Mercurial > repos > fcaramia > custom_amplicon_alignment
comparison alignCustomAmplicon/alignCustomAmplicon_wrapper.xml @ 1:6a1b222df393 draft
Uploaded
| author | fcaramia |
|---|---|
| date | Wed, 09 Jan 2013 00:27:53 -0500 |
| parents | d32bddcff685 |
| children | 413ba6d9cc46 |
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| 0:d32bddcff685 | 1:6a1b222df393 |
|---|---|
| 1 <tool id="alignCustomAmplicon" name="Align Custom Amplicon" version="0.0.1"> | 1 <tool id="alignCustomAmplicon" name="Align Custom Amplicon" version="0.0.1"> |
| 2 <description>align amplicon to reference with primers</description> | 2 <description>align amplicon to reference with primers</description> |
| 3 <requirements><requirement type="package" version="1.56.0">picard</requirement></requirements> | 3 <requirements> |
| 4 <requirements><requirement type="package" version="0.1.18">samtools</requirement></requirements> | 4 <requirement type="package" version="1.56.0">picard</requirement> |
| 5 <requirements><requirement type="package" version="1.3.12">gzip</requirement></requirements> | 5 <requirement type="package" version="0.1.18">samtools</requirement> |
| 6 <requirements><requirement type="perl-module" version="0.42">Inline-CPP</requirement></requirements> | 6 <requirement type="package" version="1.3.12">gzip</requirement> |
| 7 <requirement type="perl-module" version="0.42">Inline-CPP</requirement> | |
| 8 </requirements> | |
| 7 <command interpreter="perl"> | 9 <command interpreter="perl"> |
| 8 alignCustomAmplicon.pl -s -r -p 4 -o $output $refFile.fields.path $read1 $read2 $primers | 10 alignCustomAmplicon.pl -s -r -p 4 -o $output $refFile.fields.path $read1 $read2 $primers |
| 9 </command> | 11 </command> |
| 10 | 12 |
| 11 <inputs> | 13 <inputs> |