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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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e5c3175506b7 Initial tool configs for qiime, most need work.
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1 <tool id="make_per_library_sff" name="make_per_library_sff" version="1.2.0">
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2 <description>Make per-library sff files from id lists</description>
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3 <requirements>
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4 <requirement type="binary">make_per_library_sff.py</requirement>
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5 </requirements>
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6 <command interpreter="python">
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7 qiime_wrapper.py
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8 --galaxy_tmpdir='$__new_file_path__'
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9 make_per_library_sff.py
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10 --input_sff=$input_sff
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11 --libdir=$libdir
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12 --sfffile_path=$sfffile_path
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13 $use_sfftools
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14 $debug
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15 </command>
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16 <inputs>
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17 <param name="input_sff" type="text" label="input_sff"
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18 help="Input sff file (separate multiple files w/ comma) [REQUIRED]"/>
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19 <param name="libdir" type="text" label="libdir"
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20 help="Directory containing per-library id files [REQUIRED]"/>
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21 <param name="sfffile_path" type="text" label="sfffile_path"
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22 help="Path to sfffile binary [default: use sfffile in $PATH]"/>
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23 <param name="use_sfftools" type="boolean" truevalue="--use_sfftools" falsevalue="" checked="false" label="use_sfftools"
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24 help="Use external sfffile program instead of equivalent Python routines."/>
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25 <param name="debug" type="boolean" truevalue="--debug" falsevalue="" checked="false" label="debug"
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26 help="Print debugging output to stdout [default: False]"/>
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27 </inputs>
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28 <outputs>
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29
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30 </outputs>
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31 <tests>
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32 </tests>
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33 <help>
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34
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35 </help>
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36 </tool>
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