Mercurial > repos > jjohnson > qiime
comparison sort_otu_table.xml @ 0:e5c3175506b7 default tip
Initial tool configs for qiime, most need work.
author | Jim Johnson <jj@umn.edu> |
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date | Sun, 17 Jul 2011 10:30:11 -0500 |
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-1:000000000000 | 0:e5c3175506b7 |
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1 <tool id="sort_otu_table" name="sort_otu_table" version="1.2.1"> | |
2 <description>Script for sorting the sample IDs in an OTU table based on a specified value in a mapping file.</description> | |
3 <requirements> | |
4 <requirement type="binary">sort_otu_table.py</requirement> | |
5 </requirements> | |
6 <command interpreter="python"> | |
7 qiime_wrapper.py | |
8 sort_otu_table.py | |
9 --input_otu_table=$input_otu_table | |
10 --mapping_fp=$mapping_fp | |
11 --sort_field=$sort_field | |
12 --output_fp=$output_fp | |
13 </command> | |
14 <inputs> | |
15 <param name="input_otu_table" type="data" format="qiimeotu" label="input_otu_table" | |
16 help="the input otu table [REQUIRED]"/> | |
17 <param name="mapping_fp" type="data" format="qiimemapping" label="mapping_fp" | |
18 help="the mapping file [REQUIRED]"/> | |
19 <param name="sort_field" type="select" label="sort_field" | |
20 help="field to sort by [REQUIRED]"> | |
21 <options> | |
22 <filter type="data_meta" ref="mapping_fp" key="column_names" /> | |
23 </options> | |
24 </param> | |
25 </inputs> | |
26 <outputs> | |
27 <data format="txt" name="output_fp"/> | |
28 </outputs> | |
29 <tests> | |
30 </tests> | |
31 <help> | |
32 | |
33 </help> | |
34 </tool> | |
35 |