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planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
author nml
date Wed, 08 Nov 2017 16:38:50 -0500
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1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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1 <tool id="combine_stats" name="Combine AssemblyStats" version="1.0">
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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2 <description>Combines List Collection Assembly Statistics </description>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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3 <requirements>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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4 <requirement type="package" version="2.49">perl-getopt-long</requirement>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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5 </requirements>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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6 <command detect_errors="exit_code"><![CDATA[
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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7 perl '$__tool_directory__/combine_stats.pl'
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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8
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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9 --output '$result'
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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10 #for $f in $texts.keys# --stats '$f=$texts[$f]' #end for#
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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11 ]]></command>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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12 <inputs>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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13 <param name="texts" type="data_collection" label="List Collection of Assembly Statistics" help="" optional="false" collection_type="list" />
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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14 </inputs>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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15 <outputs>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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16 <data name="result" format="tabular" ></data>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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17 </outputs>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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18 <tests>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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19 <test>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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20 <param name="texts">
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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21 <collection type="list">
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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22 <element name="first" value="first.txt" />
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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23 <element name="second" value="second.txt" />
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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24 </collection>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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25 </param>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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26 <output name="result" file="results.tabular"/>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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27 </test>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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28 </tests>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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29 <help><![CDATA[
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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30
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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31 **What it does**
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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32
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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33 Tool will take one or more https://toolshed.g2.bx.psu.edu/view/nml/assemblystats/ results and combine into a single tabular line file where each result is represented by a single line.
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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34
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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35 ]]>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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36 </help>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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37 <citations>
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38 <citation type="bibtex">@ARTICLE{a1,
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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39 title = {Combine AssemblyStats},
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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40 author = {Mariam Iskander, Philip Mabon},
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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41 url = {https://github.com/phac-nml/galaxy_tools/}
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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42 }
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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43 }</citation>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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44 </citations>
1855203c2e6c planemo upload for repository https://github.com/phac-nml/galaxy_tools commit 132092ff7fe1c4810d1221054419389180b81657
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45 </tool>