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80 lines
2.2 KiB
XML
80 lines
2.2 KiB
XML
<tool id="cat1" name="Concatenate datasets">
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<description>tail-to-head</description>
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<command interpreter="python">
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catWrapper.py
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$out_file1
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$input1
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#for $q in $queries
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${q.input2}
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#end for
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</command>
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<inputs>
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<param name="input1" type="data" label="Concatenate Dataset"/>
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<repeat name="queries" title="Dataset">
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<param name="input2" type="data" label="Select" />
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</repeat>
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</inputs>
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<outputs>
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<data name="out_file1" format="input" metadata_source="input1"/>
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</outputs>
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<tests>
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<test>
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<param name="input1" value="1.bed"/>
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<param name="input2" value="2.bed"/>
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<output name="out_file1" file="cat_wrapper_out1.bed"/>
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</test>
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<!--TODO: if possible, enhance the underlying test code to handle this test
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the problem is multiple params with the same name "input2"
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<test>
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<param name="input1" value="1.bed"/>
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<param name="input2" value="2.bed"/>
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<param name="input2" value="3.bed"/>
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<output name="out_file1" file="cat_wrapper_out2.bed"/>
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</test>
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-->
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</tests>
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<help>
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.. class:: warningmark
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**WARNING:** Be careful not to concatenate datasets of different kinds (e.g., sequences with intervals). This tool does not check if the datasets being concatenated are in the same format.
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-----
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**What it does**
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Concatenates datasets
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-----
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**Example**
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Concatenating Dataset::
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chrX 151087187 151087355 A 0 -
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chrX 151572400 151572481 B 0 +
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with Dataset1::
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chr1 151242630 151242955 X 0 +
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chr1 151271715 151271999 Y 0 +
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chr1 151278832 151279227 Z 0 -
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and with Dataset2::
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chr2 100000030 200000955 P 0 +
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chr2 100000015 200000999 Q 0 +
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will result in the following::
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chrX 151087187 151087355 A 0 -
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chrX 151572400 151572481 B 0 +
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chr1 151242630 151242955 X 0 +
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chr1 151271715 151271999 Y 0 +
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chr1 151278832 151279227 Z 0 -
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chr2 100000030 200000955 P 0 +
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chr2 100000015 200000999 Q 0 +
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</help>
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</tool>
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