Mercurial > repos > iuc > sqlite_to_tabular

annotate sqlite_to_tabular.xml @ 13:c29d2f80a066 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
author iuc
date Thu, 19 Aug 2021 19:40:25 +0000
parents 575cd6cd537c
children c4d18aa4ec4a
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859064f07be4 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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1 <?xml version="1.0"?>
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575cd6cd537c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
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2 <tool id="sqlite_to_tabular" name="SQLite to tabular" version="3.2.0">
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3 <description>for SQL query</description>
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5 <macros>
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6 <import>macros.xml</import>
859064f07be4 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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7 </macros>
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5a4ae7678bc5 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 1647065a8e6e8d8c98cd0d2194b695fb9425f541"
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8 <expand macro="requirements"/>
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9 <command detect_errors="exit_code"><![CDATA[
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10 python '$__tool_directory__/sqlite_to_tabular.py'
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11 --sqlitedb='$sqlitedb'
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12 --query_file='$query_file'
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13 @RESULT_HEADER@
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14 --output='$query_results'
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15 ]]></command>
859064f07be4 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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16 <configfiles>
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17 <configfile name="query_file">
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18 $sqlquery
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19 </configfile>
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20 </configfiles>
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21 <inputs>
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22 <param name="sqlitedb" type="data" format="sqlite" label="SQLite Database"/>
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23 <param name="sqlquery" type="text" area="True" size="120x20" label="SQL query">
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24 <validator type="regex">(?ims)^\s*SELECT\s.*\sFROM\s.*$</validator>
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25 <sanitizer sanitize="False"/>
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26 </param>
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27 <expand macro="result_results_header_line" />
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28 </inputs>
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29 <outputs>
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30 <data name="query_results" format="tabular" />
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31 </outputs>
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32 <tests>
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33 <test>
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34 <param name="sqlitedb" ftype="sqlite" value="testdb.sqlite" />
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35 <param name="sqlquery" value="SELECT first_name, last_name, age FROM contacts WHERE first_name = 'Sam'" />
859064f07be4 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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36 <output name="query_results">
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37 <assert_contents>
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38 <has_text text="Smith" />
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39 <not_has_text text="Doe" />
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40 </assert_contents>
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41 </output>
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42 </test>
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43 </tests>
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44 <help><![CDATA[
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45 =================
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46 SQLite to Tabular
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47 =================
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49 **Inputs**
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50
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51 An existing SQLite_ data base.
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52
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54 **Outputs**
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55
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56 The results of a SQL query are output to the history as a tabular file.
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57
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58
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60 @QUERY_HELP@
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61
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62 ]]></help>
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63 <expand macro="citations" />
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64 </tool>