Mercurial > repos > iuc > odgi_build
diff build.xml @ 0:0acf4893bee5 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/odgi/ commit 6de23fe4201ec9c2b209f00ae0e19962c232828c"
author | iuc |
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date | Wed, 08 Apr 2020 12:12:18 -0400 |
parents | |
children | 7fb3bb1e221e |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/build.xml Wed Apr 08 12:12:18 2020 -0400 @@ -0,0 +1,48 @@ +<tool id="odgi_build" name="odgi build" version="@TOOL_VERSION@"> + <description>construct a dynamic succinct variation graph</description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements"/> + <command detect_errors="exit_code"><![CDATA[ +odgi build +-g '$gfa' +-o '$odgi_output' +$sort +#if $to_gfa: + --to-gfa > '$gfa_output' +#end if + ]]></command> + <inputs> + <param argument="--gfa" type="data" format="gfa1" label="Construct the graph from this GFA input file" /> + <param argument="--sort" type="boolean" truevalue="--sort" falsevalue="" checked="false" + label="Topological sort the graph" + help="Apply generalized topological sort to the graph and set node ids to order." /> + <param argument="--to-gfa" type="boolean" truevalue="--to-gfa" falsevalue="" checked="false" + label="Output additional GFA file" + help="" /> + </inputs> + <outputs> + <data name="odgi_output" format="odgi" /> + <data name="gfa_output" format="gfa1"> + <filter>to_gfa</filter> + </data> + </outputs> + <tests> + <test> + <param name="gfa" value="t.gfa" /> + <param name="sort" value="true" /> + <param name="to_gfa" value="true" /> + <output name="odgi_output" file="note5_out.og" /> + <output name="gfa_output" file="note5.gfa" /> + </test> + </tests> + <help><![CDATA[ +optimized dynamic genome/graph implementation (odgi) +---------------------------------------------------- + +Construct a dynamic succinct variation graph (build) + ]]></help> + <expand macro="citations"> + </expand> +</tool>