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export_rf3d.py
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export_rf3d.py
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# -*- coding: utf-8 -*-
"""
/***************************************************************************
ExportToRF3D
A QGIS plugin
This plugin exports the prepared datasets for a RockyFor3D Simulation
Generated by Plugin Builder: http://g-sherman.github.io/Qgis-Plugin-Builder/
-------------------
begin : 2018-09-25
git sha : $Format:%H$
copyright : (C) 2018 by Valentin Marquart
email : valentin.marquart@tum.de
***************************************************************************/
/***************************************************************************
* *
* This program is free software; you can redistribute it and/or modify *
* it under the terms of the GNU General Public License as published by *
* the Free Software Foundation; either version 2 of the License, or *
* (at your option) any later version. *
* *
***************************************************************************/
"""
from PyQt5.QtCore import QSettings, QTranslator, qVersion, QCoreApplication
from PyQt5.QtGui import QIcon
from PyQt5.QtWidgets import QAction, QFileDialog
# Initialize Qt resources from file resources.py
from .resources import *
# Import the code for the dialog
from .export_rf3d_dialog import ExportToRF3DDialog, ImportToRF3DDialog, CreateProfileRF3DDialog
import os.path
from shutil import copyfile
from functools import reduce
from osgeo import gdalconst
from osgeo import gdal
from .rasterize_layers import getExtentFromDEM, createRasterizedAscii, rasterizeMultiFieldVectorLayer, createDEMCopy
from qgis.gui import QgsMapLayerComboBox, QgsMessageBar
from qgis.core import QgsMapLayerProxyModel, QgsProject, QgsRaster, QgsRasterLayer, QgsVectorLayer, QgsCoordinateReferenceSystem, QgsLayerTreeLayer, QgsRasterBandStats, QgsMessageLog, Qgis
import subprocess, sys, tempfile, datetime, csv
import collections
class ExportToRF3D:
"""QGIS Plugin Implementation."""
def __init__(self, iface):
"""Constructor.
:param iface: An interface instance that will be passed to this class
which provides the hook by which you can manipulate the QGIS
application at run time.
:type iface: QgsInterface
"""
# Save reference to the QGIS interface
self.iface = iface
# initialize plugin directory
self.plugin_dir = os.path.dirname(__file__)
# initialize locale
locale = QSettings().value('locale/userLocale')[0:2]
locale_path = os.path.join(
self.plugin_dir,
'i18n',
'ExportToRF3D_{}.qm'.format(locale))
if os.path.exists(locale_path):
self.translator = QTranslator()
self.translator.load(locale_path)
if qVersion() > '4.3.3':
QCoreApplication.installTranslator(self.translator)
# Create the dialog (after translation) and keep reference
self.dlg = ExportToRF3DDialog()
self.import_dlg = ImportToRF3DDialog()
self.profile_dlg = CreateProfileRF3DDialog()
# Declare instance attributes
self.actions = []
self.menu = self.tr(u'&RockyFor3D Plugin')
# TODO: We are going to let the user set this up in a future iteration
self.toolbar = self.iface.addToolBar(u'ExportToRF3D')
self.toolbar.setObjectName(u'ExportToRF3D')
# Init path selector objects of ui
self.dlg.outputPath.clear()
self.dlg.openFinder.clicked.connect(self.select_output_directory)
self.import_dlg.outputPathImportDir.clear()
self.import_dlg.openFinderImportDir.clicked.connect(self.select_import_directory)
self.import_dlg.pathStylesDir.clear()
self.import_dlg.openFinderStylesDir.clicked.connect(self.select_styles_directory)
# Init path selector objects of ui
self.profile_dlg.outputPath.clear()
self.profile_dlg.openFinder.clicked.connect(self.select_profile_directory)
# noinspection PyMethodMayBeStatic
def tr(self, message):
"""Get the translation for a string using Qt translation API.
We implement this ourselves since we do not inherit QObject.
:param message: String for translation.
:type message: str, QString
:returns: Translated version of message.
:rtype: QString
"""
# noinspection PyTypeChecker,PyArgumentList,PyCallByClass
return QCoreApplication.translate('ExportToRF3D', message)
def add_action(
self,
icon_path,
text,
callback,
enabled_flag=True,
add_to_menu=True,
add_to_toolbar=True,
status_tip=None,
whats_this=None,
parent=None):
"""Add a toolbar icon to the toolbar.
:param icon_path: Path to the icon for this action. Can be a resource
path (e.g. ':/plugins/foo/bar.png') or a normal file system path.
:type icon_path: str
:param text: Text that should be shown in menu items for this action.
:type text: str
:param callback: Function to be called when the action is triggered.
:type callback: function
:param enabled_flag: A flag indicating if the action should be enabled
by default. Defaults to True.
:type enabled_flag: bool
:param add_to_menu: Flag indicating whether the action should also
be added to the menu. Defaults to True.
:type add_to_menu: bool
:param add_to_toolbar: Flag indicating whether the action should also
be added to the toolbar. Defaults to True.
:type add_to_toolbar: bool
:param status_tip: Optional text to show in a popup when mouse pointer
hovers over the action.
:type status_tip: str
:param parent: Parent widget for the new action. Defaults None.
:type parent: QWidget
:param whats_this: Optional text to show in the status bar when the
mouse pointer hovers over the action.
:returns: The action that was created. Note that the action is also
added to self.actions list.
:rtype: QAction
"""
icon = QIcon(icon_path)
action = QAction(icon, text, parent)
action.triggered.connect(callback)
action.setEnabled(enabled_flag)
if status_tip is not None:
action.setStatusTip(status_tip)
if whats_this is not None:
action.setWhatsThis(whats_this)
if add_to_toolbar:
self.toolbar.addAction(action)
if add_to_menu:
self.iface.addPluginToMenu(
self.menu,
action)
self.actions.append(action)
return action
def initGui(self):
"""Create the menu entries and toolbar icons inside the QGIS GUI."""
export_icon = ':/plugins/export_rf3d/export.png'
self.add_action(
export_icon,
text=self.tr(u'Export vector files to rockyfor3d ascii files'),
callback=self.run,
parent=self.iface.mainWindow())
"""Import rf3d generated files and style them"""
import_icon = ':/plugins/export_rf3d/import.png'
self.add_action(
import_icon,
text=self.tr(u'Import Files from rockyfor3D output directory'),
callback=self.runImportRockyFor3DFiles,
parent=self.iface.mainWindow())
"""Import rf3d generated files and style them"""
import_icon = ':/plugins/export_rf3d/icon.png'
self.add_action(
import_icon,
text=self.tr(u'Create Output Profile along Line'),
callback=self.runCreateProfile,
parent=self.iface.mainWindow())
def unload(self):
"""Removes the plugin menu item and icon from QGIS GUI."""
for action in self.actions:
self.iface.removePluginMenu(
self.tr(u'&RockyFor3D Plugin'),
action)
self.iface.removeToolBarIcon(action)
# remove the toolbar
del self.toolbar
def select_profile_directory(self):
options = QFileDialog.DontResolveSymlinks | QFileDialog.ShowDirsOnly
output_directory = QFileDialog.getExistingDirectory(self.dlg, "Open output directory ", options=options)
self.profile_dlg.outputPath.setText(output_directory)
def select_output_directory(self):
options = QFileDialog.DontResolveSymlinks | QFileDialog.ShowDirsOnly
output_directory = QFileDialog.getExistingDirectory(self.dlg, "Open output directory ", options=options)
self.dlg.outputPath.setText(output_directory)
def select_import_directory(self):
options = QFileDialog.DontResolveSymlinks | QFileDialog.ShowDirsOnly
output_directory = QFileDialog.getExistingDirectory(self.import_dlg, "Open output directory ", options=options)
self.import_dlg.outputPathImportDir.setText(output_directory)
def select_styles_directory(self):
options = QFileDialog.DontResolveSymlinks | QFileDialog.ShowDirsOnly
output_directory = QFileDialog.getExistingDirectory(self.import_dlg, "Open output directory ", options=options)
self.import_dlg.pathStylesDir.setText(output_directory)
def run(self):
"""Run method that performs all the real work"""
# init dem selection
rasters = [layer for layer in QgsProject.instance().mapLayers().values() if isinstance(layer, QgsRasterLayer)]
raster_list = []
for raster in rasters:
raster_list.append(raster.name())
self.dlg.demSelection.addItems(raster_list)
# init group selection until the 3rd layer (group, subgroup and subsubgroup)
nodes = [group for group in QgsProject.instance().layerTreeRoot().children()]
groups = [child for child in nodes if child.nodeType() == 0]
group_list = []
subgroup_list = []
subsubgroup_list = []
for group in groups:
group_list.append(group.name())
if len(group.children()) > 0:
subchilds = [subchild for subchild in group.children() if subchild.nodeType() == 0]
for subchild in subchilds:
subgroup_list.append(subchild)
if len(subchild.children()) > 0:
subsubchilds = [subsubchild for subsubchild in subchild.children() if subsubchild.nodeType() == 0]
for subsubchild in subsubchilds:
subsubgroup_list.append(subsubchild)
# create two list sets: 1 containing the names for populating the comboBox and 1 for keeping a reference of all groups, sub- and subsubgroups together
subgroup_names = [subgroup_name.name() for subgroup_name in subgroup_list]
subsubgroup_names = [subsubgroup_name.name() for subsubgroup_name in subsubgroup_list]
group_list.extend(subgroup_names)
group_list.extend(subsubgroup_names)
groups.extend(subgroup_list)
groups.extend(subsubgroup_list)
self.dlg.groupSelection.addItems(group_list)
# show the dialog
self.dlg.show()
# Run the dialog event loop
result = self.dlg.exec_()
# See if OK was pressed
if result:
# Do something useful here - delete the line containing pass and
# substitute with your code.
#1) Retrieve output directory
output_dir = self.dlg.outputPath.text()
if output_dir == '':
raise ValueError("No output directory selected!")
self.iface.messageBar().pushCritical("Export to RockyFor3D", "No output directory selected!")
#2) get selected dem reference
selectedDEMIndex = self.dlg.demSelection.currentIndex()
selectedDEM = rasters[selectedDEMIndex]
if selectedDEM == '':
raise ValueError("No DEM has been selected!")
self.iface.messageBar().pushCritical("Export to RockyFor3D", "No DEM has been selected!")
#3) get cell size, coord system and extent from dem
#dem = '/Users/Valentin/Library/Mobile Documents/3L68KQB4HG~com~readdle~CommonDocuments/Documents/Ingenieur-und-Hydro/4 MASTERARBEIT/2 GIS/2 Feldvorbereitung und DGM/Raster/dgm_gesamt_1m_oGeb_9999.asc'
dem = selectedDEM.source()
try:
dem_outpath = createDEMCopy(dem, os.path.join(output_dir,'dem.asc'))
except Error as e:
print(e)
print("the dem could not be created! Is there already a file called dem.asc?")
raise
dem_data = getExtentFromDEM(dem_outpath)
# get selected group reference
selectedGroupIndex = self.dlg.groupSelection.currentIndex()
selectedGroup = groups[selectedGroupIndex]
layers_in_group = selectedGroup.findLayers()
vector_layers_in_group = [layer.layer() for layer in layers_in_group if isinstance(layer.layer(), QgsVectorLayer)]
all_outputs = []
for vector_layer in vector_layers_in_group:
filepath = vector_layer.source()
attribute_names = [attribute.name for attribute in vector_layer.attributeTableConfig().columns() if len(attribute.name) > 0]
GDT_DataTypeRocky = {'rocdensity':gdal.GDT_CInt32, 'rockdensity': gdal.GDT_CInt32, 'd1_block1': gdal.GDT_Float32, 'd1':gdal.GDT_Float32, 'd2':gdal.GDT_Float32, 'd3':gdal.GDT_Float32, 'blshape': gdal.GDT_CInt32, 'rg70':gdal.GDT_Float32, 'rg20':gdal.GDT_Float32, 'rg10':gdal.GDT_Float32, 'soiltype':gdal.GDT_CInt32, 'net_number':gdal.GDT_CInt32, 'net_energy': gdal.GDT_CInt32, 'net_height': gdal.GDT_Float32 }
output = rasterizeMultiFieldVectorLayer(filepath, output_dir, dem_data, GDT_DataType=GDT_DataTypeRocky)
all_outputs.extend(output)
#4) Messages
minimum = ['rocdensity','rockdensity','d1','d2','d3','blshape','rg70','rg20','rg10','soiltype']
nets = ['net_number','net_energy','net_height']
forest = ['nrtrees', 'dbhmean', 'dbhstd', 'conif_percent']
self.iface.messageBar().pushInfo("Export to RockyFor3D", "Successfully created {} ascii files.".format(len(all_outputs)))
if set(all_outputs).issubset(minimum):
self.iface.messageBar().pushInfo("Export to RockyFor3D", "Found all 10 minimum output files for RockyFor3D")
# elif set(all_outputs).issubset(minimum.extend(nets)):
# self.iface.messageBar().pushInfo("Export to RockyFor3D", "Found all 10 minimum output files and the 3 for nets for RockyFor3D")
# elif set(all_outputs).issubset(minimum.extend(forest)):
# self.iface.messageBar().pushInfo("Export to RockyFor3D", "Found all 10 minimum output files and the 4 for forest for RockyFor3D")
# elif set(all_outputs).issubset(minimum.extend(forest).extend(nets)):
# self.iface.messageBar().pushInfo("Export to RockyFor3D", "Found all 10 minimum output files and the 4 for forest and 3 for the nets for RockyFor3D")
# else:
# self.iface.messageBar().pushWarning("Export to RockyFor3D", "Not enought ascii output files were generated: {}".format(all_outputs))
def runImportRockyFor3DFiles(self):
"""Import files from a selected rockyfor3d output directory"""
# show the dialog
self.import_dlg.show()
# Run the dialog event loop
result = self.import_dlg.exec_()
# See if OK was pressed
if result:
self.iface.messageBar().pushInfo("RockyFor3D Plugin:","Importing the selected directories!")
#1) Retrieve output directory
import_dir = self.import_dlg.outputPathImportDir.text()
if import_dir == '' or import_dir == '...':
raise ValueError("No import directory selected!")
self.iface.messageBar().pushCritical("Import RockyFor3D Error", "No import directory selected!")
styles_dir = self.import_dlg.pathStylesDir.text()
if styles_dir == '' or styles_dir == '...':
#raise ValueError("No import directory selected!")
self.iface.messageBar().pushInfo("RockyFor3D Error", "No Styles provided. Using internal defaults!")
styles_dir = "/Users/Valentin/Library/Mobile Documents/3L68KQB4HG~com~readdle~CommonDocuments/Documents/Ingenieur-und-Hydro/4 MASTERARBEIT/2 GIS/4-2 Rockyfor3D DGM TLS/styles"
# TODO: change into plugin path and copy final styles into a subfolder of the plugin
start_path = import_dir
import_files = ['E_95CI.asc', 'Ph_95CI.asc', 'Nr_deposited.asc', 'Reach_probability.asc']
crs_number = 31468
#TODO: Add crs and import_files as two optional Options into import_ui!!
# or import_files = 'all'
root = QgsProject.instance().layerTreeRoot()
#1) Create a group to insert the imported layers into
#from time import localtime, strftime
#rf3d_group = root.insertGroup(0, 'RockyFor3D Import from '+strftime("%Y-%m-%d %H:%M", localtime()))
rf3d_group = root.insertGroup(0, os.path.basename(start_path))
#2) switch off crs prompt after import
s = QSettings()
oldValidation = s.value( "/Projections/defaultBehavior" )
s.setValue( "/Projections/defaultBehavior", "useGlobal" )
# create a temp file to put the stats into
temp_file = tempfile.NamedTemporaryFile(mode='r+', suffix=".txt")
temp_file.write("Statistic Output from RockyFor3D QGIS Plugin")
temp_file.write("Creation Date: "+str(datetime.datetime.now())+"\n")
temp_file.write("Import Directory: "+start_path+"\n")
temp_file.write("Style Directory: "+styles_dir+"\n")
temp_file.write("Imported Files: "+str(import_files)+"\n")
#3) walk through the directory recursevily and 3-1) create groups and subgroups, 3-2) import files, 3-3)style them
try:
for root, dirs, files in os.walk(start_path, topdown=True):
for _dir in dirs:
# only import *sims* directories!
if "sims-" in _dir:
relative_path = os.path.relpath(os.path.join(root, _dir),start_path)
relatives = relative_path.split(os.sep)
target_path = os.path.join(root, _dir)
# print("Creating following groups and subgroups: {}".format(relatives))
# print("Loading selected files from this folder: {}".format(target_path))
# 3-1) create groups and subgroups
group = rf3d_group
for relative in relatives:
# create a group for each item
group = group.addGroup(relative)
_files = [f for f in os.listdir(target_path) if os.path.isfile(os.path.join(target_path, f))]
message = "Group: {}".format(reduce(os.path.join,relatives))
print(message)
temp_file.write("\n"+message+"\n")
QgsMessageLog.logMessage(message, tag="Plugins", level=Qgis.Info)
for _file in _files:
# filter for ascii files only:
if ".asc" == os.path.splitext(_file)[1]:
# only import files in import_files
if _file in import_files or import_files=='all':
try:
# 3-2) import files into last subgroup
# 3-3) style the imported files accordingly
filepath = os.path.join(target_path, _file)
rName = os.path.splitext(os.path.basename(filepath))
try:
rName = rName[0]
pass
except KeyError as ke:
print(ke)
print("Using fullname as layer name")
#rName = rName
pass
style_path = os.path.join(styles_dir, (rName+'.qml'))
rLayer = QgsRasterLayer(filepath, rName)
rLayer.setCrs( QgsCoordinateReferenceSystem(crs_number, QgsCoordinateReferenceSystem.EpsgCrsId) )
try:
rLayer.loadNamedStyle(style_path)
except NameError:
print("Could not style the desired layer {}".format(rName))
pass
QgsProject.instance().addMapLayer(rLayer, False)
group.insertChildNode(0,QgsLayerTreeLayer(rLayer))
#rLayer.triggerRepaint()
#self.iface.layerTreeView().refreshLayerSymbology( rLayer.id() )
### Print statistics to console! ###
stats = rLayer.dataProvider().bandStatistics(1, QgsRasterBandStats.All, rLayer.extent(), 0)
min = stats.minimumValue
mean = stats.mean
max = stats.maximumValue
dataRange = stats.range
stdv = stats.stdDev
message = ' Layer: {} min: {:.2f}, mean: {:.2f}, max: {:.2f}, range: {:.2f}, StdDev:{:.2f}'.format(rName, min, mean, max, dataRange, stdv)
print(message)
temp_file.write(message+"\n")
QgsMessageLog.logMessage(message, tag="Plugins", level=Qgis.Info)
except NameError:
print(NameError)
print("Could not add the following File: {}".format(_file))
except NameError:
print(NameError)
#re-enable the crs prompt
s.setValue( "/Projections/defaultBehavior", oldValidation )
# open default text editor and open statistics
temp_file.seek(0)
# open temp_file with default application (crossplatform)
if sys.platform.startswith('darwin'):
subprocess.call(('open', temp_file.name))
elif os.name == 'nt': # For Windows
os.startfile(temp_file.name)
elif os.name == 'posix': # For Linux, Mac, etc.
subprocess.call(('xdg-open', temp_file.name))
def runCreateProfile(self):
# init dem selection
vectors = [layer for layer in QgsProject.instance().mapLayers().values() if isinstance(layer, QgsVectorLayer)]
vector_list = []
for vector in vectors:
vector_list.append(vector.name())
self.profile_dlg.demSelection.addItems(vector_list)
# init group selection until the 3rd layer (group, subgroup and subsubgroup)
nodes = [group for group in QgsProject.instance().layerTreeRoot().children()]
groups = [child for child in nodes if child.nodeType() == 0]
group_list = []
subgroup_list = []
subsubgroup_list = []
for group in groups:
group_list.append(group.name())
if len(group.children()) > 0:
subchilds = [subchild for subchild in group.children() if subchild.nodeType() == 0]
for subchild in subchilds:
subgroup_list.append(subchild)
if len(subchild.children()) > 0:
subsubchilds = [subsubchild for subsubchild in subchild.children() if subsubchild.nodeType() == 0]
for subsubchild in subsubchilds:
subsubgroup_list.append(subsubchild)
# create two list sets: 1 containing the names for populating the comboBox and 1 for keeping a reference of all groups, sub- and subsubgroups together
subgroup_names = [subgroup_name.name() for subgroup_name in subgroup_list]
subsubgroup_names = [subsubgroup_name.name() for subsubgroup_name in subsubgroup_list]
group_list.extend(subgroup_names)
group_list.extend(subsubgroup_names)
groups.extend(subgroup_list)
groups.extend(subsubgroup_list)
self.profile_dlg.groupSelection.addItems(group_list)
# show the dialog
self.profile_dlg.show()
result = self.profile_dlg.exec_()
# See if OK was pressed
if result:
#1) Retrieve output directory
output_dir = self.profile_dlg.outputPath.text()
if output_dir == '':
raise ValueError("No output directory selected!")
self.iface.messageBar().pushCritical("Export to RockyFor3D", "No output directory selected!")
#2) get selected profileLine reference
selectedProfileLineIndex = self.profile_dlg.demSelection.currentIndex()
selectedProfile = vectors[selectedProfileLineIndex]
if selectedProfile == '':
raise ValueError("No Profile Line has been selected!")
self.iface.messageBar().pushCritical("Export to RockyFor3D", "No Profile line has been selected!")
# TODO maybe iterate over all features, currently only first feature is supported
feature = selectedProfile.getFeature(0)
geom = feature.geometry()
length = geom.length()
if length == 0:
raise ValueError("Length of selected input Feature is 0!")
self.iface.messageBar().pushCritical("Create Profile from RockyFor3D", "Input Feature length is zero!")
#3) create vrt with all rasters in subgroup
# get selected group reference
selectedGroupIndex = self.profile_dlg.groupSelection.currentIndex()
selectedGroup = groups[selectedGroupIndex]
layers_in_group = selectedGroup.findLayers()
raster_sources_in_group = [layer.layer().source() for layer in layers_in_group if isinstance(layer.layer(), QgsRasterLayer)]
raster_names_in_group = [layer.layer().name() for layer in layers_in_group if isinstance(layer.layer(), QgsRasterLayer)]
print(raster_sources_in_group)
tdir = tempfile.TemporaryDirectory()
output = os.path.join(tdir.name, "stacked_rasters.vrt")
output = "/Users/Valentin/Desktop/stacked.vrt"
# vrtOptions = gdal.BuildVRTOptions(resolution="highest", separate=True, resampleAlg="bilinear")
vrtOptions = gdal.BuildVRTOptions(resolution="highest", separate=True, resampleAlg=0)
vrt = gdal.BuildVRT(output, raster_sources_in_group, options= vrtOptions)
vrt = None # write vrt to disk
vrtRasterLayer = QgsRasterLayer(output) # add vrt to qgis (not to map and legend)
#3) write length along line, interpolated x,y and the raster values into temp database like file
#4) optionally plot the data with matplotlib
# Create vertices to extract raster values
dataframe = []
delta = 0.5
distance = 0
while distance <= length:
point = geom.interpolate(distance)
test = 1
xy = point.asPoint()
vrtResults = vrtRasterLayer.dataProvider().identify(xy, QgsRaster.IdentifyFormatValue)
if vrtResults.isValid():
valuesAtPoint = vrtResults.results()
mapped = dict(zip(raster_names_in_group, valuesAtPoint.values()))
mapped = collections.OrderedDict(sorted(mapped.items()))
print("Following raster values at point: {}\n{}".format(xy,mapped))
insert = lambda _dict, obj, pos: {k: v for k, v in (list(_dict.items())[:pos] + list(obj.items()) + list(_dict.items())[pos:])}
mapped = insert(mapped,{'Length': distance, 'X':xy[0], 'Y': xy[1]},0) # insert length, x,y at first position in dict
dataframe.append(mapped) # adds "row" to df
distance = distance + delta
# write result to csv (for further plotting with R)
keys = dataframe[0].keys()
csvpath = os.path.join(output_dir,'profile_data.csv')
with open(csvpath, 'w') as output_file:
dict_writer = csv.DictWriter(output_file, keys)
dict_writer.writeheader()
dict_writer.writerows(dataframe)
# Plot data with r and open finder
pyfile = os.path.realpath(__file__)
plugin_folder = os.path.normpath(pyfile.replace(os.path.basename(pyfile),""))
createProfileR_path = os.path.join(plugin_folder,"createProfile.R")
try:
subprocess.check_call(["/Library/Frameworks/R.framework/Versions/3.5/Resources/Rscript",createProfileR_path, "-f", csvpath])
pass
except ValueError as e:
raise e
print("This is propably because R is not correctly installed or the path to the Rscript executable is not correctly set.")
self.iface.messageBar().pushCritical("Export to RockyFor3D", "No output directory selected!")
pass
# check if on Mac / Darwin
process2 = subprocess.check_call(['open', output_dir], shell=False)
print("finished")