Mercurial > repos > florianbegusch > qiime2_wrappers
comparison qiime2/qiime_feature-table_tabulate-seqs.xml @ 0:51b9b6b57732 draft
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| author | florianbegusch |
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| date | Thu, 24 May 2018 05:21:07 -0400 |
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| -1:000000000000 | 0:51b9b6b57732 |
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| 1 <?xml version="1.0" ?> | |
| 2 <tool id="qiime_feature-table_tabulate-seqs" name="qiime feature-table tabulate-seqs" version="2018.4"> | |
| 3 <description> - View sequence associated with each feature</description> | |
| 4 <requirements> | |
| 5 <requirement type="package" version="2018.4">qiime2</requirement> | |
| 6 </requirements> | |
| 7 <command> | |
| 8 <![CDATA[ | |
| 9 qiime feature-table tabulate-seqs --i-data=$idata | |
| 10 | |
| 11 #if str($cmdconfig) != 'None': | |
| 12 --cmd-config=$cmdconfig | |
| 13 #end if | |
| 14 --o-visualization=ovisualization; | |
| 15 | |
| 16 qiime tools export ovisualization.qzv --output-dir out && mkdir -p '$ovisualization.files_path' | |
| 17 && cp -r out/* '$ovisualization.files_path' | |
| 18 && mv '$ovisualization.files_path/index.html' '$ovisualization' | |
| 19 ]]> | |
| 20 </command> | |
| 21 <inputs> | |
| 22 <param format="qza,no_unzip.zip" label="--i-data: FeatureData[Sequence] The feature sequences to be tabulated. [required]" name="idata" optional="False" type="data"/> | |
| 23 <param label="--cmd-config: Use config file for command options" name="cmdconfig" optional="True" type="data"/> | |
| 24 </inputs> | |
| 25 <outputs> | |
| 26 <data format="html" label="${tool.name} on ${on_string}: visualization.qzv" name="ovisualization"/> | |
| 27 </outputs> | |
| 28 <help> | |
| 29 <![CDATA[ | |
| 30 View sequence associated with each feature | |
| 31 ------------------------------------------- | |
| 32 | |
| 33 Generate tabular view of feature identifier to sequence mapping, including | |
| 34 links to BLAST each sequence against the NCBI nt database. | |
| 35 | |
| 36 Parameters | |
| 37 ---------- | |
| 38 data : FeatureData[Sequence] | |
| 39 The feature sequences to be tabulated. | |
| 40 | |
| 41 Returns | |
| 42 ------- | |
| 43 visualization : Visualization | |
| 44 \ | |
| 45 ]]> | |
| 46 </help> | |
| 47 <macros> | |
| 48 <import>qiime_citation.xml</import> | |
| 49 </macros> | |
| 50 <expand macro="qiime_citation" /> | |
| 51 </tool> |