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0
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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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42
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4 igblastn -germline_db_V \$IGDATA/database/human_gl_V -germline_db_J \$IGDATA/database/human_gl_J -germline_db_D \$IGDATA/database/human_gl_D -domain_system imgt -query $input -auxiliary_data \$IGDATA/optional_file/human_gl.aux -show_translation -outfmt 3 > $output
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0
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5 </command>
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6 <inputs>
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7 <param name="input" type="data" format="fasta" label="Fasta file"/>
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8 </inputs>
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9 <outputs>
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10 <data name="output" format="text" label="${input.name}-igBLASTn Report"/>
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11 <!--<data name="log" format="text" label="log"/>-->
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12 </outputs>
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1
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13 <requirements>
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14 <requirement type="package" version="1.0.0">igBlastn</requirement>
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15 </requirements>
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0
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16 <help>
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43
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17 Step 1 of the Immune Repertoire tools, generates a report to be parsed with the "igparse" tool.
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0
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18 </help>
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19 </tool>
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