Mercurial > repos > rnateam > cmv
diff cmv.xml @ 0:6baa763b77ba draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/cmv commit 3bc676ca60e837f8aca261d0b7860128b3474a5c
author | rnateam |
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date | Fri, 20 Oct 2017 04:26:28 -0400 |
parents | |
children | 6e36667f1729 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/cmv.xml Fri Oct 20 04:26:28 2017 -0400 @@ -0,0 +1,61 @@ +<tool id="cmv" name="cmv" version="@VERSION@.1"> + <description> + CMV is a tool for visualization of RNA family models, also known as covariance models (CM) + </description> + <macros> + <import>macros.xml</import> + </macros> + + <expand macro="requirements" /> + + <expand macro="stdio" /> + + <expand macro="version" /> + <command><![CDATA[ + CMV + @COMMON_ARGS@ + -m $model_filepath + ]]></command> + + <inputs> + <param name="model_filepath" type="data" format="cm" label="Input model"/> + <section name="common" title="Common parameters"> + <expand macro="common_parameters" /> + </section> + </inputs> + + <outputs> + <expand macro="vis_output"/> + </outputs> + + <tests> + <test> + <param name="model_filepath" value="Hammerhead_HH9.cm" /> + <param name="output_format" value="pdf" /> + <param name="model_details" value="detailed" /> + <param name="emission_layout" value="bar" /> + <output_collection name="output_pdfs" type="list"> + <element name="Hammerhead_HH9" file="Hammerhead_HH9.pdf" ftype="pdf" compare="sim_size" /> + </output_collection> + </test> + </tests> + <help><![CDATA[ + **CMV -- Visualisation of RNA family models** + + **Input.** + Covariance Models in INFERNAL format. + Optionally a stockholm alignment for each input model can be provided. + + **Output.** + Depending on the detail level, only nodes with index (minimal), nodes with node type and indices (simple) + or nodes with states, emission and transition probabilities are visualised. Nodes linked by input comparison data + between different families are highlighted with color labels. + File in pdf,svg,png,ps format. + + For more information, see + .. __: https://github.com/eggzilla/cmv + + ]]></help> + <expand macro="citations" /> + +</tool>