From 354aaa649e9eeed5d81793e09d9714b45063c147 Mon Sep 17 00:00:00 2001
From: Christoph Helma <helma@in-silico.ch>
Date: Wed, 8 Feb 2012 13:14:11 +0100
Subject: toxbank-investigation compatible version

---
 lib/environment.rb | 83 ------------------------------------------------------
 1 file changed, 83 deletions(-)
 delete mode 100644 lib/environment.rb

(limited to 'lib/environment.rb')

diff --git a/lib/environment.rb b/lib/environment.rb
deleted file mode 100644
index cae743c..0000000
--- a/lib/environment.rb
+++ /dev/null
@@ -1,83 +0,0 @@
-# set default environment
-ENV['RACK_ENV'] = 'production' unless ENV['RACK_ENV']
-
-# load/setup configuration
-basedir = File.join(ENV['HOME'], ".opentox")
-config_dir = File.join(basedir, "config")
-config_file = File.join(config_dir, "#{ENV['RACK_ENV']}.yaml")
-user_file = File.join(config_dir, "users.yaml")
-
-TMP_DIR = File.join(basedir, "tmp")
-LOG_DIR = File.join(basedir, "log")
-
-if File.exist?(config_file)
-	CONFIG = YAML.load_file(config_file)
-  raise "could not load config, config file: "+config_file.to_s unless CONFIG
-else
-	FileUtils.mkdir_p TMP_DIR
-	FileUtils.mkdir_p LOG_DIR
-	FileUtils.mkdir_p config_dir
-	FileUtils.cp(File.join(File.dirname(__FILE__), 'templates/config.yaml'), config_file)
-	puts "Please edit #{config_file} and restart your application."
-	exit
-end
-
-# database
-#`redis-server /opt/redis/redis.conf` unless File.exists? "/var/run/redis.pid" # removed by AM
-# Ohm.connect :thread_safe => true
-
-# load mail settings for error messages
-#load File.join config_dir,"mail.rb" if File.exists?(File.join config_dir,"mail.rb")
-
-logfile = "#{LOG_DIR}/#{ENV["RACK_ENV"]}.log"
-#LOGGER = OTLogger.new(logfile,'daily') # daily rotation
-LOGGER = OTLogger.new(logfile) # no rotation
-LOGGER.formatter = Logger::Formatter.new #this is neccessary to restore the formating in case active-record is loaded
-if CONFIG[:logger] and CONFIG[:logger] == "debug"
-	LOGGER.level = Logger::DEBUG
-else
-	LOGGER.level = Logger::WARN 
-end
-
-# Regular expressions for parsing classification data
-TRUE_REGEXP = /^(true|active|1|1.0|tox)$/i
-FALSE_REGEXP = /^(false|inactive|0|0.0|low tox)$/i
-
-# Task durations
-DEFAULT_TASK_MAX_DURATION = 36000
-#EXTERNAL_TASK_MAX_DURATION = 36000
-
-# OWL Namespaces
-class OwlNamespace
-
-  attr_accessor :uri
-  def initialize(uri)
-    @uri = uri
-  end
-
-  def [](property)
-    @uri+property.to_s
-  end
-
-  def type # for RDF.type
-    "#{@uri}type"
-  end
-
-  def method_missing(property)
-    @uri+property.to_s
-  end
-
-end
-
-RDF = OwlNamespace.new 'http://www.w3.org/1999/02/22-rdf-syntax-ns#'
-OWL = OwlNamespace.new 'http://www.w3.org/2002/07/owl#'
-DC =  OwlNamespace.new 'http://purl.org/dc/elements/1.1/'
-OT =  OwlNamespace.new 'http://www.opentox.org/api/1.1#'
-OTA =  OwlNamespace.new 'http://www.opentox.org/algorithmTypes.owl#'
-XSD = OwlNamespace.new 'http://www.w3.org/2001/XMLSchema#'
-
-AA_SERVER = CONFIG[:authorization] ? (CONFIG[:authorization][:server] ? CONFIG[:authorization][:server] : nil) : nil
-CONFIG[:authorization][:authenticate_request] = [""] unless CONFIG[:authorization][:authenticate_request]
-CONFIG[:authorization][:authorize_request] =  [""] unless CONFIG[:authorization][:authorize_request]
-CONFIG[:authorization][:free_request] =  [""] unless CONFIG[:authorization][:free_request]
-
-- 
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