Mercurial > repos > galaxyp > openms_xmlvalidator

comparison XMLValidator.xml @ 13:f036e8cf1a55 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 3d1e5f37fd16524a415f707772eeb7ead848c5e3
author galaxyp
date Thu, 01 Dec 2022 19:11:46 +0000
parents 75bb0f81cfa3
children ad2ba3a95a02
comparison
equal deleted inserted replaced
12:78c080d36945 13:f036e8cf1a55
1 <?xml version='1.0' encoding='UTF-8'?> 1 <?xml version='1.0' encoding='UTF-8'?>
2 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTDConverter.--> 2 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTDConverter.-->
3 <!--Proposed Tool Section: [Utilities]--> 3 <!--Proposed Tool Section: [Utilities]-->
4 <tool id="XMLValidator" name="XMLValidator" version="@TOOL_VERSION@+galaxy@GALAXY_VERSION@" profile="20.05"> 4 <tool id="XMLValidator" name="XMLValidator" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.05">
5 <description>Validates XML files against an XSD schema.</description> 5 <description>Validates XML files against an XSD schema.</description>
6 <macros> 6 <macros>
7 <token name="@EXECUTABLE@">XMLValidator</token> 7 <token name="@EXECUTABLE@">XMLValidator</token>
8 <import>macros.xml</import> 8 <import>macros.xml</import>
9 <import>macros_autotest.xml</import>
10 <import>macros_test.xml</import>
11 </macros> 9 </macros>
12 <expand macro="requirements"/> 10 <expand macro="requirements"/>
13 <expand macro="stdio"/> 11 <expand macro="stdio"/>
14 <command detect_errors="exit_code"><![CDATA[@QUOTE_FOO@ 12 <command detect_errors="exit_code"><![CDATA[@QUOTE_FOO@
15 @EXT_FOO@ 13 @EXT_FOO@
44 <configfiles> 42 <configfiles>
45 <inputs name="args_json" data_style="paths"/> 43 <inputs name="args_json" data_style="paths"/>
46 <configfile name="hardcoded_json"><![CDATA[{"log": "log.txt", "threads": "\${GALAXY_SLOTS:-1}", "no_progress": true}]]></configfile> 44 <configfile name="hardcoded_json"><![CDATA[{"log": "log.txt", "threads": "\${GALAXY_SLOTS:-1}", "no_progress": true}]]></configfile>
47 </configfiles> 45 </configfiles>
48 <inputs> 46 <inputs>
49 <param name="in" argument="-in" type="data" format="consensusxml,featurexml,idxml,mzdata,mzid,mzml,mzxml,pepxml,traml,xml" optional="false" label="file to validate" help=" select consensusxml,featurexml,idxml,mzdata,mzid,mzml,mzxml,pepxml,traml,xml data sets(s)"/> 47 <param argument="-in" type="data" format="consensusxml,featurexml,idxml,mzdata,mzid,mzml,mzxml,pepxml,traml,xml" optional="false" label="file to validate" help=" select consensusxml,featurexml,idxml,mzdata,mzid,mzml,mzxml,pepxml,traml,xml data sets(s)"/>
50 <param name="schema" argument="-schema" type="data" format="xml" optional="true" label="schema to validate against" help="If no schema is given, the file is validated against the latest schema of the file type select xml data sets(s)"/> 48 <param argument="-schema" type="data" format="xml" optional="true" label="schema to validate against" help="If no schema is given, the file is validated against the latest schema of the file type select xml data sets(s)"/>
51 <expand macro="adv_opts_macro"> 49 <expand macro="adv_opts_macro">
52 <param name="force" argument="-force" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Overrides tool-specific checks" help=""/> 50 <param argument="-force" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Overrides tool-specific checks" help=""/>
53 <param name="test" argument="-test" type="hidden" optional="true" value="False" label="Enables the test mode (needed for internal use only)" help=""> 51 <param argument="-test" type="hidden" optional="true" value="False" label="Enables the test mode (needed for internal use only)" help="">
54 <expand macro="list_string_san"/> 52 <expand macro="list_string_san" name="test"/>
55 </param> 53 </param>
56 </expand> 54 </expand>
57 <param name="OPTIONAL_OUTPUTS" type="select" optional="true" multiple="true" label="Optional outputs"> 55 <param name="OPTIONAL_OUTPUTS" type="select" optional="true" multiple="true" label="Optional outputs">
58 <option value="ctd_out_FLAG">Output used ctd (ini) configuration file</option> 56 <option value="ctd_out_FLAG">Output used ctd (ini) configuration file</option>
59 </param> 57 </param>
64 </data> 62 </data>
65 <data name="ctd_out" format="xml" label="${tool.name} on ${on_string}: ctd"> 63 <data name="ctd_out" format="xml" label="${tool.name} on ${on_string}: ctd">
66 <filter>OPTIONAL_OUTPUTS is not None and "ctd_out_FLAG" in OPTIONAL_OUTPUTS</filter> 64 <filter>OPTIONAL_OUTPUTS is not None and "ctd_out_FLAG" in OPTIONAL_OUTPUTS</filter>
67 </data> 65 </data>
68 </outputs> 66 </outputs>
69 <tests> 67 <tests><test expect_num_outputs="1"><!-- just chosen an arbitrary input and autgenerated output-->
70 <expand macro="autotest_XMLValidator"/> 68 <param name="adv_opts|test" value="true"/>
71 <expand macro="manutest_XMLValidator"/> 69 <param name="in" ftype="mzml" value="FileFilter_1_input.mzML"/>
72 </tests> 70 <output name="stdout" ftype="txt" value="XMLValidator.stdout" lines_diff="4">
71 <assert_contents><has_text text="Success: the file is valid!"/></assert_contents>
72 </output>
73 </test>
74 </tests>
73 <help><![CDATA[Validates XML files against an XSD schema. 75 <help><![CDATA[Validates XML files against an XSD schema.
74 76
75 77
76 For more information, visit http://www.openms.de/doxygen/release/2.6.0/html/UTILS_XMLValidator.html]]></help> 78 For more information, visit http://www.openms.de/doxygen/release/2.8.0/html/UTILS_XMLValidator.html]]></help>
77 <expand macro="references"/> 79 <expand macro="references"/>
78 </tool> 80 </tool>