Mercurial > repos > thanhlv > bin3c

comparison cluster.xml @ 21:216ff84be9f0 draft

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planemo upload for repository https://github.com/quadram-institute-bioscience/galaxy-tools/tree/master/tools/bin3C commit a5926dec65ac1474e7b79685df5b9330601ef167-dirty
author thanhlv
date Tue, 22 Oct 2019 09:24:00 -0400
parents 994d9f2fa2d2
children efaccfc1eb30
comparison
equal deleted inserted replaced
20:327acdd0663d 21:216ff84be9f0
38 <param name="iteration" type="integer" min="1" value="10" label="Number of iterations for clustering optimisation"/> 38 <param name="iteration" type="integer" min="1" value="10" label="Number of iterations for clustering optimisation"/>
39 <param name="no_report" type="boolean" truevalue="--no-report" falsevalue="" checked="false" label="Do not generate a cluster report" /> 39 <param name="no_report" type="boolean" truevalue="--no-report" falsevalue="" checked="false" label="Do not generate a cluster report" />
40 <param name="no_plot" type="boolean" truevalue="--no-plot" falsevalue="" checked="false" label="Do not generate a clustered heatmap" /> 40 <param name="no_plot" type="boolean" truevalue="--no-plot" falsevalue="" checked="false" label="Do not generate a clustered heatmap" />
41 <param name="no_fasta" type="boolean" truevalue="--no-fasta" falsevalue="" checked="false" label="Do not generate cluster FASTA files" /> 41 <param name="no_fasta" type="boolean" truevalue="--no-fasta" falsevalue="" checked="false" label="Do not generate cluster FASTA files" />
42 <param name="only_large" type="boolean" truevalue="--only-large" falsevalue="" checked="false" label="Only write FASTA for clusters longer than min_extent" /> 42 <param name="only_large" type="boolean" truevalue="--only-large" falsevalue="" checked="false" label="Only write FASTA for clusters longer than min_extent" />
43 <param name="fasta" type="data" format="fasta,fastq.gz" optional="true" label="Alternative source FASTA from that supplied during mkmap" /> 43 <!-- <param name="fasta" type="data" format="fasta,fastq.gz" optional="true" label="Alternative source FASTA from that supplied during mkmap" /> -->
44 </inputs> 44 </inputs>
45 45
46 <outputs> 46 <outputs>
47 <data name="log" format="text" label="{tool.name} on ${on_string} Log" from_work_dir="out/bin3C.log"/> 47 <data name="log" format="text" label="{tool.name} on ${on_string} Log" from_work_dir="out/bin3C.log"/>
48 <data name="clustering_mcl" format="binary" label="{tool.name} on ${on_string} Clustering solution in MCL format" from_work_dir="out/clustering.mcl"/> 48 <data name="clustering_mcl" format="binary" label="{tool.name} on ${on_string} Clustering solution in MCL format" from_work_dir="out/clustering.mcl"/>
52 <data name="cm_graph_edges" format="binary" label="{tool.name} on ${on_string} The graph used in clustering in edge list format" from_work_dir="out/cm_graph.edges"/> 52 <data name="cm_graph_edges" format="binary" label="{tool.name} on ${on_string} The graph used in clustering in edge list format" from_work_dir="out/cm_graph.edges"/>
53 <data name="cm_graph_tree" format="text" label="{tool.name} on ${on_string} Infomap clustering output" from_work_dir="out/cm_graph.tree"/> 53 <data name="cm_graph_tree" format="text" label="{tool.name} on ${on_string} Infomap clustering output" from_work_dir="out/cm_graph.tree"/>
54 <data name="fasta" format="fasta" label="{tool.name} on ${on_string} Per-cluster multi-fasta sequences" from_work_dir="out/infomap.log"/> 54 <data name="fasta" format="fasta" label="{tool.name} on ${on_string} Per-cluster multi-fasta sequences" from_work_dir="out/infomap.log"/>
55 </outputs> 55 </outputs>
56 56
57 <tests>
58 <test>
59 </test>
60 </tests>
61 <help><![CDATA[ 57 <help><![CDATA[
62 58
63 Documentation can be found at `<https://github.com/cerebis/bin3C>`_. 59 Documentation can be found at `<https://github.com/cerebis/bin3C>`_.
64 60
65 ]]> </help> 61 ]]> </help>