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