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comparison qiime2/qiime_feature-table_subsample.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_feature-table_subsample" name="qiime feature-table subsample" version="2019.7"> 2 <tool id="qiime_feature-table_subsample" name="qiime feature-table subsample"
3 <description> - Subsample table</description> 3 version="2020.8">
4 <requirements> 4 <description>Subsample table</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 feature-table subsample 9 qiime feature-table subsample
9 10
10 --i-table=$itable 11 --i-table=$itable
11 12
12 #if str($psubsamplingdepth): 13 --p-subsampling-depth=$psubsamplingdepth
13 --p-subsampling-depth="$psubsamplingdepth"
14 #end if
15 14
16 --p-axis=$paxis 15 --p-axis=$paxis
17 16
18 --o-sampled-table=osampledtable 17 --o-sampled-table=osampledtable
18
19 #if str($examples) != 'None':
20 --examples=$examples
21 #end if
22
19 ; 23 ;
20 cp osampledtable.qza $osampledtable 24 cp osampledtable.qza $osampledtable
21 ]]></command> 25
22 <inputs> 26 ]]></command>
23 <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table to be sampled. [required]" name="itable" optional="False" type="data"/> 27 <inputs>
24 <param label="--p-subsampling-depth: INTEGER Range(1, None) The total number of samples or features to be randomly sampled. Samples or features that are reduced to a zero sum will not be included in the resulting table. [required]" name="psubsamplingdepth" optional="False" min="1" value="" type="integer"/> 28 <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table to be sampled. [required]" name="itable" optional="False" type="data" />
25 <param label="--p-axis: " name="paxis" optional="False" type="select"> 29 <param label="--p-subsampling-depth: INTEGER Range(1, None) The total number of samples or features to be randomly sampled. Samples or features that are reduced to a zero sum will not be included in the resulting table. [required]" name="psubsamplingdepth" optional="False" type="text" />
26 <option value="sample">sample</option> 30 <param label="--p-axis: " name="paxis" optional="False" type="select">
27 <option value="feature">feature</option> 31 <option value="sample">sample</option>
28 </param> 32 <option value="feature">feature</option>
29 </inputs> 33 </param>
30 <outputs> 34 <param label="--examples: Show usage examples and exit." name="examples" optional="False" type="data" />
31 <data format="qza" label="${tool.name} on ${on_string}: sampledtable.qza" name="osampledtable"/> 35
32 </outputs> 36 </inputs>
33 <help><![CDATA[ 37
38 <outputs>
39 <data format="qza" label="${tool.name} on ${on_string}: sampledtable.qza" name="osampledtable" />
40
41 </outputs>
42
43 <help><![CDATA[
34 Subsample table 44 Subsample table
35 ############### 45 ###############################################################
36 46
37 Randomly pick samples or features, without replacement, from the table. 47 Randomly pick samples or features, without replacement, from the table.
38 48
39 Parameters 49 Parameters
40 ---------- 50 ----------
51 61
52 Returns 62 Returns
53 ------- 63 -------
54 sampled_table : FeatureTable[Frequency] 64 sampled_table : FeatureTable[Frequency]
55 The resulting subsampled feature table. 65 The resulting subsampled feature table.
56 ]]></help> 66 ]]></help>
57 <macros> 67 <macros>
58 <import>qiime_citation.xml</import> 68 <import>qiime_citation.xml</import>
59 </macros> 69 </macros>
60 <expand macro="qiime_citation"/> 70 <expand macro="qiime_citation"/>
61 </tool> 71 </tool>