rbfam 0.2.0 → 0.2.1

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA1:
-  metadata.gz: a266530dd38f3e5f9505a9f4ed0ce6ca4ccdea89
-  data.tar.gz: 2d0376d8ba04b9afe22a7d434f75d9e8bc17a4d2
+  metadata.gz: 72736d685dc023b81de0d42d323299e5cdf1c7e7
+  data.tar.gz: b68c6070354e1066d9616aaa11fdc8a34e708668
 SHA512:
-  metadata.gz: e1534185f816b75dc489fd5b92bb37f5e133a1cf2c6f9c7dbb65fda8184bb8cd7d7ffb5b40e6ca10a608b75355a209246ad41843e9def666f8c9a07422d846a7
-  data.tar.gz: cbdf33c78a5a248a5eb59a02a39affaa6b3ed66fd51651a68e8ac0db18c2ed22157b891a4a2a5c16d37fff48a4c0a8d20a37d008b5e2da251c16639f914402af
+  metadata.gz: 19a5fa18cc57e0c6b1ec139609d842e69b6938491dd65bb4e5abe734130e49642b7325d37c142f4121e0055c2202310b26c66affe9c3a959ac6dbf2c5b49b573
+  data.tar.gz: bdc862b5010cc551ed10f6444d097f6e8af8c4b660c2d499fd08500dbb55565e8672a9d918d302f7a95ddba5afb381b2db0e5d8d4cb615aeb179dafc023f234c

data/Gemfile.lock

@@ -1,7 +1,7 @@
 PATH
   remote: .
   specs:
-    rbfam (0.2.0)
+    rbfam (0.2.1)
       activerecord
       activesupport
       bio (~> 1.4, >= 1.4.2)

data/lib/rbfam/scripts/sequences_in_mysql.rb

@@ -1,5 +1,3 @@
-# SequenceTable(id: integer, family: string, accession: string, sequence: text, sequence_length: integer, from: integer, to: integer, seq_from: integer, seq_to: integer, seed: boolean, created_at: datetime, updated_at: datetime, extended: boolean)
-
 require "mysql2"
 require "active_record"
 
@@ -8,7 +6,7 @@ module Rbfam
     class Sequence < ActiveRecord::Base
       belongs_to :alignment
 
-      validates_uniqueness_of :accession, scope: [:sequence, :seq_from, :seq_to]
+      validates_uniqueness_of :accession, scope: [:stripped_sequence, :from, :to]
 
       def self.connect
         ActiveRecord::Base.establish_connection(config = { adapter: "mysql2", username: "root", reconnect: true })
@@ -24,7 +22,7 @@ module Rbfam
 
       def to_rbfam(family = nil)
         # Should use a singleton pattern here to look up the family.
-        ::Rbfam::Sequence.new(family || Rbfam::Family.new(family), accession, from, to, { sequence: sequence })
+        ::Rbfam::Sequence.new(family || Rbfam::Family.new(family), accession, from, to, { sequence: stripped_sequence })
       end
     end
 

data/lib/rbfam/version.rb

@@ -1,3 +1,3 @@
 module Rbfam
-  VERSION = "0.2.0"
+  VERSION = "0.2.1"
 end

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: rbfam
 version: !ruby/object:Gem::Version
-  version: 0.2.0
+  version: 0.2.1
 platform: ruby
 authors:
 - Evan Senter
@@ -247,7 +247,7 @@ required_rubygems_version: !ruby/object:Gem::Requirement
       version: '0'
 requirements: []
 rubyforge_project: 
-rubygems_version: 2.4.4
+rubygems_version: 2.4.5
 signing_key: 
 specification_version: 4
 summary: Bindings to Rfam.