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comparison qiime2-2020.8/qiime_quality-control_bowtie2-build.xml @ 0:5c352d975ef7 draft

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author florianbegusch
date Thu, 03 Sep 2020 09:33:04 +0000
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1 <?xml version="1.0" ?>
2 <tool id="qiime_quality-control_bowtie2-build" name="qiime quality-control bowtie2-build"
3 version="2020.8">
4 <description>Build bowtie2 index from reference sequences.</description>
5 <requirements>
6 <requirement type="package" version="2020.8">qiime2</requirement>
7 </requirements>
8 <command><![CDATA[
9 qiime quality-control bowtie2-build
10
11 --i-sequences=$isequences
12
13 --p-n-threads=$pnthreads
14
15 --o-database=odatabase
16
17 #if str($examples) != 'None':
18 --examples=$examples
19 #end if
20
21 ;
22 cp odatabase.qza $odatabase
23
24 ]]></command>
25 <inputs>
26 <param format="qza,no_unzip.zip" label="--i-sequences: ARTIFACT FeatureData[Sequence] Reference sequences used to build bowtie2 index. [required]" name="isequences" optional="False" type="data" />
27 <param label="--examples: Show usage examples and exit." name="examples" optional="False" type="data" />
28
29 </inputs>
30
31 <outputs>
32 <data format="qza" label="${tool.name} on ${on_string}: database.qza" name="odatabase" />
33
34 </outputs>
35
36 <help><![CDATA[
37 Build bowtie2 index from reference sequences.
38 ###############################################################
39
40 Build bowtie2 index from reference sequences.
41
42 Parameters
43 ----------
44 sequences : FeatureData[Sequence]
45 Reference sequences used to build bowtie2 index.
46 n_threads : Int % Range(1, None), optional
47 Number of threads to launch
48
49 Returns
50 -------
51 database : Bowtie2Index
52 Bowtie2 index.
53 ]]></help>
54 <macros>
55 <import>qiime_citation.xml</import>
56 </macros>
57 <expand macro="qiime_citation"/>
58 </tool>