Mercurial > repos > fcaramia > custom_amplicon_alignment
comparison alignCustomAmplicon/alignCustomAmplicon_wrapper.xml @ 2:413ba6d9cc46 draft
Uploaded
| author | fcaramia |
|---|---|
| date | Wed, 09 Jan 2013 00:35:38 -0500 |
| parents | 6a1b222df393 |
| children |
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| 1:6a1b222df393 | 2:413ba6d9cc46 |
|---|---|
| 6 <requirement type="package" version="1.3.12">gzip</requirement> | 6 <requirement type="package" version="1.3.12">gzip</requirement> |
| 7 <requirement type="perl-module" version="0.42">Inline-CPP</requirement> | 7 <requirement type="perl-module" version="0.42">Inline-CPP</requirement> |
| 8 </requirements> | 8 </requirements> |
| 9 <command interpreter="perl"> | 9 <command interpreter="perl"> |
| 10 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 |
| 11 -j "\$JAVA_JAR_PATH/MergeSamFiles.jar" | |
| 11 </command> | 12 </command> |
| 12 | 13 |
| 13 <inputs> | 14 <inputs> |
| 14 <param name="refFile" type="select" label="Select a reference genome"> | 15 <param name="refFile" type="select" label="Select a reference genome"> |
| 15 <options from_data_table="all_fasta"> | 16 <options from_data_table="all_fasta"> |