full_lengther_next 0.0.1 → 0.0.2

data/History.txt

@@ -1,3 +1,7 @@
+=== 0.0.2 2012-02-07
+
+Added FULL_LENGTH_NEXT_INIT environment variable for clustered installations
+
 === 0.0.1 2012-01-30
 
 * 1 major enhancement:

data/bin/full_lengther_next

@@ -125,6 +125,14 @@ ROOT_PATH=File.dirname(__FILE__)
 
 require 'full_lengther_next'
 
+
+if ENV['FULL_LENGTHER_NEXT_INIT'] && File.exists?(ENV['FULL_LENGTHER_NEXT_INIT'])
+  FULL_LENGTHER_NEXT_INIT=File.expand_path(ENV['FULL_LENGTHER_NEXT_INIT'])
+else
+  FULL_LENGTHER_NEXT_INIT=File.join($ROOT_PATH,'init_env')
+end
+
+
 if ENV['BLASTDB'] && File.exists?(ENV['BLASTDB'])
   formatted_db_path = ENV['BLASTDB']
 else # otherwise use ROOTPATH + DB
@@ -163,7 +171,7 @@ custom_worker_file = File.join(ROOT_PATH,'classes','my_worker.rb')
 	MyWorkerManager.init_work_manager(options, options[:chunk_size])
 	
 	# Create server
-	server = ScbiMapreduce::Manager.new(options[:server_ip],options[:port], options[:workers], MyWorkerManager,custom_worker_file, STDOUT,File.join(ROOT_PATH,'init_env'))
+	server = ScbiMapreduce::Manager.new(options[:server_ip],options[:port], options[:workers], MyWorkerManager,custom_worker_file, STDOUT,FULL_LENGTHER_NEXT_INIT)
 	server.chunk_size=options[:chunk_size]
 	# launch server
 	server.start_server

data/lib/full_lengther_next.rb

@@ -7,7 +7,7 @@ $: << File.expand_path(File.join(ROOT_PATH, 'classes'))
 
 
 module FullLengtherNext
-  VERSION = '0.0.1'
+   VERSION = '0.0.2'
   
   FULLLENGHTER_VERSION = VERSION
 end

data/lib/full_lengther_next/classes/my_worker.rb

@@ -66,7 +66,7 @@ class MyWorker < ScbiMapreduce::Worker
 				user_db_name = @options[:user_db].sub(/.+\//,'')
 			end
 		
-			if !File.exists?("#{@options[:user_db]}.psq")
+			if !File.exists?("#{File.expand_path(@options[:user_db])}.psq")
 				puts "user database: #{@options[:user_db]} was not found"
 				exit
 			end

metadata

@@ -2,7 +2,7 @@
 name: full_lengther_next
 version: !ruby/object:Gem::Version 
   prerelease: 
-  version: 0.0.1
+  version: 0.0.2
 platform: ruby
 authors: 
 - Noe Fernandez & Dario Guerrero
@@ -10,7 +10,7 @@ autorequire:
 bindir: bin
 cert_chain: []
 
-date: 2012-02-06 00:00:00 Z
+date: 2012-02-07 00:00:00 Z
 dependencies: 
 - !ruby/object:Gem::Dependency 
   name: xml-simple