Mercurial > repos > greg > plant_tribes_kaks_analysis
comparison kaks_analysis.xml @ 1:3aca88613abf draft
Uploaded
| author | greg |
|---|---|
| date | Wed, 28 Jun 2017 11:17:25 -0400 |
| parents | 2f0b8e19286b |
| children | 2fe7044626ac |
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| 0:2f0b8e19286b | 1:3aca88613abf |
|---|---|
| 1 <tool id="plant_tribes_kaks_analysis" name="KaKsAnalysis" version="@WRAPPER_VERSION@.0"> | 1 <tool id="plant_tribes_kaks_analysis" name="KaKsAnalysis" version="@WRAPPER_VERSION@.1"> |
| 2 <description>estimates paralogous and orthologous pairwise synonymous (Ks) and non-synonymous (Ka) substitution rates</description> | 2 <description>estimates paralogous and orthologous pairwise synonymous (Ks) and non-synonymous (Ka) substitution rates</description> |
| 3 <macros> | 3 <macros> |
| 4 <import>macros.xml</import> | 4 <import>macros.xml</import> |
| 5 </macros> | 5 </macros> |
| 6 <expand macro="requirements_kaks_analysis" /> | 6 <expand macro="requirements_kaks_analysis" /> |
| 181 <data name="output_species2_ortholog" format="tabular" label="${tool.name} (blastn results) on ${on_string}"> | 181 <data name="output_species2_ortholog" format="tabular" label="${tool.name} (blastn results) on ${on_string}"> |
| 182 <filter>comparison_cond['comparison'] == 'orthologs'</filter> | 182 <filter>comparison_cond['comparison'] == 'orthologs'</filter> |
| 183 </data> | 183 </data> |
| 184 <data name="output_rbhb" format="tabular" label="${tool.name} (paralogous pairs) on ${on_string}" /> | 184 <data name="output_rbhb" format="tabular" label="${tool.name} (paralogous pairs) on ${on_string}" /> |
| 185 <data name="output_kaks" format="tabular" label="${tool.name} on ${on_string}" /> | 185 <data name="output_kaks" format="tabular" label="${tool.name} on ${on_string}" /> |
| 186 <data name="output_components" format="tabular" label="${tool.name} (significant components in the ks distribution) on ${on_string}"> | 186 <data name="output_components" format="ptkscmp" label="${tool.name} (significant components in the ks distribution) on ${on_string}"> |
| 187 <filter>options_type['options_type_selector'] == 'advanced' and options_type['fit_components_cond']['fit_components'] == 'yes'</filter> | 187 <filter>options_type['options_type_selector'] == 'advanced' and options_type['fit_components_cond']['fit_components'] == 'yes'</filter> |
| 188 </data> | 188 </data> |
| 189 </outputs> | 189 </outputs> |
| 190 <tests> | 190 <tests> |
| 191 <test> | 191 <test> |
| 192 <param name="coding_sequences_species_1" value="species1_cds.fasta" ftype="fasta"/> | 192 <param name="coding_sequences_species_1" value="species1_cds.fasta" ftype="fasta"/> |
| 193 <param name="proteins_species_1" value="species1_pep.fasta" ftype="fasta"/> | 193 <param name="proteins_species_1" value="species1_pep.fasta" ftype="fasta"/> |
| 194 <param name="non_commercial_use" value="yes"/> | 194 <param name="non_commercial_use" value="True"/> |
| 195 <output name="output_species1_fna" file="species1_cds.fasta" ftype="fasta" compare="contains"/> | 195 <output name="output_species1_fna" file="species1_cds.fasta" ftype="fasta" compare="contains"/> |
| 196 <output name="output_species1_faa" file="species1_pep.fasta" ftype="fasta" compare="contains"/> | 196 <output name="output_species1_faa" file="species1_pep.fasta" ftype="fasta" compare="contains"/> |
| 197 <output name="output_species1_paralog" file="output_blastn_results1.tabular" ftype="tabular" compare="contains"/> | 197 <output name="output_species1_paralog" file="output_blastn_results1.tabular" ftype="tabular" compare="contains"/> |
| 198 <output name="output_rbhb" file="output_paralogous_pairs.tabular" ftype="tabular"/> | 198 <output name="output_rbhb" file="output_paralogous_pairs.tabular" ftype="tabular"/> |
| 199 <output name="output_kaks" file="output1.tabular" ftype="tabular"/> | 199 <output name="output_kaks" file="output1.tabular" ftype="tabular"/> |