Mercurial > repos > mcharles > rapsosnp
comparison rapsodyn/extractseq.xml @ 0:442a7c88b886 draft
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| author | mcharles |
|---|---|
| date | Wed, 10 Sep 2014 09:18:15 -0400 |
| parents | |
| children | 3f7b0788a1c4 |
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| -1:000000000000 | 0:442a7c88b886 |
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| 1 <tool id="extractseq" name="extractseq" version="0.03"> | |
| 2 <description>Extract Sequence around variant position</description> | |
| 3 <command interpreter="perl"> | |
| 4 extractseq.pl -input_variant_file $input_variant_file -input_assembly_file $input_assembly_file -window_length $window_length > $output_file | |
| 5 </command> | |
| 6 <inputs> | |
| 7 <param name="input_variant_file" type="data" format="pileup" label="Select a suitable input VARIANT file from your history"/> | |
| 8 <param name="input_assembly_file" type="data" format="fasta" label="Select a suitable input ASSEMBLY file from your history"/> | |
| 9 <param name="window_length" type="integer" value="50" label="Number of bases extracted before and after the variant position"/> | |
| 10 </inputs> | |
| 11 <outputs> | |
| 12 <data name="output_file" format="fasta" label="${tool.name} on ${on_string}"/> | |
| 13 </outputs> | |
| 14 | |
| 15 <help> | |
| 16 | |
| 17 | |
| 18 | |
| 19 </help> | |
| 20 </tool> |