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comparison qiime2/qiime_demux_subsample-single.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_demux_subsample-single" name="qiime demux subsample-single" version="2019.7"> 2 <tool id="qiime_demux_subsample-single" name="qiime demux subsample-single"
3 <description> - Subsample single-end sequences without replacement.</description> 3 version="2020.8">
4 <requirements> 4 <description>Subsample single-end sequences without replacement.</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 demux subsample-single 9 qiime demux subsample-single
9 10
10 --i-sequences=$isequences 11 --i-sequences=$isequences
11 --p-fraction="$pfraction" 12
13 --p-fraction=$pfraction
12 14
13 --o-subsampled-sequences=osubsampledsequences 15 --o-subsampled-sequences=osubsampledsequences
16
17 #if str($examples) != 'None':
18 --examples=$examples
19 #end if
20
14 ; 21 ;
15 cp osubsampledsequences.qza $osubsampledsequences 22 cp osubsampledsequences.qza $osubsampledsequences
16 ]]></command> 23
17 <inputs> 24 ]]></command>
18 <param format="qza,no_unzip.zip" label="--i-sequences: ARTIFACT SampleData[SequencesWithQuality | PairedEndSequencesWithQuality] The demultiplexed sequences to be subsampled. [required]" name="isequences" optional="False" type="data"/> 25 <inputs>
19 <param label="--p-fraction: PROPORTION Range(0, 1, inclusive_start=False) The fraction of sequences to retain in subsample. [required]" name="pfraction" optional="False" exclude_min="True" min="0" max="1" value="" type="float"/> 26 <param format="qza,no_unzip.zip" label="--i-sequences: ARTIFACT SampleData[SequencesWithQuality | PairedEndSequencesWithQuality] The demultiplexed sequences to be subsampled. [required]" name="isequences" optional="False" type="data" />
20 </inputs> 27 <param label="--p-fraction: PROPORTION Range(0, 1, inclusive_start=False) The fraction of sequences to retain in subsample. [required]" name="pfraction" optional="False" type="text" />
21 <outputs> 28 <param label="--examples: Show usage examples and exit." name="examples" optional="False" type="data" />
22 <data format="qza" label="${tool.name} on ${on_string}: subsampledsequences.qza" name="osubsampledsequences"/> 29
23 </outputs> 30 </inputs>
24 <help><![CDATA[ 31
32 <outputs>
33 <data format="qza" label="${tool.name} on ${on_string}: subsampledsequences.qza" name="osubsampledsequences" />
34
35 </outputs>
36
37 <help><![CDATA[
25 Subsample single-end sequences without replacement. 38 Subsample single-end sequences without replacement.
26 ################################################### 39 ###############################################################
27 40
28 Generate a random subsample of single-end sequences containing 41 Generate a random subsample of single-end sequences containing
29 approximately the fraction of input sequences specified by the fraction 42 approximately the fraction of input sequences specified by the fraction
30 parameter. The number of output samples will always be equal to the number 43 parameter. The number of output samples will always be equal to the number
31 of input samples, even if some of those samples contain no sequences after 44 of input samples, even if some of those samples contain no sequences after
40 53
41 Returns 54 Returns
42 ------- 55 -------
43 subsampled_sequences : SampleData[SequencesWithQuality] 56 subsampled_sequences : SampleData[SequencesWithQuality]
44 The subsampled sequences. 57 The subsampled sequences.
45 ]]></help> 58 ]]></help>
46 <macros> 59 <macros>
47 <import>qiime_citation.xml</import> 60 <import>qiime_citation.xml</import>
48 </macros> 61 </macros>
49 <expand macro="qiime_citation"/> 62 <expand macro="qiime_citation"/>
50 </tool> 63 </tool>