mirror of
https://github.com/galaxyproject/galaxy.git
synced 2026-09-24 16:30:27 +08:00
68 lines
2.9 KiB
XML
68 lines
2.9 KiB
XML
<tool id="multi_output_configured" name="Multi_Output_Configured" version="0.1.0">
|
|
<command>
|
|
echo "Hello" > $report;
|
|
mkdir subdir1;
|
|
echo "This" > subdir1/this.txt;
|
|
echo "That" > subdir1/that.txt;
|
|
mkdir subdir2;
|
|
echo "1" > subdir2/CUSTOM_1.txt;
|
|
echo "2" > subdir2/CUSTOM_2.tabular;
|
|
echo "3" > subdir2/CUSTOM_3.txt;
|
|
mkdir subdir3;
|
|
echo "Foo" > subdir3/Foo;
|
|
echo "mapped reads" > split_bam_.MAPPED.bam;
|
|
echo "unmapped reads" > split_bam_.UNMAPPED.bam;
|
|
echo "1" > sample1.report.tsv;
|
|
echo "2" > sample2.report.tsv;
|
|
echo "3" > sample3.report.tsv;
|
|
</command>
|
|
<inputs>
|
|
<param name="num_param" type="integer" value="7" />
|
|
<param name="input" type="data" />
|
|
</inputs>
|
|
<outputs>
|
|
<data format="txt" name="report">
|
|
<discover_datasets pattern="__designation_and_ext__" directory="subdir1" visible="true" />
|
|
<discover_datasets pattern="CUSTOM_(?P<designation>.+)\.(?P<ext>.+)" directory="subdir2" visible="true" />
|
|
<discover_datasets pattern="__designation__" directory="subdir3" ext="input" visible="true" />
|
|
<discover_datasets pattern="split_bam_\.(?P<designation>([A-Z-])\w+)\.bam" format="txt" visible="true" /> <!-- can use ext or format attribute. -->
|
|
<discover_datasets pattern="(?P<designation>.+)\.report\.tsv" ext="tabular" visible="true" />
|
|
</data>
|
|
</outputs>
|
|
<tests>
|
|
<test>
|
|
<param name="num_param" value="7" />
|
|
<param name="input" ftype="txt" value="simple_line.txt"/>
|
|
<output name="report">
|
|
<assert_contents>
|
|
<has_line line="Hello" />
|
|
</assert_contents>
|
|
<discovered_dataset designation="this" ftype="txt">
|
|
<assert_contents><has_line line="This" /></assert_contents>
|
|
</discovered_dataset>
|
|
<discovered_dataset designation="that" ftype="txt">
|
|
<assert_contents><has_line line="That" /></assert_contents>
|
|
</discovered_dataset>
|
|
<discovered_dataset designation="1" ftype="txt">
|
|
<assert_contents><has_line line="1" /></assert_contents>
|
|
</discovered_dataset>
|
|
<discovered_dataset designation="2" ftype="tabular">
|
|
<assert_contents><has_line line="2" /></assert_contents>
|
|
</discovered_dataset>
|
|
<discovered_dataset designation="Foo" ftype="txt">
|
|
<assert_contents><has_line line="Foo" /></assert_contents>
|
|
</discovered_dataset>
|
|
<discovered_dataset designation="MAPPED" ftype="txt">
|
|
<assert_contents><has_line line="mapped reads" /></assert_contents>
|
|
</discovered_dataset>
|
|
<discovered_dataset designation="UNMAPPED" ftype="txt">
|
|
<assert_contents><has_line line="unmapped reads" /></assert_contents>
|
|
</discovered_dataset>
|
|
<discovered_dataset designation="sample1" ftype="tabular">
|
|
<assert_contents><has_line line="1" /></assert_contents>
|
|
</discovered_dataset>
|
|
</output>
|
|
</test>
|
|
</tests>
|
|
</tool>
|