Working with GRASS without starting it explicitly

GRASS GIS modules and the import of GRASS Python packages works only in a specific environmental settings (GRASS session). This settings is ensured by starting GRASS GIS application which prepares this GRASS session for you. It is possible to set up you system in the way that the GRASS session will be always active (i.e. the GRASS startup script is not running, just the environmental settings are done). People often prefer to set up the GRASS environment in their script or program and this is what this article discuss. However, it must be noted that the the generally preferred (and easy) way is to create scripts and programs as GRASS modules which means that your don't have to bother with setting up the environment since the GRASS module should be always invoked only in GRASS session.

GRASS sessions

It is possible to access GRASS modules without explicitly starting a "GRASS session". GRASS libraries require certain environment variables to be set. In fact a "GRASS session" is just a set of processes (e.g. a shell and/or GUI) which have the necessary environment settings, specifically:

• GISBASE needs to be set to the top-level directory of the GRASS installation.
• GISRC needs to contain the absolute path to a file containing settings for GISDBASE, LOCATION_NAME and MAPSET.
• PATH needs to include $GISBASE/bin and $GISBASE/scripts.

If the GRASS libraries are shared libraries, the loader needs to be able to find them. This normally means that LD_LIBRARY_PATH (Linux, Solaris), DYLD_LIBRARY_PATH (MacOSX) or PATH (Windows) need to contain $GISBASE/lib, although there are other means to the same end (e.g. on Linux, putting $GISBASE/lib (with $GISBASE replaced by its actual value) into /etc/ld.so.conf then running ldconfig).

Some libraries and modules use other variables. More information for most of them is available in the file $GISBASE/docs/html/variables.html. The display libraries used by d.* commands use additional variables, which are documented along with the individual drivers.

Batch jobs

You can run GRASS scripts non-interactively from outside of a GRASS session with the GRASS_BATCH_JOB environment variable. When GRASS is started with this environment variable set it will automatically run the contents of the script given in the variable, then close the GRASS session when complete. In this way full lock-checking, GRASS variables setup, and temporary file cleaning tasks are still performed.

See the Batch jobs section of the GRASS shell-help wiki page for details.

Accessing GRASS modules without starting a GRASS session

The easiest way: the --exec flag

Since GRASS GIS 7.2.x you can execute commands from outside by passing the command to be executed (or a script with a collection of GRASS GIS commands) to the --exec flag:

Creating a new Location based on a geodata file's projection (-c) and exit (-e) immediately:

grass72 -c elevation.tiff -e /path/to/grassdata/test1/

Linking external raster data to PERMANENT Mapset:

grass72 /path/to/grassdata/test1/PERMANENT/ --exec r.external input=basins.tiff output=basins
grass72 /path/to/grassdata/test1/PERMANENT/ --exec r.external input=elevation.tiff output=elevation

Get statistics for one raster map:

grass72 /path/to/grassdata/test1/PERMANENT/ --exec r.univar map=elevation

Compare the rasters visually:

grass72 /path/to/grassdata/test1/PERMANENT/ --exec g.gui.mapswipe first=elevation second=basins

Read more in the manual.

Python examples

See also GRASS Python Scripting Library

Hint: find the path to the GRASS GIS package

Hint: in order to find the path to the GRASS GIS package, launch it with --config path:

# Linux
grass72 --config path
/usr/bin/grass-7.2.0

# Windows
C:\>grass72.bat --config path
C:\OSGeo4W\apps\grass\grass-7.2

Python: GRASS GIS 7 with existing location

See the example in the documentation or the script which initializes the session and lists available raster and vector maps:

#!/usr/bin/env python

import os
import sys
import subprocess

# path to the GRASS GIS launch script
# MS Windows
grass7bin_win = r'C:\OSGeo4W\bin\grass72svn.bat'
# uncomment when using standalone WinGRASS installer
# grass7bin_win = r'C:\Program Files (x86)\GRASS GIS 7.2.0\grass72.bat'
# Linux
grass7bin_lin = 'grass72'
# Mac OS X
# this is TODO
grass7bin_mac = '/Applications/GRASS/GRASS-7.2.app/'

# DATA
# define GRASS DATABASE
# add your path to grassdata (GRASS GIS database) directory
gisdb = os.path.join(os.path.expanduser("~"), "grassdata")
# the following path is the default path on MS Windows
# gisdb = os.path.join(os.path.expanduser("~"), "Documents/grassdata")

# specify (existing) location and mapset
location = "nc_spm_08"
mapset   = "user1"


########### SOFTWARE
if sys.platform.startswith('linux'):
    # we assume that the GRASS GIS start script is available and in the PATH
    # query GRASS 7 itself for its GISBASE
    grass7bin = grass7bin_lin
elif sys.platform.startswith('win'):
    grass7bin = grass7bin_win
else:
    raise OSError('Platform not configured.')

# query GRASS 7 itself for its GISBASE
startcmd = [grass7bin, '--config', 'path']

p = subprocess.Popen(startcmd, shell=False,
                     stdout=subprocess.PIPE, stderr=subprocess.PIPE)
out, err = p.communicate()
if p.returncode != 0:
    print >>sys.stderr, "ERROR: Cannot find GRASS GIS 7 start script (%s)" % startcmd
    sys.exit(-1)
gisbase = out.strip('\n\r')

# Set GISBASE environment variable
os.environ['GISBASE'] = gisbase
# the following not needed with trunk
os.environ['PATH'] += os.pathsep + os.path.join(gisbase, 'extrabin')
# add path to GRASS addons
home = os.path.expanduser("~")
os.environ['PATH'] += os.pathsep + os.path.join(home, '.grass7', 'addons', 'scripts')

# define GRASS-Python environment
gpydir = os.path.join(gisbase, "etc", "python")
sys.path.append(gpydir)

########### DATA
# Set GISDBASE environment variable
os.environ['GISDBASE'] = gisdb
 
# import GRASS Python bindings (see also pygrass)
import grass.script as gscript
import grass.script.setup as gsetup
 
###########
# launch session
gsetup.init(gisbase,
            gisdb, location, mapset)
 
gscript.message('Current GRASS GIS 7 environment:')
print gscript.gisenv()
 
gscript.message('Available raster maps:')
for rast in gscript.list_strings(type = 'rast'):
    print rast
 
gscript.message('Available vector maps:')
for vect in gscript.list_strings(type = 'vect'):
    print vect

Python: GRASS GIS 7 without existing location using metadata only

The script initializes the session, creates a temporary GRASS location and lists available raster and vector maps:

#!/usr/bin/env python

# Python script to generate a new GRASS GIS 7 location simply from metadata
# Markus Neteler, 2014

# ?? LINUX USAGE: First set LIBRARY SEARCH PATH
#export LD_LIBRARY_PATH=$(grass72 --config path)/lib
#python start_grass7_create_new_location_ADVANCED.py

# some predefined variables

# Windows
grass7path = r'C:\OSGeo4W\apps\grass\grass-7.2.svn'
grass7bin_win = r'C:\OSGeo4W\bin\grass72svn.bat'
# Linux
grass7bin_lin = 'grass72'
# MacOSX
grass7bin_mac = '/Applications/GRASS/GRASS-7.1.app/'
#myepsg = '4326' # latlong
myepsg = '3044' # ETRS-TM32, http://spatialreference.org/ref/epsg/3044/
#myfile = '/home/neteler/markus_repo/books/kluwerbook/data3rd/lidar/lidar_raleigh_nc_spm.shp'
myfile = '/data/maps/world_natural_earth_250m/europe_north_east.tif'
#myfile = r'C:\Dati\Padergnone\square_p95.tif'

###########
import os
import sys
import subprocess
import shutil
import binascii
import tempfile

########### SOFTWARE
if sys.platform.startswith('linux'):
    # we assume that the GRASS GIS start script is available and in the PATH
    # query GRASS 7 itself for its GISBASE
    grass7bin = grass7bin_lin
elif sys.platform.startswith('win'):
    grass7bin = grass7bin_win
else:
    OSError('Platform not configured.')

startcmd = grass7bin + ' --config path'

p = subprocess.Popen(startcmd, shell=True, 
					 stdout=subprocess.PIPE, stderr=subprocess.PIPE)
out, err = p.communicate()
if p.returncode != 0:
	print >>sys.stderr, 'ERROR: %s' % err
	print >>sys.stderr, "ERROR: Cannot find GRASS GIS 7 start script (%s)" % startcmd
	sys.exit(-1)
if sys.platform.startswith('linux'):
	gisbase = out.strip('\n')
elif sys.platform.startswith('win'):
    if out.find("OSGEO4W home is") != -1:
		gisbase = out.strip().split('\n')[1]
    else:
		gisbase = out.strip('\n')
    os.environ['GRASS_SH'] = os.path.join(gisbase, 'msys', 'bin', 'sh.exe')

# Set GISBASE environment variable
os.environ['GISBASE'] = gisbase
# define GRASS-Python environment
gpydir = os.path.join(gisbase, "etc", "python")
sys.path.append(gpydir)
########
# define GRASS DATABASE
if sys.platform.startswith('win'):
    gisdb = os.path.join(os.getenv('APPDATA', 'grassdata'))
else:
    gisdb = os.path.join(os.getenv('HOME', 'grassdata'))

# override for now with TEMP dir
gisdb = os.path.join(tempfile.gettempdir(), 'grassdata')
try:
    os.stat(gisdb)
except:
    os.mkdir(gisdb)

# location/mapset: use random names for batch jobs
string_length = 16
location = binascii.hexlify(os.urandom(string_length))
mapset   = 'PERMANENT'
location_path = os.path.join(gisdb, location)

# Create new location (we assume that grass7bin is in the PATH)
#  from EPSG code:
startcmd = grass7bin + ' -c epsg:' + myepsg + ' -e ' + location_path
#  from SHAPE or GeoTIFF file
#startcmd = grass7bin + ' -c ' + myfile + ' -e ' + location_path

print startcmd
p = subprocess.Popen(startcmd, shell=True, 
                     stdout=subprocess.PIPE, stderr=subprocess.PIPE)
out, err = p.communicate()
if p.returncode != 0:
    print >>sys.stderr, 'ERROR: %s' % err
    print >>sys.stderr, 'ERROR: Cannot generate location (%s)' % startcmd
    sys.exit(-1)
else:
    print 'Created location %s' % location_path

# Now the location with PERMANENT mapset exists.

########
# Now we can use PyGRASS or GRASS Scripting library etc. after 
# having started the session with gsetup.init() etc

# Set GISDBASE environment variable
os.environ['GISDBASE'] = gisdb

# Linux: Set path to GRASS libs (TODO: NEEDED?)
path = os.getenv('LD_LIBRARY_PATH')
dir  = os.path.join(gisbase, 'lib')
if path:
    path = dir + os.pathsep + path
else:
    path = dir
os.environ['LD_LIBRARY_PATH'] = path

# language
os.environ['LANG'] = 'en_US'
os.environ['LOCALE'] = 'C'

# Windows: NEEDED?
#path = os.getenv('PYTHONPATH')
#dirr = os.path.join(gisbase, 'etc', 'python')
#if path:
#    path = dirr + os.pathsep + path
#else:
#    path = dirr
#os.environ['PYTHONPATH'] = path

#print os.environ

## Import GRASS Python bindings
import grass.script as grass
import grass.script.setup as gsetup

###########
# Launch session and do something
gsetup.init(gisbase, gisdb, location, mapset)

# say hello
grass.message('--- GRASS GIS 7: Current GRASS GIS 7 environment:')
print grass.gisenv()

# do something in GRASS now...

grass.message('--- GRASS GIS 7: Checking projection info:')
in_proj = grass.read_command('g.proj', flags = 'jf')

# selective proj parameter printing
kv = grass.parse_key_val(in_proj)
print kv
print kv['+proj']

# print full proj parameter printing
in_proj = in_proj.strip()
grass.message("--- Found projection parameters: '%s'" % in_proj)

# show current region:
grass.message('--- GRASS GIS 7: Checking computational region info:')
in_region = grass.region()
grass.message("--- Computational region: '%s'" % in_region)

# do something else: r.mapcalc, v.rectify, ...

# Finally remove the temporary batch location from disk
print 'Removing location %s' % location_path
shutil.rmtree(location_path)

sys.exit(0)

Python: GRASS GIS 6

The script initializes the session and lists available raster maps:

import os
import sys

gisbase = os.environ['GISBASE'] = "/usr/local/src/grass_trunk/dist.x86_64-unknown-linux-gnu"

gisdbase = os.path.join(os.environ['HOME'], "grassdata")
location = "nc_spm_08"
mapset   = "user1"

sys.path.append(os.path.join(os.environ['GISBASE'], "etc", "python"))
import grass.script as grass
import grass.script.setup as gsetup

gsetup.init(gisbase,
            gisdbase, location, mapset)

print grass.gisenv()

grass.message('Raster maps:')
for rast in grass.list_strings(type = 'rast'):
    print rast

Python: GRASS GIS 7 with an external library: grass-session

The grass-session library is under development. To contribute at the code, documentation and testing it is possible to install the current development version using:

pip install git+https://github.com/zarch/grass-session.git
# in the future the stable release would be available with:
# pip install grass-session

Then write

#!/usr/bin/env python
# filename: test_session.py

from grass_session import Session
from grass.script import core as gcore

# create a new location
with Session(gisdb="/tmp", location="location",
             create_opts="EPSG:4326"):
   # do something in permanent
   print(gcore.parse_command("g.gisenv", flags="s"))
# {u'GISDBASE': u"'/tmp/';",
#  u'LOCATION_NAME': u"'epsg3035';",
#  u'MAPSET': u"'PERMANENT';",}

# create a new mapset in an existing location
with Session(gisdb="/tmp", location="location", mapset="test",
             create_opts=""):
    # do something in the test mapset.
    print(gcore.parse_command("g.gisenv", flags="s"))
# {u'GISDBASE': u"'/tmp/';",
#  u'LOCATION_NAME': u"'epsg3035';",
#  u'MAPSET': u"'test';",}

The grass-session library looks at the GRASSBIN environmental variable. If the variable is not set, the library tries to use the current stable release of GRASS GIS (e.g. grass74 on Linux for the 7.4 release). For instance, to execute the previous example using a custom installation of 7.5 version, write:

GRASSBIN=$HOME/.local/bin/grass75 python test_session.py

Bash examples (GNU/Linux)

Note: see GRASS Batch jobs for a really easy approach.

Below an example of a ~/.bash_profile script to set the required settings in order to access GRASS commands outside of a GRASS-session. Specifically it is for GRASS 7 (commented parts for GRASS 6.4.2):

# example for GRASS 7
export GISBASE=/usr/local/grass-7.2.svn
# example for GRASS 6.4.2
### export GISBASE=/usr/local/grass-6.4.2svn

# GRASS 7
export GRASS_VERSION="7.2.svn"
# GRASS 6.4.2
### export GRASS_VERSION="6.4.2svn"

#generate GISRCRC
MYGISDBASE=$HOME/grassdata
MYLOC=nc_spm_08
MYMAPSET=user1

# Set the global grassrc file to individual file name
MYGISRC="$HOME/.grassrc.$GRASS_VERSION.$$"

echo "GISDBASE: $MYGISDBASE" > "$MYGISRC"
echo "LOCATION_NAME: $MYLOC" >> "$MYGISRC"
echo "MAPSET: $MYMAPSET" >> "$MYGISRC"
echo "GRASS_GUI: text" >> "$MYGISRC"
 
# path to GRASS settings file
export GISRC=$MYGISRC
export GRASS_PYTHON=python
export GRASS_MESSAGE_FORMAT=plain
export GRASS_TRUECOLOR=TRUE
export GRASS_TRANSPARENT=TRUE
export GRASS_PNG_AUTO_WRITE=TRUE
export GRASS_GNUPLOT='gnuplot -persist'
export GRASS_WIDTH=640
export GRASS_HEIGHT=480
export GRASS_HTML_BROWSER=firefox
export GRASS_PAGER=cat
export GRASS_WISH=wish
        
export PATH="$GISBASE/bin:$GISBASE/scripts:$PATH"
export LD_LIBRARY_PATH="$GISBASE/lib"
export GRASS_LD_LIBRARY_PATH="$LD_LIBRARY_PATH"
export PYTHONPATH="$GISBASE/etc/python:$PYTHONPATH"
export MANPATH=$MANPATH:$GISBASE/man

#For the temporal modules
export TGISDB_DRIVER=sqlite
export TGISDB_DATABASE=$MYGISDBASE/$MYLOC/PERMANENT/tgis/sqlite.db

# test a command
g.list rast

######### below not needed ########
# GRASS 7
tmp=/tmp/grass7-"`whoami`"-$GIS_LOCK
# GRASS 6.4.2
### tmp=/tmp/grass6-"`whoami`"-$GIS_LOCK

export GISRC="$tmp/rc"
mkdir "$tmp"

# GRASS 7
cp ~/.grass7/rc "$GISRC"
# GRASS 6.4.2
### cp ~/.grassrc6 "$GISRC"
######### END below not needed ########

The above script will allow GRASS commands to be used anywhere. Furthermore, if the ~/.Xsession sources the bash startup scripts, the settings aren't limited to interactive shells, but also work for e.g. M-! in XEmacs). Each interactive shell gets a separate "session" (i.e. a separate $GISRC file), while GUI programs share a common session.

Note, however, that ~/.bash_profile is a personal initialization startup script and, thus, read during the login process. Any modifications to it will be read after (re-)login or explicitly sourcing it.

At the end of the ~/.bash_profile file, the following lines can be added to ensure no duplication of entries in the PATH variable.

 PATH=`awk -F: '{for(i=1;i<=NF;i++){if(!($i in a)){a[$i];printf s$i;s=":"}}}'<<<$PATH`
 PYTHONPATH=`awk -F: '{for(i=1;i<=NF;i++){if(!($i in a)){a[$i];printf s$i;s=":"}}}'<<<$PYTHONPATH`

Important notes

Launching a grassXY session could still permit access on GRASS modules of the version that is set with the above script. The reason being is that grassXY scripts (e.g.: grass64, grass65, grass72) prepend the GRASS directories to PATH, LD_LIBRARY_PATH, etc. They won't remove any entries which are already there. A solution to this is to switch between GRASS versions by using a script like the following:

        strippath()
        {
            (
            oldpath="$1"
            newpath=
            IFS=:
            for dir in $oldpath ; do
                case "${dir}" in
                *grass*)
                        ;;
                *)
                        newpath="$newpath:$dir"
                        ;;
                esac
            done
            echo "${newpath#:}"
            )
        }
        
        PATH=`strippath $PATH`
        
        export GISBASE=$PWD/dist.i686-pc-linux-gnu
        export PATH="$GISBASE/bin:$GISBASE/scripts:$PATH"
        export LD_LIBRARY_PATH="$GISBASE/lib"
        export PYTHONPATH="$GISBASE/etc/python"

Note: the above script needs to be "source"d; executing it won't work. It might also require some adjustments (e.g. the GISBASE variable).

Using normal grass sessions commands are recorded in $GISDBASE/$LOCATION_NAME/$MAPSET/.bash_history. While working with "pure" bash, shell entries go in ~/.bash_history. Merging existing "grass-bash_history(-ies)" with the bash history log, would probably be not a good idea. Perhaps it is wise(r) to use normal GRASS sessions when working on real projects. Nevertheless, it is upon the users preferences and expertise level to decide what is best.

Hints and troubleshooting

Some hints for MS Windows users:

1. The Python interpreter (python.exe) needs to be in the PATH
2. Python needs to be associated with the .py extension
3. PATHEXT needs to include .py if you want to be able to omit the extension

When everything works well, the installer should take care of all of these.

To manage parallel sessions on Linux, use process ID (PID) as lock file number and set the GIS_LOCK variable, for example

 export GIS_LOCK=$$

in Bash.

References

• Instructions and discussion on how to access GRASS mapsets outside of a GRASS session in the grass-user mailing list.
• removing duplicate entries in $PATH taken from [1]

GRASS databases

(project file structure)

Minimal mapsets

within a functional LOCATION (see below) the minimal mapset is a subdirectory of the MAPSET's name, containing a WIND file. The WIND file can simply be copied from PERMANENT/DEFAULT_WIND. Optionally you can put a VAR file in there too to define the default database driver to use.

• You can create a new mapset when starting GRASS with the -c flag. e.g.

grass64 -c /path/to/location/new_mapset_name

Minimal locations

Within the GISDATABASE (which is simply a subdirectory some where), the minimum LOCATION consists of a directory giving the LOCATION its name, which in turn contains a PERMANENT subdirectory for the PERMANENT mapset. The PERMANENT mapset contains a few special files that regular mapsets don't. These are:

PROJ_INFO

contains the location's projection information

PROJ_UNITS

contains the location's map units definition

DEFAULT_WIND

the default region (WINDow file). The format is identical to the WIND files created by g.region

WIND

(optional?)

• see also demolocation in the GRASS source code

See also

• GRASS Batch jobs