[GRASS-SVN] r58859 - in grass/branches/develbranch_6/raster/r.li: . r.li.cwed r.li.daemon r.li.dominance r.li.edgedensity r.li.mpa r.li.mps r.li.padcv r.li.padrange r.li.padsd r.li.patchdensity r.li.patchnum r.li.pielou r.li.renyi r.li.richness r.li.setup r.li.shannon r.li.shape r.li.simpson
svn_grass at osgeo.org
svn_grass at osgeo.org
Mon Feb 3 13:13:55 PST 2014
Author: neteler
Date: 2014-02-03 13:13:55 -0800 (Mon, 03 Feb 2014)
New Revision: 58859
Modified:
grass/branches/develbranch_6/raster/r.li/description.html
grass/branches/develbranch_6/raster/r.li/r.li.cwed/description.html
grass/branches/develbranch_6/raster/r.li/r.li.daemon/description.html
grass/branches/develbranch_6/raster/r.li/r.li.dominance/description.html
grass/branches/develbranch_6/raster/r.li/r.li.edgedensity/description.html
grass/branches/develbranch_6/raster/r.li/r.li.mpa/description.html
grass/branches/develbranch_6/raster/r.li/r.li.mps/description.html
grass/branches/develbranch_6/raster/r.li/r.li.padcv/description.html
grass/branches/develbranch_6/raster/r.li/r.li.padrange/description.html
grass/branches/develbranch_6/raster/r.li/r.li.padsd/description.html
grass/branches/develbranch_6/raster/r.li/r.li.patchdensity/description.html
grass/branches/develbranch_6/raster/r.li/r.li.patchnum/description.html
grass/branches/develbranch_6/raster/r.li/r.li.pielou/description.html
grass/branches/develbranch_6/raster/r.li/r.li.renyi/description.html
grass/branches/develbranch_6/raster/r.li/r.li.richness/description.html
grass/branches/develbranch_6/raster/r.li/r.li.setup/description.html
grass/branches/develbranch_6/raster/r.li/r.li.shannon/description.html
grass/branches/develbranch_6/raster/r.li/r.li.shape/description.html
grass/branches/develbranch_6/raster/r.li/r.li.simpson/description.html
Log:
r.li.* manuals: content standardization, HTML cosmetics
Modified: grass/branches/develbranch_6/raster/r.li/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -9,12 +9,10 @@
<img src="grass_logo.png" alt="GRASS logo"><hr align=center size=6 noshade>
-
<h2>NAME</h2>
<em><b>r.li</b></em> - Landscape structure analysis package overview.
-
<h2>KEYWORDS</h2>
raster, landscape structure analysis, overview, landscape metrics,
@@ -23,53 +21,49 @@
<h2>DESCRIPTION</h2>
-The <em>r.li</em> suite is a toolset for multiscale analysis of landscape
-structure. It aims at replacing the <em>r.le</em> suite of modules
-through a client-server, multiprocess implementation. External software
-for quantitative measures of landscape structure is for example FRAGSTATS
-(McGarigal and Marks 1995).
+The <em>r.li</em> suite is a toolset for multiscale analysis of landscape structure.
+It aims at replacing the <em>r.le</em> suite of modules through a client-server,
+multiprocess implementation. External software for quantitative measures of landscape
+structure is for example FRAGSTATS (McGarigal and Marks 1995).
<p>
-The <em>r.li</em> suite offers a set of patch and diversity indices. It
-supports analysis of landscapes composed of a mosaic of patches, but,
-more generally, the modules work with any two-dimensional raster map
-whose cell values are integer (e.g., 1, 2) or floating point (e.g., 1.1,
-3.2) values. The <em>r.li.setup</em> module has options for controlling
-the shape, size, number, and distribution of sampling areas used to
-collect information about the landscape structure. Sampling area shapes
-can be the entire map or a moving window of square, rectangular or with
-circular shape. The size of sampling areas can be changed, so that the
-landscape can be analyzed at a variety of spatial scales simultaneously.
-Sampling areas may be distributed across the landscape in a random,
-systematic, or stratified-random manner, or as a moving window.
+The <em>r.li</em> suite offers a set of patch and diversity indices.
+It supports analysis of landscapes composed of a mosaic of
+patches, but, more generally, the modules work with any two-dimensional
+raster map whose cell values are integer (e.g., 1, 2) or floating point
+(e.g., 1.1, 3.2) values. The <em>r.li.setup</em> module has options for
+controlling the shape, size, number, and distribution of sampling
+areas used to collect information about the landscape structure.
+Sampling area shapes can be the entire map or a moving
+window of square, rectangular or with circular shape. The size of
+sampling areas can be changed, so that the landscape can be analyzed
+at a variety of spatial scales simultaneously. Sampling areas may be
+distributed across the landscape in a random, systematic, or
+stratified-random manner, or as a moving window.
<p>
The <em>r.li</em> modules can calculate a number of measures that produce
-single values as output (e.g. mean patch size in the sampling area), as
-well as measures that produce a distribution of values as output (e.g.
-frequency distribution of patch sizes in the sampling area). The results
-are stored as raster maps.
+single values as output (e.g. mean patch size in the sampling area),
+as well as measures that produce a distribution of values as output
+(e.g. frequency distribution of patch sizes in the sampling area). The
+results are stored as raster maps.
<p>
-The general procedure to calculate an index from a raster map is
-two-fold:
+The general procedure to calculate an index from a raster map is two-fold:
<ol>
-<li>run <em>r.li.setup</em>: create a configuration file selecting the
- parts of raster to analyze.
+<li>run <em>r.li.setup</em>: create a configuration file selecting the parts of
+ raster to analyze.
-<li>run <em>r.li.'index'</em> (e.g., <em>r.li.patchdensity</em>) for
- calculate the selected index using on the areas selected on
- configuration file.
+<li>run <em>r.li.'index'</em> (e.g., <em>r.li.patchdensity</em>) for calculate the selected
+ index using on the areas selected on configuration file.
</ol>
+<h2>NOTE</h2>
-<h2>NOTES</h2>
-
-Also the <em>r.li.daemon</em> has a main function and it can be run, but
-it is only a template for development of new indices.
+Also the <em>r.li.daemon</em> has a main function and it can be run, but it is only a
+template for development of new indices.
<!-- mhh ??: -->
-The function itself has no meaning, it can only be used for debugging.
+The function itself has no meaning, it can be used only for debug.
-
<h2>EXAMPLE</h2>
To calculate a patch density index on a whole 'geology' raster map in the
@@ -80,13 +74,13 @@
<ol>
<li> run
<div class="code"><pre>
- r.li.setup
+ r.li.setup
</pre></div>
<li> The main <em>r.li.setup</em> window is displayed, click on "New"
- <li> Now it is displayed the new configuration window, enter the
- configuration file name (e.g., "my_conf", do not use absolute
- paths) and the name of raster map (e.g., "geology"). The other
- fields are not needed for this configuration.
+ <li> Now it is displayed the new configuration window,
+ enter the configuration file name (e.g., "my_conf", do not use absolute paths)
+ and the name of raster map (e.g., "geology").
+ The other fields are not needed for this configuration.
<li> Click on "Setup sampling frame", select "Whole maplayer" and click "OK"
<li> Click on "Setup sampling areas", select "Moving window" and click "OK"
<li> Click on "Use keyboard to enter moving window dimension"
@@ -127,7 +121,6 @@
configuration file on a 200x200 raster map, then the sample area is
10x10.
-
<h2>SEE ALSO</h2>
<b>Core modules</b>:
Modified: grass/branches/develbranch_6/raster/r.li/r.li.cwed/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/r.li.cwed/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/r.li.cwed/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -1,64 +1,67 @@
-<H2>DESCRIPTION</H2>
+<h2>DESCRIPTION</h2>
-<EM>r.li.cwed</EM> (contrast weighted edge density) calculates the edge density
+<em>r.li.cwed</em> (contrast weighted edge density) calculates the edge density
between patch types specified:
<P><img src="rlicwed_formula.png"> </P>
<P>with:
<ul>
-<li> <B>k</B>: attribute<BR>
-<li> <B>m</B>: number of non-null attributes in the sampling area<BR>
-<li> <B>e<small><small>ik</small></small></B>: total length of edge in landscape between patch types i and k<BR>
-<li><B> d<small><small>ik</small></small></B>: dissimilarity (edge contrast weight) between patch types i and k<BR>
-<li> <B>Area</B>: total landscape area<BR>
-</ul><BR>
+<li> <B>k</B>: attribute<br>
+<li> <B>m</B>: number of non-null attributes in the sampling area<br>
+<li> <B>e<small><small>ik</small></small></B>: total length of edge in landscape between patch types i and k<br>
+<li><B> d<small><small>ik</small></small></B>: dissimilarity (edge contrast weight) between patch types i and k<br>
+<li> <B>Area</B>: total landscape area<br>
+</ul><br>
The input file have a row for each couple of patch type that we want to
-consider in the calculation. Each row must to have this syntax:<BR>
-<small>patchType1,patchType2,dissimilarityBetweenPatchType1andPatchType2</small><BR>
+consider in the calculation. Each row must to have this syntax:<br>
+<small>patchType1,patchType2,dissimilarityBetweenPatchType1andPatchType2</small><br>
-<H2>EXAMPLES</H2>
-To calculate mean pixel attribute index on map my_map, using
-my_conf configuration file and saving results in
-my_out file run:<BR>
-<div class="code"><pre>
-r.li.cwed map=my_map conf=my_conf path=my_file output=my_out
-</pre></div>
-<BR>Example of input file:<BR>
-12,16,0.65<BR>
-44,123,0.32<BR>
-56,12,0.54<BR>
-23,66,0.99<BR>
+<h2>NOTES</h2>
-<H2>NOTES</H2>
-Do not use absolute path names for output files. They are raster if
-moving window disposition was selected, otherwise they are in
-~/.r.li/output folder.
-<BR>
+Do not use absolute path names for the <b>output</b> map/file.
+If the "moving window" method was selected in <b>r.li.setup</b>, then the
+output will be a raster map, otherwise an ASCII file will be generated in
+the <tt>~/.r.li/output/</tt> folder.
+<p>
+<br>
If the raster is full of null value it is considered to have 0 patch and CWED=0.
If Area is 0 r.li.cwed returns -1. This is possible
-only if the map is masked.<BR>
-If you want to have null values instead run <BR>
+only if the map is masked.<br>
+If you want to have null values instead run <br>
<div class="code"><pre>
r.null setnull=-1 map=my_map
</pre></div>
-after index calculation.<BR>
-<BR>
+after index calculation.<br>
+<br>
-<H2>REFERENCES</H2>
+
+<h2>EXAMPLES</h2>
+To calculate mean pixel attribute index on map my_map, using
+my_conf configuration file and saving results in
+my_out file run:<br>
+<div class="code"><pre>
+r.li.cwed map=my_map conf=my_conf path=my_file output=my_out
+</pre></div>
+
+<br>Example of input file:<br>
+12,16,0.65<br>
+44,123,0.32<br>
+56,12,0.54<br>
+23,66,0.99<br><h2>REFERENCES</h2>
McGarigal, K., and B. J. Marks. 1995. FRAGSTATS: spatial pattern
analysis program for quantifying landscape structure. USDA For. Serv.
Gen. Tech. Rep. PNW-351.
-<H2>SEE ALSO</H2>
+<h2>SEE ALSO</h2>
-<EM><A HREF="r.li.html">r.li</A></EM> package overview <BR>
-<EM><A HREF="r.li.daemon.html">r.li.daemon</A></EM><BR>
-<EM><A HREF="r.li.setup.html">r.li.setup</A></EM>
+<em><a href="r.li.html">r.li</a></em> package overview <br>
+<em><a href="r.li.daemon.html">r.li.daemon</a></em><br>
+<em><a href="r.li.setup.html">r.li.setup</a></em>
-<H2>AUTHORS</H2>
-Serena Pallecchi student of Computer Science University of Pisa (Italy).<BR>
+<h2>AUTHORS</h2>
+Serena Pallecchi student of Computer Science University of Pisa (Italy).<br>
Commission from Faunalia Pontedera (PI), Italy (www.faunalia.it)
<p>
Modified: grass/branches/develbranch_6/raster/r.li/r.li.daemon/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/r.li.daemon/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/r.li.daemon/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -9,13 +9,13 @@
<img src="grass_logo.png" alt="GRASS logo"><hr align=center size=6 noshade>
-<H2>NAME</H2>
+<h2>NAME</h2>
-<EM><B>libgrass_rli</B></EM> - r.li landscape index support library
+<em><B>libgrass_rli</B></em> - r.li landscape index support library
-<H2>DESCRIPTION</H2>
+<h2>DESCRIPTION</h2>
-<EM>r.li.daemon</EM> provides support for landscape index calculations on raster
+<em>r.li.daemon</em> provides support for landscape index calculations on raster
maps. It hides the management of areas, defined using <a href="r.li.setup.html">r.li.setup</a>
command. It is not used like a standalone program, but its functions are
a library used by all <em>r.li.[index]</em> commands.<br>
@@ -57,7 +57,7 @@
</ol>
Compile it using a changed Makefile based on the file for <em>r.li.patchdensity</em>.
-<H2>NOTES</H2>
+<h2>NOTES</h2>
Using GRASS library function to access raster rows can slow down moving windows
execution. It is recommended to use
@@ -73,12 +73,12 @@
concurrent processes desired. If not set, the default is 10 concurrent jobs.
-<H2>SEE ALSO</H2>
+<h2>SEE ALSO</h2>
-<EM><A HREF="http://grass.osgeo.org/gdp/landscape/r_le_manual5.pdf">old r.le manual</A></EM><BR>
-<EM><A HREF="r.li.html">r.li</A></EM> package overview <BR>
-<EM><A HREF="r.li.patchdensity.html">r.li.patchdensity</A></EM>,
-<EM><A HREF="r.li.setup.html">r.li.setup</A></EM>
+<em><a href="http://grass.osgeo.org/gdp/landscape/r_le_manual5.pdf">old r.le manual</a></em><br>
+<em><a href="r.li.html">r.li</a></em> package overview <br>
+<em><a href="r.li.patchdensity.html">r.li.patchdensity</a></em>,
+<em><a href="r.li.setup.html">r.li.setup</a></em>
<h2>REFERENCES</h2>
@@ -86,7 +86,7 @@
analysis program for quantifying landscape structure. USDA For. Serv.
Gen. Tech. Rep. PNW-351. (<a href="http://treesearch.fs.fed.us/pubs/3064">PDF</a>)
-<H2>AUTHORS</H2>
+<h2>AUTHORS</h2>
Claudio Porta and Lucio Davide Spano, students of Computer Science
University of Pisa (Italy).<br>
Modified: grass/branches/develbranch_6/raster/r.li/r.li.dominance/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/r.li.dominance/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/r.li.dominance/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -10,10 +10,12 @@
</ul>
<h2>NOTES</h2>
-Do not use absolute path names for output files. They are raster if
-moving window disposition was selected, otherwise they are in
-~/.r.li/output folder. <br>
+Do not use absolute path names for the <b>output</b> map/file.
+If the "moving window" method was selected in <b>r.li.setup</b>, then the
+output will be a raster map, otherwise an ASCII file will be generated in
+the <tt>~/.r.li/output/</tt> folder.
+<p>
If input raster is full of null values r.li.dominance returns -1.<br>
If you want to have null values instead run <br>
<div class="code"><pre>
@@ -28,6 +30,11 @@
r.li.dominance map=my_map conf=my_conf output=my_out
</pre></div>
+<h2>REFERENCES</h2>
+McGarigal, K., and B. J. Marks. 1995. FRAGSTATS: spatial pattern
+analysis program for quantifying landscape structure. USDA For. Serv.
+Gen. Tech. Rep. PNW-351. (<a href="http://treesearch.fs.fed.us/pubs/3064">PDF</a>)
+
<h2>SEE ALSO</h2>
<em>
<a href="r.li.html">r.li</a>
Modified: grass/branches/develbranch_6/raster/r.li/r.li.edgedensity/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/r.li.edgedensity/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/r.li.edgedensity/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -14,17 +14,19 @@
<li><b>m</b>: number of patch type<br> </li>
<li><b>n</b>: number of edge segment of patch type k</li>
<li><b>e<small><small>ik </small></small></b>:total length of edge in landscape involving patch type k</li>
- <li> <B>Area</B>: total landscape area<BR>
+ <li> <B>Area</B>: total landscape area<br>
</ul>
<h2>NOTES</h2>
-Do not use absolute path names for output files. They are raster if
-moving window disposition was selected, otherwise they are in
-~/.r.li/output folder.
-<br>
-If input raster is full of null values r.li.edgedensity consider to have 0
+
+Do not use absolute path names for the <b>output</b> map/file.
+If the "moving window" method was selected in <b>r.li.setup</b>, then the
+output will be a raster map, otherwise an ASCII file will be generated in
+the <tt>~/.r.li/output/</tt> folder.
+<p>
+If input raster is full of null values <em>r.li.edgedensity</em> consider to have 0
patch.<br>
-If area is 0 r.li.edgedensity returns -1; this is possible only if input
+If area is 0 <em>r.li.edgedensity</em> returns -1; this is possible only if input
raster is masked.
If you want to have null values instead run <br>
<div class="code"><pre>
@@ -47,26 +49,16 @@
r.li.edgedensity map=my_map conf=my_conf output=my_out patch_type=34
</pre></div>
-<h2>NOTES</h2>
-Do not use absolute path names for output files. They are raster if
-moving window disposition was selected, otherwise they are in
-~/.r.li/output folder.
-<br>
-If input raster is full of null values r.li.edgedensity consider to have 0
-patch.<br>
-If area is 0 r.li.edgedensity returns -1; this is possible only if input
-raster is masked.
-If you want to have null values instead run <br>
-<div class="code"><pre>
-r.null setnull=-1 map=my_map
-</pre></div>
-after index calculation.
-
<h2>SEE ALSO</h2>
<em>
<a href="r.li.html">r.li</a>
</em>
+<h2>REFERENCES</h2>
+McGarigal, K., and B. J. Marks. 1995. FRAGSTATS: spatial pattern
+analysis program for quantifying landscape structure. USDA For. Serv.
+Gen. Tech. Rep. PNW-351.
+
<h2>AUTHORS</h2>
Serena Pallecchi student of Computer Science University of Pisa (Italy).<br>
Commission from Faunalia Pontedera (PI), Italy (www.faunalia.it)
Modified: grass/branches/develbranch_6/raster/r.li/r.li.mpa/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/r.li.mpa/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/r.li.mpa/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -13,18 +13,13 @@
</li>
</ul>
-<h2>EXAMPLES</h2>
-To calculate mean pixel attribute index on map my_map, using
-my_conf configuration file and saving results in
-my_out file run:<br>
-<div class="code"><pre>
-r.li.mpa map=my_map conf=my_conf output=my_out
-</pre></div>
+<h2>NOTES</h2>
-<h2>NOTES</h2>
-Do not use absolute path names for output files. They are raster if
-moving window disposition was selected, otherwise they are in
-~/.r.li/output folder.<br>
+Do not use absolute path names for the <b>output</b> map/file.
+If the "moving window" method was selected in <b>r.li.setup</b>, then the
+output will be a raster map, otherwise an ASCII file will be generated in
+the <tt>~/.r.li/output/</tt> folder.
+<p>
If input raster is full of null values r.li.mpa consider to
have 0 patch.<br>
If area is 0 r.li.mpa returns -1; it is possible only if the
@@ -35,6 +30,19 @@
</pre></div>
after index calculation.
+<h2>EXAMPLES</h2>
+To calculate mean pixel attribute index on map my_map, using
+my_conf configuration file and saving results in
+my_out file run:<br>
+<div class="code"><pre>
+r.li.mpa map=my_map conf=my_conf output=my_out
+</pre></div>
+
+<h2>REFERENCES</h2>
+McGarigal, K., and B. J. Marks. 1995. FRAGSTATS: spatial pattern
+analysis program for quantifying landscape structure. USDA For. Serv.
+Gen. Tech. Rep. PNW-351. (<a href="http://treesearch.fs.fed.us/pubs/3064">PDF</a>)
+
<h2>SEE ALSO</h2>
<em>
<a href="r.li.html">r.li</a>
Modified: grass/branches/develbranch_6/raster/r.li/r.li.mps/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/r.li.mps/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/r.li.mps/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -1,4 +1,5 @@
<h2>DESCRIPTION</h2>
+
<em>r.li.mps</em>
(mean patch size) calculates the mean size of the patches in the sampling area as:<br>
<img src="rlimps_formula.png"><br>
@@ -10,6 +11,22 @@
</li>
</ul>
+<h2>NOTES</h2>
+
+Do not use absolute path names for the <b>output</b> map/file.
+If the "moving window" method was selected in <b>r.li.setup</b>, then the
+output will be a raster map, otherwise an ASCII file will be generated in
+the <tt>~/.r.li/output/</tt> folder.
+<p>
+If the input raster contains NULL value cells, <em>r.li.mps</em>
+returns 0 for these cells. <br>
+If you want to keep NULL values instead, run subsequently on the resulting map:
+<div class="code"><pre>
+r.null setnull=0 map=my_map
+</pre></div>
+
+after index calculation.
+
<h2>EXAMPLES</h2>
To calculate mean path size index on map my_map, using
my_conf configuration file and saving results in
@@ -18,20 +35,11 @@
r.li.mps map=my_map conf=my_conf output=my_out
</pre></div>
+<h2>REFERENCES</h2>
+McGarigal, K., and B. J. Marks. 1995. FRAGSTATS: spatial pattern
+analysis program for quantifying landscape structure. USDA For. Serv.
+Gen. Tech. Rep. PNW-351. (<a href="http://treesearch.fs.fed.us/pubs/3064">PDF</a>)
-<h2>NOTES</h2>
-Do not use absolute path names for output files. They are raster if
-moving window disposition was selected, otherwise they are in
-~/.r.li/output folder.
-<br>
-If input raster is full of null values r.li.mps returns 0.<br>
-If you want to have null values instead run <br>
-<div class="code"><pre>
-r.null setnull=0 map=my_map
-</pre></div>
-
-after index calculation.
-
<h2>SEE ALSO</h2>
<em>
<a href="r.li.html">r.li</a>
@@ -42,5 +50,6 @@
Serena Pallecchi student of Computer Science University of Pisa (Italy).<br>
Commission from Faunalia Pontedera (PI), Italy (www.faunalia.it)
-<p><i>Last changed: $Date$</i>
+<p>
+<i>Last changed: $Date$</i>
Modified: grass/branches/develbranch_6/raster/r.li/r.li.padcv/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/r.li.padcv/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/r.li.padcv/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -13,18 +13,13 @@
</li>
</ul>
-<h2>EXAMPLES</h2>
-To calculate mean pixel attribute index on map my_map, using
-my_conf configuration file and saving results in
-my_out file run:<br>
-<div class="code"><pre>
-r.li.padcv map=my_map conf=my_conf output=my_out
-</pre></div>
+<h2>NOTES</h2>
-<h2>NOTES</h2>
-Do not use absolute path names for output files. They are raster if
-moving window disposition was selected, otherwise they are in
-~/.r.li/output folder.<br>
+Do not use absolute path names for the <b>output</b> map/file.
+If the "moving window" method was selected in <b>r.li.setup</b>, then the
+output will be a raster map, otherwise an ASCII file will be generated in
+the <tt>~/.r.li/output/</tt> folder.
+<p>
If input raster is not full of null values r.li.padcv returns a value >=0 that is PADcv. <br>
If input raster is full of null values r.li.padcv returns -1. <br>
If you want to have null values instead run <br>
@@ -33,12 +28,24 @@
</pre></div>
after index calculation.
+<h2>EXAMPLES</h2>
+To calculate mean pixel attribute index on map my_map, using
+my_conf configuration file and saving results in
+my_out file run:<br>
+<div class="code"><pre>
+r.li.padcv map=my_map conf=my_conf output=my_out
+</pre></div>
<h2>SEE ALSO</h2>
<em>
<a href="r.li.html">r.li</a>
</em>
+<h2>REFERENCES</h2>
+McGarigal, K., and B. J. Marks. 1995. FRAGSTATS: spatial pattern
+analysis program for quantifying landscape structure. USDA For. Serv.
+Gen. Tech. Rep. PNW-351.
+
<h2>AUTHORS</h2>
Serena Pallecchi student of Computer Science University of Pisa (Italy).<br>
Commission from Faunalia Pontedera (PI), Italy (www.faunalia.it)
Modified: grass/branches/develbranch_6/raster/r.li/r.li.padrange/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/r.li.padrange/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/r.li.padrange/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -1,4 +1,5 @@
<h2>DESCRIPTION</h2>
+
<em>r.li.padrange</em>
(patch area distribution range) calculates
as:<br>
@@ -18,16 +19,17 @@
r.li.padrange map=my_map conf=my_conf output=my_out
</pre></div>
-
<h2>NOTES</h2>
-Do not use absolute path names for output files. They are raster if
-moving window disposition was selected, otherwise they are in
-~/.r.li/output folder.<br>
-If input raster is not full of null values r.li.padrange returns a
-value >=0 that is PADcv. <br>
-If input raster is full of null values r.li.padrange returns -1. <br>
-If you want to have null values instead run <br>
+Do not use absolute path names for the <b>output</b> map/file.
+If the "moving window" method was selected in <b>r.li.setup</b>, then the
+output will be a raster map, otherwise an ASCII file will be generated in
+the <tt>~/.r.li/output/</tt> folder.
+<p>
+If the input raster contains NULL value cells, <em>r.li.padrange</em>
+returns -1 for these cells. <br>
+If you want to keep NULL values instead, run subsequently on the resulting map:
+
<div class="code"><pre>
r.null setnull=-1 map=my_map
</pre></div>
Modified: grass/branches/develbranch_6/raster/r.li/r.li.padsd/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/r.li.padsd/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/r.li.padsd/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -1,4 +1,5 @@
<h2>DESCRIPTION</h2>
+
<em>r.li.padsd</em> (patch area distribution standard deviation) calculates as:<br>
<img src="rlipadsd_formula.png"> <br>
with:<br>
@@ -9,6 +10,23 @@
</li>
</ul>
+<h2>NOTES</h2>
+
+Do not use absolute path names for the <b>output</b> map/file.
+If the "moving window" method was selected in <b>r.li.setup</b>, then the
+output will be a raster map, otherwise an ASCII file will be generated in
+the <tt>~/.r.li/output/</tt> folder.
+<p>
+If input raster is not full of null values <em>r.li.padsd</em> returns a
+value >=0 that is PADsd. <br>
+If input raster is full of null values <em>r.li.padsd</em> returns -1. <br>
+If you want to have null values instead run <br>
+<div class="code"><pre>
+r.null setnull=-1 map=my_map
+</pre></div>
+
+after index calculation.
+
<h2>EXAMPLES</h2>
To calculate mean pixel attribute index on map my_map, using
my_conf configuration file and saving results in
@@ -17,19 +35,6 @@
r.li.padsd map=my_map conf=my_conf output=my_out
</pre></div>
-<h2>NOTES</h2>
-Do not use absolute path names for output files. They are raster if
-moving window disposition was selected, otherwise they are in
-~/.r.li/output folder.<br>
-If input raster is not full of null values r.li.padsd returns a value >=0 that is PADsd. <br>
-If input raster is full of null values r.li.padsd returns -1. <br>
-If you want to have null values instead run <br>
-<div class="code"><pre>
-r.null setnull=-1 map=my_map
-</pre></div>
-
-after index calculation.
-
<h2>REFERENCES</h2>
McGarigal, K., and B. J. Marks. 1995. FRAGSTATS: spatial pattern
analysis program for quantifying landscape structure. USDA For. Serv.
Modified: grass/branches/develbranch_6/raster/r.li/r.li.patchdensity/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/r.li.patchdensity/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/r.li.patchdensity/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -1,6 +1,6 @@
-<H2>DESCRIPTION</H2>
+<h2>DESCRIPTION</h2>
-<EM>r.li.patchdensity</EM> is a patch index for <em>r.li</em> suite.
+<em>r.li.patchdensity</em> is a patch index for <em>r.li</em> suite.
It calculates the function:
<div class="code"><pre>
@@ -10,9 +10,25 @@
that is 1000000 by number of patch for area unit.
This index is calculated using a 4 neighbour algorithm.
+<h2>NOTES</h2>
-<H2>EXAMPLES</H2>
+Do not use absolute path names for the <b>output</b> map/file.
+If the "moving window" method was selected in <b>r.li.setup</b>, then the
+output will be a raster map, otherwise an ASCII file will be generated in
+the <tt>~/.r.li/output/</tt> folder.
+<p>
+A map of NULL values is considered to have zero patches. <br>
+If you want to have null values instead run <br>
+<div class="code"><pre>
+r.null setnull=0 map=my_out
+</pre></div>
+after index calculation.<br>
+<!-- next ??????: -->
+If raster area is 0, <em>r.li.patchdensity</em> returns -1. This is only
+possible if the raster is masked.
+<h2>EXAMPLES</h2>
+
To calculate patch density index on map <em>my_map</em>, using
<em>my_conf</em> configuration file (previously defined with
<em>r.li.setup</em>) and saving results in the raster map
@@ -38,29 +54,14 @@
d.vect forests type=boundary
</pre></div>
+<h2>SEE ALSO</h2>
-<H2>NOTES</H2>
+<em><a href="r.li.html">r.li</a></em> package overview <br>
+<em><a href="r.li.daemon.html">r.li.daemon</a></em><br>
+<em><a href="r.li.setup.html">r.li.setup</a></em>
-A map of NULL values is considered to have zero patches. <br>
-If you want to have null values instead run <br>
-<div class="code"><pre>
-r.null setnull=0 map=my_out
-</pre></div>
-after index calculation.<br>
-<!-- next ??????: -->
-If raster area is 0, <em>r.li.patchdensity</em> returns -1. This is only
-possible if the raster is masked.
+<h2>AUTHORS</h2>
-
-<H2>SEE ALSO</H2>
-
-<EM><A HREF="r.li.html">r.li</A></EM> package overview <BR>
-<EM><A HREF="r.li.daemon.html">r.li.daemon</A></EM><BR>
-<EM><A HREF="r.li.setup.html">r.li.setup</A></EM>
-
-
-<H2>AUTHORS</H2>
-
Claudio Porta and Lucio Davide Spano, students of Computer Science
University of Pisa (Italy).<br>
Commission from Faunalia Pontedera (PI) (www.faunalia.it)<br>
Modified: grass/branches/develbranch_6/raster/r.li/r.li.patchnum/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/r.li.patchnum/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/r.li.patchnum/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -1,10 +1,25 @@
-<H2>DESCRIPTION</H2>
-<EM>r.li.patchnum</EM> is a patch index for r.li program.<br>
+<h2>DESCRIPTION</h2>
+
+<em>r.li.patchnum</em> is a patch index for r.li program.<br>
It calculates the function <br>
<I> f(sample_area)= Patch_Number </I><br>
This index is calculated using a 4 neighbour algorithm<br>
-<H2>EXAMPLES</H2>
+<h2>NOTES</h2>
+
+Do not use absolute path names for the <b>output</b> map/file.
+If the "moving window" method was selected in <b>r.li.setup</b>, then the
+output will be a raster map, otherwise an ASCII file will be generated in
+the <tt>~/.r.li/output/</tt> folder.
+<p>
+An that is full of null values is considered to have zero patch. <br>
+If you want to have null values instead run <br>
+<div class="code"><pre>
+r.null setnull=0 map=my_map
+</pre></div>
+after index calculation.<br>
+
+<h2>EXAMPLES</h2>
To calculate patch number index on map my_map, using
<em>my_conf</em> configuration file and saving results in
my_out file run:
@@ -12,21 +27,17 @@
r.li.patchnumber map=my_map conf=my_conf out=my_out
</pre></div>
-<H2>NOTES</H2>
+<h2>REFERENCES</h2>
+McGarigal, K., and B. J. Marks. 1995. FRAGSTATS: spatial pattern
+analysis program for quantifying landscape structure. USDA For. Serv.
+Gen. Tech. Rep. PNW-351. (<a href="http://treesearch.fs.fed.us/pubs/3064">PDF</a>)
-An that is full of null values is considered to have zero patch. <br>
-If you want to have null values instead run <br>
-<div class="code"><pre>
-r.null setnull=0 map=my_map
-</pre></div>
-after index calculation.<br>
+<h2>SEE ALSO</h2>
+<em><a href="r.li.html">r.li</a></em> package overview <br>
+<em><a href="r.li.daemon.html">r.li.daemon</a></em><br>
+<em><a href="r.li.setup.html">r.li.setup</a></em>
-<H2>SEE ALSO</H2>
-<EM><A HREF="r.li.html">r.li</A></EM> package overview <BR>
-<EM><A HREF="r.li.daemon.html">r.li.daemon</A></EM><BR>
-<EM><A HREF="r.li.setup.html">r.li.setup</A></EM>
-
-<H2>AUTHORS</H2>
+<h2>AUTHORS</h2>
Claudio Porta and Lucio Davide Spano, students of Computer Science
University of Pisa (Italy).<br>
Commission from Faunalia Pontedera (PI) (www.faunalia.it)<br>
Modified: grass/branches/develbranch_6/raster/r.li/r.li.pielou/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/r.li.pielou/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/r.li.pielou/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -10,10 +10,13 @@
</ul>
<h2>NOTES</h2>
-Do not use absolute path names for output files. They are raster if
-moving window disposition was selected, otherwise they are in
-<tt>~/.r.li/output/</tt> folder.
-<br>
+
+Do not use absolute path names for the <b>output</b> map/file.
+If the "moving window" method was selected in <b>r.li.setup</b>, then the
+output will be a raster map, otherwise an ASCII file will be generated in
+the <tt>~/.r.li/output/</tt> folder.
+<p>
+
If the input raster contains NULL value cells, <em>r.li.pielou</em>
returns -1 for these cells. <br>
If you want to keep NULL values instead, run subsequently on the resulting map:
Modified: grass/branches/develbranch_6/raster/r.li/r.li.renyi/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/r.li.renyi/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/r.li.renyi/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -1,4 +1,5 @@
<h2>DESCRIPTION</h2>
+
<em>r.li.renyi</em>
calculates the "renyi's diversity index" as:<br>
<img src="r_li_renyi.png"> <br>
@@ -12,19 +13,22 @@
</ul>
<h2>NOTES</h2>
-Do not use absolute path names for output files. They are raster if
-moving window disposition was selected, otherwise they are in
-<tt>~/.r.li/output/</tt> folder.
-<br>
-If the input raster contains NULL value cells, <em>r.li.renyi</em>
-returns -1 for these cells. <br>
+
+Do not use absolute path names for the <b>output</b> map/file.
+If the "moving window" method was selected in <b>r.li.setup</b>, then the
+output will be a raster map, otherwise an ASCII file will be generated in
+the <tt>~/.r.li/output/</tt> folder.
+<p>
+
+If input raster contain NULL values <em>r.li.renyi</em> returns -1.<br>
If you want to keep NULL values instead, run subsequently on the resulting map:
-<br>
<div class="code"><pre>
r.null setnull=-1 map=my_map
</pre></div>
+after index calculation.
<h2>EXAMPLES</h2>
+
To calculate Renyi's diversity index on map "my_map", using the
previously created "my_conf" configuration file (<em>r.li.setup</em>)
and saving results in "my_out" raster map, run:<br>
@@ -32,18 +36,6 @@
r.li.renyi map=my_map conf=my_conf output=my_out alpha=0.6
</pre></div>
-<h2>NOTES</h2>
-Do not use absolute path names for output files. They are raster if
-moving window disposition was selected, otherwise they are in
-~/.r.li/output folder. <br>
-
-If input raster is full of null values <em>r.li.renyi</em> returns -1.<br>
-If you want to have null values instead run <br>
-<div class="code"><pre>
-r.null setnull=-1 map=my_map
-</pre></div>
-after index calculation.
-
<h2>REFERENCES</h2>
McGarigal, K., and B. J. Marks. 1995. FRAGSTATS: spatial pattern
analysis program for quantifying landscape structure. USDA For. Serv.
@@ -56,8 +48,9 @@
</em>
<h2>AUTHORS</h2>
-Luca Delucchi and Duccio Rocchini, Fondazione E. Mach (Italy), based on the <em>r.li.shannon</em> code
-developed by Serena Pallecchi student of Computer Science University of Pisa (Italy).<br>
+Luca Delucchi and Duccio Rocchini, Fondazione E. Mach (Italy), based on
+the <em>r.li.shannon</em> code developed by Serena Pallecchi student of
+Computer Science University of Pisa (Italy).<br>
<p>
<i>Last changed: $Date$</i>
Modified: grass/branches/develbranch_6/raster/r.li/r.li.richness/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/r.li.richness/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/r.li.richness/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -6,22 +6,26 @@
<li><b>m</b>: number of different patch type</li>
</ul>
+<h2>NOTES</h2>
+
+Do not use absolute path names for the <b>output</b> map/file.
+If the "moving window" method was selected in <b>r.li.setup</b>, then the
+output will be a raster map, otherwise an ASCII file will be generated in
+the <tt>~/.r.li/output/</tt> folder.
+<p>
+
+If input raster is full of null values r.li.richness returns -1.<br>
+If you want to have null values instead run <br>
+after index calculation.
+
<h2>EXAMPLES</h2>
+
To calculate richness's diversity index on map my_map, using
my_conf configuration file and saving results in my_out file run:<br>
<div class="code"><pre>
r.li.richness map=my_map conf=my_conf output=my_out
</pre></div>
-<h2>NOTES</h2>
-Do not use absolute path names for output files. They are raster if
-moving window disposition was selected, otherwise they are in
-~/.r.li/output folder. <br>
-
-If input raster is full of null values r.li.richness returns -1.<br>
-If you want to have null values instead run <br>
-after index calculation.
-
<h2>REFERENCES</h2>
McGarigal, K., and B. J. Marks. 1995. FRAGSTATS: spatial pattern
analysis program for quantifying landscape structure. USDA For. Serv.
Modified: grass/branches/develbranch_6/raster/r.li/r.li.setup/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/r.li.setup/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/r.li.setup/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -1,6 +1,6 @@
-<H2>DESCRIPTION</H2>
+<h2>DESCRIPTION</h2>
-<EM>r.li.setup</EM> creates and shows configuration files for the
+<em>r.li.setup</em> creates and shows configuration files for the
others r.li programs. For a general introduction, see
<a href="r.li.html">r.li</a>.
<br>
@@ -131,17 +131,17 @@
<li><em><b>Close</b></em> module window.
</ol>
-<H2>NOTES</H2>
+<h2>NOTES</h2>
Configuration files are raster map independent because areas are saved using
relative coordinates.
-<H2>SEE ALSO</H2>
-<EM><A HREF="http://grass.osgeo.org/gdp/landscape/r_le_manual5.pdf">old r.le manual</A></EM><BR>
-<EM><A HREF="r.li.html">r.li</A></EM> package overview <BR>
-<EM><A HREF="r.li.daemon.html">r.li.daemon</A></EM>,
-<EM><A HREF="r.li.patchdensity.html">r.li.patchdensity</A></EM>
+<h2>SEE ALSO</h2>
+<em><a href="http://grass.osgeo.org/gdp/landscape/r_le_manual5.pdf">old r.le manual</a></em><br>
+<em><a href="r.li.html">r.li</a></em> package overview <br>
+<em><a href="r.li.daemon.html">r.li.daemon</a></em>,
+<em><a href="r.li.patchdensity.html">r.li.patchdensity</a></em>
-<H2>AUTHORS</H2>
+<h2>AUTHORS</h2>
Claudio Porta and Lucio Davide Spano, students of Computer Science
University of Pisa (Italy).<br>
Commission from Faunalia Pontedera (PI)<br>
Modified: grass/branches/develbranch_6/raster/r.li/r.li.shannon/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/r.li.shannon/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/r.li.shannon/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -6,20 +6,18 @@
<ul>
<li><b>i</b>: patch type<br></li>
<li><b>m</b>: number of patch type<br></li>
- <li><b>p<small><small>i</small></small></b>: proportion of the landscape occupied by patch type i<br></li>
+ <li><b>p<small><small>i</small></small></b>: proportion of the landscape
+ occupied by patch type i<br></li>
</ul>
-<h2>EXAMPLES</h2>
-To calculate shannon's diversity index on map my_map, using
-my_conf configuration file and saving results in my_out file run:<br>
-<div class="code"><pre>
-r.li.shannon map=my_map conf=my_conf output=my_out
-</pre></div>
+<h2>NOTES</h2>
-<h2>NOTES</h2>
-Do not use absolute path names for output files. They are raster if
-moving window disposition was selected, otherwise they are in
-~/.r.li/output folder. <br>
+Do not use absolute path names for the <b>output</b> map/file.
+If the "moving window" method was selected in <b>r.li.setup</b>, then the
+output will be a raster map, otherwise an ASCII file will be generated in
+the <tt>~/.r.li/output/</tt> folder.
+<p>
+
If input raster is full of null values r.li.shannon returns -1. <br>
If you want to have null values instead run <br>
<div class="code"><pre>
@@ -27,6 +25,14 @@
</pre></div>
after index calculation.
+
+<h2>EXAMPLES</h2>
+To calculate shannon's diversity index on map my_map, using
+my_conf configuration file and saving results in my_out file run:<br>
+<div class="code"><pre>
+r.li.shannon map=my_map conf=my_conf output=my_out
+</pre></div>
+
<h2>SEE ALSO</h2>
<em>
<a href="r.li.html">r.li</a>
@@ -43,4 +49,3 @@
<p>
<i>Last changed: $Date$</i>
-
Modified: grass/branches/develbranch_6/raster/r.li/r.li.shape/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/r.li.shape/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/r.li.shape/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -1,9 +1,25 @@
-<H2>DESCRIPTION</H2>
-<EM>r.li.shape</EM> is a patch index for r.li program.<br>
+<h2>DESCRIPTION</h2>
+<em>r.li.shape</em> is a patch index for r.li program.<br>
It calculates the function <br>
<I> f(sample_area)= Area </I><br>
-<H2>EXAMPLES</H2>
+<h2>NOTES</h2>
+
+Do not use absolute path names for the <b>output</b> map/file.
+If the "moving window" method was selected in <b>r.li.setup</b>, then the
+output will be a raster map, otherwise an ASCII file will be generated in
+the <tt>~/.r.li/output/</tt> folder.
+<p>
+
+If the input raster contains NULL value cells, <em>r.li.shape</em>
+returns -1 for these cells. <br>
+If you want to keep NULL values instead, run subsequently on the resulting map:
+<br>
+<div class="code"><pre>
+r.null setnull=-1 map=my_map
+</pre></div>
+
+<h2>EXAMPLES</h2>
To calculate area index on map my_map, using
<em>my_conf</em> configuration file and saving results in
my_out file run:
@@ -11,12 +27,17 @@
r.li.shape map=my_map conf=my_conf out=my_out
</pre></div>
-<H2>SEE ALSO</H2>
-<EM><A HREF="r.li.html">r.li</A></EM> package overview <BR>
-<EM><A HREF="r.li.daemon.html">r.li.daemon</A></EM><BR>
-<EM><A HREF="r.li.setup.html">r.li.setup</A></EM>
+<h2>SEE ALSO</h2>
+<em><a href="r.li.html">r.li</a></em> package overview <br>
+<em><a href="r.li.daemon.html">r.li.daemon</a></em><br>
+<em><a href="r.li.setup.html">r.li.setup</a></em>
-<H2>AUTHORS</H2>
+<h2>REFERENCES</h2>
+McGarigal, K., and B. J. Marks. 1995. FRAGSTATS: spatial pattern
+analysis program for quantifying landscape structure. USDA For. Serv.
+Gen. Tech. Rep. PNW-351. (<a href="http://treesearch.fs.fed.us/pubs/3064">PDF</a>)
+
+<h2>AUTHORS</h2>
Claudio Porta and Lucio Davide Spano, students of Computer Science
University of Pisa (Italy).<br>
Commission from Faunalia Pontedera (PI) (www.faunalia.it)<br>
Modified: grass/branches/develbranch_6/raster/r.li/r.li.simpson/description.html
===================================================================
--- grass/branches/develbranch_6/raster/r.li/r.li.simpson/description.html 2014-02-03 21:08:33 UTC (rev 58858)
+++ grass/branches/develbranch_6/raster/r.li/r.li.simpson/description.html 2014-02-03 21:13:55 UTC (rev 58859)
@@ -6,9 +6,25 @@
<ul>
<li><b>i</b>: patch type<br> </li>
<li><b>m</b>: number of patch type<br> </li>
- <li><b>p<small><small>i</small></small></b>: proportion of the landscape occupied by patch type i<br> </li>
+ <li><b>p<small><small>i</small></small></b>: proportion of the landscape
+ occupied by patch type i<br> </li>
</ul>
+<h2>NOTES</h2>
+
+Do not use absolute path names for the <b>output</b> map/file.
+If the "moving window" method was selected in <b>r.li.setup</b>, then the
+output will be a raster map, otherwise an ASCII file will be generated in
+the <tt>~/.r.li/output/</tt> folder.
+<p>
+
+If input raster is full of null values <em>r.li.simpson</em> returns -1.<br>
+If you want to have null values instead run <br>
+<div class="code"><pre>
+r.null setnull=-1 map=my_map
+</pre></div>
+after index calculation.
+
<h2>EXAMPLES</h2>
To calculate simpson's diversity index on map my_map, using
my_conf configuration file and saving results in my_out file run:<br>
@@ -16,32 +32,19 @@
r.li.simpson map=my_map conf=my_conf output=my_out
</pre></div>
-<h2>NOTES</h2>
-Do not use absolute path names for output files. They are raster if
-moving window disposition was selected, otherwise they are in
-~/.r.li/output folder. <br>
+<h2>REFERENCES</h2>
+McGarigal, K., and B. J. Marks. 1995. FRAGSTATS: spatial pattern
+analysis program for quantifying landscape structure. USDA For. Serv.
+Gen. Tech. Rep. PNW-351. (<a href="http://treesearch.fs.fed.us/pubs/3064">PDF</a>)
-If input raster is full of null values r.li.simpson returns -1.<br>
-If you want to have null values instead run <br>
-<div class="code"><pre>
-r.null setnull=-1 map=my_map
-</pre></div>
-after index calculation.
-
<h2>SEE ALSO</h2>
<em>
<a href="r.li.html">r.li</a>
</em>
-<h2>REFERENCES</h2>
-McGarigal, K., and B. J. Marks. 1995. FRAGSTATS: spatial pattern
-analysis program for quantifying landscape structure. USDA For. Serv.
-Gen. Tech. Rep. PNW-351.
-
<h2>AUTHORS</h2>
Serena Pallecchi student of Computer Science University of Pisa (Italy).<br>
Commission from Faunalia Pontedera (PI), Italy (www.faunalia.it)
<p>
<i>Last changed: $Date$</i>
-
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