mirror of
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89 lines
3.9 KiB
XML
89 lines
3.9 KiB
XML
<tool id="output_format" name="output_format" version="1.0.0">
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<command><![CDATA[
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echo 'test' > 1 &&
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echo 'test' > 2 &&
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echo 'test' > 3 &&
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echo 'test' > 4 &&
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echo 'test' > 5
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]]></command>
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<inputs>
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<param name="input_data_1" type="data" format="data" label="input_data_1" />
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<param name="input_data_2" type="data" format="data" label="input_data_2" />
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<param name="input_text" type="text" value="1" label="input_text" />
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</inputs>
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<outputs>
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<data name="direct_output" format="txt" from_work_dir="1" />
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<!-- TODO: fixme, following input gets random type fastqsanger or
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fastqsolexa. -->
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<data name="input_based_output" format="input" from_work_dir="2" />
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<data name="format_source_1_output" format_source="input_data_1" from_work_dir="3" />
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<data name="format_source_2_output" format_source="input_data_2" from_work_dir="4" />
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<data name="change_format_output" format="txt" from_work_dir="5">
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<change_format>
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<when input="input_text" value="foo" format="fastqsolexa" />
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<when input="input_text" value="bar" format="fastqillumina" />
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</change_format>
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</data>
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</outputs>
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<tests>
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<test>
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<param name="input_data_1" value="1.fastqsanger" ftype="fastqsanger" />
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<param name="input_data_2" value="1.fastqsolexa" ftype="fastqsolexa" />
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<param name="input_text" value="foo" />
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<output name="direct_output" ftype="txt">
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<assert_contents>
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<has_line line="test" />
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</assert_contents>
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<metadata name="created_from_basename" value="1" />
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</output>
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<!-- In this case input_based_output ftype is "randomly" either
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fastqsanger or fastqsolexa -->
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<output name="format_source_1_output" ftype="fastqsanger">
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<assert_contents>
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<has_line line="test" />
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</assert_contents>
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<metadata name="created_from_basename" value="3" />
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</output>
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<output name="format_source_2_output" ftype="fastqsolexa">
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<assert_contents>
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<has_line line="test" />
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</assert_contents>
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</output>
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<!-- input_text == foo => format set to fastsolexa -->
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<output name="change_format_output" ftype="fastqsolexa">
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<assert_contents>
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<has_line line="test" />
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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="input_data_1" value="1.fastqsanger" ftype="fastqsanger" />
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<param name="input_data_2" value="1.fastqsanger" ftype="fastqsanger" />
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<param name="input_text" value="bar" />
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<output name="input_based_output" ftype="fastqsanger">
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<assert_contents>
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<has_line line="test" />
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</assert_contents>
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</output>
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<!-- input_text == bar => format set to fastqillumina -->
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<output name="change_format_output" ftype="fastqillumina">
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<assert_contents>
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<has_line line="test" />
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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="input_data_1" value="1.fastqsanger" ftype="fastqsanger" />
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<param name="input_data_2" value="1.fastqsanger" ftype="fastqsanger" />
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<param name="input_text" value="not_foo_or_bar" />
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<!-- input_text doesn't match any when, default to explicitly declared
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type. -->
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<output name="change_format_output" ftype="txt">
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<assert_contents>
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<has_line line="test" />
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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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