nimbus 1.0 → 1.0.1
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- data/lib/nimbus/application.rb +2 -2
- data/lib/nimbus/forest.rb +1 -1
- metadata +1 -1
data/lib/nimbus/application.rb
CHANGED
|
@@ -93,7 +93,7 @@ module Nimbus
|
|
|
93
93
|
def output_tree_errors_file(forest)
|
|
94
94
|
File.open(@config.output_tree_errors_file , 'w') {|f|
|
|
95
95
|
1.upto(forest.tree_errors.size) do |te|
|
|
96
|
-
f.write("generalization error for tree
|
|
96
|
+
f.write("generalization error for tree #{te}: #{forest.tree_errors[te-1].round(5)}\n")
|
|
97
97
|
end
|
|
98
98
|
}
|
|
99
99
|
Nimbus.message "* Generalization errors for every tree saved to:"
|
|
@@ -126,7 +126,7 @@ module Nimbus
|
|
|
126
126
|
def output_snp_importances_file(forest)
|
|
127
127
|
File.open(@config.output_snp_importances_file , 'w') {|f|
|
|
128
128
|
forest.snp_importances.sort.each{|p|
|
|
129
|
-
f.write("SNP
|
|
129
|
+
f.write("SNP #{p[0]}: #{p[1].round(5)}\n")
|
|
130
130
|
}
|
|
131
131
|
}
|
|
132
132
|
Nimbus.message "* SNP importances for the forest saved to:"
|
data/lib/nimbus/forest.rb
CHANGED
|
@@ -41,7 +41,7 @@ module Nimbus
|
|
|
41
41
|
tree = Tree.new @options.tree
|
|
42
42
|
@trees << tree.seed(@options.training_set.individuals, tree_individuals_bag, @options.training_set.ids_fenotypes)
|
|
43
43
|
@tree_errors << tree.generalization_error_from_oob(tree_out_of_bag)
|
|
44
|
-
@tree_snp_importances << tree.estimate_importances(tree_out_of_bag)
|
|
44
|
+
@tree_snp_importances << tree.estimate_importances(tree_out_of_bag)
|
|
45
45
|
acumulate_predictions tree.predictions
|
|
46
46
|
Nimbus.clear_line!
|
|
47
47
|
end
|