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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="poller_example" name="poller_example" version="1.2.0">
2 <description>Create python file</description>
3 <requirements>
4 <requirement type="binary">poller_example.py</requirement>
5 </requirements>
6 <command interpreter="python">
7 qiime_wrapper.py
8 --galaxy_tmpdir='$__new_file_path__'
9 poller_example.py
10 --polled_dir=$polled_dir
11 --poller_fp=$poller_fp
12 --python_exe_fp=$python_exe_fp
13 $suppress_custom_functions
14 </command>
15 <inputs>
16 <param name="polled_dir" type="text" label="polled_dir"
17 help="path to directory to poll [REQUIRED]"/>
18 <param name="poller_fp" type="data" format="txt" label="poller_fp"
19 help="full path to qiime/parallel/poller.py [default: /usr/local/lib/python2.6/site-packages/scripts/poller.py]"/>
20 <param name="python_exe_fp" type="data" format="txt" label="python_exe_fp"
21 help="full path to python executable [default: python]"/>
22 <param name="suppress_custom_functions" type="boolean" truevalue="--suppress_custom_functions" falsevalue="" checked="false" label="suppress_custom_functions"
23 help="use the default functions for checking run completion, processing results, and cleaning up (these are quiet) [default: False]"/>
24 </inputs>
25 <outputs>
26
27 </outputs>
28 <tests>
29 </tests>
30 <help>
31
32 </help>
33 </tool>
34