Mercurial > repos > jjkoehorst > sapp
diff conversion/gbk2rdf/gbktordf.xml @ 16:74b8ba5e2d5b
aragorn addition
author | jjkoehorst <jasperkoehorst@gmail.com> |
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date | Sat, 21 Feb 2015 17:17:06 +0100 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/conversion/gbk2rdf/gbktordf.xml Sat Feb 21 17:17:06 2015 +0100 @@ -0,0 +1,38 @@ +<tool id="SAPP_genbank_to_ttl" name="EMBL/GBK to RDF" version="0.1"> + <requirements> + <requirement type='package' version="3.4">python</requirement> + <requirement type='package' version="1.0">rdflib</requirement> + </requirements> + <description>Genbank to RDF conversion</description> + <command interpreter="python3.4">gbktordf.py '-input' '$input' -output '$output' -sourcedb "$format" -format "$format"</command> + <inputs> + <param name="input" type="data" format="gbk,gb,genbank,embl" label="Genbank file"/> + <param name="format" type="select" label="EMBL/GBK"> + <option value="genbank" selected="true"> Genbank</option> + <option value="embl"> EMBL </option> + </param> + </inputs> + + <outputs> + <data format="rdf" name="output" label="GBKttl: ${input.name}" /> + </outputs> + + <tests> + <test> + <param name="input" value="test-data/NC_010067.gbk"/> + <output name="$output" file="NC_010067.rdf"/> + <output name="$format" value="genbank"/> + <output name="$sourcedb" value="genbank"/> + </test> + <test> + <param name="input" value="test-data/CP009049.embl"/> + <output name="$output" file="CP009049.rdf"/> + <output name="$format" value="embl"/> + <output name="$sourcedb" value="embl"/> + </test> + </tests> + + <help> + Genbank or EMBL to RDF conversion + </help> +</tool>