Mercurial > repos > artbio > sr_bowtie
comparison sRbowtie.xml @ 4:3c9d01ebc56d draft
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sr_bowtie commit a5600be04bcee6b6e5418ab689f05bb5b815fe31
| author | artbio |
|---|---|
| date | Fri, 21 Sep 2018 09:33:28 -0400 |
| parents | 61ab0d4bd187 |
| children | 0281bb245635 |
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| 3:61ab0d4bd187 | 4:3c9d01ebc56d |
|---|---|
| 1 <tool id="bowtieForSmallRNA" name="sR_bowtie" version="2.0.3"> | 1 <tool id="bowtieForSmallRNA" name="sR_bowtie" version="2.1.0"> |
| 2 <description>for small RNA short reads</description> | 2 <description>for small RNA short reads</description> |
| 3 <requirements> | 3 <requirements> |
| 4 <requirement type="package" version="1.1.2=py27_0">bowtie</requirement> | 4 <requirement type="package" version="1.1.2=py27_0">bowtie</requirement> |
| 5 <requirement type="package" version="1.2">samtools</requirement> | 5 <requirement type="package" version="1.2">samtools</requirement> |
| 6 </requirements> | 6 </requirements> |
| 122 </action> | 122 </action> |
| 123 </when> | 123 </when> |
| 124 </conditional> | 124 </conditional> |
| 125 </actions> | 125 </actions> |
| 126 </data> | 126 </data> |
| 127 <data format="fasta" label="Matched reads" name="aligned"> | 127 <data format="fastqsanger" label="Matched reads" name="aligned"> |
| 128 <filter>additional_fasta == "al" or additional_fasta == "al_and_unal"</filter> | 128 <filter>additional_fasta == "al" or additional_fasta == "al_and_unal"</filter> |
| 129 <actions> | |
| 130 <action type="format"> | |
| 131 <option type="from_param" name="input" param_attribute="ext" /> | |
| 132 </action> | |
| 133 </actions> | |
| 129 </data> | 134 </data> |
| 130 <data format="fasta" label="Unmatched reads" name="unaligned"> | 135 <data format="fastqsanger" label="Unmatched reads" name="unaligned"> |
| 131 <filter>additional_fasta == "unal" or additional_fasta == "al_and_unal"</filter> | 136 <filter>additional_fasta == "unal" or additional_fasta == "al_and_unal"</filter> |
| 137 <actions> | |
| 138 <action type="format"> | |
| 139 <option type="from_param" name="input" param_attribute="ext" /> | |
| 140 </action> | |
| 141 </actions> | |
| 132 </data> | 142 </data> |
| 133 </outputs> | 143 </outputs> |
| 134 <tests> | 144 <tests> |
| 135 <test> | 145 <test> |
| 136 <param name="genomeSource" value="history" /> | 146 <param name="genomeSource" value="history" /> |