Mercurial > repos > bgruening > salmonquantmerge

annotate salmonquantmerge.xml @ 4:85b3dc9b6830 draft

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"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/salmon commit 4c71464b5f5047e0745067c115c37a5d06867649"
author bgruening
date Mon, 13 Jul 2020 17:14:25 -0400
parents 43658f594542
children 88c07fc4024c
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43658f594542 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/salmon commit 8f432498890670fd03a197bd3d1aa2638d1ff2b3"
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1 <tool id="salmonquantmerge" name="Salmon quantmerge" version="@VERSION@">
43658f594542 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/salmon commit 8f432498890670fd03a197bd3d1aa2638d1ff2b3"
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2 <description>Merge multiple quantification results into a single file</description>
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3 <macros>
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4 <import>macros.xml</import>
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5 </macros>
43658f594542 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/salmon commit 8f432498890670fd03a197bd3d1aa2638d1ff2b3"
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6 <expand macro="requirements"/>
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7 <command detect_errors="exit_code"><![CDATA[
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8 @qmerge@
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9 ]]></command>
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10 <inputs>
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11 <expand macro="quantmerge"/>
43658f594542 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/salmon commit 8f432498890670fd03a197bd3d1aa2638d1ff2b3"
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12 </inputs>
43658f594542 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/salmon commit 8f432498890670fd03a197bd3d1aa2638d1ff2b3"
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13 <outputs>
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14 <data name="mergedfile" format="tabular" label="${tool.name} on ${on_string}" from_work_dir="qmergeout.tab"/>
43658f594542 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/salmon commit 8f432498890670fd03a197bd3d1aa2638d1ff2b3"
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15 </outputs>
43658f594542 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/salmon commit 8f432498890670fd03a197bd3d1aa2638d1ff2b3"
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16 <tests>
43658f594542 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/salmon commit 8f432498890670fd03a197bd3d1aa2638d1ff2b3"
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17 <test expect_num_outputs="1">
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18 <repeat name="quantfiles">
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19 <param name="quants" value="quant2.sf"/>
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20 <param name="names" value="asdf"/>
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21 </repeat>
43658f594542 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/salmon commit 8f432498890670fd03a197bd3d1aa2638d1ff2b3"
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22 <repeat name="quantfiles">
43658f594542 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/salmon commit 8f432498890670fd03a197bd3d1aa2638d1ff2b3"
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23 <param name="quants" value="quant1.sf"/>
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24 <param name="names" value="qwerty"/>
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25 </repeat>
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26 <output name="mergedfile" ftype="tabular">
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27 <assert_contents>
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28 <has_text text="qwerty"/>
43658f594542 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/salmon commit 8f432498890670fd03a197bd3d1aa2638d1ff2b3"
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29 <has_text text="NM_014621"/>
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30 <has_n_columns n="3"/>
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31 </assert_contents>
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32 </output>
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33 </test>
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34 </tests>
43658f594542 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/salmon commit 8f432498890670fd03a197bd3d1aa2638d1ff2b3"
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35 <help><![CDATA[
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36 @salmonhelp@
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37 ]]></help>
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38 <expand macro="citations"/>
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39 </tool>