trinitycrmod 0.1.0 → 0.2.0

data/Gemfile

@@ -2,7 +2,7 @@ source "http://rubygems.org"
 # Add dependencies required to use your gem here.
 # Example:
    gem "coderunner", ">= 0.11.0"
-   gem "text-data-tools", ">= 1.1.1"
+   gem "text-data-tools", ">= 1.1.3"
 
 # Add dependencies to develop your gem here.
 # Include everything needed to run rake, tests, features, etc.

data/VERSION

@@ -1 +1 @@
-0.1.0
+0.2.0

data/lib/trinitycrmod/graphs.rb

@@ -0,0 +1,48 @@
+class CodeRunner::Trinity
+	module TrinityGraphKits
+		def nt_prof_graphkit(options)
+			raise "Please specify t_index" unless options[:t_index]
+			it = options[:t_index] - 1
+			array = nt_outfile.get_2d_array_float(options[:header], /1.*time/)
+			rho_array = nt_outfile.get_2d_array_float(/2.*radius/, /1.*time/)
+			#p rho_array, array
+			GraphKit.autocreate(x: {data: rho_array[it].to_gslv, title: 'rho', units: ''},
+													y: {data: array[it].to_gslv, title: options[:title]||"", units: options[:units]||""}
+												 )
+		end
+		def ion_temp_prof_graphkit(options)
+			return nt_prof_graphkit(options.dup.absorb({header: /i\+ temp/}))
+		end
+	end
+
+	include TrinityGraphKits
+
+	def graphkit(name, options)
+		[:t].each do |var|
+			#ep 'index', var
+			if options[var].class == Symbol and options[var] == :all
+				options[var] = list(var).values
+			elsif options[var+:_index].class == Symbol and options[var+:_index] == :all
+				#ep 'Symbol'
+				options[var+:_index] = list(var).keys
+			end
+			if options[var].class == Array
+				return options[var].map{|value| graphkit(name, options.dup.absorb({var =>  value}))}.sum
+			elsif options[var+:_index].class == Array
+				#ep 'Array'
+				return options[var+:_index].map{|value| graphkit(name, options.dup.absorb({var+:_index =>  value}))}.sum
+			end
+			if options[var].class == Symbol and options[var] == :max
+				options[var] = list(var).values.max
+			elsif options[var+:_index].class == Symbol and options[var+:_index] == :max
+				ep 'Symbol'
+				options[var+:_index] = list(var).keys.max
+			end
+		end
+		if meth = TrinityGraphKits.instance_methods.find{|m| m.to_s == name + '_graphkit'}
+			return send(meth, options)
+		else
+			raise	"GraphKit not found: #{name}"
+		end	
+	end
+end

data/lib/trinitycrmod/output_files.rb

@@ -9,6 +9,9 @@ class CodeRunner
       def info_outfile
         TextDataTools::Named::DataFile.new(@directory + '/' + @run_name + '.info', ':')
       end
+      def nt_outfile
+        TextDataTools::Column::DataFile.new(@directory + '/' + @run_name + '.nt', true, /\S+/, /(?:\#\s+)?\d:.*?(?=\d:)/)
+      end
       def time_outfile
         TextDataTools::Column::DataFile.new(@directory + '/' + @run_name + '.time', true, /\S+/, /\w+/)
       end

data/lib/trinitycrmod/trinity.rb

@@ -16,6 +16,7 @@ class CodeRunner
 		# Use the Run::FortranNamelist tools to process the variable database
 		setup_namelists(@code_module_folder)
 		require 'trinitycrmod/output_files'
+		require 'trinitycrmod/graphs'
 
 		################################################
 		# Quantities that are read or determined by CodeRunner

data/test/test_trinitycrmod.rb

@@ -27,7 +27,7 @@ end
 class TestTrinitycrmodIFSPPPLAnalysis < Test::Unit::TestCase
   def setup
     #@runner = CodeRunner.fetch_runner(Y: 'test/ifspppl_results', C: 'trinity', X: '/dev/null')
-		Dir.chdir('test/ifspppl_results/v'){system "tar -xzf id_1.tgz"}
+		Dir.chdir('test/ifspppl_results/v'){str = "tar -xzf id_1.tgz";system str}
     @runner = CodeRunner.fetch_runner(Y: 'test/ifspppl_results', C: 'trinity', X: ENV['HOME'] + '/Code/trinity/trunk/trinity', A: true)
     #@runner.run_class.make_new_defaults_file("rake_test", "test/ifspppl/test.trin")
     #FileUtils.mv('rake_test_defaults.rb', @runner.run_class.rcp.user_defaults_location)
@@ -37,10 +37,16 @@ class TestTrinitycrmodIFSPPPLAnalysis < Test::Unit::TestCase
     CodeRunner.status(Y: 'test/ifspppl_results')
     assert_equal(@runner.run_list.size, 1)
     assert_equal(@runner.run_list[1].fusionQ, 0.075658439797815016)
+    FileUtils.rm('test/ifspppl_results/.CODE_RUNNER_TEMP_RUN_LIST_CACHE')
   end
+	def test_graphs
+	  kit = @runner.run_list[1].graphkit('ion_temp_prof', {t_index: 2})
+		#kit.gnuplot
+		assert_equal(kit.data[0].class, GraphKit::DataKit)
+		assert_equal(kit.data[0].x.data[0], 0.05)
+	end
   def teardown
     FileUtils.rm('test/ifspppl_results/.code_runner_script_defaults.rb')
-    FileUtils.rm('test/ifspppl_results/.CODE_RUNNER_TEMP_RUN_LIST_CACHE')
     FileUtils.rm_r('test/ifspppl_results/v/id_1/')
   end
 end

data/trinitycrmod.gemspec

@@ -0,0 +1,73 @@
+# Generated by jeweler
+# DO NOT EDIT THIS FILE DIRECTLY
+# Instead, edit Jeweler::Tasks in Rakefile, and run 'rake gemspec'
+# -*- encoding: utf-8 -*-
+
+Gem::Specification.new do |s|
+  s.name = "trinitycrmod"
+  s.version = "0.2.0"
+
+  s.required_rubygems_version = Gem::Requirement.new(">= 0") if s.respond_to? :required_rubygems_version=
+  s.authors = ["Edmund Highcock"]
+  s.date = "2013-06-17"
+  s.description = "This module allows Trinity, the Multiscale Gyrokinetic Turbulent Transport solver for Fusion Reactors, to harness the power of CodeRunner, a framework for the automated running and analysis of simulations."
+  s.email = "edmundhighcock@sourceforge.net"
+  s.extra_rdoc_files = [
+    "LICENSE.txt",
+    "README.rdoc"
+  ]
+  s.files = [
+    ".document",
+    "Gemfile",
+    "LICENSE.txt",
+    "README.rdoc",
+    "Rakefile",
+    "VERSION",
+    "lib/trinitycrmod.rb",
+    "lib/trinitycrmod/deleted_variables.rb",
+    "lib/trinitycrmod/graphs.rb",
+    "lib/trinitycrmod/namelists.rb",
+    "lib/trinitycrmod/output_files.rb",
+    "lib/trinitycrmod/trinity.rb",
+    "sync_variables/helper.rb",
+    "sync_variables/sync_variables.rb",
+    "test/helper.rb",
+    "test/ifspppl/test.trin",
+    "test/ifspppl_results/v/id_1.tgz",
+    "test/test_trinitycrmod.rb",
+    "trinitycrmod.gemspec"
+  ]
+  s.homepage = "http://github.com/edmundhighcock/trinitycrmod"
+  s.licenses = ["GPLv3"]
+  s.require_paths = ["lib"]
+  s.rubygems_version = "1.8.23"
+  s.summary = "CodeRunner module for the Trinity simulation software."
+
+  if s.respond_to? :specification_version then
+    s.specification_version = 3
+
+    if Gem::Version.new(Gem::VERSION) >= Gem::Version.new('1.2.0') then
+      s.add_runtime_dependency(%q<coderunner>, [">= 0.11.0"])
+      s.add_runtime_dependency(%q<text-data-tools>, [">= 1.1.3"])
+      s.add_development_dependency(%q<shoulda>, [">= 0"])
+      s.add_development_dependency(%q<rdoc>, ["~> 3.12"])
+      s.add_development_dependency(%q<bundler>, ["> 1.0.0"])
+      s.add_development_dependency(%q<jeweler>, [">= 1.8.4"])
+    else
+      s.add_dependency(%q<coderunner>, [">= 0.11.0"])
+      s.add_dependency(%q<text-data-tools>, [">= 1.1.3"])
+      s.add_dependency(%q<shoulda>, [">= 0"])
+      s.add_dependency(%q<rdoc>, ["~> 3.12"])
+      s.add_dependency(%q<bundler>, ["> 1.0.0"])
+      s.add_dependency(%q<jeweler>, [">= 1.8.4"])
+    end
+  else
+    s.add_dependency(%q<coderunner>, [">= 0.11.0"])
+    s.add_dependency(%q<text-data-tools>, [">= 1.1.3"])
+    s.add_dependency(%q<shoulda>, [">= 0"])
+    s.add_dependency(%q<rdoc>, ["~> 3.12"])
+    s.add_dependency(%q<bundler>, ["> 1.0.0"])
+    s.add_dependency(%q<jeweler>, [">= 1.8.4"])
+  end
+end
+

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: trinitycrmod
 version: !ruby/object:Gem::Version
-  version: 0.1.0
+  version: 0.2.0
   prerelease: 
 platform: ruby
 authors:
@@ -34,7 +34,7 @@ dependencies:
     requirements:
     - - ! '>='
       - !ruby/object:Gem::Version
-        version: 1.1.1
+        version: 1.1.3
   type: :runtime
   prerelease: false
   version_requirements: !ruby/object:Gem::Requirement
@@ -42,7 +42,7 @@ dependencies:
     requirements:
     - - ! '>='
       - !ruby/object:Gem::Version
-        version: 1.1.1
+        version: 1.1.3
 - !ruby/object:Gem::Dependency
   name: shoulda
   requirement: !ruby/object:Gem::Requirement
@@ -125,6 +125,7 @@ files:
 - VERSION
 - lib/trinitycrmod.rb
 - lib/trinitycrmod/deleted_variables.rb
+- lib/trinitycrmod/graphs.rb
 - lib/trinitycrmod/namelists.rb
 - lib/trinitycrmod/output_files.rb
 - lib/trinitycrmod/trinity.rb
@@ -134,6 +135,7 @@ files:
 - test/ifspppl/test.trin
 - test/ifspppl_results/v/id_1.tgz
 - test/test_trinitycrmod.rb
+- trinitycrmod.gemspec
 homepage: http://github.com/edmundhighcock/trinitycrmod
 licenses:
 - GPLv3
@@ -149,7 +151,7 @@ required_ruby_version: !ruby/object:Gem::Requirement
       version: '0'
       segments:
       - 0
-      hash: -4412447683332078047
+      hash: -1760812951921536995
 required_rubygems_version: !ruby/object:Gem::Requirement
   none: false
   requirements: