Mercurial > repos > czouaoui > abundance_table_to_biom1
changeset 4:444ccbbe5d49 draft
Uploaded
author | czouaoui |
---|---|
date | Tue, 20 Mar 2018 04:28:39 -0400 |
parents | ebd4a477b19e |
children | d2f523789a27 |
files | abundanceTable_to_biom/test-data/abundanceTable_to_biom.xml |
diffstat | 1 files changed, 22 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/abundanceTable_to_biom/test-data/abundanceTable_to_biom.xml Tue Mar 20 04:28:39 2018 -0400 @@ -0,0 +1,22 @@ +<tool id="abundanceTable_to_biom" name="Converting abundance tables to Biom files (v1.0)" version="0.1.0"> + <command detect_errors="exit_code"><![CDATA[ + python $__tool_directory__/abundanceTable_to_biom.py --file $input --out_name biom_result + ]]></command> + <inputs> + <param type="data" name="input" format="csv" label="Abundance table"/> + </inputs> + <outputs> + <data name= "output" format="biom1" label="${input.name} to Biom (v1.0)" from_work_dir="biom_result.biom"/> + </outputs> + <tests> + <test> + <param name="input" format="csv" value="merge_summary_reads.csv"/> + <output name="output" format="biom1" file="biom_result.biom"/> + </test> + </tests> + <help><![CDATA[ + This tool is used to generate a Biom file (v1.0) from an abundance table. + The first column of the header is a taxonomy list (families). Next columns contain sample ids. + The abundancy of reads is set inside the table. + ]]></help> +</tool>