View source for Using GRASS GIS through Python and tangible interfaces (workshop at FOSS4G NA 2016)

[[File:FOSS4G NA 2016.png|center|none]]

This is material for FOSS4G NA 2016 workshop *Using GRASS GIS through Python and tangible interfaces* held in Raleigh May 2, 2016 - 09:00 to 13:00. It was partially updated and used in classes at NCSU.

Learn about scripting, graphical and tangible (!) interfaces for GRASS GIS, the powerful desktop GIS and geoprocessing backend. We will start with the Python interface and finish with [http://tangible-landscape.github.io/ Tangible Landscape], a new tangible interface for GRASS GIS (see a [https://youtu.be/jUw5cKm08DE webinar video]).
Python is the primary scripting language for GRASS GIS. We will demonstrate how to use Python to automate your geoprocessing workflows with GRASS GIS modules and develop custom algorithms using a Pythonic interface to access low level GRASS GIS library functions. We will also review several tips and tricks for parallelization.
Tangible Landscape is an example of how the GRASS GIS Python API can be used to build new, cutting edge tools and advanced applications. Tangible Landscape is a collaborative 3D sketching tool which couples a 3D scanner, a projector and a physical 3D model with GRASS GIS. The workshop will be a truly hands-on experience – you will play with Tangible Landscape, using your hands to shape a sand model and drive geospatial processes.

'''Software''': [https://grass.osgeo.org GRASS GIS 7]

'''Data''': Download [https://grass.osgeo.org/sampledata/north_carolina/nc_spm_08_grass7.zip complete North Carolina sample dataset].

= GRASS GIS introduction =
You need to create a GRASS database we will use for the tutorial. Please download the [https://grass.osgeo.org/sampledata/north_carolina/nc_spm_08_grass7.zip dataset] for the workshop, noting where the files are located on your local directory. 
Now, create (unless you already have it) a directory named <tt>grassdata</tt> (GRASS database) in your home folder (or Documents), unzip the downloaded data into this directory. You should now have a Location <tt>nc_spm_08_grass7</tt> in grassdata. Start GRASS GIS in Mapset <tt>user1</tt>.

GRASS GUI introduction
* [[Workshop_on_urban_growth_modeling_with_FUTURES#GRASS_GIS_introduction|Introduction from Workshop on urban growth modeling with FUTURES]]

= GRASS GIS Python API =

== Python Scripting library ==
[[File:GRASS GUI Python shell.png|thumbnail|right|Python shell in GRASS GIS GUI]]
The GRASS GIS 7 Python Scripting Library provides functions to call GRASS modules within scripts as subprocesses. The most often used functions include:

* '''{{pyapi|script|script.core|run_command}}''': most often used with modules which output raster/vector data where text output is not expected
* '''{{pyapi|script|script.core|read_command}}''': used when we are interested in text output
* '''{{pyapi|script|script.core|parse_command}}''': used with modules producing text output as key=value pair
* '''{{pyapi|script|script.core|write_command}}''': for modules expecting text input from either standard input or file

Besides, this library provides several wrapper functions for often called modules.

=== Calling GRASS GIS modules ===
We will use GRASS GUI Python Shell to run the commands. For longer scripts, you can create a text file, save it into your current working directory and run it with <tt>python myscript.py</tt> from the GUI command console or terminal.

'''Tip''': When copying Python code snippets to GUI Python shell, right click at the position and select '''Paste Plus''' in the context menu. Otherwise multiline code snippets won't work.

We start by importing GRASS GIS Python Scripting Library:
<source lang="python">
import grass.script as gs
</source>

Before running any GRASS raster modules, you need to set the computational region using {{cmd|g.region}}. In this example, we set the computational extent and resolution to the raster layer <tt>elevation</tt>.
<source lang="python">
gs.run_command('g.region', raster='elevation')
</source>

The run_command() function is the most commonly used one. Here, we apply the focal operation average ({{cmd|r.neighbors}}) to smooth the elevation raster layer. Note that the syntax is similar to bash syntax, just the flags are specified in a parameter.
<source lang="python">
gs.run_command('r.neighbors', input='elevation', output='elev_smoothed', method='average', flags='c')
</source>
If we run the Python commands from GUI Python console, we can use <tt>AddLayer</tt> to add the newly created layer:
<source lang="python">
AddLayer('elev_smoothed')
</source>

=== Calling GRASS GIS modules with textual input or output ===
Textual output from modules can be captured using the read_command() function.
<source lang="python">
gs.read_command('g.region', flags='p')
</source>
<source lang="python">
gs.read_command('r.univar', map='elev_smoothed', flags='g')
</source>

Certain modules can produce output in key-value format which is enabled by the '''-g''' flag. The parse_command() function automatically parses this output and returns a dictionary. In this example, we call {{cmd|g.proj}} to display the projection parameters of the actual location.
<source lang="python">
gs.parse_command('g.proj', flags='g')
</source>

For comparison, below is the same example, but using the read_command() function.
<source lang="python">
gs.read_command('g.proj', flags='g')
</source>

Certain modules require the text input be in a file or provided as standard input. Using the write_command() function we can conveniently pass the string to the module. Here, we are creating a new vector with one point with {{cmd|v.in.ascii}}. Note that ''stdin'' parameter is not used as a module parameter, but its content is passed as standard input to the subprocess.
<source lang="python">
gs.write_command('v.in.ascii', input='-', stdin='%s|%s' % (635818, 221342), output='point')
</source>

If we run the Python commands from GUI Python console, we can use <tt>AddLayer</tt> to add the newly created layer:
<source lang="python">
AddLayer('point')
</source>

=== Convenient wrapper functions ===
Some modules have wrapper functions to simplify frequent tasks.
For example we can obtain the information about a raster layer with [https://grass.osgeo.org/grass70/manuals/libpython/script.html?highlight=mapcalc#script.raster.raster_info raster_info] which is a wrapper of {{cmd|r.info}},
or a vector layer with {{pyapi|script|script.vector|vector_info}}.
<source lang="python">
gs.raster_info('elevation')
gs.vector_info('point')
</source>

Another example is using {{pyapi|script|script.raster|mapcalc}} for raster algebra:
<source lang="python">
gs.mapcalc("elev_strip = if(elevation > 100 && elevation < 125, elevation, null())")
gs.read_command('r.univar', map='elev_strip', flags='g')
</source>

Function {{pyapi|script|script.core|region}} is a convenient way to retrieve the current region settings (i.e., computational region). It returns a dictionary with values converted to appropriate types (floats and ints). 
<source lang="python">
region = gs.region()
print region
# cell area in map units (in projected Locations)
region['nsres'] * region['ewres']
</source>

We can list data stored in a GRASS GIS location with {{cmd|g.list}} wrappers. With {{pyapi|script|script.core|list_grouped}}, the map layers are grouped by mapsets (in this example, raster layers):
<source lang="python">
gs.list_grouped(type=['raster'])
gs.list_grouped(type=['raster'], pattern="landuse*")
</source>

Here is an example of a different {{cmd|g.list}} wrapper {{pyapi|script|script.core|list_pairs}} which structures the output as list of pairs (name, mapset). We obtain current mapset with {{cmd|g.gisenv}} wrapper.
<source lang="python">
current_mapset = gs.gisenv()['MAPSET']
gs.list_pairs('raster', mapset=current_mapset)
</source>

=== Exercise ===
Export all raster layers from your mapset with a name prefix "elev_*" as GeoTiff (see {{cmd|r.out.gdal}}). Don't forget to set the current region ({{cmd|g.region}}) for each map in order to match the individual exported raster layer extents and resolutions since they may differ from each other.

== PyGRASS ==
PyGRASS is a library originally developed during the Google Summer of Code 2012. PyGRASS library adds two main functionalities:
* Python interface through the ctypes binding of the C API of GRASS, to read and write natively GRASS GIS 7 data structures,
* GRASS GIS module interface using objects to check the parameters and execute the respective modules.
For further discussion about the implementation ideas and performance are presented in the article:
''[http://www.mdpi.com/2220-9964/2/1/201 Zambelli, P.; Gebbert, S.; Ciolli, M. Pygrass: An Object Oriented Python Application Programming Interface (API) for Geographic Resources Analysis Support System (GRASS) Geographic Information System (GIS). ISPRS Int. J. Geo-Inf. 2013, 2, 201-219.]''

Standard scripting with GRASS modules in Python may sometime seem discouraging especially when you have to do conceptually simple things like iterate over vector features or raster rows/columns.
Using the C API (most of GRASS GIS is written in C), all this is much more simple since you can directly work on GRASS GIS data and do just what you need to do.
However, you perhaps want to stick to Python. Here, the PyGRASS library introduced several objects that allow to interact directly with the data using the underlying C API of GRASS GIS.

=== Working with vector data (see {{cmd|libpython/pygrass_vector|desc=manual page}}) ===
Create a new vector map. Import the necessary classes:
<source lang="python">
from grass.pygrass.vector import VectorTopo
from grass.pygrass.vector.geometry import Point
</source>

Create an instance of a vector map:
<source lang="python">
my_points = VectorTopo('my_points')
</source>

Open the map in write mode:
<source lang="python">
my_points.open(mode='w')
</source>

Create some vector geometry features, like two points:
<source lang="python">
point1 = Point(635818.8, 221342.4)
point2 = Point(633627.7, 227050.2)
</source>

Add the above two points to the new vector map:
<source lang="python">
my_points.write(point1)
my_points.write(point2)
</source>

Finally close the vector map:
<source lang="python">
my_points.close()
</source>

Display the newly created vector (from GUI Python Shell):
<source lang="python">
AddLayer('my_points')
</source>

Now do the same thing using the context manager syntax and set also the attribute table:
<source lang="python">
# Define the columns of the new vector map
cols = [(u'cat',       'INTEGER PRIMARY KEY'),
        (u'name',      'TEXT')]

with VectorTopo('my_points', mode='w', tab_cols=cols, overwrite=True) as my_points:
    # save the point and the attribute
    my_points.write(point1, ('pub', ))
    my_points.write(point2, ('restaurant', ))
    # save the changes to the database
    my_points.table.conn.commit()
</source>
Note: we don't need to close the vector map because it is already closed by the context manager.

Go to Layer Manager, right click on 'my_points' and ''Show attribute data''.

Read an existing vector map:
<source lang="python">
with VectorTopo('my_points', mode='r') as points:
    for point in points:
        print(point, point.attrs['name'])
</source>

=== Working with raster data (see {{cmd|libpython/pygrass_raster|desc=manual page}}) ===
Create a new raster map and derive it's new values from <tt>elevation</tt> raster. Import the necessary classes:
<source lang="python">
from grass.pygrass.raster import RasterRow
</source>
Open the existing raster in read mode and print first 5 values of the first row (indices from S to N):
<source lang="python">
elev = RasterRow('elevation')
print elev.exist()
print elev.mapset
elev.open('r')
print elev[0][:5]
elev.close()
</source>

Create a new raster and write value 1 for cells with elevation < 120 and 0 otherwise:
<source lang="python">
new = RasterRow('new')
new.open('w', overwrite=True)
for row in elev:
    new.put_row(row < 120)
new.close()
print new.exist()
</source>
Query old and new raster maps:
<source lang="python">
from grass.pygrass.vector import geometry

new.open('r')
elev.open('r')
poi1 = geometry.Point(632942, 225757)
poi2 = geometry.Point(641780, 217455)
print elev.get_value(poi1), new.get_value(poi1)
print elev.get_value(poi2), new.get_value(poi2)
new.close()
elev.close()
</source>

For more examples of using PyGRASS, please look at [https://github.com/wenzeslaus/python-grass-addon How to write a Python GRASS GIS 7 addon] workshop from FOSS4G-Europe 2015 and additional tutorials can be found [[Python/pygrass|on a PyGRASS wiki page]].

= Parallelization examples =
A simple way to execute several modules in parallel (developed by Sören Gebbert) 
is the [https://grass.osgeo.org/grass71/manuals/libpython/pygrass.modules.interface.html?highlight=parallelmodulequeue#pygrass.modules.interface.module.ParallelModuleQueue ParallelModuleQueue class]. The basic idea is to create a queue with all the modules that must be execute in parallel. The ParallelModuleQueue class is based on the Module class of the pygrass library, here is a small example for computation of solar irradiance during day:
<source lang="python">
from copy import deepcopy
from grass.pygrass.modules import Module, ParallelModuleQueue

def main(elevation):
    # compute slope and aspect for r.sun
    Module('r.slope.aspect', elevation=elevation, aspect='aspect', slope='slope', overwrite=True)
    # initialize an empty queue and list
    queue = ParallelModuleQueue(nprocs=4)
    sun_name = 'sun_{}'
    # set computational region
    Module('g.region', raster=elevation)
    # initialize a module instance with shared inputs
    sun = Module('r.sun', elevation=elevation, slope='slope', aspect='aspect',
                 beam_rad='beam', step=1, day=123, run_=False, overwrite=True)

    for t in range(6, 22):
        # create a copy of the module and set the remaining parameters
        print t
        m = deepcopy(sun)(beam_rad=sun_name.format(t), time=t)
        queue.put(m)
    queue.wait()

    # set color table
    Module('r.colors', map=[sun_name.format(t) for t in range(6, 22)], color='grey', flags='e')

if __name__ == '__main__':
    elevation = 'elev_lid792_1m'
    main(elevation)
</source>

This simple parallel implementation uses Python class Pool:

<source lang="python">
from multiprocessing import Pool
import grass.script as gs

def rsun(params):
    gs.run_command('r.sun', **params)

def main(elevation):
    parameters = []
    sun_name = 'sun_{}'
    for t in range(6, 22):
        params = dict(elevation=elevation, slope='slope', aspect='aspect',
                      step=1, day=123, beam_rad=sun_name.format(t), time=t, overwrite=True)
        parameters.append(params)
    pool = Pool(4)
    p = pool.map_async(rsun, parameters)
    p.get()
        
if __name__ == '__main__':
    elevation = 'elev_lid792_1m'
    main(elevation)
</source>

This example shows parallelization by splitting computation into tiles using [https://grass.osgeo.org/grass71/manuals/libpython/pygrass.modules.grid.html?highlight=gridmodule#pygrass.modules.grid.grid.GridModule GridModule]:
<source lang="python">
import grass.script as gs
from grass.pygrass.modules.grid import GridModule

def main(elevation):
    region = gs.region()
    width = region['cols'] // 2 + 1
    height = region['rows'] // 2 + 1

    grd = GridModule('r.slope.aspect', elevation=elevation, slope='slope',
                     debug=False, width=width, height=height,
                     overlap=10, processes=4, overwrite=True)
    grd.run()

if __name__ == '__main__':
    elevation = 'elevation'
    gs.run_command('g.region', raster=elevation)
    main(elevation)
</source>

= Tangible Landscape =
[[File:Tangible landscape setup.jpg|400px|thumbnail|right|Tangible Landscape setup]]

[http://baharmon.github.io/foss4g-na-2016-workshop/ A brief introduction to Tangible Landscape]

Tangible Landscape is a collaborative modeling environment for analysis of terrain changes.
We couple a scanner, projector and a physical 3D model with GRASS GIS.
We can analyze the impact of terrain changes by capturing the changes on the model,
bringing them into the GIS, performing desired analysis or simulation and projecting the results back on the model in real-time.
Tangible Landscape, as an easy-to-use 3D sketching tool, enables rapid design and scenarios testing for people with different backgrounds
and computer knowledge, as well as support for decision-making process.

Tangible Landscape has been used for a variety of applications supported by the extensive set of geospatial analysis and modeling tools available in GRASS GIS. We have explored how dune breaches affect the extent of coastal flooding, the impact of different building configurations on cast shadows and solar energy potential, and the effectiveness of various landscape designs for controlling runoff and erosion. Have a look at our [tangible-landscape.github.io/ website], [https://www.springer.com/la/book/9783319893020 book], and [https://www.youtube.com/channel/UCc37pVh-WE46Xkqeq-KZQsA Youtube channel].

The software is free and open source and you can [https://github.com/tangible-landscape/grass-tangible-landscape download it] and use it in your own setup of Tangible Landscape.

Presentation [http://baharmon.github.io/foss4g-na-2016/#/ here]

== Running examples ==
We will use a repository on GitHub to collect code samples participants and then run them in Tangible Landscape environment (we used [https://titanpad.com/6GqTXa8deI this Titanpad] during the workshop and [https://codeshare.io/ codeshare] in one class).
Whenever a scanning cycle is complete, a specified Python file is imported and all analyses in that file are computed.
Analyses are organized into functions with defined interface - each function has to start with <tt>run_</tt>.
Input parameter <tt>scanned_elev</tt> is the scanned raster (our DEM) and <tt>env</tt> is the environment which needs to be passed to individual subprocesses to correctly handle the region of the analysis.

Since participants will develop and test the analyses on their computers before we apply them to Tangible Landscape,
we add here the 'main' function with predefined parameters and participants will run it as a script.

<source lang="python">
import grass.script as gs

def run_slope(scanned_elev, env, **kwargs):
    # compute the analysis
    gs.run_command('r.slope.aspect', ..., env=env) 

if __name__ == '__main__':
    import os
    os.environ['GRASS_OVERWRITE'] = '1'
    elevation = 'elev_lid792_1m'
    run_slope(scanned_elev=elevation, env=None)
</source>

We will run the scripts from ''Simple Python Editor'' (Python tab -> Simple editor).
Alternatively, scripts can be run from terminal or GUI command console:
<pre>
python /path/to/my/script.py
</pre>

On Windows the path will look differently, for example:
<pre>
python C:\Users\yourname\path\to\my\script.py
</pre>

Make sure you set computational region to match your DEM. We will use raster DEM <tt>elev_lid792_1m</tt> from the sample dataset.
<pre>
g.region raster=elev_lid792_1m -p
</pre>

Here follow some basic examples of geospatial analyses we can do with Tangible Landscape.
At the end of this section you can find additional tasks, some of them combining multiple analyses.

== Modeling topography ==
=== Computing slope ===
[[File:tangible landscape slope.jpg|400px|thumbnail|right|Tangible Landscape: topographic slope]]
Basic example how we can compute topographic slope in degrees:
<source lang="python">
import grass.script as gs

def run_slope(scanned_elev, env, **kwargs):
    gs.run_command('r.slope.aspect', elevation=scanned_elev, slope='slope', env=env)

if __name__ == '__main__':
    elevation = 'elev_lid792_1m'
    env = None
    run_slope(scanned_elev=elevation, env=env)
</source>

We can compute slope in percent and reclassify the values into discrete intervals:
<source lang="python">
def run_slope(scanned_elev, env, **kwargs):
    gs.run_command('r.slope.aspect', elevation=scanned_elev, slope='slope',
                        format='percent', env=env)
    # reclassify using rules passed as a string to standard input
    # 0:2:1 means reclassify interval 0 to 2 percent of slope to category 1 
    rules = ['0:2:1', '2:5:2', '5:8:3', '8:15:4', '15:30:5', '30:*:6']
    gs.write_command('r.recode', input='slope', output='slope_class',
                          rules='-', stdin='\n'.join(rules), env=env)
    # set new color table: green - yellow - red
    gs.run_command('r.colors', map='slope_class', color='gyr', env=env)
</source>

=== Curvatures ===
Explore concavity/convexity of terrain with curvatures computed by {{cmd|r.param.scale}}:

<source lang="python">
def run_curvatures(scanned_elev, env, **kwargs):
    gs.run_command('r.param.scale', input=scanned_elev, output='profile_curv',
                   method='profc', size=11, env=env)
    gs.run_command('r.param.scale', input=scanned_elev, output='tangential_curv',
                   method='crosc', size=11, env=env)
    gs.run_command('r.colors', map=['profile_curv', 'tangential_curv'], color='curvature', env=env)
</source>
Change window size and see how it influences the result.

=== Landform identification ===
[[File:Tangible landscape geomorphons.jpg|400px|thumbnail|right|Tangible Landscape: Landforms computed with {{AddonCmd|r.geomorphon}}]]
There are 2 different methods for landform (ridge, valley, ...) identification in GRASS GIS.
First one is implemented in {{cmd|r.param.scale}} and uses curvatures.
The second is implemented in an addon {{AddonCmd|r.geomorphon}} which uses multiscale line-of-sight approach. This addon can be installed
from GUI command line:
<source lang="bash">
g.extension r.geomorphon
</source>
or follow 
[https://grasswiki.osgeo.org/wiki/Introduction_to_GRASS_GIS_with_terrain_analysis_examples#Step_5:_Adding_the_r.geomorphon_Addon this tutorial].

<source lang="python">
def run_curvatures(scanned_elev, env, **kwargs):
    gs.run_command('r.param.scale', input=scanned_elev, output='landforms1',
                   method='feature', size=10, env=env)
    gs.run_command('r.geomorphon', elevation=scanned_elev, forms='landforms2',
                   search=16, skip=6, env=env)
</source>

=== Building model based on difference raster ===
When building a model by hands based on a defined DEM, we can compute the difference between the scanned model and the original DEM.
By color-coding the difference, we can see where to add sand or remove it. 

If you are running this outside of Tangible Landscape, you can generate a raster (our hypothetical pile of sand)
and compute the difference. In this example we also vertically rescale and translate the scanned raster to match
the original DEM using {{cmd|r.regression.line}}.
<source lang="python">
import grass.script as gs

def run_difference(real_elev, scanned_elev, env, **kwargs):
    regression_params = gs.parse_command('r.regression.line', flags='g', mapx=scanned_elev, mapy=real_elev, env=env)
    gs.mapcalc('{regression} = {a} + {b} * {before}'.format(a=regression_params['a'], b=regression_params['b'],
                                                            before=scanned_elev, regression='regression'), env=env)
    gs.mapcalc('{difference} = {regression} - {after}'.format(regression='regression', after=real_elev, difference='diff'), env=env)
    gs.write_command('r.colors', map='diff', rules='-', stdin="-100 black\n-20 red\n0 white\n20 blue\n100 black", env=env)

if __name__ == '__main__':
    elevation = 'elev_lid792_1m'
    sand_pile = 'sand_pile'
    env = None
    gs.run_command('r.surf.fractal', output=sand_pile)
    run_difference(real_elev=elevation, scanned_elev=sand_pile, env=env)
</source>

== Hydrology ==
=== Flooding with {{cmd|r.lake}} ===
[[File:tangible landscape rlake.jpg|200px|thumbnail|right|Example of simple flooding simulation with Tangible Landscape and {{cmd|r.lake}} module.]]

Module {{cmd|r.lake}} fills a lake to a target water level from a given start point or seed raster.
The resulting raster map contains cells with values representing lake depth and NULL for all other cells beyond the lake.

Example showing basic usage:
<source lang="python">
def run_lake(scanned_elev, env, **kwargs):
    coordinates = [638830, 220150]
    gs.run_command('r.lake', elevation=scanned_elev, lake='output_lake',
                   coordinates=coordinates, water_level=120, env=env)
</source>

Create a lake where water level is relative to the altitude of the seed cell. Use function {{pyapi|script|script.raster|raster_what}} to obtain the elevation value of the DEM and create a lake with water level being for example 5 m higher.

<source lang="python">
def run_lake(scanned_elev, env, **kwargs):
    coordinates = [638830, 220150]
    res = gs.raster_what(map=scanned_elev, coord=[coordinates])
    elev_value = float(res[0][scanned_elev]['value'])
    gs.run_command('r.lake', elevation=scanned_elev, lake='output_lake',
                   coordinates=coordinates, water_level=elev_value + 5, env=env)
</source>
<!--* {{cmd|r.lake}} can use not just coordinates, but also raster as seed, useful for example for simple river flooding. The task is to simulate raising water level from raster of lowest areas of the DEM. The lowest areas can be found using {{cmd|r.univar}} and extracted as {{cmd|r.mapcalc}}, we can for example specify low lying areas as cells with value smaller than 10th percentile.-->

=== Flow accumulation and watersheds ===
We can derive watersheds and flow accumulation using module {{cmd|r.watershed}} in one command:
<source lang="python">
def run_hydro(scanned_elev, env, **kwargs):
    gs.run_command('r.watershed', elevation=scanned_elev, accumulation='flow_accum',
                   basin='watersheds', threshold=1000, flags='a', env=env)
</source>

Compute average slope value for each watershed. To do that use zonal statistics using {{cmd|r.stats.zonal}}:
<source lang="python">
def run_watershed_slope(scanned_elev, env, **kwargs):
    gs.run_command('r.watershed', elevation=scanned_elev, accumulation='flow_accum',
                   basin='watersheds', threshold=1000, env=env)
    gs.run_command('r.slope.aspect', elevation=scanned_elev, slope='slope', env=env)
    gs.run_command('r.stats.zonal', base='watersheds', cover='slope', method='average',
                   output='watersheds_slope', env=env)
    gs.run_command('r.colors', map='watersheds_slope', color='bgyr', env=env)
</source>

=== Depression filling ===
[[File:tangible_landscape_r_fill_dir.jpg|400px|thumbnail|right|Tangible Landscape: example of using {{cmd|r.fill.dir}} to create ponds]]
We will use depression filling algorithm implemented in {{cmd|r.fill.dir}} not as preprocessing step for flow accumulation analysis, but for creating ponds.
Because depressions are often nested, we will run depression filling several times:
<source lang="python">
def run_ponds(scanned_elev, env, **kwargs):
    repeat = 2
    input_dem = scanned_elev
    output = "tmp_filldir"
    for i in range(repeat):
        gs.run_command('r.fill.dir', input=input_dem, output=output, direction="tmp_dir", env=env)
        input_dem = output
    # filter depression deeper than 0.1 m to
    gs.mapcalc('{new} = if({out} - {scan} > 0.1, {out} - {scan}, null())'.format(new='ponds', out=output,
                                                                                 scan=scanned_elev), env=env)
    gs.write_command('r.colors', map='ponds', rules='-', stdin='0% aqua\n100% blue', env=env)
</source>

=== Overland water flow simulation ===
Module {{cmd|r.sim.water}} is an overland flow hydrology simulation using path sampling method.
<source lang="python">
def run_waterflow(scanned_elev, env, **kwargs):
    # first we need to compute x- and y-derivatives
    gs.run_command('r.slope.aspect', elevation=scanned_elev, dx='scan_dx', dy='scan_dy', env=env)
    gs.run_command('r.sim.water', elevation=scanned_elev, dx='scan_dx', dy='scan_dy',
                   rain_value=150, depth='flow', env=env)
</source>

=== Erosion modeling ===
Landscape potential for soil erosion and deposition can be estimated and mapped using Unit Stream Power Based Erosion Deposition model (USPED). In this example we will use uniform land cover (c factor) and soil erodibility (K factor). Install addon {{AddonCmd|r.divergence}} using {{cmd|g.extension}}.
<source lang="python">
def run_usped(scanned_elev, env, **kwargs):
    gs.run_command('r.slope.aspect', elevation=scanned_elev, slope='slope', aspect='aspect', env=env)
    gs.run_command('r.watershed', elevation=scanned_elev, accumulation='flow_accum', threshold=1000, flags='a', env=env)
    # topographic sediment transport factor
    resolution = gs.region()['nsres']
    gs.mapcalc("sflowtopo = pow(flow_accum * {res}.,1.3) * pow(sin(slope),1.2)".format(res=resolution), env=env)
    # compute sediment flow by combining the rainfall, soil and land cover factors with the topographic sediment transport factor. We use a constant value of 270 for rainfall intensity factor
    gs.mapcalc("sedflow = 270. * {k_factor} * {c_factor} * sflowtopo".format(c_factor=0.05, k_factor=0.1), env=env)
    # compute divergence of sediment flow
    gs.run_command('r.divergence', magnitude='sedflow', direction='aspect', output='erosion_deposition', env=env)
    colors = ['0% 100:0:100', '-100 magenta', '-10 red', '-1 orange', '-0.1 yellow', '0 200:255:200',
              '0.1 cyan', '1 aqua', '10 blue', '100 0:0:100', '100% black']
    gs.write_command('r.colors', map='erosion_deposition',  rules='-', stdin='\n'.join(colors), env=env)
</source>

== Solar radiation and shades ==
We will first compute solar irradiation (daily radiation sum in Wh/m2.day) for a given day using {{cmd|r.sun}}:
<source lang="python">
def run_solar_radiation(scanned_elev, env, **kwargs):
    # convert date to day of year
    import datetime
    doy = datetime.datetime(2016, 5, 2).timetuple().tm_yday
    # precompute slope and aspect
    gs.run_command('r.slope.aspect', elevation=scanned_elev, slope='slope', aspect='aspect', env=env)
    gs.run_command('r.sun', elevation=scanned_elev, slope='slope', aspect='aspect', beam_rad='beam', step=1, day=doy, env=env)
    gs.run_command('r.colors', map='beam', color='grey', flags='e')
</source>

Then we can also compute solar irradiance (W/m2) for a given day and hour (in local solar time) and extract the shades cast by topography:
<source lang="python">
def run_solar_radiance(scanned_elev, env, **kwargs):
    # convert date to day of year
    import datetime
    doy = datetime.datetime(2016, 5, 2).timetuple().tm_yday
    # precompute slope and aspect
    gs.run_command('r.slope.aspect', elevation=scanned_elev, slope='slope', aspect='aspect', env=env)
    gs.run_command('r.sun', elevation=scanned_elev, slope='slope', aspect='aspect', beam_rad='beam', day=doy, time=8, env=env)
    # extract shade and set color to black and white
    gs.mapcalc("shade = if(beam == 0, 0, 1)", env=env)
    gs.run_command('r.colors', map='beam', color='grey')
</source>

== Visibility analysis ==
First example shows computing viewshed (visibility) from a given coordinate:
<source lang="python">
def run_viewshed(scanned_elev, env, **kwargs):
    coordinates = [638830, 220150]
    gs.run_command('r.viewshed', input=scanned_elev, output='viewshed', coordinates=coordinates, observer_elevation=1.75, flags='b', env=env)
    gs.run_command('r.colors', map='viewshed', color='grey')
</source>
== Cost surface and least cost path ==
[[File:least_cost_path.jpg|400px|thumbnail|right|Least cost path example where cost is slope]]
This example shows least cost path analysis with slope as cost. Coordinates will be provided by Tangible Landscape.
The resulting path will go through flat areas.

<source lang="python">
import grass.script as gs
def LCP(elevation, start_coordinate, end_coordinate, env):
    gs.run_command('r.slope.aspect', elevation=scanned_elev, slope='slope', env=env)
    gs.run_command('r.cost', input='slope', output='cost', start_coordinates=start_coordinate,
                   outdir='outdir', flags='k', env=env)
    gs.run_command('r.colors', map='cost', color='gyr', env=env)
    gs.run_command('r.drain', input='cost', output='drain', direction='outdir',
                   drain='drain', flags='d', start_coordinates=end_coordinate, env=env)

if __name__ == '__main__':
    elevation = 'elev_lid792_1m'
    env = None
    start = [638469, 220070]
    end = [638928, 220472]
    LCP(elevation, start, end, env)
</source>

== Additional tasks ==
# Compute topographic index using {{cmd|r.topidx}}.
# Compute topographic aspect (slope orientation) using {{cmd|r.slope.aspect}} and reclassify it into 8 main directions.
# Show areas with concave profile and tangential curvature (concave forms have negative curvature).
# Derive peaks using either {{AddonCmd|r.geomorphon}} or {{cmd|r.param.scale}} and convert them to points (using {{cmd|r.to.vect}} and {{cmd|v.to.points}}). From each of those points compute visibility with observer height of your choice a derive a cumulative viewshed layer where the value of each cell represents the number of peaks the cell is visible from (use {{cmd|r.series}}).
# Find a least cost path between 2 points (for example from x=638360, y=220030 to x=638888, y=220388) where cost is defined as topographic index (trying avoid areas). Use {{cmd|r.topidx}}.
# Compute erosion with spatially variable landcover and soil erodibility (use rasters <tt>cfactorbare_1m</tt> and <tt>soils_Kfactor</tt> from the provided dataset). Reclassify the result into 7 classes based on severity of erosion and deposition:
<pre>-120000.:-10:1:1
-10.:-5.:2:2
-5.:-0.1:3:3
-0.1:0.1:4:4
0.1:5.:5:5
5.:10.:6:6
10.:150000.:7:7
</pre>

[[Category: Tutorial]]
[[Category: Workshops]]
[[Category: Python]]
[[Category: 2016]]