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1 <tool id="filter_fasta" name="Filter FASTA">
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2 <description></description>
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4
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3 <command interpreter="python">filter_fasta.py $fasta_input $scaf_input $fasta_output</command>
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4 <inputs>
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4
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5 <param format="fasta" name="fasta_input" type="data" label="FASTA Database"/>
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6 <param format="txt" name="scaf_input" type="data" label="Scaffold Report"/>
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7 </inputs>
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8 <outputs>
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4
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9 <data format="fasta" name="fasta_output" label="Filtered FASTA"/>
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10 </outputs>
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11 <stdio>
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12 <regex match="Error|error"
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13 source="stdout"
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14 level="fatal"
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15 description="Unknown error"/>
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16 <regex match="Error|error"
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17 source="stderr"
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18 level="fatal"
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19 description="Unknown error"/>
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20 <regex match="Error: bad bait"
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21 source="stdout"
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22 level="fatal"
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23 description="Error: bad bait"/>
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24 </stdio>
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25 <tests>
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26 <test>
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27 <param name="input" value="fa_gc_content_input.fa"/>
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28 <output name="out_file1" file="fa_gc_content_output.txt"/>
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29 </test>
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30 </tests>
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31 <help>
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32 </help>
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33 </tool> |