sushi_fabric 0.1.6 → 0.1.7

data/bin/sushi_fabric

@@ -0,0 +1,70 @@
+#!/usr/bin/env ruby
+# encoding: utf-8
+# Version = '20140315-210244'
+
+require 'sushi_fabric'
+
+opt = OptionParser.new do |o|
+  o.banner = <<-EOT
+Usage: 
+  #{File.basename(__FILE__)} --class [SushiApp class] [options]
+  \t(Either --dataset_id or --dataset_tsv is \e[31mrequired\e[0m)
+  EOT
+  o.on(:class_name, '-c class_name', '--class', "SushiApp class name (\e[31mrequired\e[0m)")
+  o.on(:dataset_id, '-i dataset_id', '--dataset_id', Integer, 'DataSet ID in Sushi DB')
+  o.on(:dataset_tsv, '-d dataset_tsv', '--dataset', String, 'DataSet file (.tsv) (This option is prior to dataset_id option)')
+  o.on(:parameterset_tsv, '-m parameterset_tsv', '--parameterset', String, 'Parameterset file (.tsv)')
+  o.on(:run_mode, '-r', '--run', 'Real run mode. without this option, it runs with test run mode which checks only DataSet and Parameters and no submittion')
+  o.on(:project, '1001', '-p', '--project', String, 'Project Number (default: 1001)')
+  o.on(:user, 'sushi_lover', '-u', '--user', String, 'Submit user (default: sushi_lover)')
+  o.on(:load_path, '-I load_path', '--load_path', 'Add path where SushiApp class is located (default: ./lib)')
+  o.parse!(ARGV)
+end
+opt.project = 'p' + opt.project
+if File.exist?('lib')
+  $: << 'lib'
+end
+if opt.load_path
+  opt.load_path.split(':').each do |path|
+    $: << path
+  end
+end
+
+unless opt.class_name
+  puts
+  warn "\e[31mERROR\e[0m: --class is required"
+  puts
+  warn opt.help
+  exit
+end
+unless opt.dataset_id or opt.dataset_tsv
+  puts
+  warn "\e[31mERROR\e[0m: Either --dataset_id or --dataset_tsv is required"
+  puts
+  print opt.help
+  exit
+end
+
+begin
+  require opt.class_name
+  klass = eval(opt.class_name)
+  usecase = klass.new
+rescue #NameError, LoadError # uninitialized constant
+  warn ""
+  warn "\e[31mERROR\e[0m: The class #{opt.class_name} cannot be loaded. Add path with -I option."
+  warn "" 
+  warn "Current library load path(s):"
+  puts $:.map{|dir| "\t"+dir}
+end
+
+usecase.project = opt.project
+usecase.user = opt.user
+usecase.dataset_sushi_id = opt.dataset_id
+usecase.dataset_tsv_file = opt.dataset_tsv
+usecase.parameterset_tsv_file = opt.parameterset_tsv
+if opt.run_mode
+  usecase.run
+else
+  usecase.test_run
+end
+

data/lib/sushi_fabric.rb

@@ -1,3 +1,4 @@
 require "sushi_fabric/version"
 
 require 'sushi_fabric/sushiApp'
+require 'sushi_fabric/optparse_ex'

data/lib/sushi_fabric/optparse_ex.rb

@@ -0,0 +1,52 @@
+#!/usr/bin/env ruby
+# encoding: utf-8
+
+require 'optparse'
+# Version = '20130517-120455'
+
+class OptionParser
+  attr_reader :p
+  alias :_on :on
+  def on(attr, *args, &block)
+    if attr.is_a?(Symbol)
+      self.class.class_eval do
+        unless method_defined?(attr)
+          attr_accessor attr 
+        else
+          raise "Method #{attr.to_s} is already defined in OptionParser class"
+        end
+      end
+      unless args[0] =~ /\-/
+        default = args.shift
+        self.send(attr.to_s+"=", default)
+      end
+      _on(*args) do |i|
+        self.send(attr.to_s+"=", i)
+        block.call(i) if block
+      end
+    else
+      args.unshift attr
+      _on(*args, block)
+    end
+  end
+end
+
+if __FILE__ == $0
+  opt = OptionParser.new do |o|
+    o.banner = "Last update: #{o.version}\nUsage: ruby #{__FILE__} [options]"
+    o.on(:size, 100, '-N N', '--pop_size', Integer, 'population size (default: 100)'){|i| p i}
+    o.on(:seed, '-R R', '--rseed', 'random seed')
+    o.on(:flag, '-f', 'flag')
+    o.on('-M M', '--hoge', Integer, 'hoge'){|i| p i}
+    o.parse!(ARGV)
+  end
+
+  print "opt.flag = "
+  p opt.flag
+  print "opt.size = "
+  p opt.size
+  print "opt.seed = "
+  p opt.seed
+  puts
+  puts opt.help
+end

data/lib/sushi_fabric/version.rb

@@ -1,3 +1,3 @@
 module SushiFabric
-  VERSION = "0.1.6"
+  VERSION = "0.1.7"
 end

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: sushi_fabric
 version: !ruby/object:Gem::Version
-  version: 0.1.6
+  version: 0.1.7
   prerelease: 
 platform: ruby
 authors:
@@ -9,11 +9,11 @@ authors:
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2014-03-14 00:00:00.000000000 Z
+date: 2014-03-15 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: bundler
-  requirement: !ruby/object:Gem::Requirement
+  requirement: &2156848140 !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ~>
@@ -21,15 +21,10 @@ dependencies:
         version: '1.3'
   type: :development
   prerelease: false
-  version_requirements: !ruby/object:Gem::Requirement
-    none: false
-    requirements:
-    - - ~>
-      - !ruby/object:Gem::Version
-        version: '1.3'
+  version_requirements: *2156848140
 - !ruby/object:Gem::Dependency
   name: rake
-  requirement: !ruby/object:Gem::Requirement
+  requirement: &2156847520 !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ! '>='
@@ -37,17 +32,13 @@ dependencies:
         version: '0'
   type: :development
   prerelease: false
-  version_requirements: !ruby/object:Gem::Requirement
-    none: false
-    requirements:
-    - - ! '>='
-      - !ruby/object:Gem::Version
-        version: '0'
+  version_requirements: *2156847520
 description: This library provides us with the methods to submit a job cooperating
   with workflow manager.
 email:
 - masaomi.hatakeyama@fgcz.uzh.ch
-executables: []
+executables:
+- sushi_fabric
 extensions: []
 extra_rdoc_files: []
 files:
@@ -56,7 +47,9 @@ files:
 - LICENSE.txt
 - README.md
 - Rakefile
+- bin/sushi_fabric
 - config/environments/development.rb
+- lib/sushi_fabric/optparse_ex.rb
 - lib/sushi_fabric/sushiApp.rb
 - lib/sushi_fabric/version.rb
 - lib/sushi_fabric.rb
@@ -85,7 +78,7 @@ required_rubygems_version: !ruby/object:Gem::Requirement
       version: '0'
 requirements: []
 rubyforge_project: 
-rubygems_version: 1.8.24
+rubygems_version: 1.8.5
 signing_key: 
 specification_version: 3
 summary: workflow manager client.