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annotate cat.xml @ 8:fa7f88da29d7 draft

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 369e40078146d00608d52205bb8cee66ae735b76-dirty
author bgruening
date Tue, 30 Jun 2015 16:20:05 -0400
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children d9819ccb9ca7
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8
fa7f88da29d7 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 369e40078146d00608d52205bb8cee66ae735b76-dirty
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1 <tool id="tp_cat" name="Concatenate datasets" version="0.1.0">
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2 <description>tail-to-head (cat)</description>
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3 <requirements>
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4 <requirement type="package" version="8.22">gnu_coreutils</requirement>
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5 </requirements>
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6 <version_command>
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7 <![CDATA[
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8 cat --version | head -n 1
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9 ]]>
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10 </version_command>
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11 <command>
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12 <![CDATA[
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13 cat
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14 #for $file in $inputs:
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15 "${file}"
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16 #end for
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17 > $out_file1
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18 ]]></command>
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19 <inputs>
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20 <param name="inputs" multiple="true" type="data" format="txt" label="datasets to concatenate"/>
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21 </inputs>
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22 <outputs>
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23 <data name="out_file1" format_source="inputs" metadata_source="inputs"/>
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24 </outputs>
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25 <tests>
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26 <test>
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27 <param name="inputs" value="sort_result1.bed,sort_result2.bed,sort_result3.bed"/>
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28 <output name="out_file1" file="cat_result1.txt"/>
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29 </test>
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30 </tests>
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31 <help>
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32 <![CDATA[
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33
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34 .. class:: warningmark
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36 **WARNING:** Be careful not to concatenate datasets of different kinds (e.g., sequences with intervals). This tool does not check if the datasets being concatenated are in the same format.
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38 -----
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40 **What it does**
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42 Concatenates datasets
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44 -----
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46 **Example**
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48 Concatenating Dataset::
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50 chrX 151087187 151087355 A 0 -
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51 chrX 151572400 151572481 B 0 +
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53 with Dataset1::
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55 chr1 151242630 151242955 X 0 +
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56 chr1 151271715 151271999 Y 0 +
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57 chr1 151278832 151279227 Z 0 -
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59 and with Dataset2::
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61 chr2 100000030 200000955 P 0 +
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62 chr2 100000015 200000999 Q 0 +
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64 will result in the following::
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65
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66 chrX 151087187 151087355 A 0 -
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67 chrX 151572400 151572481 B 0 +
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68 chr1 151242630 151242955 X 0 +
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69 chr1 151271715 151271999 Y 0 +
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70 chr1 151278832 151279227 Z 0 -
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71 chr2 100000030 200000955 P 0 +
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72 chr2 100000015 200000999 Q 0 +
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73 ]]></help>
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74 </tool>