Mercurial > repos > rdvelazquez > hyphy_busted
diff hyphy_busted.xml @ 2:0d4341fca959 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'446f1cfedd192ab0e7456495383c2099331379cc\n'-dirty
| author | rdvelazquez |
|---|---|
| date | Mon, 11 Feb 2019 14:14:48 -0500 |
| parents | acaa45acbf91 |
| children | f8abbbc7e29e |
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--- a/hyphy_busted.xml Tue Jan 08 10:56:06 2019 -0500 +++ b/hyphy_busted.xml Mon Feb 11 14:14:48 2019 -0500 @@ -1,11 +1,11 @@ <?xml version="1.0"?> <tool id="hyphy_busted" name="HyPhy-BUSTED" version="@VERSION@+galaxy0"> - <description>: Branch-site Unrestricted Statistical Test for Episodic Diversification</description> + <description>Branch-site Unrestricted Statistical Test for Episodic Diversification</description> <macros> <import>macros.xml</import> </macros> <expand macro="requirements" /> - <version_command>HYPHYMP --version | tail -n 1 | awk '{print $1}'</version_command> + <expand macro="version_command" /> <command detect_errors="exit_code"> <![CDATA[ ln -s '$input_file' busted_input.fa && @@ -18,32 +18,13 @@ ]]> </command> <inputs> - <param name="input_file" type="data" format="fasta" label="Input FASTA file" /> - <param name="input_nhx" type="data" format="nhx" label="Input newick file" /> - <param name="gencodeid" type="select" label="Genetic code"> - <option value="1">Universal code</option> - <option value="2">Vertebrate mitochondrial DNA code</option> - <option value="3">Yeast mitochondrial DNA code</option> - <option value="4">Mold, Protozoan and Coelenterate mt; Mycloplasma/Spiroplasma</option> - <option value="5">Invertebrate mitochondrial DNA code</option> - <option value="6">Ciliate, Dasycladacean and Hexamita Nuclear code</option> - <option value="7">Echinoderm mitochondrial DNA code</option> - <option value="8">Euplotid Nuclear code</option> - <option value="9">Alternative Yeast Nuclear code</option> - <option value="10">Ascidian mitochondrial DNA code</option> - <option value="11">Flatworm mitochondrial DNA code</option> - <option value="12">Blepharisma Nuclear code</option> - </param> - <param name="branches" type="select" label="Set of branches to test"> - <option value="1">All branches</option> - <option value="2">Internal branches</option> - <option value="3">Leaf branches</option> - <option value="4">Unlabeled branches</option> - </param> + <expand macro="inputs" /> + <expand macro="gencode" /> + <expand macro="branches" /> </inputs> <outputs> <data name="busted_log" format="txt" /> - <data name="busted_output" format="json" from_work_dir="busted_input.fa.BUSTED.json" /> + <data name="busted_output" format="hyphy_json_results" from_work_dir="busted_input.fa.BUSTED.json" /> </outputs> <tests> <test>