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galaxy/test/functional/tools/expect_num_outputs.xml
T
M BerntandMarius van den Beek 803b9a5a5b Apply suggestions from code review 
Co-authored-by: Marius van den Beek <m.vandenbeek@gmail.com>
2022-04-22 12:05:56 +02:00

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<tool id="expect_num_outputs" name="expect_num_outputs" version="1.0.0" profile="22.05">
<description>test for test's expect_num_outputs attribute</description>
<macros>
<macro name="content_assertion">
<assert_contents>
<has_line line="test" />
</assert_contents>
</macro>
</macros>
<command><![CDATA[
echo 'test' > 1.txt &&
echo 'test' > 2.txt &&
echo 'test' > 3.txt &&
#if $produce_discovered_dataset_not_assign_primary
echo 'test' > '$discovered_dataset_not_assign_primary' &&
#end if
echo 'test' > p1.forward &&
echo 'test' > p1.reverse &&
echo 'test' > p2.forward &&
echo 'test' > p2.reverse &&
#if $produce_pair
echo 'test' > '$pair.forward' &&
echo 'test' > '$pair.reverse' &&
#end if
true
]]></command>
<inputs>
<param name="produce_dataset" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Dataset" />
<param name="produce_discovered_dataset" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Discovered Dataset"/>
<param name="produce_discovered_dataset_invisible" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Discovered Dataset"/>
<param name="produce_discovered_dataset_not_assign_primary" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Discovered Dataset"/>
<param name="produce_collection" type="boolean" truevalue="true" falsevalue="false" checked="False" label="Collection Filter" />
<param name="produce_collection_discovered" type="boolean" truevalue="true" falsevalue="false" checked="False" label="Collection Filter" />
<param name="produce_pair" type="boolean" truevalue="true" falsevalue="false" checked="False" label="Collection Filter" />
<param name="produce_pair_discovered" type="boolean" truevalue="true" falsevalue="false" checked="False" label="Collection Filter" />
<param name="produce_paired_list" type="boolean" truevalue="true" falsevalue="false" checked="False" label="List of Pairs Collection Filter" />
</inputs>
<outputs>
<data name="dataset" format="txt" from_work_dir="1.txt">
<filter>produce_dataset</filter>
</data>
<data name="discovered_dataset">
<discover_datasets pattern="(?P&lt;designation&gt;\d+).txt" ext="txt" visible="true" assign_primary_output="true" />
<filter>produce_discovered_dataset</filter>
</data>
<data name="discovered_dataset_invisible">
<discover_datasets pattern="(?P&lt;designation&gt;\d+).txt" ext="txt" assign_primary_output="true" />
<filter>produce_discovered_dataset_invisible</filter>
</data>
<data name="discovered_dataset_not_assign_primary">
<discover_datasets pattern="(?P&lt;designation&gt;\d+).txt" ext="txt" visible="true" assign_primary_output="false" />
<filter>produce_discovered_dataset_not_assign_primary</filter>
</data>
<collection name="collection" type="list" label="List">
<data name="1" format="txt" from_work_dir="1.txt" />
<data name="2" format="txt" from_work_dir="2.txt" />
<data name="3" format="txt" from_work_dir="3.txt" />
<filter>produce_collection</filter>
</collection>
<collection name="collection_discovered" type="list" label="List">
<discover_datasets pattern="(?P&lt;identifier_0&gt;\d+).txt" ext="txt" visible="true" />
<filter>produce_collection_discovered</filter>
</collection>
<collection name="pair" type="paired" label="paired">
<data name="forward" format="txt" from_work_dir="p1.forward"/>
<data name="reverse" format="txt" from_work_dir="p1.reverse" />
<filter>produce_pair</filter>
</collection>
<collection name="pair_discovered" type="paired" label="pair discovered">
<discover_datasets pattern="p1.(?P&lt;name&gt;.*)" ext="txt" visible="true" />
<filter>produce_pair_discovered</filter>
</collection>
<!-- nested lists seem impossible to define statically, therefore only discovered-->
<collection name="paired_list" type="list:paired" label="paired list">
<discover_datasets pattern="(?P&lt;identifier_0&gt;p[12])\.(?P&lt;identifier_1&gt;.*)" ext="txt" visible="true" />
<filter>produce_paired_list</filter>
</collection>
</outputs>
<tests>
<!-- dataset with
- correct expect_num_outputs and count
- wrong expect_num_outputs
- wrong count -->
<test expect_num_outputs="1">
<param name="produce_dataset" value="true"/>
<output name="dataset" count="1">
<expand macro="content_assertion"/>
</output>
</test>
<test expect_num_outputs="2" expect_test_failure="true">
<param name="produce_dataset" value="true"/>
<output name="dataset" count="1">
<expand macro="content_assertion"/>
</output>
</test>
<test expect_num_outputs="1" expect_test_failure="true">
<param name="produce_dataset" value="true"/>
<output name="dataset" count="2">
<expand macro="content_assertion"/>
</output>
</test>
<!-- discovered datasets with
- correct expect_num_outputs and count
- wrong count -->
<test expect_num_outputs="1">
<param name="produce_discovered_dataset" value="true" />
<output name="discovered_dataset" count="3">
<expand macro="content_assertion"/>
<discovered_dataset designation="2" ftype="txt">
<expand macro="content_assertion"/>
</discovered_dataset>
<discovered_dataset designation="3" ftype="txt">
<expand macro="content_assertion"/>
</discovered_dataset>
</output>
</test>
<test expect_num_outputs="1" expect_test_failure="true">
<param name="produce_discovered_dataset" value="true" />
<output name="discovered_dataset" count="2">
<expand macro="content_assertion"/>
<discovered_dataset designation="2" ftype="txt">
<expand macro="content_assertion"/>
</discovered_dataset>
<discovered_dataset designation="3" ftype="txt">
<expand macro="content_assertion"/>
</discovered_dataset>
</output>
</test>
<!-- discovered datasets invisible with
- correct expect_num_outputs and count
- wrong count -->
<test expect_num_outputs="1">
<param name="produce_discovered_dataset_invisible" value="true" />
<output name="discovered_dataset_invisible" count="3">
<expand macro="content_assertion"/>
<discovered_dataset designation="2" ftype="txt">
<expand macro="content_assertion"/>
</discovered_dataset>
<discovered_dataset designation="3" ftype="txt">
<expand macro="content_assertion"/>
</discovered_dataset>
</output>
</test>
<test expect_num_outputs="1" expect_test_failure="true">
<param name="produce_discovered_dataset_invisible" value="true" />
<output name="discovered_dataset_invisible" count="2">
<expand macro="content_assertion"/>
<discovered_dataset designation="2" ftype="txt">
<expand macro="content_assertion"/>
</discovered_dataset>
<discovered_dataset designation="3" ftype="txt">
<expand macro="content_assertion"/>
</discovered_dataset>
</output>
</test>
<!-- discovered datasets invisible -->
<test expect_num_outputs="1">
<param name="produce_discovered_dataset_not_assign_primary" value="true" />
<output name="discovered_dataset_not_assign_primary" count="4">
<discovered_dataset designation="1" ftype="txt">
<expand macro="content_assertion"/>
</discovered_dataset>
<discovered_dataset designation="2" ftype="txt">
<expand macro="content_assertion"/>
</discovered_dataset>
<discovered_dataset designation="3" ftype="txt">
<expand macro="content_assertion"/>
</discovered_dataset>
</output>
</test>
<!-- collection with statically defined elements -->
<test expect_num_outputs="4">
<param name="produce_collection" value="true" />
<output_collection name="collection" type="list" count="3">
<element name="1">
<expand macro="content_assertion"/>
</element>
<element name="2">
<expand macro="content_assertion"/>
</element>
<element name="3">
<expand macro="content_assertion"/>
</element>
</output_collection>
</test>
<!-- collection with discovered elements -->
<test expect_num_outputs="1">
<param name="produce_collection_discovered" value="true" />
<output_collection name="collection_discovered" type="list" count="3">
<element name="1">
<expand macro="content_assertion"/>
</element>
<element name="2">
<expand macro="content_assertion"/>
</element>
<element name="3">
<expand macro="content_assertion"/>
</element>
</output_collection>
</test>
<!-- pair with explicit elements -->
<test expect_num_outputs="3">
<param name="produce_pair" value="true" />
<output_collection name="pair" type="paired" count="2">
<element name="forward">
<expand macro="content_assertion"/>
</element>
<element name="reverse">
<expand macro="content_assertion"/>
</element>
</output_collection>
</test>
<!-- pair with discovered -->
<test expect_num_outputs="1">
<param name="produce_pair_discovered" value="true" />
<output_collection name="pair_discovered" type="paired" count="2">
<element name="forward">
<expand macro="content_assertion"/>
</element>
<element name="reverse">
<expand macro="content_assertion"/>
</element>
</output_collection>
</test>
<!-- list of pairs with discovered elements with
- correct expect_num_outputs, count (output_collection), count (outer element), count (inner element)
- wrong count (output_collection)
- wrong count (outer element)
- wrong count (inner element)
-->
<test expect_num_outputs="1">
<param name="produce_paired_list" value="true" />
<output_collection name="paired_list" type="list:paired" count="2">
<element name="p1" count="2">
<element name="forward" count="1">
<expand macro="content_assertion"/>
</element>
<element name="reverse" count="1">
<expand macro="content_assertion"/>
</element>
</element>
<element name="p2" count="2">
<element name="forward" count="1">
<expand macro="content_assertion"/>
</element>
<element name="reverse" count="1">
<expand macro="content_assertion"/>
</element>
</element>
</output_collection>
</test>
<test expect_num_outputs="1" expect_test_failure="true">
<param name="produce_paired_list" value="true" />
<output_collection name="paired_list" type="list:paired" count="3">
<element name="p1" count="2">
<element name="forward" count="1">
<expand macro="content_assertion"/>
</element>
<element name="reverse" count="1">
<expand macro="content_assertion"/>
</element>
</element>
<element name="p2" count="2">
<element name="forward" count="1">
<expand macro="content_assertion"/>
</element>
<element name="reverse" count="1">
<expand macro="content_assertion"/>
</element>
</element>
</output_collection>
</test>
<test expect_num_outputs="1" expect_test_failure="true">
<param name="produce_paired_list" value="true" />
<output_collection name="paired_list" type="list:paired" count="2">
<element name="p1" count="3">
<element name="forward" count="1">
<expand macro="content_assertion"/>
</element>
<element name="reverse" count="1">
<expand macro="content_assertion"/>
</element>
</element>
<element name="p2" count="2">
<element name="forward" count="1">
<expand macro="content_assertion"/>
</element>
<element name="reverse" count="1">
<expand macro="content_assertion"/>
</element>
</element>
</output_collection>
</test>
<test expect_num_outputs="1" expect_test_failure="true">
<param name="produce_paired_list" value="true" />
<output_collection name="paired_list" type="list:paired" count="2">
<element name="p1" count="2">
<element name="forward" count="2">
<expand macro="content_assertion"/>
</element>
<element name="reverse" count="1">
<expand macro="content_assertion"/>
</element>
</element>
<element name="p2" count="2">
<element name="forward" count="1">
<expand macro="content_assertion"/>
</element>
<element name="reverse" count="1">
<expand macro="content_assertion"/>
</element>
</element>
</output_collection>
</test>
</tests>
</tool>
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