Mercurial > repos > iuc > biom_summarize_table
comparison biom_summarize_table.xml @ 0:8f4407e9891c draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/biom_format commit f726b353973996a1f59e2044e80ef7c9b75833ab"
author | iuc |
---|---|
date | Wed, 11 Sep 2019 12:39:57 -0400 |
parents | |
children | 2cc55cbcb4a3 |
comparison
equal
deleted
inserted
replaced
-1:000000000000 | 0:8f4407e9891c |
---|---|
1 <tool id="biom_summarize_table" name="Summarize sample or observation data" version="@VERSION@.1"> | |
2 <description>in a BIOM table</description> | |
3 <macros> | |
4 <import>macros.xml</import> | |
5 </macros> | |
6 <expand macro="requirements" /> | |
7 <expand macro="version_command" /> | |
8 <command detect_errors="exit_code"> | |
9 <![CDATA[ | |
10 biom summarize-table | |
11 --input-fp '$input_fp' | |
12 --output-fp '$output_fp' | |
13 $qualitative | |
14 $observations | |
15 ]]> | |
16 </command> | |
17 <inputs> | |
18 <param name="input_fp" argument="--input-fp" type="data" format="biom1" label="Input BIOM table" /> | |
19 <param argument="--qualitative" type="boolean" checked="True" truevalue="--qualitative" falsevalue="" label="Present counts as number of unique observation ids per sample, rather than counts of observations per sample" /> | |
20 <param argument="--observations" type="boolean" checked="True" truevalue="--observations" falsevalue="" label="Summarize over observations" /> | |
21 </inputs> | |
22 <outputs> | |
23 <data format="text" name="output_fp"/> | |
24 </outputs> | |
25 <tests> | |
26 <test> | |
27 <param name="input_fp" value="input_abundance_1.biom1" /> | |
28 <param name="qualitative" value="" /> | |
29 <param name="observations" value="" /> | |
30 <output name="output_fp" value="summarize" compare="sim_size"/> | |
31 </test> | |
32 <test> | |
33 <param name="input_fp" value="input_abundance_1.biom1" /> | |
34 <param name="qualitative" value="--qualitative" /> | |
35 <param name="observations" value="--observations" /> | |
36 <output name="output_fp" value="summarize_qualitative_observations" compare="sim_size"/> | |
37 </test> | |
38 </tests> | |
39 <help><![CDATA[ | |
40 Provides details on the observation counts per sample, including summary statistics, as well as metadata categories associated with samples and observations. | |
41 ]]></help> | |
42 <expand macro="citations" /> | |
43 </tool> |