Mercurial > repos > bgruening > text_processing

annotate recurring_lines.xml @ 23:6073bb457ec0 draft default tip

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 7cdafed6c6a1387395e5a869186518f129aa3132
author bgruening
date Tue, 25 Mar 2025 14:34:17 +0000
parents 3dc70b59608c
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
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6073bb457ec0 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 7cdafed6c6a1387395e5a869186518f129aa3132
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1 <tool id="tp_text_file_with_recurring_lines" name="Create text file" version="@TOOL_VERSION@+galaxy1" profile="@PROFILE@">
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2 <description>with recurring lines</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="creator"/>
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7 <expand macro="requirements" />
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8 <version_command>yes --version | head -n 1</version_command>
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9 <command>
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10 <![CDATA[
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11 #for $token in $token_set:
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12 #if str($token.repeat_select.repeat_select_opts) == 'user':
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13 times=#echo $token.repeat_select.times#;
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14 #else:
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15 times=`wc -l $token.repeat_select.infile | awk '{print $1}'`;
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16 #end if
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17 yes -- '${token.line}' 2>/dev/null | head -n \$times >> '$outfile';
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18 #end for
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19 ]]>
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20 </command>
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21 <inputs>
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22 <repeat name="token_set" title=" selection" min="1">
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23 <param name="line" type="text"
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24 label="Characters to insert" help="Specify the characters that will be inserted X times in every line">
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25 <sanitizer>
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26 <valid initial="default">
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27 <add value="&#9;" /> <!-- &#9; is the HTML entity for a tab -->
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28 </valid>
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29 </sanitizer>
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30 </param>
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31 <conditional name="repeat_select">
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32 <param name="repeat_select_opts" type="select" label="Specify the number of iterations by">
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33 <option value="file">File (for each line in file)</option>
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34 <option value="user" selected="True">User defined number</option>
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35 </param>
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36 <when value="user">
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37 <param name="times" type="integer" value="10" min="1" label="How many times?"/>
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38 </when>
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39 <when value="file">
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40 <param name="infile" type="data" format="txt" label="Template file"
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41 help="For every line, the specified characters will be written once. That means X is the line-number from the given file."/>
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42 </when>
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43 </conditional>
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44 </repeat>
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45 </inputs>
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46 <outputs>
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47 <data format="txt" name="outfile"/>
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48 </outputs>
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49 <tests>
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50 <test>
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51 <repeat name="token_set">
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52 <param name="line" value="freedom" />
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53 <conditional name="repeat_select">
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54 <param name="repeat_select_opts" value="file" />
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55 <param name="infile" value="multijoin2.txt" />
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56 </conditional>
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57 </repeat>
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58 <output name="outfile" file="recurring_result1.txt" />
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59 </test>
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60 <test>
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61 <repeat name="token_set">
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62 <param name="line" value="freedom" />
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63 <conditional name="repeat_select">
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64 <param name="repeat_select_opts" value="user" />
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65 <param name="times" value="10" />
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66 </conditional>
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67 </repeat>
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68 <repeat name="token_set">
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69 <param name="line" value="war is over" />
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70 <conditional name="repeat_select">
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71 <param name="repeat_select_opts" value="user" />
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72 <param name="times" value="10" />
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73 </conditional>
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74 </repeat>
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75 <output name="outfile" file="recurring_result2.txt" />
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76 </test>
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77 <test>
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78 <repeat name="token_set">
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79 <param name="line" value="a&#9;b&#9;c&#9;d&#9;e&#9;f" />
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80 <conditional name="repeat_select">
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81 <param name="repeat_select_opts" value="user" />
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82 <param name="times" value="2" />
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83 </conditional>
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84 </repeat>
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85 <repeat name="token_set">
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86 <param name="line" value="2&#9;3&#9;4&#9;5&#9;6&#9;7" />
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87 <conditional name="repeat_select">
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88 <param name="repeat_select_opts" value="user" />
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89 <param name="times" value="1" />
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90 </conditional>
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91 </repeat>
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92 <repeat name="token_set">
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93 <param name="line" value="1&#9;2&#9;3&#9;4&#9;5&#9;6" />
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94 <conditional name="repeat_select">
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95 <param name="repeat_select_opts" value="user" />
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96 <param name="times" value="1" />
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97 </conditional>
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98 </repeat>
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99 <output name="outfile" file="sort_rows_results1.bed" />
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100 </test>
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101 </tests>
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102 <help>
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103 <![CDATA[
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104 .. class:: infomark
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105
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106 **What it does**
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107
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108 This tool creates a text file with recurring lines. You can specify a bunch of characters or entire sentences.
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109 The entire string will be printed X times separated by a line break. X can be either given by the use as a number or calculated by a given file.
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110 In case the user provides a file, the line number will be used as X.
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111
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112 ]]>
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113 </help>
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114 <expand macro="citations" />
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115 </tool>