annotate seqtk_dropse.xml @ 2:f73729b62b51 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/seqtk commit 2249d643284ee782d882cd200729a86a2c6bb744
author iuc
date Fri, 01 Jan 2016 14:49:42 -0500
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children bc7d99f46a5d
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1 <?xml version="1.0"?>
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2 <tool id="seqtk_dropse" name="seqtk_dropse" version="@WRAPPER_VERSION@.0">
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3 <description>drop unpaired from interleaved Paired End FASTA/Q</description>
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4 <macros>
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5 <import>macros.xml</import>
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6 </macros>
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7 <expand macro="requirements"/>
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8 <expand macro="stdio"/>
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9 <command><![CDATA[seqtk dropse
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10 $in_file
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11 > $default]]></command>
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12 <inputs>
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13 <expand macro="in_faq"/>
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14 </inputs>
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15 <outputs>
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16 <data format_source="in_file" hidden="false" name="default" label="Only paired-end reads from $in_file.name"/>
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17 </outputs>
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18 <tests>
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19 <test>
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20 <param name="in_file" value="seqtk_dropse.fq"/>
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21 <output name="default" file="seqtk_dropse.out" ftype="fastq"/>
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22 </test>
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23 </tests>
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24 <help><![CDATA[
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25 **What it does**
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26
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27 Remove unpaired reads in an interleaved paired-end FASTA/Q file. Given a fastq file with unpaired reads:
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28
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29 ::
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30
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31 @test-6/1
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32 AGCTTGACGC
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33 +
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34 ?.HCF@C>>F
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35 @test-6/2
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36 TGCGAAGACC
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37 +
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38 >2?A?A@@7?
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39 @test-4/1
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40 CTTGACGCTG
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41 +
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42 I@>3EFCG@C
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43 @test-2/1
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44 AGACCAAAAT
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45 +
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46 ??><6E?IFC
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47 @test-2/2
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48 CTGGCGAATT
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49 +
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50 ?=?*?A?<?@
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51
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52 This tool will remove the offending reads (test-4/1), leaving just the paired data.
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53
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54 ::
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55
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56 @test-6/1
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57 AGCTTGACGC
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58 +
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59 ?.HCF@C>>F
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60 @test-6/2
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61 TGCGAAGACC
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62 +
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63 >2?A?A@@7?
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64 @test-2/1
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65 AGACCAAAAT
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66 +
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67 ??><6E?IFC
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68 @test-2/2
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69 CTGGCGAATT
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70 +
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71 ?=?*?A?<?@
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72
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73
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74 @ATTRIBUTION@
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f73729b62b51 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/seqtk commit 2249d643284ee782d882cd200729a86a2c6bb744
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75 ]]></help>
f73729b62b51 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/seqtk commit 2249d643284ee782d882cd200729a86a2c6bb744
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76 <expand macro="citation" />
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77 </tool>