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1 <tool id="igblastn" name="igBLASTn" version="0.1.0">
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2 <description>Run igBLASTn</description>
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3 <command>
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4 export IGDATA=/usr/local/ncbi-igblast-1.0.0/;
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5 igblastn -germline_db_V /usr/local/ncbi-igblast-1.0.0/database/human_gl_V -germline_db_J /usr/local/ncbi-igblast-1.0.0/database/human_gl_J -germline_db_D /usr/local/ncbi-igblast-1.0.0/database/human_gl_D -domain_system imgt -query $input -auxiliary_data /usr/local/ncbi-igblast-1.0.0/optional_file/human_gl.aux -show_translation -outfmt 3 > $output
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6 </command>
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7 <inputs>
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8 <param name="input" type="data" format="fasta" label="Fasta file"/>
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9 </inputs>
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10 <outputs>
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11 <data name="output" format="text" label="${input.name}-igBLASTn Report"/>
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12 <!--<data name="log" format="text" label="log"/>-->
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13 </outputs>
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14 <help>
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15 there is no help
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16 </help>
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17 </tool>
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