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0
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1 <tool
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2 id="history_metadata_extractor"
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3 name="History Metadata Extractor"
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4 version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@"
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5 profile="21.09"
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6 >
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7 <description>
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8 displays information from exported history's jobs_attrs.txt file.
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9 </description>
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10 <macros>
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1
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11 <token name="@TOOL_VERSION@">0.2.0</token>
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0
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12 <token name="@VERSION_SUFFIX@">0</token>
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13 </macros>
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14 <requirements>
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15 <requirement type="package" version="3.10.5">python</requirement>
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16 </requirements>
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17 <stdio>
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18 <exit_code range="1" level="fatal" description="Missing parameter error" />
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19 <exit_code range="2" level="fatal" description="Bad parameter's value" />
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20 <exit_code range="3" level="fatal" description="Missing input file" />
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21 <exit_code range="4:254" level="fatal" description="Unknown error" />
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22 <exit_code range="255" level="fatal" description="No any result to output" />
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23 </stdio>
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24 <version_command>
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25 python3 '$__tool_directory__/history_metadata_extractor.py' --version | head -n 1
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26 </version_command>
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27 <command>
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28 <![CDATA[
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29 python3 '$__tool_directory__/history_metadata_extractor.py'
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30 --jobs-attrs '$jobs_attrs'
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31 --dataset-attrs '$dataset_attrs'
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32 --output '$history_visu'
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33 ]]>
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34 </command>
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35 <inputs>
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36 <param
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37 argument="--jobs-attrs"
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38 type="data"
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39 format="txt"
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40 label="Exported history's jobs_attrs.txt file"
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41 help="Export and extract an history. Select the file 'jobs_attrs.txt'"
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42 />
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43 <param
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44 argument="--dataset-attrs"
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45 type="data"
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46 format="txt"
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47 label="Exported history's dataset_attrs.txt file"
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48 help="Export and extract an history. Select the file 'dataset_attrs.txt'"
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49 />
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50 </inputs>
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51 <outputs>
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52 <data
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53 name="history_visu"
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54 format="html"
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55 label="history_visu.html"
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56 />
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57 </outputs>
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58 <tests>
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59 <test>
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60 <param name="jobs_attrs" value="jobs_attrs.txt" />
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61 <param name="dataset_attrs" value="datasets_attrs.txt" />
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62 <output name="history_visu" file="out.html" />
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63 </test>
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64 </tests>
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65 <help><![CDATA[
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66
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67 * **@AUTHOR**: Lain Pavot - lain.pavot@inrae.fr
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68 * **@CREATION DATE**: 22/06/2022
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69 * **@LAST UPDATE DATE**: 08/08/2022
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70 * **@VERSION**: @TOOL_VERSION@
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71
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72 ----
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73
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74 ==========================
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75 History Metadata Extractor
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76 ==========================
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77
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78 -------
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79 summary
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80 -------
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81
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82 | This tool xtracts informations from the `jobs_attrs.txt` and
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83 `datasets_attrs` files in exported histories, and produces an html page
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84 showing these informations in a kawaii table.
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85
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86 -----
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87 story
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88 -----
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89
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90 | You have conscientiously stored your Galaxy history exports through the
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91 years and now need to mine into it. You want to check what has been done
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92 but you fear the time needed to get all the info by reloading your
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93 histories into Galaxy for manual mining. You know there is this
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94 'jobs_attrs.txt' file that contains the golden info, but eh...
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95
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96 | So unfriendly!
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97
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98 | Worry no more! The History Metadata Extractor is there for you! Just upload
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99 your 'jobs_attrs.txt' file and generate a user-friendly summary of the main
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100 basic info you may be interested in. Tools used, parameters set... The overview
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101 you have been dreaming of in a nice html file! You're welcome :)
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0
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102
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1
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103 --------------------
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104 How to use this tool
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105 --------------------
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106
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107 Your exported histories are at the zip format.
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108 Extract the history you want to visualize, and upload the following files:
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109
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110 * jobs_attrs.txt
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111 * datasets_attrs.txt
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112
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113 Run the History Metadata Extractor tool with these input files. You will get a
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114 HTML file in output. This file can be viewed clicking on the little eye on
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115 the right of the output card in the output panel.
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116
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117 --
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118
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119 Love & Unicorns - Lain
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120 ]]>
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121 </help>
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122 </tool>
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