Mercurial > repos > iuc > mothur_heatmap_bin

comparison heatmap.bin.xml @ 1:70cd6357502a draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit a9d1e0debcd357d8080a1c6c5f1d206dd45a7a4d
author iuc
date Fri, 19 May 2017 04:14:00 -0400
parents 712b61562375
children 1cc0526b5a0f
comparison
equal deleted inserted replaced
0:712b61562375 1:70cd6357502a
2 <description>Generate a heatmap for OTUs</description> 2 <description>Generate a heatmap for OTUs</description>
3 <macros> 3 <macros>
4 <import>macros.xml</import> 4 <import>macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="requirements"/> 6 <expand macro="requirements"/>
7 <expand macro="stdio"/>
7 <expand macro="version_command"/> 8 <expand macro="version_command"/>
8 <command detect_errors="aggressive"><![CDATA[ 9 <command><![CDATA[
10 @SHELL_OPTIONS@
11
9 ## create symlinks to input datasets 12 ## create symlinks to input datasets
10 ln -s "$input.otu" input_otu.dat && 13 ln -s "$input.otu" input_otu.dat &&
11 14
12 echo 'heatmap.bin( 15 echo 'heatmap.bin(
13 #if $input.otu.is_of_type("mothur.rabund"): 16 #if $input.otu.is_of_type("mothur.rabund"):
32 numotu=$numotu, 35 numotu=$numotu,
33 fontsize=$fontsize 36 fontsize=$fontsize
34 )' 37 )'
35 | sed 's/ //g' ## mothur trips over whitespace 38 | sed 's/ //g' ## mothur trips over whitespace
36 | mothur 39 | mothur
40 | tee mothur.out.log
37 ]]></command> 41 ]]></command>
38 <inputs> 42 <inputs>
39 <conditional name="input"> 43 <conditional name="input">
40 <param name="has_groups" type="select" label="Generate Heatmap for"> 44 <param name="has_groups" type="select" label="Generate Heatmap for">
41 <option value="no">list, rabund, sabund</option> 45 <option value="no">list, rabund, sabund</option>
116 <![CDATA[ 120 <![CDATA[
117 121
118 @MOTHUR_OVERVIEW@ 122 @MOTHUR_OVERVIEW@
119 123
120 124
121 **Command Documenation** 125 **Command Documentation**
122 126
123 The heatmap.bin_ command generates a heat map from data provided in either a list_ or a shared_ file. 127 The heatmap.bin_ command generates a heat map from data provided in either a list_ or a shared_ file.
124 128
125 .. _list: http://www.mothur.org/wiki/List_file 129 .. _list: https://www.mothur.org/wiki/List_file
126 .. _shared: http://www.mothur.org/wiki/Shared_file 130 .. _shared: https://www.mothur.org/wiki/Shared_file
127 .. _heatmap.bin: http://www.mothur.org/wiki/Heatmap.bin 131 .. _heatmap.bin: https://www.mothur.org/wiki/Heatmap.bin
128 132
129 v.1.21.0: Updated to Mothur 1.33 133 v.1.21.0: Updated to Mothur 1.33
130 ]]> 134 ]]>
131 </help> 135 </help>
132 <expand macro="citations"/> 136 <expand macro="citations"/>