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annotate tools/mothur/merge.taxsummary.xml @ 0:ee4fee239fe7 draft default tip

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planemo upload commit 68a4fd4cc5332c57ac39bef73db224425af0706c-dirty
author sanbi-uwc
date Fri, 03 Jun 2016 09:32:47 -0400
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Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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1 <tool profile="16.07" id="mothur_merge_taxsummary" name="Merge.taxsummary" version="@WRAPPER_VERSION@.0">
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2 <description>Merge tax.summary files</description>
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3 <macros>
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4 <import>macros.xml</import>
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5 </macros>
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6 <expand macro="requirements"/>
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7 <expand macro="version_command"/>
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8 <command detect_errors="aggressive"><![CDATA[
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9 echo 'merge.taxsummary(
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10 input=${ str($input).replace(",","-") },
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11 output=$output
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12 )'
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13 | sed 's/ //g' ## mothur trips over whitespace
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14 | mothur &&
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15
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16 ## move output files to correct destination
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17 mv mothur.*.logfile "$logfile"
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18 ]]></command>
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19 <inputs>
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20 <param name="input" type="data" format="mothur.tax.summary" multiple="true" label="input - tax.summary files"/>
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21 </inputs>
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22 <outputs>
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23 <data name="logfile" format="txt" label="${tool.name} on ${on_string}: logfile"/>
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24 <data name="output" format="mothur.tax.summary" label="${tool.name} on ${on_string}: merged sff"/>
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25 </outputs>
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26 <tests>
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27 <test>
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28 <param name="input" value="amazon.wang.knn.tax.summary,amazon.silva.wang.tax.summary"/>
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29 <output name="output" md5="6e1276cc740b03d5407a3707322e1ee3" ftype="mothur.tax.summary"/>
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30 <expand macro="logfile-test"/>
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31 </test>
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32 </tests>
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33 <help>
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34 <![CDATA[
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35
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36 @MOTHUR_OVERVIEW@
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37
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38 .. _Mothur: http://www.mothur.org/wiki/Main_Page
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39
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40 **Command Documenation**
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41
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42 The merge.taxsummary command takes a list of tax.summary files separated by dashes and merges them into one file.
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43
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44 .. _merge.taxsummary: http://www.mothur.org/wiki/Merge.taxsummary
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45
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46 ]]>
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47 </help>
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48 <expand macro="citations"/>
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49 </tool>