[GRASS-SVN] r69603 - in grass-addons/grass6/raster: r.connectivity.corridors r.connectivity.network r.convergence

Wed Sep 28 18:27:30 PDT 2016

Author: wenzeslaus
Date: 2016-09-28 18:27:30 -0700 (Wed, 28 Sep 2016)
New Revision: 69603

Modified:
   grass-addons/grass6/raster/r.connectivity.corridors/description.html
   grass-addons/grass6/raster/r.connectivity.network/description.html
   grass-addons/grass6/raster/r.convergence/description.html
Log:
doc: fix broken syntax in the generated index page

Modified: grass-addons/grass6/raster/r.connectivity.corridors/description.html
===================================================================

--- grass-addons/grass6/raster/r.connectivity.corridors/description.html	2016-09-29 01:18:39 UTC (rev 69602)
+++ grass-addons/grass6/raster/r.connectivity.corridors/description.html	2016-09-29 01:27:30 UTC (rev 69603)
@@ -1,18 +1,22 @@
 <h2>DESCRIPTION</h2>
-<dl>
+
 Recently, graph-theory has been characterised as an efficient and useful tool for conservation planning (e.g. Bunn et al. 2000, Calabrese & Fagan 2004, Minor & Urban 2008, Zetterberg et. al. 2010). As a part of the r.connectivity.* tool-chain, r.connectivity.corridors is intended to make graph-theory more easily available to conservation planning.
-<br><br>
+
+<p>
 r.connectivity.corridors is th 3rd tool of the r.connectivity.* toolchain.
-<br><br>
+
+<p>
 r.connectivity.corridors loops through the attribute-table of the edge- output vector map from r.connectivity.network and computes the corridor for each edge of a user-defined set of edges. r.connectivity.corridors can account for the importance of the corridors for the entire networkby reclassifying them with regards to network measures from r.connectivity.network.
-<br><br>
+
+<p>
 Finally, all individual corridors are being put together using r.series. In this step the values of the cells in all corridor maps are summed up, which indicates the importance of an area (raster cell) for the network of the given patches (either the number of corridors a cell is part of, or other graph-theoretical measures for corridor importance).
-<br><br>
+
+<p>
 !!!Corridors are only computed for an undirected graph.!!!
-<br><br>
+
+<p>
 Output raster maps are named according to a user defined prefix and suffix.
 
-</dl>
 
 <h2>EXAMPLE</h2>
 

Modified: grass-addons/grass6/raster/r.connectivity.network/description.html
===================================================================
--- grass-addons/grass6/raster/r.connectivity.network/description.html	2016-09-29 01:18:39 UTC (rev 69602)
+++ grass-addons/grass6/raster/r.connectivity.network/description.html	2016-09-29 01:27:30 UTC (rev 69603)
@@ -1,24 +1,31 @@
 <h2>DESCRIPTION</h2>
-<dl>
+
 Recently, graph-theory has been characterised as an efficient and useful tool for conservation planning (e.g. Bunn et al. 2000, Calabrese & Fagan 2004, Minor & Urban 2008, Zetterberg et. al. 2010). As a part of the r.connectivity.* tool-chain, r.connectivity.network is intended to make graph-theory more easily available to conservation planning. 
-<br><br>
+
+<p>
 r.connectivity.network is the 2nd tool of the r.connectivity.* toolchain and performs the (core) network analysis (usig the igraph-package in R) on the network data prepared with r.connectivity.distance. This network data is analysed on graph, edge and vertex level.
-<br><br>
+
+<p>
 Connectivity measures for the graph level are: number of vertices, number of edges, number of clusters, size of the largest cluster, average cluster size, diameter, density, modularity, number of communities, community size (in number of vertices) Network characteristics are visualised in a plot showing an  overview over number of connections, number of components and and the size of the largest network component within the network with regards to cost-distance between patches.
-<br><br>
+
+<p>
 Connectivity measures calculated for the edges are:
 Minimum-spanning-trees, directness, edge-betweenness, local edge-betweenness, edge-betweenness-community, bridges (biconnected components), tree edges (biconnected components), and potential connectors of clusters and communities.
-<br><br>
+
+<p>
 Connectivity measures calculated for the vertices are:
 Degree-centrality, Eigenvector-centrality, closeness centrality, vertex-betweenness, local vertex-betweenness, cluster-membership, edge betweenness community  structure, community-membership, neighbourhood size, local neighbourhood size, articulation points, and articulation.
-<br><br>
+
+<p>
 Most measured can be calculated both on a directed and/or an undirected graph.
-<br><br>
+
+<p>
 Analysis is based on a negative exponential decay kernel (as described e.g. in Bunn et al. (2000), which the user can modify according to the dispersal characteristics of her/his species or habitat type.
-<br><br>
+
+<p>
 !!!This script is designed to work based on the output of r.connectivity.distance!!!
-</dl>
 
+
 <h2>REQUIREMENTS</h2>
 For running this tool R language and environment for statistical computing and graphics has to be installed (see: <a href=http://www.r-project.org>http://www.r-project.org</a>). On Windows the path to R has to be added to the %path% variable in the environment settings (see: <a href=http://grass.osgeo.org/wiki/R_statistics#MS_Windows>http://grass.osgeo.org/wiki/R_statistics#MS_Windows</a>) and GRASS GIS has to be started after that.<br>Furthermore the <a href=http://cran.r-project.org/web/packages/igraph/index.html>igraph</a> package in R is required with version 0.6-2 or newer.<br>For parallel processing (at the moment only supported for Linux) the R packages <a href=http://cran.r-project.org/web/packages/doMC/index.html>doMC</a>, <a href=http://cran.r-project.org/web/packages/multicore/index.html>multicore</a>, <a href=http://cran.r-project.org/web/packages/iterators/index.html>iterators</a>, <a href=http://cran.r-project.org/web/packages/codetools/index.html>codetools</a> and <a 
 href=http://cran.r-project.org/web/packages/foreach/index.html>foreach</a> are required as well.<br>All R packages can be installed by running the AddOn using the <em><b>i-flag (-i)</b></em>. Installation of R packages requires internet access.<br>For postscript output (overview and kernel plot) also <a href=http://www.ghostscript.com/>ghostscript</a> is required. 
 

Modified: grass-addons/grass6/raster/r.convergence/description.html
===================================================================
--- grass-addons/grass6/raster/r.convergence/description.html	2016-09-29 01:18:39 UTC (rev 69602)
+++ grass-addons/grass6/raster/r.convergence/description.html	2016-09-29 01:27:30 UTC (rev 69603)
@@ -1,8 +1,4 @@
 <h2>DESCRIPTION</h2>
-<center>
-<b>How convergence index is calculated (3 x 3 window):</b>
-<img src="conv.png" border="1">
-</center>
 
 <p>
 Convergence index is a terrain parameter which show the structure of the
@@ -18,8 +14,14 @@
 <em>r.slope.aspect</em>.
 Convergence index is very useful for analysis of lineaments especially
 represented by rigdes or chanell systems as well as valley recognition tool.
+
+<center>
+<img src="conv.png" border="1">
 <p>
+<em>Figure: How convergence index is calculated (3 x 3 window)</em>
+</center>
 
+
 <h2>SEE ALSO</h2>
 
 <em>

