Mercurial > repos > greg > phylogenomics_analysis
comparison macros.xml @ 90:6c1cfd0be856 draft
Uploaded
| author | greg |
|---|---|
| date | Thu, 23 Mar 2017 08:30:55 -0400 |
| parents | 0fc75cdc686a |
| children | 79573009efe0 |
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| 89:0fc75cdc686a | 90:6c1cfd0be856 |
|---|---|
| 59 </when> | 59 </when> |
| 60 </conditional> | 60 </conditional> |
| 61 </when> | 61 </when> |
| 62 </conditional> | 62 </conditional> |
| 63 </xml> | 63 </xml> |
| 64 <xml name="param_multiple_sequence_alignments"> | |
| 65 <param name="multiple_sequence_alignments" type="select" label="Set multiple sequence alignments options?"> | |
| 66 <option value="no" selected="true">No</option> | |
| 67 <option value="yes">Yes</option> | |
| 68 </param> | |
| 69 </xml> | |
| 70 <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"> | |
| 72 <option value="create_alignments">Create orthogroup protein multiple sequence alignments including scaffold backbone proteins (MAFFT algorithm)</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> | |
| 76 </xml> | |
| 77 <xml name="whens_multiple_sequence_alignments_option_cond"> | |
| 78 <when value="create_alignments" /> | |
| 79 <when value="add_alignments" /> | |
| 80 <when value="pasta_alignments"> | |
| 81 <param name="pasta_iter_limit" type="integer" value="3" min="0" label="Maximum number of iterations that the PASTA algorithm will execute" /> | |
| 82 </when> | |
| 83 </xml> | |
| 64 <xml name="cond_multiple_sequence_alignments"> | 84 <xml name="cond_multiple_sequence_alignments"> |
| 65 <conditional name="multiple_sequence_alignments_cond"> | 85 <conditional name="multiple_sequence_alignments_cond"> |
| 66 <param name="multiple_sequence_alignments" type="select" label="Set multiple sequence alignments options?"> | 86 <expand macro="param_multiple_sequence_alignments" /> |
| 67 <option value="no" selected="true">No</option> | |
| 68 <option value="yes">Yes</option> | |
| 69 </param> | |
| 70 <when value="no" /> | 87 <when value="no" /> |
| 71 <when value="yes"> | 88 <when value="yes"> |
| 72 <conditional name="multiple_sequence_alignments_option_cond"> | 89 <conditional name="multiple_sequence_alignments_option_cond"> |
| 73 <param name="multiple_sequence_alignments_option" type="select" force_select="true" label="Select method for multiple sequence alignments"> | 90 <expand macro="whens_multiple_sequence_alignments_option_cond" /> |
| 74 <option value="create_alignments">Create orthogroup protein multiple sequence alignments including scaffold backbone proteins (MAFFT algorithm)</option> | 91 <expand macro="param_multiple_sequence_alignments_option" /> |
| 75 <option value="add_alignments">Add unaligned orthogroup proteins to scaffold backbone multiple sequence alignments (MAFFT algorithm)</option> | |
| 76 <option value="pasta_alignments">Create orthogroup protein multiple sequence alignments including scaffold backbone proteins (PASTA algorithm)</option> | |
| 77 </param> | |
| 78 <when value="create_alignments" /> | |
| 79 <when value="add_alignments" /> | |
| 80 <when value="pasta_alignments"> | |
| 81 <param name="pasta_iter_limit" type="integer" value="3" min="0" label="Maximum number of iterations that the PASTA algorithm will execute" /> | |
| 82 </when> | |
| 83 </conditional> | 92 </conditional> |
| 84 </when> | 93 </when> |
| 85 </conditional> | 94 </conditional> |
| 86 </xml> | 95 </xml> |
| 87 <xml name="cond_phylogenetic_trees_ptortho"> | 96 <xml name="cond_phylogenetic_trees_ptortho"> |