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comparison kaks_analysis.xml @ 51:57674bef753b draft

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author greg
date Wed, 25 Oct 2017 10:00:15 -0400
parents 0718066d4795
children c6ed6c138b14
comparison
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50:0718066d4795 51:57674bef753b
61 #end if 61 #end if
62 #if str($set_upper_ks_limit) == 'yes': 62 #if str($set_upper_ks_limit) == 'yes':
63 --max_ks $set_upper_ks_limit_cond.max_ks 63 --max_ks $set_upper_ks_limit_cond.max_ks
64 #end if 64 #end if
65 #end if 65 #end if
66 2>/dev/null 66 &>proc.log
67 && mv $output_dir/species1.fna '$output_species1_fna' 67 && mv $output_dir/species1.fna '$output_species1_fna'
68 && mv $output_dir/species1.faa '$output_species1_faa' 68 && mv $output_dir/species1.faa '$output_species1_faa'
69 #if str($comparison) == 'paralogs': 69 #if str($comparison) == 'paralogs':
70 && mv $output_dir/species1.fna.blastn.paralogs '$output_species1_paralog' 70 && mv $output_dir/species1.fna.blastn.paralogs '$output_species1_paralog'
71 && mv $output_dir/*.rbhb '$output_rbhb_paralog' 71 && mv $output_dir/*.rbhb '$output_rbhb_paralog'
196 </data> 196 </data>
197 <data name="output_rbhb_ortholog" format="tabular" label="${tool.name} (orthologous pairs) on ${on_string}"> 197 <data name="output_rbhb_ortholog" format="tabular" label="${tool.name} (orthologous pairs) on ${on_string}">
198 <filter>comparison_cond['comparison'] == 'orthologs'</filter> 198 <filter>comparison_cond['comparison'] == 'orthologs'</filter>
199 </data> 199 </data>
200 <data name="output_kaks" format="tabular" label="${tool.name} (KaKs distribution) on ${on_string}" /> 200 <data name="output_kaks" format="tabular" label="${tool.name} (KaKs distribution) on ${on_string}" />
201 <data name="output_components" format="tabular" label="${tool.name} (significant components in the KaKs distribution) on ${on_string}"> 201 <data name="output_components" format="ptkscmp" label="${tool.name} (significant components in the KaKs distribution) on ${on_string}">
202 <filter>options_type['options_type_selector'] == 'advanced' and options_type['fit_components_cond']['fit_components'] == 'yes'</filter> 202 <filter>options_type['options_type_selector'] == 'advanced' and options_type['fit_components_cond']['fit_components'] == 'yes'</filter>
203 </data> 203 </data>
204 </outputs> 204 </outputs>
205 <tests> 205 <tests>
206 <test> 206 <test>