Class: BigSimon::Pipeline

Inherits:
Object
  • Object
show all
Defined in:
lib/big_simon/pipeline.rb

Class Method Summary collapse

Class Method Details

.collate_host_results(results_table, programs) ⇒ Object 



32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
 
# File 'lib/big_simon/pipeline.rb', line 32

def self.collate_host_results results_table, programs
  Rya::AbortIf.assert results_table.count == programs.count

  virus_host_scores = {}
  all_viruses       = results_table.reduce(Set.new) { |acc, ht| acc + ht.keys }

  all_viruses.each do |virus|
    virus_host_scores[virus] = {}
  end

  results_table.each_with_index do |ht, idx|
    program = programs[idx]

    ht.each do |virus, host_scores|
      host_scores.each do |ht|
        host = ht[:host]
        score = ht[:score]
        scaled_score = ht[:scaled_score]

        unless virus_host_scores[virus].has_key? host
          virus_host_scores[virus][host] = { scores: {}, scaled_scores: {}}
        end

        virus_host_scores[virus][host][:scores][program] = score
        virus_host_scores[virus][host][:scaled_scores][program] = scaled_score
      end
    end
  end

  virus_host_scores
end

.map_taxa(collated_results_table, virus_name_map, host_name_map) ⇒ Object 



4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
 
# File 'lib/big_simon/pipeline.rb', line 4

def self.map_taxa collated_results_table, virus_name_map, host_name_map
  new_results_table = {}

  collated_results_table.each do |virus_name, host_table|
    if virus_name_map.include? virus_name
      new_virus_name = virus_name_map[virus_name]
    else
      new_virus_name = virus_name
    end

    new_results_table[new_virus_name] = {}

    host_table.each do |host_name, score_table|
      if host_name_map.include? host_name
        new_host_name = host_name_map[host_name]
      else
        new_host_name = host_name
      end

      new_results_table[new_virus_name][new_host_name] = score_table
    end
  end

  new_results_table
end