Mercurial > repos > greg > phylogenomics_analysis

comparison phylogenomics_analysis.xml @ 49:fa382e4ca9a5 draft

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Uploaded
author greg
date Fri, 03 Feb 2017 14:52:29 -0500
parents 4cde2d993ce5
children ba0315c7b28b
comparison
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48:4cde2d993ce5 49:fa382e4ca9a5
96 --tree_inference $tree_inference_method 96 --tree_inference $tree_inference_method
97 #if str($tree_inference_method) == 'raxml': 97 #if str($tree_inference_method) == 'raxml':
98 #set rooting_order_file_cond = $tree_inference_cond.rooting_order_file_cond 98 #set rooting_order_file_cond = $tree_inference_cond.rooting_order_file_cond
99 #set rooting_order_file = $rooting_order_file_cond.rooting_order_file 99 #set rooting_order_file = $rooting_order_file_cond.rooting_order_file
100 #if str($rooting_order_file) == 'yes': 100 #if str($rooting_order_file) == 'yes':
101 --rooting_order '$rooting_order_file.rooting_order' 101 --rooting_order '$rooting_order_file_cond.rooting_order'
102 #end if 102 #end if
103 --bootstrap_replicates $tree_inference_cond.bootstrap_replicates 103 --bootstrap_replicates $tree_inference_cond.bootstrap_replicates
104 #end if 104 #end if
105 --max_orthogroup_size $options_type.phylogenetic_trees_cond.max_orthogroup_size 105 --max_orthogroup_size $options_type.phylogenetic_trees_cond.max_orthogroup_size
106 --min_orthogroup_size $options_type.phylogenetic_trees_cond.min_orthogroup_size 106 --min_orthogroup_size $options_type.phylogenetic_trees_cond.min_orthogroup_size