neurohmmerapp 0.0.6 → 0.0.7

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA1:
-  metadata.gz: 18c55b2ab0582896a23eb102a6de87f58e31eb05
-  data.tar.gz: b61c33933fe145c99e7c86f2455b5161d07e63d6
+  metadata.gz: c6fc147c4ef2c0987b6bccebb9a66725dad4397f
+  data.tar.gz: 9d2ad094a7c2734fae1adc40811eece6f48206c6
 SHA512:
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+  metadata.gz: cbedf3a40c6d5ad0bdfd34b1bea1186cd995fb750ef2d20fd73d9f3b7c3a6066be19af8e3a49c81ce97f4c6a3c573f0f2ab63408cec31502f38521718bb96f5d
+  data.tar.gz: eee89fb56a2106682cd946c90603f2435abe2a3532fb56c2c9a05121299abec6a96bc2a3f8bf1bc1653e75df46ec5a0b4407d6018de659be9c6d0986cb873a94

data/bin/neurohmmerapp

@@ -12,7 +12,7 @@ begin
   Slop.parse!(strict: true, help: true) do
     banner <<BANNER
 SUMMARY:
-  NeuroHmmer - Identify Neuropeptide Precursors 
+  NeuroHmmer - Identify Neuropeptide Precursors
 
 USAGE:
   $ neurohmmerapp [options]
@@ -115,7 +115,6 @@ BANNER
 
         exit!
 
-
       rescue NeuroHmmerApp::NUM_THREADS_INCORRECT => e
 
         puts e

data/lib/neurohmmerapp.rb

@@ -36,8 +36,6 @@ module NeuroHmmerApp
 
       init_binaries
       init_dirs
-
-      load_extension
       check_num_threads
       check_max_characters
       self
@@ -109,17 +107,6 @@ module NeuroHmmerApp
       assert_mafft_installed
     end
 
-    def load_extension
-      return unless config[:require]
-      config[:require] = File.expand_path config[:require]
-      unless File.exist?(config[:require]) && File.file?(config[:require])
-        fail EXTENSION_FILE_NOT_FOUND, config[:require]
-      end
-
-      logger.debug("Loading extension: #{config[:require]}")
-      require config[:require]
-    end
-
     def check_num_threads
       num_threads = Integer(config[:num_threads])
       fail NUM_THREADS_INCORRECT unless num_threads > 0

data/lib/neurohmmerapp/config.rb

@@ -76,7 +76,7 @@ module NeuroHmmerApp
         :port           => 4567,
         :host           => '0.0.0.0',
         :public_dir     => File.join(Dir.home, '.neurohmmerapp/'),
-        :max_characters => 'undefined',
+        :max_characters => 'undefined'
       }
     end
 

data/lib/neurohmmerapp/exceptions.rb

@@ -59,13 +59,6 @@ MSG
     end
   end
 
-  # Raised if extension file set, but does not exist.
-  class EXTENSION_FILE_NOT_FOUND < ENOENT
-    def initialize(ent)
-      super 'extension file', ent
-    end
-  end
-
   ## NUM THREADS ##
 
   # Raised if num_threads set by the user is incorrect.

data/lib/neurohmmerapp/neurohmmer.rb

@@ -27,7 +27,7 @@ module NeuroHmmerApp
       attr_reader :gv_dir, :input_file, :xml_file, :raw_seq, :unique_id, :params
 
       # Setting the scene
-      def init(base_url, params)
+      def init(_base_url, params)
         create_unique_id
         create_run_dir
         @params = params
@@ -156,4 +156,4 @@ module NeuroHmmerApp
       end
     end
   end
-end 
+end

data/lib/neurohmmerapp/version.rb

@@ -1,3 +1,3 @@
 module NeuroHmmerApp
-  VERSION = '0.0.6'
+  VERSION = '0.0.7'
 end

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: neurohmmerapp
 version: !ruby/object:Gem::Version
-  version: 0.0.6
+  version: 0.0.7
 platform: ruby
 authors:
 - Ismail Moghul
@@ -9,7 +9,7 @@ authors:
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2015-11-18 00:00:00.000000000 Z
+date: 2015-11-23 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: bundler