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comparison macros.xml @ 94:467fb23ee966 draft

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author greg
date Thu, 23 Mar 2017 08:58:16 -0400
parents 3f8cbca74ec4
children 19a961b1cffa
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93:3f8cbca74ec4 94:467fb23ee966
65 <param name="multiple_sequence_alignments" type="select" label="Set multiple sequence alignments options?"> 65 <param name="multiple_sequence_alignments" type="select" label="Set multiple sequence alignments options?">
66 <option value="no" selected="true">No</option> 66 <option value="no" selected="true">No</option>
67 <option value="yes">Yes</option> 67 <option value="yes">Yes</option>
68 </param> 68 </param>
69 </xml> 69 </xml>
70 <xml name="options_multiple_sequence_alignments_option">
71 <option value="create_alignments">Create orthogroup protein multiple sequence alignments including scaffold backbone proteins (MAFFT algorithm)</option>
72 <option value="add_alignments">Add unaligned orthogroup proteins to scaffold backbone multiple sequence alignments (MAFFT algorithm)</option>
73 <option value="pasta_alignments">Create orthogroup protein multiple sequence alignments including scaffold backbone proteins (PASTA algorithm)</option>
74 </xml>
70 <xml name="param_multiple_sequence_alignments_option"> 75 <xml name="param_multiple_sequence_alignments_option">
71 <param name="multiple_sequence_alignments_option" type="select" force_select="true" label="Select method for multiple sequence alignments"> 76 <param name="multiple_sequence_alignments_option" type="select" force_select="true" label="Select method for multiple sequence alignments">
72 <option value="create_alignments">Create orthogroup protein multiple sequence alignments including scaffold backbone proteins (MAFFT algorithm)</option> 77 <expand macro="options_multiple_sequence_alignments_option" />
73 <option value="add_alignments">Add unaligned orthogroup proteins to scaffold backbone multiple sequence alignments (MAFFT algorithm)</option>
74 <option value="pasta_alignments">Create orthogroup protein multiple sequence alignments including scaffold backbone proteins (PASTA algorithm)</option>
75 </param> 78 </param>
76 </xml> 79 </xml>
77 <xml name="cond_multiple_sequence_alignments_option_with_iterative_realignments"> 80 <xml name="cond_multiple_sequence_alignments_option_with_iterative_realignments">
78 <conditional name="multiple_sequence_alignments_option_cond"> 81 <conditional name="multiple_sequence_alignments_option_cond">
79 <param name="multiple_sequence_alignments_option" type="select" force_select="true" label="Select method for multiple sequence alignments"> 82 <param name="multiple_sequence_alignments_option" type="select" force_select="true" label="Select method for multiple sequence alignments">
80 <option value="create_alignments">Create orthogroup protein multiple sequence alignments including scaffold backbone proteins (MAFFT algorithm)</option> 83 <expand macro="options_multiple_sequence_alignments_option" />
81 <option value="add_alignments">Add unaligned orthogroup proteins to scaffold backbone multiple sequence alignments (MAFFT algorithm)</option>
82 <option value="pasta_alignments">Create orthogroup protein multiple sequence alignments including scaffold backbone proteins (PASTA algorithm)</option>
83 <option value="iterative_realignments">Iterative orthogroups realignment, trimming and fitering</option> 84 <option value="iterative_realignments">Iterative orthogroups realignment, trimming and fitering</option>
84 </param> 85 </param>
85 <expand macro="whens_multiple_sequence_alignments_option_cond" /> 86 <expand macro="whens_multiple_sequence_alignments_option_cond" />
86 <when value="iterative_realignments"> 87 <when value="iterative_realignments">
87 <param name="iterative_realignments" type="integer" value="0" min="0" label="Maximum number of iterations" help="Zero value has no affect"/> 88 <param name="iterative_realignments" type="integer" value="0" min="0" label="Maximum number of iterations" help="Zero value has no affect"/>