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unicycler: make gfa output really gfa
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bernt-matthias committed Sep 28, 2020
1 parent fa78db0 commit 5a6067c
Showing 1 changed file with 6 additions and 6 deletions.
12 changes: 6 additions & 6 deletions tools/unicycler/unicycler.xml
Original file line number Diff line number Diff line change
@@ -1,4 +1,4 @@
<tool id="unicycler" name="Create assemblies with Unicycler" version="@[email protected]">
<tool id="unicycler" name="Create assemblies with Unicycler" version="@[email protected]" profile="20.09">
<macros>
<token name="@VERSION@">0.4.8</token>
</macros>
@@ -204,7 +204,7 @@ $pilon.no_pilon
</section>
</inputs>
<outputs>
<data name="assembly_graph" format="tabular" from_work_dir="assembly.gfa" label="${tool.name} on ${on_string}: Final Assembly Graph" />
<data name="assembly_graph" format="gfa1" from_work_dir="assembly.gfa" label="${tool.name} on ${on_string}: Final Assembly Graph" />
<data name="assembly" format="fasta" from_work_dir="assembly.fasta" label="${tool.name} on ${on_string}: Final Assembly"/>
</outputs>
<tests>
@@ -240,7 +240,7 @@ $pilon.no_pilon
<section name="lr_align">
<param name="scores" value="3,-6,-5,-2"/>
</section>
<output name="assembly_graph" ftype="tabular">
<output name="assembly_graph" ftype="gfa1">
<assert_contents>
<has_text text="TATCTGTTACTGAGAAGTTAATGGATGAATTGGCAC"/>
</assert_contents>
@@ -295,7 +295,7 @@ $pilon.no_pilon
<section name="lr_align">
<param name="scores" value="3,-6,-5,-2"/>
</section>
<output name="assembly_graph" ftype="tabular">
<output name="assembly_graph" ftype="gfa1">
<assert_contents>
<has_text text="TATCTGTTACTGAGAAGTTAATGGATGAATTGGCAC" />
</assert_contents>
@@ -342,7 +342,7 @@ $pilon.no_pilon
<section name="lr_align">
<param name="scores" value="3,-6,-5,-2"/>
</section>
<output name="assembly_graph" ftype="tabular">
<output name="assembly_graph" ftype="gfa1">
<assert_contents>
<has_text text="TATCTGTTACTGAGAAGTTAATGGATGAATTGGCAC" />
</assert_contents>
@@ -362,7 +362,7 @@ $pilon.no_pilon
<param name="kmers" value="21,23"/>
</section>
<param name="long" value="only_long.fasta" ftype="fasta" />
<output name="assembly_graph" ftype="tabular">
<output name="assembly_graph" ftype="gfa1">
<assert_contents>
<has_text text="S" />
</assert_contents>

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