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https://github.com/galaxyproject/galaxy.git
synced 2026-09-19 10:51:34 +08:00
John Chilton
dce53769bd
Works for both files and collections. Workflow defaults override tool defaults. TODO: - Unit test case to ensure this only works for non-default, non-multi data parameters. - Implement XSD once syntax is finalized.
51 lines
1.7 KiB
XML
51 lines
1.7 KiB
XML
<tool id="collection_nested_default" name="collection_nested_default" version="0.1.0">
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<command>
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echo #for $f in $f1# ${f.is_collection} #end for# >> $out1;
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cat #for $f in $f1# #if $f.is_collection# #for $inner in $f# ${inner} #end for# #else# $f # #end if# #end for# >> $out2
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</command>
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<inputs>
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<param name="f1" type="data_collection">
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<default collection_type="list:paired">
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<element name="i1">
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<collection collection_type="paired">
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<element name="forward" location="https://raw.githubusercontent.com/galaxyproject/galaxy/dev/test-data/1.bed" />
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<element name="reverse" location="https://raw.githubusercontent.com/galaxyproject/galaxy/dev/test-data/1.fasta" />
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</collection>
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</element>
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</default>
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</param>
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</inputs>
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<outputs>
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<data format="txt" name="out1" />
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<data format="txt" name="out2" />
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</outputs>
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<tests>
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<test>
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<output name="out1">
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<assert_contents>
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<has_line line="True" />
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</assert_contents>
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</output>
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<output name="out2">
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<assert_contents>
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<has_text text="CCDS989.1_cds_0_0_chr1_147962193_r" />
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<has_text text=">hg17" />
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</assert_contents>
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</output>
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</test>
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<test>
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<param name="f1">
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<collection type="paired">
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<element name="forward" value="simple_line.txt" />
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<element name="reverse" value="simple_line_alternative.txt" />
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</collection>
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</param>
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<output name="out1">
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<assert_contents>
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<has_line line="False False" />
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</assert_contents>
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</output>
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</test>
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</tests>
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</tool>
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