Mercurial > repos > greg > gene_family_classifier

comparison macros.xml @ 154:36ed0037292a draft

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Uploaded
author greg
date Wed, 04 Oct 2017 13:48:14 -0400
parents 889d928f16b9
children 7d4d0e0210fc
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153:889d928f16b9 154:36ed0037292a
53 <param name="options_type" type="select" label="Options Configuration"> 53 <param name="options_type" type="select" label="Options Configuration">
54 <option value="basic" selected="true">Basic</option> 54 <option value="basic" selected="true">Basic</option>
55 <option value="advanced">Advanced</option> 55 <option value="advanced">Advanced</option>
56 </param> 56 </param>
57 </xml> 57 </xml>
58 <xml name="param_orthogroup_fna">
59 <param name="orthogroup_fna" type="select" label="Orthogroups coding sequences">
60 <option value="yes" selected="true">Yes</option>
61 <option value="no">No</option>
62 </param>
63 </xml>
64 <xml name="param_scaffold"> 58 <xml name="param_scaffold">
65 <param name="scaffold" type="select" label="Gene family scaffold"> 59 <param name="scaffold" type="select" label="Gene family scaffold">
66 <options from_data_table="plant_tribes_scaffolds" /> 60 <options from_data_table="plant_tribes_scaffolds" />
67 <validator type="no_options" message="No PlantTribes scaffolds are available. Use the PlantTribes Scaffolds Download Data Manager tool in Galaxy to install and populate the PlantTribes scaffolds data table." /> 61 <validator type="no_options" message="No PlantTribes scaffolds are available. Use the PlantTribes Scaffolds Download Data Manager tool in Galaxy to install and populate the PlantTribes scaffolds data table." />
68 </param>
69 </xml>
70 <xml name="param_sequence_type">
71 <param name="sequence_type" type="select" label="Sequence type used in the phylogenetic inference (dna)">
72 <option value="protein" selected="true">Amino acid based</option>
73 <option value="dna">Nucleotide based</option>
74 </param> 62 </param>
75 </xml> 63 </xml>
76 <xml name="cond_alignment_method"> 64 <xml name="cond_alignment_method">
77 <conditional name="alignment_method_cond"> 65 <conditional name="alignment_method_cond">
78 <param name="alignment_method" type="select" force_select="true" label="Multiple sequence alignment method"> 66 <param name="alignment_method" type="select" force_select="true" label="Multiple sequence alignment method">
112 <when value="yes"> 100 <when value="yes">
113 <param name="remove_sequences_with_gaps_of" type="float" optional="true" min="0" max="1" label="Coverage score" /> 101 <param name="remove_sequences_with_gaps_of" type="float" optional="true" min="0" max="1" label="Coverage score" />
114 <param name="iterative_realignment" type="integer" optional="true" min="0" label="Realignment iteration limit" /> 102 <param name="iterative_realignment" type="integer" optional="true" min="0" label="Realignment iteration limit" />
115 </when> 103 </when>
116 </conditional> 104 </conditional>
105 <param name="output_pristine_alignments" type="select" display="radio" label="Output non-filtered, non-trimmed alignemnts?" help="In addition to trimmed/filtered alignments">
106 <option value="no" selected="true">No</option>
107 <option value="yes">Yes</option>
108 </param>
117 </when> 109 </when>
118 </conditional> 110 </conditional>
119 </xml> 111 </xml>
120 <xml name="citation1"> 112 <xml name="citation1">
121 <citation type="bibtex"> 113 <citation type="bibtex">