Mercurial > repos > florianbegusch > qiime2_all
diff qiime_feature-table_tabulate-seqs.xml @ 0:09b7bcb72fa7 draft
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author | florianbegusch |
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date | Thu, 24 May 2018 02:11:44 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-table_tabulate-seqs.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,47 @@ +<?xml version="1.0" ?> +<tool id="qiime_feature-table_tabulate-seqs" name="qiime feature-table tabulate-seqs" version="2018.4"> + <description> - View sequence associated with each feature</description> + <requirements> + <requirement type="package" version="2018.4">qiime2</requirement> + </requirements> + <command> + <![CDATA[ + qiime feature-table tabulate-seqs --i-data=$idata + + #if str($cmdconfig) != 'None': + --cmd-config=$cmdconfig + #end if + --o-visualization=ovisualization; + + qiime tools export ovisualization.qzv --output-dir out && mkdir -p '$ovisualization.files_path' + && cp -r out/* '$ovisualization.files_path' + && mv '$ovisualization.files_path/index.html' '$ovisualization' + ]]> + </command> + <inputs> + <param format="qza,no_unzip.zip" label="--i-data: FeatureData[Sequence] The feature sequences to be tabulated. [required]" name="idata" optional="False" type="data"/> + <param label="--cmd-config: Use config file for command options" name="cmdconfig" optional="True" type="data"/> + </inputs> + <outputs> + <data format="html" label="${tool.name} on ${on_string}: visualization.qzv" name="ovisualization"/> + </outputs> + <help> + <![CDATA[ +View sequence associated with each feature +------------------------------------------- + +Generate tabular view of feature identifier to sequence mapping, including +links to BLAST each sequence against the NCBI nt database. + +Parameters +---------- +data : FeatureData[Sequence] + The feature sequences to be tabulated. + +Returns +------- +visualization : Visualization + \ + ]]> + </help> +</tool>