rbbt-util 5.14.9 → 5.14.10

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA1:
-  metadata.gz: a2e935c66915d12e54d8a483af1f3ab9c0447c9c
-  data.tar.gz: 014e991d3c4c8769e4ff480e0a9566a65f84a160
+  metadata.gz: cb5293895c8a68f418b08234e239bacadd00d4eb
+  data.tar.gz: 7e70f082d70d3ae7b878be2df3be9c36c50c33a2
 SHA512:
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-  data.tar.gz: 402865585352cc0dfd319d84c40d125ee04eabab5105ea7039c05ea018ed709b27e1efb6d059da3260c8e1f78c47d1e439206cb59cfc79b5de09ce8b36eb2227
+  metadata.gz: 96960fe35a0668ece8cd3186d76c16ee0b8e05075d8b84be2d7b5bb32e4019d2b9040cb81fdd85934677394576cff10f62f7c4995a93d26e7f9ebebe2eeb90e5
+  data.tar.gz: 75814ae86c6824bd184e095c3322bd87c87e5cc67370a41d50cfce97755ad1b7895678c1d5ec38f6d0a3573dc2b6dffb253f689b35e35f90d8522dcd126f96e2

data/lib/rbbt/association/item.rb

@@ -61,6 +61,16 @@ module AssociationItem
     }
   end
 
+  property :tsv => :array do
+    fields = self.info_fields
+    type = [self.source_type, self.target_type] * "~"
+    tsv = TSV.setup({}, :key_field => type, :fields => fields, :type => :list, :namespace => self.namespace)
+    self.each do |match|
+      tsv[match] = match.info.values_at *fields
+    end
+    tsv
+  end
+
   def self.incidence(pairs, key_field = nil)
     matrix = {}
     targets = []

data/share/rbbt_commands/association/subset

@@ -17,6 +17,7 @@ Indicate the index file (TokyoCabinet BDB with source~target keys) as the <filen
 -h--help Print this help
 -s--source* Source entities
 -t--target* Target entities
+-tsv--tsv* Output tsv
 EOF
 rbbt_usage and exit 0 if options[:help] 
 filename = ARGV.shift
@@ -29,13 +30,19 @@ file.extend Association::Index
 source = options[:source] ? options[:source].split(/,\|/) : :all
 target = options[:target] ? options[:target].split(/,\|/) : :all
 
-file.subset(source, target).each do |item|
-  puts Log.color(:magenta, item)
-  info = file.fields.zip(file[item])
-  source,_sep, target = item.partition "~"
-  puts "  " << Misc.format_definition_list_item("source", source)
-  puts "  " << Misc.format_definition_list_item("target", target)
-  info.each do |key,value|
-    puts "  " << Misc.format_definition_list_item(key, value)
+matches = file.subset(source, target)
+
+if options[:tsv]
+  puts matches.tsv.to_s
+else
+  matches.each do |item|
+    puts Log.color(:magenta, item)
+    info = file.fields.zip(file[item])
+    source,_sep, target = item.partition "~"
+    puts "  " << Misc.format_definition_list_item("source", source)
+    puts "  " << Misc.format_definition_list_item("target", target)
+    info.each do |key,value|
+      puts "  " << Misc.format_definition_list_item(key, value)
+    end
   end
 end

data/share/rbbt_commands/workflow/knowledge_base

@@ -20,6 +20,7 @@ Access workflow knowledge base
 -tf--target_format* Target format
 -d--details Print details on matches
 -i--identify Attempt to identify entities by identifier translation
+-tsv--tsv Output TSV
 EOF
 
 workflow = ARGV.shift
@@ -60,16 +61,20 @@ when :subset
   entities = {source_format => source_entities, target_format => target_entities}
 
   matches = knowledge_base.subset(database, entities)
-  matches.each do |item|
-    puts Log.color :magenta, item
-    if options[:details]
-      source = item.source_entity
-      target = item.target_entity
-      source = source.name if source.respond_to? :name
-      target = target.name if target.respond_to? :name
-
-      info = item.info.merge(:source => source, :target => target)
-      puts Misc.format_definition_list(info, 80, 20, :yellow, "\n") 
+
+
+  if options[:tsv]
+    puts matches.tsv.to_s
+  else
+    matches.each do |item|
+      puts Log.color(:magenta, item)
+      info = file.fields.zip(file[item])
+      source,_sep, target = item.partition "~"
+      puts "  " << Misc.format_definition_list_item("source", source)
+      puts "  " << Misc.format_definition_list_item("target", target)
+      info.each do |key,value|
+        puts "  " << Misc.format_definition_list_item(key, value)
+      end
     end
   end
 end

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: rbbt-util
 version: !ruby/object:Gem::Version
-  version: 5.14.9
+  version: 5.14.10
 platform: ruby
 authors:
 - Miguel Vazquez