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comparison qiime2/qiime_diversity_procrustes-analysis.xml @ 14:a0a8d77a991c draft

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author florianbegusch
date Thu, 03 Sep 2020 09:51:29 +0000
parents f190567fe3f6
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13:887cd4ad8e16 14:a0a8d77a991c
1 <?xml version="1.0" ?> 1 <?xml version="1.0" ?>
2 <tool id="qiime_diversity_procrustes-analysis" name="qiime diversity procrustes-analysis" version="2019.7"> 2 <tool id="qiime_diversity_procrustes-analysis" name="qiime diversity procrustes-analysis"
3 <description> - Procrustes Analysis</description> 3 version="2020.8">
4 <requirements> 4 <description>Procrustes Analysis</description>
5 <requirement type="package" version="2019.7">qiime2</requirement> 5 <requirements>
6 </requirements> 6 <requirement type="package" version="2020.8">qiime2</requirement>
7 <command><![CDATA[ 7 </requirements>
8 <command><![CDATA[
8 qiime diversity procrustes-analysis 9 qiime diversity procrustes-analysis
9 10
10 --i-reference=$ireference 11 --i-reference=$ireference
12
11 --i-other=$iother 13 --i-other=$iother
12 14
13 #if str($pdimensions): 15 --p-dimensions=$pdimensions
14 --p-dimensions=$pdimensions 16
17 --o-transformed-reference=otransformedreference
18
19 --o-transformed-other=otransformedother
20
21 #if str($examples) != 'None':
22 --examples=$examples
15 #end if 23 #end if
16 24
17 --o-transformed-reference=otransformedreference
18 --o-transformed-other=otransformedother
19 ; 25 ;
20 cp otransformedreference.qza $otransformedreference;
21 cp otransformedother.qza $otransformedother 26 cp otransformedother.qza $otransformedother
22 ]]></command> 27
23 <inputs> 28 ]]></command>
24 <param format="qza,no_unzip.zip" label="--i-reference: ARTIFACT The ordination matrix to which data is fitted to. PCoAResults [required]" name="ireference" optional="False" type="data"/> 29 <inputs>
25 <param format="qza,no_unzip.zip" label="--i-other: ARTIFACT The ordination matrix that's fitted to the PCoAResults reference ordination. [required]" name="iother" optional="False" type="data"/> 30 <param format="qza,no_unzip.zip" label="--i-reference: ARTIFACT The ordination matrix to which data is fitted to. PCoAResults [required]" name="ireference" optional="False" type="data" />
26 <param label="--p-dimensions: INTEGER Range(1, None) [default: 5]" name="pdimensions" optional="True" type="integer" min="1" value="5"/> 31 <param format="qza,no_unzip.zip" label="--i-other: ARTIFACT The ordination matrix that\'s fitted to the PCoAResults reference ordination. [required]" name="iother" optional="False" type="data" />
27 </inputs> 32 <param label="--p-dimensions: INTEGER Range(1, None) [default: 5]" min="1" name="pdimensions" optional="True" type="integer" value="5" />
28 <outputs> 33 <param label="--examples: Show usage examples and exit." name="examples" optional="False" type="data" />
29 <data format="qza" label="${tool.name} on ${on_string}: transformedreference.qza" name="otransformedreference"/> 34
30 <data format="qza" label="${tool.name} on ${on_string}: transformedother.qza" name="otransformedother"/> 35 </inputs>
31 </outputs> 36
32 <help><![CDATA[ 37 <outputs>
38 <data format="qza" label="${tool.name} on ${on_string}: transformedreference.qza" name="otransformedreference" />
39 <data format="qza" label="${tool.name} on ${on_string}: transformedother.qza" name="otransformedother" />
40
41 </outputs>
42
43 <help><![CDATA[
33 Procrustes Analysis 44 Procrustes Analysis
34 ################### 45 ###############################################################
35 46
36 Fit two ordination matrices with Procrustes analysis 47 Fit two ordination matrices with Procrustes analysis
37 48
38 Parameters 49 Parameters
39 ---------- 50 ----------
40 reference : PCoAResults 51 reference : PCoAResults
41 The ordination matrix to which data is fitted to. 52 The ordination matrix to which data is fitted to.
42 other : PCoAResults 53 other : PCoAResults
43 The ordination matrix that's fitted to the reference ordination. 54 The ordination matrix that's fitted to the reference ordination.
44 dimensions : Int % Range(1, None), optional 55 dimensions : Int % Range(1, None), optional
45 \
46 56
47 Returns 57 Returns
48 ------- 58 -------
49 transformed_reference : PCoAResults 59 transformed_reference : PCoAResults
50 A normalized version of the "reference" ordination matrix. 60 A normalized version of the "reference" ordination matrix.
51 transformed_other : PCoAResults 61 transformed_other : PCoAResults
52 A normalized and fitted version of the "other" ordination matrix. 62 A normalized and fitted version of the "other" ordination matrix.
53 ]]></help> 63 ]]></help>
54 <macros> 64 <macros>
55 <import>qiime_citation.xml</import> 65 <import>qiime_citation.xml</import>
56 </macros> 66 </macros>
57 <expand macro="qiime_citation"/> 67 <expand macro="qiime_citation"/>
58 </tool> 68 </tool>