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comparison qiime2/qiime_diversity_procrustes-analysis.xml @ 0:51b9b6b57732 draft

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author florianbegusch
date Thu, 24 May 2018 05:21:07 -0400
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1 <?xml version="1.0" ?>
2 <tool id="qiime_diversity_procrustes-analysis" name="qiime diversity procrustes-analysis" version="2018.4">
3 <description> - Procrustes Analysis</description>
4 <requirements>
5 <requirement type="package" version="2018.4">qiime2</requirement>
6 </requirements>
7 <command><![CDATA[
8 qiime diversity procrustes-analysis --i-reference=$ireference --i-other=$iother
9
10 #if $pdimensions:
11 --p-dimensions=$pdimensions
12 #end if
13
14 --o-transformed-other=otransformedother --o-transformed-reference=otransformedreference
15
16 #if str($cmdconfig) != 'None':
17 --cmd-config=$cmdconfig
18 #end if
19 ;
20 cp otransformedother.qza $otransformedother;
21 cp otransformedreference.qza $otransformedreference;
22 ]]></command>
23 <inputs>
24 <param format="qza,no_unzip.zip" label="--i-reference: PCoAResults The ordination matrix to which data is fitted to. [required]" name="ireference" optional="False" type="data"/>
25 <param format="qza,no_unzip.zip" label="--i-other: PCoAResults The ordination matrix that's fitted to the reference ordination. [required]" name="iother" optional="False" type="data"/>
26
27 <param label="--p-dimensions: [default: 5]" name="pdimensions" optional="True" type="integer" value="5"/>
28
29 <param label="--cmd-config: Use config file for command options" name="cmdconfig" optional="True" type="data"/>
30 </inputs>
31 <outputs>
32 <data format="qza" label="${tool.name} on ${on_string}: transformed-other.qza" name="otransformedother"/>
33 <data format="qza" label="${tool.name} on ${on_string}: transformed-reference.qza" name="otransformedreference"/>
34 </outputs>
35 <help><![CDATA[
36 Procrustes Analysis
37 --------------------
38
39 Fit two ordination matrices with Procrustes analysis
40
41 Parameters
42 ----------
43 reference : PCoAResults
44 The ordination matrix to which data is fitted to.
45 other : PCoAResults
46 The ordination matrix that's fitted to the reference ordination.
47 dimensions : Int % Range(1, None), optional
48 \
49
50 Returns
51 -------
52 transformed_reference : PCoAResults
53 A normalized version of the "reference" ordination matrix.
54 transformed_other : PCoAResults
55 A normalized and fitted version of the "other" ordination matrix.
56 ]]>
57 </help>
58 <macros>
59 <import>qiime_citation.xml</import>
60 </macros>
61 <expand macro="qiime_citation" />
62 </tool>