Mercurial > repos > iuc > mothur_mantel
diff mantel.xml @ 1:4baa2c0c53e2 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit a9d1e0debcd357d8080a1c6c5f1d206dd45a7a4d
| author | iuc |
|---|---|
| date | Fri, 19 May 2017 04:56:29 -0400 |
| parents | 480cdda84b44 |
| children | 7ede0f668a19 |
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--- a/mantel.xml Fri Jun 24 16:40:35 2016 -0400 +++ b/mantel.xml Fri May 19 04:56:29 2017 -0400 @@ -4,8 +4,11 @@ <import>macros.xml</import> </macros> <expand macro="requirements"/> + <expand macro="stdio"/> <expand macro="version_command"/> - <command detect_errors="aggressive"><![CDATA[ + <command><![CDATA[ + @SHELL_OPTIONS@ + ## create symlinks to input datasets ln -s "$dist" dist.dat && ln -s "$dist2" dist2.dat && @@ -18,10 +21,11 @@ )' | sed 's/ //g' ## mothur trips over whitespace | mothur + | tee mothur.out.log ]]></command> <inputs> - <param name="dist" type="data" format="mothur.lower.dist,mothur.square.dist" label="phylip - Distance Matrix"/> - <param name="dist2" type="data" format="mothur.lower.dist,mothur.square.dist" label="phylip2 - Distance Matrix"/> + <param name="dist" type="data" format="mothur.dist,mothur.lower.dist,mothur.square.dist" label="phylip - Distance Matrix"/> + <param name="dist2" type="data" format="mothur.dist,mothur.lower.dist,mothur.square.dist" label="phylip2 - Distance Matrix"/> <param name="method" type="select" optional="true" label="method - pearson, spearman, or kendall. Default: pearson"> <option value="pearson" selected="true">pearson</option> <option value="spearman">spearman</option> @@ -50,12 +54,12 @@ @MOTHUR_OVERVIEW@ -**Command Documenation** +**Command Documentation** The mantel_ command calculates the Mantel correlation coefficient between two matrices_. .. _matrices: //www.mothur.org/wiki/Phylip-formatted_distance_matrix -.. _mantel: http://www.mothur.org/wiki/Mantel +.. _mantel: https://www.mothur.org/wiki/Mantel ]]> </help>