[2] | 1 | <tool id="EMBOSS: primersearch81" name="primersearch" version="5.0.0">
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| 2 | <description>Searches DNA sequences for matches with primer pairs</description>
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| 3 | <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements>
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| 4 | <command>primersearch -seqall $input1 -infile $input2 -outfile $out_file1 -mismatchpercent $mismatchpercent -auto</command>
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| 5 | <inputs>
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| 6 | <param format="fasta" name="input1" type="data">
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| 7 | <label>Main sequences</label>
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| 8 | </param>
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| 9 | <param format="data" name="input2" type="data">
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| 10 | <label>Primer file</label>
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| 11 | </param>
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| 12 | <param name="mismatchpercent" size="4" type="text" value="0">
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| 13 | <label>Allowed percent mismatch</label>
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| 14 | </param>
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| 15 | </inputs>
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| 16 | <outputs>
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| 17 | <data format="primersearch" name="out_file1" />
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| 18 | </outputs> |
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| 19 | <tests> |
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| 20 | <test> |
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| 21 | <param name="input1" value="2.fasta"/> |
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| 22 | <param name="input2" value="emboss_primersearch.fasta"/> |
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| 23 | <param name="mismatchpercent" value="0"/> |
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| 24 | <output name="out_file1" file="emboss_primersearch_out.primersearch"/> |
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| 25 | </test> |
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| 26 | </tests>
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| 27 | <help> |
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| 28 | |
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| 29 | You can view the original documentation here_. |
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| 30 | |
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| 31 | .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/primersearch.html |
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| 32 | </help> |
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| 33 | </tool> |
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