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Initial tool configs for qiime, most need work.
author Jim Johnson <jj@umn.edu>
date Sun, 17 Jul 2011 10:30:11 -0500
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1 <tool id="make_per_library_sff" name="make_per_library_sff" version="1.2.0">
2 <description>Make per-library sff files from id lists</description>
3 <requirements>
4 <requirement type="binary">make_per_library_sff.py</requirement>
5 </requirements>
6 <command interpreter="python">
7 qiime_wrapper.py
8 --galaxy_tmpdir='$__new_file_path__'
9 make_per_library_sff.py
10 --input_sff=$input_sff
11 --libdir=$libdir
12 --sfffile_path=$sfffile_path
13 $use_sfftools
14 $debug
15 </command>
16 <inputs>
17 <param name="input_sff" type="text" label="input_sff"
18 help="Input sff file (separate multiple files w/ comma) [REQUIRED]"/>
19 <param name="libdir" type="text" label="libdir"
20 help="Directory containing per-library id files [REQUIRED]"/>
21 <param name="sfffile_path" type="text" label="sfffile_path"
22 help="Path to sfffile binary [default: use sfffile in $PATH]"/>
23 <param name="use_sfftools" type="boolean" truevalue="--use_sfftools" falsevalue="" checked="false" label="use_sfftools"
24 help="Use external sfffile program instead of equivalent Python routines."/>
25 <param name="debug" type="boolean" truevalue="--debug" falsevalue="" checked="false" label="debug"
26 help="Print debugging output to stdout [default: False]"/>
27 </inputs>
28 <outputs>
29
30 </outputs>
31 <tests>
32 </tests>
33 <help>
34
35 </help>
36 </tool>
37