rbbt-sources 3.1.45 → 3.1.46

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA256:
-  metadata.gz: ecb6a979911fd4e4a4988ab9abee186cb181eab335b41505d71e3405f1cac454
-  data.tar.gz: 5b6ba6e080cff6d6bd864dc468f418b1d74d9ee6fe916df0b9edc2a8ba2e5471
+  metadata.gz: 9cfdfc8f6fd6a11106d90cf39dc8f10165fd36128fe69a8ca4c72fcf878183c3
+  data.tar.gz: f268c37d7c50b74fb67d2dae77bf25c93dbf1013f23a11e1ffeb0f024fdabdc0
 SHA512:
-  metadata.gz: 72cc59fa3439ffbb4b850723c4b6c5403f65301a70ddf61f6672e52646ee1e90644ac125234cff1a51702a100d7ea2731940cfb33a49d0c3531b5fd8877d1d24
-  data.tar.gz: fdf336019c660cf2fb0eea5af696edae0dbb3d31adf7c063060626c44d2ecf6864f1c0dd614479a1166583ad575cb288ce50e4291f90781f26d06568d296c3e7
+  metadata.gz: d6e29cb4355ad3307bf3ccbead098406e51216e963cd201fc11c17aa4aad263d184ca1ab1389c4940e32bf1d541471a9aac326b12055585b515f26c63592a025
+  data.tar.gz: 4663061a1b3f8a80914468c8af3bb8b5da821739fe8943011881ba9b89405e34b40ec9b145e9a7f9fdf7b2cc7cdf8f294fa978b01c41b1f8693a4e73b186d65f

data/lib/rbbt/sources/tfacts.rb

@@ -2,15 +2,15 @@ require 'rbbt'
 require 'rbbt/tsv'
 require 'rbbt/resource'
 
-module TFacts
+module TFactS
   extend Resource
-  self.subdir = "share/databases/TFacts"
+  self.subdir = "share/databases/TFactS"
 
-  TFacts.claim TFacts[".source"]["Catalogues.xls"], :url, "http://www.tfacts.org/TFactS-new/TFactS-v2/tfacts/data/Catalogues.xls"
+  TFactS.claim TFactS[".source"]["Catalogues.xls"], :url, "http://www.tfacts.org/TFactS-new/TFactS-v2/tfacts/data/Catalogues.xls"
 
-  TFacts.claim TFacts.targets, :proc do
+  TFactS.claim TFactS.targets, :proc do
     require 'spreadsheet'
-    book = Spreadsheet.open TFacts[".source"]["Catalogues.xls"].produce.find
+    book = Spreadsheet.open TFactS[".source"]["Catalogues.xls"].produce.find
     sheet = book.worksheet 0
 
     tsv = TSV.setup({}, :key_field => "Target Gene (Associated Gene Name)", :fields => ["Transcription Factor (Associated Gene Name)"], :namespace => "Hsa", :type => :flat)
@@ -24,9 +24,9 @@ module TFacts
     tsv.to_s
   end
 
-  TFacts.claim TFacts.targets_signed, :proc do
+  TFactS.claim TFactS.targets_signed, :proc do
     require 'spreadsheet'
-    book = Spreadsheet.open TFacts[".source"]["Catalogues.xls"].produce.find
+    book = Spreadsheet.open TFactS[".source"]["Catalogues.xls"].produce.find
     sheet = book.worksheet 1
 
     tsv = TSV.setup({}, :key_field => "Target Gene (Associated Gene Name)", :fields => ["Transcription Factor (Associated Gene Name)", "Sign", "PMID"], :namespace => "Hsa", :type => :double)
@@ -43,13 +43,13 @@ module TFacts
     tsv.to_s
   end
 
-  TFacts.claim TFacts.regulators, :proc do
-    TFacts.targets.tsv.reorder("Transcription Factor (Associated Gene Name)").to_s
+  TFactS.claim TFactS.regulators, :proc do
+    TFactS.targets.tsv.reorder("Transcription Factor (Associated Gene Name)").to_s
   end
 
-  TFacts.claim TFacts.tf_tg, :proc do
+  TFactS.claim TFactS.tf_tg, :proc do
     require 'spreadsheet'
-    book = Spreadsheet.open TFacts[".source"]["Catalogues.xls"].produce.find
+    book = Spreadsheet.open TFactS[".source"]["Catalogues.xls"].produce.find
 
     tsv = TSV.setup({}, :key_field => "Transcription Factor (Associated Gene Name)", :fields => ["Target Gene (Associated Gene Name)", "Sign", "Species", "Source", "PMID"], :namespace => "Hsa", :type => :double)
 
@@ -128,16 +128,16 @@ if defined? Entity and defined? Gene and Entity === Gene
 
   module Gene
     property :is_transcription_factor? => :array2single do
-      tfs = TFacts.targets.keys
+      tfs = TFactS.targets.keys
       self.name.collect{|gene| tfs.include? gene}
     end
 
     property :transcription_regulators => :array2single do
-      Gene.setup(TFacts.regulators.tsv(:persist => true).values_at(*self.name), "Associated Gene Name", self.organism)
+      Gene.setup(TFactS.regulators.tsv(:persist => true).values_at(*self.name), "Associated Gene Name", self.organism)
     end
 
     property :transcription_targets => :array2single do
-      Gene.setup(TFacts.targets.tsv(:persist => true).values_at(*self.name), "Associated Gene Name", self.organism)
+      Gene.setup(TFactS.targets.tsv(:persist => true).values_at(*self.name), "Associated Gene Name", self.organism)
     end
   end
 end

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: rbbt-sources
 version: !ruby/object:Gem::Version
-  version: 3.1.45
+  version: 3.1.46
 platform: ruby
 authors:
 - Miguel Vazquez
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2020-04-13 00:00:00.000000000 Z
+date: 2020-05-14 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: rbbt-util