = [0.0, 0.0, 0.0]
tic = time.perf_counter()
X = inFile.get_x_scaled()
Y = inFile.get_y_scaled()
Z = inFile.get_z_scaled()
E, N = transGDA94_to_ArgyleGrid(X, Y)
outfile.points = inFile.points
outfile.set_x_scaled(E)
outfile.set_y_scaled(N)
print(E, N, Z)
toc = time.perf_counter()
outfile.close()
subprocessargs = [
'C:/LAStools/bin/las2las.exe', '-i', temp_outputfile, '-olaz',
'-o', outputfile
]
subprocessargs = list(map(str, subprocessargs))
p = subprocess.run(subprocessargs,
stdout=subprocess.PIPE,
stderr=subprocess.STDOUT,
shell=False,
check=True,
universal_newlines=True)
log = f"{tilename} : Convertion completed in {toc - tic:0.4f}s"
print(log)
if os.path.isfile(outputfile):
os.remove(temp_outputfile)
return (True, outputfile, log)
except:
log = f"{tilename} : Convertion Failed"
print(log)
outfile.close()
return (False, tilename, log)
def convertFile(tilename, inputfolder, xorigin, yorigin, scalar, xshift,
yshift, outputfolder, filetype):
inputfile = os.path.join(inputfolder,
'{0}.{1}'.format(tilename,
filetype)).replace('\\', '/')
temp_outputfile = os.path.join(outputfolder,
'{0}.{1}'.format(tilename,
'las')).replace('\\', '/')
outputfile = os.path.join(outputfolder,
'{0}.{1}'.format(tilename,
filetype)).replace('\\', '/')
try:
inFile = File(inputfile, mode='r')
header = inFile.header
outfile = File(
temp_outputfile,
mode="w",
header=header,
)
tic = time.perf_counter()
xvalues = inFile.get_x_scaled()
newxvals = shiftNscale(xvalues, xshift, xorigin, scalar)
yvalues = inFile.get_y_scaled()
newyvals = shiftNscale(yvalues, yshift, yorigin, scalar)
outfile.points = inFile.points
outfile.set_x_scaled(newxvals)
outfile.set_y_scaled(newyvals)
toc = time.perf_counter()
outfile.close()
subprocessargs = [
'C:/LAStools/bin/las2las.exe', '-i', temp_outputfile, '-olaz',
'-o', outputfile
]
subprocessargs = list(map(str, subprocessargs))
p = subprocess.run(subprocessargs,
stdout=subprocess.PIPE,
stderr=subprocess.STDOUT,
shell=False,
check=True,
universal_newlines=True)
log = f"{tilename} : Convertion completed in {toc - tic:0.4f}s"
print(log)
if os.path.isfile(outputfile):
os.remove(temp_outputfile)
return (True, outputfile, log)
except:
log = f"{tilename} : Convertion Failed"
print(log)
outfile.close()
return (False, tilename, log)
