annotate extract_contigs_from_archive.xml @ 14:62fefa284036 draft

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author petr-novak
date Fri, 07 Feb 2020 06:06:47 -0500
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1 <tool id="extract_contigs" name="Extract contigs from RepeatExplorer2 archive">
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2 <command detect_errors="exit_code">
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3 unzip -p ${RepeatExplorer_archive} contigs.fasta &gt; ${contigs}
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4 &amp;&amp;
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5 unzip -p -j ${RepeatExplorer_archive} "*.aln" &gt; ${aln}
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6 </command>
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8 <inputs>
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9 <param name="RepeatExplorer_archive" label="Archive with RepeatExplorer2 results" type="data" format="zip"/>
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10 </inputs>
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12 <outputs>
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13 <data name="contigs" format="fasta" label="Contigs from RepeatExplorer clustering from data ${RepeatExplorer_archive.hid}" />
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14 <data name="aln" format="txt" label="Contigs from RepeatExplorer clustering in aln format from data ${RepeatExplorer_archive.hid}" />
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15 </outputs>
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16 </tool>