Mercurial > repos > iuc > odgi_build
comparison build.xml @ 0:61e02e52ce73 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/odgi/ commit 6de23fe4201ec9c2b209f00ae0e19962c232828c"
| author | iuc |
|---|---|
| date | Wed, 08 Apr 2020 16:11:04 +0000 |
| parents | |
| children | 7eb7b43eb912 |
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| -1:000000000000 | 0:61e02e52ce73 |
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| 1 <tool id="odgi_build" name="odgi build" version="@TOOL_VERSION@"> | |
| 2 <description>construct a dynamic succinct variation graph</description> | |
| 3 <macros> | |
| 4 <import>macros.xml</import> | |
| 5 </macros> | |
| 6 <expand macro="requirements"/> | |
| 7 <command detect_errors="exit_code"><![CDATA[ | |
| 8 odgi build | |
| 9 -g '$gfa' | |
| 10 -o '$odgi_output' | |
| 11 $sort | |
| 12 #if $to_gfa: | |
| 13 --to-gfa > '$gfa_output' | |
| 14 #end if | |
| 15 ]]></command> | |
| 16 <inputs> | |
| 17 <param argument="--gfa" type="data" format="gfa1" label="Construct the graph from this GFA input file" /> | |
| 18 <param argument="--sort" type="boolean" truevalue="--sort" falsevalue="" checked="false" | |
| 19 label="Topological sort the graph" | |
| 20 help="Apply generalized topological sort to the graph and set node ids to order." /> | |
| 21 <param argument="--to-gfa" type="boolean" truevalue="--to-gfa" falsevalue="" checked="false" | |
| 22 label="Output additional GFA file" | |
| 23 help="" /> | |
| 24 </inputs> | |
| 25 <outputs> | |
| 26 <data name="odgi_output" format="odgi" /> | |
| 27 <data name="gfa_output" format="gfa1"> | |
| 28 <filter>to_gfa</filter> | |
| 29 </data> | |
| 30 </outputs> | |
| 31 <tests> | |
| 32 <test> | |
| 33 <param name="gfa" value="t.gfa" /> | |
| 34 <param name="sort" value="true" /> | |
| 35 <param name="to_gfa" value="true" /> | |
| 36 <output name="odgi_output" file="note5_out.og" /> | |
| 37 <output name="gfa_output" file="note5.gfa" /> | |
| 38 </test> | |
| 39 </tests> | |
| 40 <help><![CDATA[ | |
| 41 optimized dynamic genome/graph implementation (odgi) | |
| 42 ---------------------------------------------------- | |
| 43 | |
| 44 Construct a dynamic succinct variation graph (build) | |
| 45 ]]></help> | |
| 46 <expand macro="citations"> | |
| 47 </expand> | |
| 48 </tool> |