Mercurial > repos > iuc > humann_reduce_table
view humann_reduce_table.xml @ 2:d122106c317f draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/humann commit 0966faf8782e9043772acfa32f4a4281687a19dd
author | iuc |
---|---|
date | Tue, 07 Feb 2023 19:49:34 +0000 |
parents | c2488dbc8e39 |
children |
line wrap: on
line source
<tool id="humann_reduce_table" name="Reduce" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@"> <description>a joined HUMAnN table</description> <macros> <import>macros.xml</import> </macros> <expand macro="edam_ontology"/> <expand macro="requirements"/> <expand macro="version"/> <command detect_errors="exit_code"><![CDATA[ humann_reduce_table --input '$input' -o '$output' --function '$function' --sort-by '$sort_by' ]]></command> <inputs> <param argument="--input" type="data" format="tsv,tabular" label="Gene/pathway/taxonomic table"/> <param argument="--function" type="select" label="Function to apply to select value to keep"> <option value="max" selected="true">Max</option> <option value="sum">Sum</option> <option value="mean">Mean</option> <option value="min">Min</option> </param> <param argument="--sort-by" type="select" label="How to sort the output"> <option value="name" selected="true">Name</option> <option value="value">Value</option> <option value="level">Level</option> </param> </inputs> <outputs> <data format="tabular" name="output"/> </outputs> <tests> <test expect_num_outputs="1"> <param name="input" value="demo_joined_pathabundance_pathcoverage.tsv"/> <param name="function" value="max"/> <param name="sort_by" value="name"/> <output name="output" ftype="tabular"> <assert_contents> <has_text text="max" /> <has_text text="UNINTEGRATED|unclassified" /> <has_text text="PWY-4203: volatile benzenoid biosynthesis I (ester formation)|unclassified" /> </assert_contents> </output> </test> </tests> <help><![CDATA[ @HELP_HEADER@ This tool reduces a joined HUMAnN table. It selects for each row which value to keep given a function (max, sum, mean or min). ]]></help> <expand macro="citations"/> </tool>