Mercurial > repos > earlhaminst > hcluster_sg_parser

comparison hcluster_sg_parser.xml @ 3:f9e418125021 draft

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planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/hcluster_sg_parser commit 66af14bc1642c1ca6ceb21f6018c8d665da890e8
author earlhaminst
date Fri, 28 Apr 2017 12:51:35 -0400
parents 0a33fd8ead70
children 02d73e6ca869
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2:0a33fd8ead70 3:f9e418125021
11 #end if 11 #end if
12 '$discarded' 12 '$discarded'
13 ]]> 13 ]]>
14 </command> 14 </command>
15 <inputs> 15 <inputs>
16 <param name="inputFile" type="data" format="tabular" label="hcluster output file in 3-column format" help="3-columns format: cluster_id cluster-size cluster-members" /> 16 <param name="inputFile" type="data" format="tabular" label="hcluster output file" help="Tab-separated format: cluster_id [other optional columns] cluster-size cluster-members" />
17 <param name="min_elems" type="integer" value="" min="0" optional="true" label="Minimum number of cluster elements" /> 17 <param name="min_elems" type="integer" value="" min="0" optional="true" label="Minimum number of cluster elements" />
18 <param name="max_elems" type="integer" value="" min="2" optional="true" label="Maximum number of cluster elements" /> 18 <param name="max_elems" type="integer" value="" min="2" optional="true" label="Maximum number of cluster elements" />
19 </inputs> 19 </inputs>
20 <outputs> 20 <outputs>
21 <collection name="ids_lists" type="list" label="${tool.name} on ${on_string}"> 21 <collection name="ids_lists" type="list" label="${tool.name} on ${on_string}">
41 <element name="0" file="0_output.txt" ftype="txt" /> 41 <element name="0" file="0_output.txt" ftype="txt" />
42 <element name="1" file="1_output.txt" ftype="txt" /> 42 <element name="1" file="1_output.txt" ftype="txt" />
43 </output_collection> 43 </output_collection>
44 <output name="discarded" file="discarded.txt" /> 44 <output name="discarded" file="discarded.txt" />
45 </test> 45 </test>
46 <test>
47 <param name="inputFile" ftype="tabular" value="hcluster_sg1.txt" />
48 <output_collection name="ids_lists" type="list">
49 <element name="0" file="hcluster_sg1_0_output.txt" ftype="txt" />
50 <element name="1" file="hcluster_sg1_1_output.txt" ftype="txt" />
51 <element name="2" file="hcluster_sg1_2_output.txt" ftype="txt" />
52 <element name="3" file="hcluster_sg1_3_output.txt" ftype="txt" />
53 <element name="4" file="hcluster_sg1_4_output.txt" ftype="txt" />
54 <element name="5" file="hcluster_sg1_5_output.txt" ftype="txt" />
55 <element name="6" file="hcluster_sg1_6_output.txt" ftype="txt" />
56 <element name="7" file="hcluster_sg1_7_output.txt" ftype="txt" />
57 <element name="8" file="hcluster_sg1_8_output.txt" ftype="txt" />
58 </output_collection>
59 <output name="discarded" file="empty.txt" />
60 </test>
46 </tests> 61 </tests>
47 <help> 62 <help>
48 <![CDATA[ 63 <![CDATA[
49 A simple parser to convert the hcluster_sg 3-column output into lists of IDs, one list for each cluster. 64 A simple parser to convert the hcluster_sg output into lists of IDs, one list for each cluster.
50 65
51 When a minimum and/or maximum number of cluster elements are specified, the IDs contained in the filtered-out clusters are collected in the "discarded IDS" output dataset. 66 When a minimum and/or maximum number of cluster elements are specified, the IDs contained in the filtered-out clusters are collected in the "discarded IDS" output dataset.
52 ]]> 67 ]]>
53 </help> 68 </help>
54 <citations> 69 <citations>