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comparison sqlite_to_tabular.xml @ 0:c866ec050312 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
author iuc
date Tue, 18 Jul 2017 09:06:16 -0400
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children 89d898454f1e
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1 <?xml version="1.0"?>
2 <tool id="sqlite_to_tabular" name="SQLite to tabular" version="1.0.0">
3 <description>for SQL query</description>
4
5 <macros>
6 <import>macros.xml</import>
7 </macros>
8
9 <command detect_errors="exit_code"><![CDATA[
10 python '$__tool_directory__/sqlite_to_tabular.py'
11 --sqlitedb='$sqlitedb'
12 --query_file='$query_file'
13 $no_header
14 --output='$query_results'
15 ]]></command>
16 <configfiles>
17 <configfile name="query_file">
18 $sqlquery
19 </configfile>
20 </configfiles>
21 <inputs>
22 <param name="sqlitedb" type="data" format="sqlite" label="SQLite Database"/>
23 <param name="sqlquery" type="text" area="True" size="120x20" label="SQL query">
24 <validator type="regex">(?ims)^\s*SELECT\s.*\sFROM\s.*$</validator>
25 <sanitizer sanitize="False"/>
26 </param>
27 <param name="no_header" type="boolean" truevalue="-n" falsevalue="" checked="False" label="Omit column headers"/>
28 </inputs>
29 <outputs>
30 <data name="query_results" format="tabular" />
31 </outputs>
32 <tests>
33 <test>
34 <param name="sqlitedb" ftype="sqlite" value="testdb.sqlite" />
35 <param name="sqlquery" value="SELECT first_name, last_name, age FROM contacts WHERE first_name = 'Sam'" />
36 <output name="query_results">
37 <assert_contents>
38 <has_text text="Smith" />
39 <not_has_text text="Doe" />
40 </assert_contents>
41 </output>
42 </test>
43 </tests>
44 <help><![CDATA[
45 =================
46 SQLite to Tabular
47 =================
48
49 **Inputs**
50
51 An existing SQLite_ data base.
52
53
54 **Outputs**
55
56 The results of a SQL query are output to the history as a tabular file.
57
58
59
60 @QUERY_HELP@
61
62 ]]></help>
63 </tool>