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Clean up tool framework test tools.

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Add example of nested conditional disambiugation.
This commit is contained in:
John Chilton
2013-11-21 21:17:04 -06:00
parent 4c4189c558
commit c6d3679b92
3 changed files with 27 additions and 7 deletions
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test/functional/tools/composite.xml
+1 -2
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@@ -1,5 +1,4 @@
<tool id="velvet_inspired" name="velvet_inspired" version="1.0.0">
<description>Velvet sequence assembler for very short reads</description>
<tool id="composite" version="1.0.0">
<command>cat '$input.extra_files_path/Sequences' > $output</command>
<inputs>
<param name="input" type="data" format="velvet" label="Velvet Dataset" help="Prepared by velveth."/>
test/functional/tools/disambiguate_cond.xml
+25 -3
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@@ -1,6 +1,4 @@
<tool id="handle_cond" name="handle_cond">
<description>tail-to-head</description>
<!-- -->
<tool id="disambiguate_cond" name="disambiguate_cond">
<command>
echo "$p1.p1v $p2.p2v $p3.p3v" > $out_file1; cat "$files.p4.file" >> $out_file1;
</command>
@@ -61,5 +59,29 @@
</assert_contents>
</output>
</test>
<test>
<conditional name="p1">
<param name="use" value="False"/>
</conditional>
<conditional name="p2">
<param name="use" value="True"/>
</conditional>
<conditional name="p3">
<param name="use" value="False"/>
</conditional>
<conditional name="files">
<param name="attach_files" value="True" />
<conditional name="p4">
<param name="use" value="True"/>
<param name="file" value="simple_line_alternative.txt" />
</conditional>
</conditional>
<output name="out_file1">
<assert_contents>
<has_line line="7 4 7" />
<has_line line="This is a different line of text." />
</assert_contents>
</output>
</test>
</tests>
</tool>
test/functional/tools/multi_repeats.xml
+1 -2
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@@ -1,5 +1,4 @@
<tool id="multirepeat" name="multirepeat">
<description>tail-to-head</description>
<tool id="multi_repeats" name="multi_repeats">
<command>
cat $input1 #for $q in $queries# ${q.input2} #end for# #for $q in $more_queries# ${q.more_queries_input} #end for# > $out_file1
</command>