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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
author shellac
date Mon, 22 Mar 2021 18:12:50 +0000
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4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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1 <tool id="sam-consensus-v3" name="Sam consensus V3" version="0.2.8" python_template_version="3.5">
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2 <requirements>
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3 </requirements>
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4 <command detect_errors="exit_code"><![CDATA[
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5 perl '$__tool_directory__/call_consensus_from_sam_3.pl' '$samfile' 'fastafile' $mapq
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6 ]]></command>
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7 <inputs>
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8 <param name="samfile" type="data" format="sam" label="SAM file"/>
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9 <param name="fastafile" type="data" format="fasta" label="FASTA file"/>
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10 <param name="mapq" type="integer" label="MAPQ" value="0"/>
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11 </inputs>
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12 <outputs>
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13 <data name="scv3res" format="txt">
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14 <discover_datasets pattern="__designation_and_ext__" directory="." visible="true"/>
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15 </data>
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16 </outputs>
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17 <help><![CDATA[
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18 Sam consensus v3 takes a sam file and a fasta file with a mapq parameter
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19 ]]></help>
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20 </tool>