Mercurial > repos > bcclaywell > microbiome_pplacer_suite
diff render_datatable.xml @ 0:d4690e65afcd draft
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author | bcclaywell |
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date | Thu, 26 Feb 2015 18:16:36 -0500 |
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children | 3c50a937d7c1 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/render_datatable.xml Thu Feb 26 18:16:36 2015 -0500 @@ -0,0 +1,63 @@ +<tool id="PHYLO_render_datatable" name="Render CSV file" version="1.1.0"> + <description>as an interactive HTML table</description> + <macros> + <import>macros.xml</import> + </macros> + <command interpreter="bash"> + render_datatable-wrapper.sh $config + </command> + <stdio> + <expand macro="basic_errors"/> + </stdio> + <inputs> + <param name="input" type="data" format="csv" label="CSV file"/> + </inputs> + <outputs> + <data format="html" name="output" label="Generated table"/> + </outputs> + <configfiles> + <configfile name="config"> +INPUT="${input}" + +OUTPUT="${output}" +OUTPUT_DIR="${output.files_path}" + </configfile> + </configfiles> + <!-- The contents of the help tag is parsed as reStructuredText. Please see + help-template.rst for examples of commonly-used sections in other Galaxy + tools. --> + <help> + +.. class:: infomark + +**What it does** + +This tool reformats a CSV file, like this:: + + "seqname","accession","tax_id","species_name","is_type" + "FM872653","FM872653","308994","Dialister propionicifaciens",0.0 + "AY331416","AY331416","239137","Candidate Division TM7 oral",0.0 + "DQ666092","DQ666092","95818_1","Candidate Division TM7 vaginal",0.0 + "S002223913","GQ900631","186802_3","bacterium BVAB3-Strain 1",0.0 + ... + +into an interactive HTML table. + +[placeholder] + ++-------------+-----------+----------+---------------------------------------+----------+ +| seqname | accession | tax_id | species_name | is_type | ++=============+===========+==========+=======================================+==========+ +| FM872653 | FM872653 | 308994 | Dialister propionicifaciens | 0.0 | ++-------------+-----------+----------+---------------------------------------+----------+ +| AY331416 | AY331416 | 239137 | Candidate Division TM7 oral | 0.0 | ++-------------+-----------+----------+---------------------------------------+----------+ +| DQ666092 | DQ666092 | 95818_1 | Candidate Division TM7 vaginal | 0.0 | ++-------------+-----------+----------+---------------------------------------+----------+ +| S002223913 | GQ900631 | 186802_3 | bacterium BVAB3-Strain 1 | 0.0 | ++-------------+-----------+----------+---------------------------------------+----------+ + +... + + </help> +</tool>