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comparison data_manager/data_manager_manual.xml @ 4:1ed87dee9e68 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_manual commit b775a4c6248f00430a9ab1b2a4e1afa255ac57a2"
author iuc
date Wed, 16 Oct 2019 05:16:25 -0400
parents 81ed42c0721a
children 0bed5ee5b74a
comparison
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3:31f44a9f507e 4:1ed87dee9e68
1 <tool id="data_manager_manual" name="Manual Data Manager" version="0.0.1" tool_type="manage_data"> 1 <tool id="data_manager_manual" name="Manual Data Manager" version="0.0.2" tool_type="manage_data" profile_version="19.01">
2 <options sanitize="False" /> 2 <options sanitize="False" />
3 <description>Entry Builder</description> 3 <description>Entry Builder</description>
4 <command detect_errors="exit_code"><![CDATA[ 4 <command detect_errors="exit_code"><![CDATA[
5 python '$__tool_directory__/data_manager_manual.py' 5 python '$__tool_directory__/data_manager_manual.py'
6 '${out_file}' 6 '${out_file}'
8 ]]></command> 8 ]]></command>
9 <inputs> 9 <inputs>
10 <repeat name="data_tables" title="Data Table to define" min="1"> 10 <repeat name="data_tables" title="Data Table to define" min="1">
11 <param name="data_table_name" type="select" multiple="False" optional="False" label="Choose Desired Data Table" 11 <param name="data_table_name" type="select" multiple="False" optional="False" label="Choose Desired Data Table"
12 dynamic_options="galaxy_code_get_available_data_tables( __trans__ )" refresh_on_change="True"/> 12 dynamic_options="galaxy_code_get_available_data_tables( __trans__ )" refresh_on_change="True"/>
13 <repeat name="columns" title="Table Columns" min="1"> 13 <repeat name="columns" title="Table Columns" min="1">
14 <param name="data_table_column_name" type="select" multiple="False" optional="False" label="Column Name" 14 <param name="data_table_column_name" type="select" multiple="False" optional="False" label="Column Name"
15 dynamic_options="galaxy_code_get_available_data_table_columns( __trans__, data_table_name )" /> 15 dynamic_options="galaxy_code_get_available_data_table_columns( __trans__, data_table_name )" />
16 <!-- <param name="data_table_column_name" type="text" label="Column Name"/> --> 16 <!-- <param name="data_table_column_name" type="text" label="Column Name"/> -->
17 <param name="data_table_column_value" type="text" label="Value to use for data table column"/> 17 <param name="data_table_column_value" type="text" label="Value to use for data table column"/>
18 <conditional name="is_path"> 18 <conditional name="is_path">
19 <param name="is_path_selector" type="select" label="Value is a path"> 19 <param name="is_path_selector" type="select" label="Value is a path">
20 <option value="yes">Yes</option> 20 <option value="yes">Yes</option>
21 <option value="no" selected="True">No</option> 21 <option value="no" selected="True">No</option>
22 </param> 22 </param>
23 <when value="yes"> 23 <when value="yes">
24 <param name="abspath" type="boolean" label="Apply abspath" checked="True" truevalue="abspath" falsevalue="" /> 24 <param name="abspath" type="boolean" label="Apply abspath" checked="True" truevalue="abspath" falsevalue="" />
25 </when> 25 </when>
26 <when value="no"/> 26 <when value="no"/>
27 </conditional> 27 </conditional>
28 </repeat> 28 </repeat>
29 </repeat> 29 </repeat>
30 <repeat name="directory_content" title="Directory Content"> 30 <repeat name="directory_content" title="Directory Content">
31 <param name="subdir" type="text" label="Place in Subdirectory" value=""/> 31 <param name="subdir" type="text" label="Place in Subdirectory" value=""/>
32 <conditional name="file_source"> 32 <conditional name="file_source">
33 <param name="file_source_selector" type="select" label="File Content Source"> 33 <param name="file_source_selector" type="select" label="File Content Source">
56 </inputs> 56 </inputs>
57 <outputs> 57 <outputs>
58 <data name="out_file" format="data_manager_json" dbkey="dbkey"/> 58 <data name="out_file" format="data_manager_json" dbkey="dbkey"/>
59 </outputs> 59 </outputs>
60 <tests> 60 <tests>
61 <test>
62 <repeat name="data_tables">
63 <param name="data_table_name" value="__dbkeys__"/>
64 <repeat name="columns">
65 <param name="data_table_column_name" value="value"/>
66 <param name="data_table_column_value" value="dm6"/>
67 </repeat>
68 <repeat name="columns">
69 <param name="data_table_column_name" value="name"/>
70 <param name="data_table_column_value" value="Drosophila melanogaster genome release 6"/>
71 </repeat>
72 <repeat name="columns">
73 <param name="data_table_column_name" value="len_path"/>
74 <param name="data_table_column_value" value="dm6.len"/>
75 </repeat>
76 </repeat>
77 <output name="out_file" file="dm6.data_manager_json"/>
78 </test>
61 </tests> 79 </tests>
62 <help> 80 <help>
63 **What it does** 81 **What it does**
64 82
65 This tool allows manually specifying data table entries and optionally providing filesystem contents. 83 This tool allows manually specifying data table entries and optionally providing filesystem contents.