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https://github.com/galaxyproject/galaxy.git
synced 2026-09-21 13:50:20 +08:00
John Chilton
b402093479
Case made well by @erasche on #1746, fixes #1746. To resolve this more correctly (and many other potential type problems) - the workflow editor should be significantly reworked to track the datatype (or a range of datatypes) on each terminal (the way it does for collection mapping information). The change would be a weeks worth of development effort and inappropriate to apply to a release branch.
73 lines
3.2 KiB
XML
73 lines
3.2 KiB
XML
<tool id="output_format" name="output_format" version="1.0.0">
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<command>
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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 format="txt" from_work_dir="1" name="direct_output" />
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<!-- TODO: fixme, following input gets random type fastqsanger or
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fastqsolexa. -->
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<data format="input" from_work_dir="2" name="input_based_output" />
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<data format="txt" from_work_dir="3" name="format_source_1_output" format_source="input_data_1" />
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<data format="txt" from_work_dir="4" name="format_source_2_output" format_source="input_data_2" />
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<data format="txt" from_work_dir="5" name="change_format_output">
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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><has_line line="test" /></assert_contents>
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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><has_line line="test" /></assert_contents>
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</output>
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<output name="format_source_2_output" ftype="fastqsolexa">
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<assert_contents><has_line line="test" /></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><has_line line="test" /></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><has_line line="test" /></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><has_line line="test" /></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><has_line line="test" /></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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