comana 0.0.9 → 0.0.10

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: comana
 version: !ruby/object:Gem::Version
-  version: 0.0.9
+  version: 0.0.10
   prerelease: 
 platform: ruby
 authors:
@@ -9,55 +9,59 @@ authors:
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2012-05-29 00:00:00.000000000 Z
+date: 2014-08-28 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
-  name: rspec
-  requirement: &72264660 !ruby/object:Gem::Requirement
+  name: rdoc
+  requirement: !ruby/object:Gem::Requirement
     none: false
     requirements:
-    - - ! '>='
+    - - ~>
       - !ruby/object:Gem::Version
-        version: 2.10.0
+        version: 4.0.1
   type: :development
   prerelease: false
-  version_requirements: *72264660
-- !ruby/object:Gem::Dependency
-  name: rdoc
-  requirement: &72264230 !ruby/object:Gem::Requirement
+  version_requirements: !ruby/object:Gem::Requirement
     none: false
     requirements:
-    - - ! '>='
+    - - ~>
       - !ruby/object:Gem::Version
-        version: '3.12'
-  type: :development
-  prerelease: false
-  version_requirements: *72264230
+        version: 4.0.1
 - !ruby/object:Gem::Dependency
   name: bundler
-  requirement: &72263870 !ruby/object:Gem::Requirement
+  requirement: !ruby/object:Gem::Requirement
     none: false
     requirements:
-    - - ! '>='
+    - - ~>
       - !ruby/object:Gem::Version
-        version: 1.1.3
+        version: 1.7.2
   type: :development
   prerelease: false
-  version_requirements: *72263870
+  version_requirements: !ruby/object:Gem::Requirement
+    none: false
+    requirements:
+    - - ~>
+      - !ruby/object:Gem::Version
+        version: 1.7.2
 - !ruby/object:Gem::Dependency
   name: jeweler
-  requirement: &72263500 !ruby/object:Gem::Requirement
+  requirement: !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ! '>='
       - !ruby/object:Gem::Version
-        version: 1.8.3
+        version: 2.0.1
   type: :development
   prerelease: false
-  version_requirements: *72263500
+  version_requirements: !ruby/object:Gem::Requirement
+    none: false
+    requirements:
+    - - ! '>='
+      - !ruby/object:Gem::Version
+        version: 2.0.1
 - !ruby/object:Gem::Dependency
   name: simplecov
-  requirement: &72263070 !ruby/object:Gem::Requirement
+  requirement: !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ! '>='
@@ -65,13 +69,37 @@ dependencies:
         version: '0'
   type: :development
   prerelease: false
-  version_requirements: *72263070
+  version_requirements: !ruby/object:Gem::Requirement
+    none: false
+    requirements:
+    - - ! '>='
+      - !ruby/object:Gem::Version
+        version: '0'
+- !ruby/object:Gem::Dependency
+  name: tefil
+  requirement: !ruby/object:Gem::Requirement
+    none: false
+    requirements:
+    - - ! '>='
+      - !ruby/object:Gem::Version
+        version: 0.0.3
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    none: false
+    requirements:
+    - - ! '>='
+      - !ruby/object:Gem::Version
+        version: 0.0.3
 description: ! "Comana, COmputation MANAger,\n    is a software to provide a framework
   of\n    managing scientific computing.\n    Researchers on computing have to check
   calculation and\n    generate new calculation and execute, repeatedly.\n    The
   abstract class that this gem provide would help the work.\n  "
 email: ippei94da@gmail.com
-executables: []
+executables:
+- machinestatus
+- scpall
+- sshall
 extensions: []
 extra_rdoc_files:
 - LICENSE.txt
@@ -79,37 +107,52 @@ extra_rdoc_files:
 files:
 - .document
 - .rspec
+- CHANGES
 - Gemfile
 - LICENSE.txt
 - README.rdoc
 - Rakefile
 - VERSION
-- comana.gemspec
-- dot.machineinfo
+- bin/machinestatus
+- bin/scpall
+- bin/sshall
+- example/dot.clustersetting
 - lib/comana.rb
+- lib/comana/clustersetting.rb
 - lib/comana/computationmanager.rb
-- lib/comana/machineinfo.rb
+- lib/comana/hostinspector.rb
+- lib/comana/hostinspector/pbsnodes.rb
+- lib/comana/hostinspector/ping.rb
+- lib/comana/hostselector.rb
 - lib/comana/queuesubmitter.rb
 - memo.txt
-- spec/computationmanager_spec.rb
-- spec/locked/input_a
-- spec/locked/input_b
-- spec/locked/lock_comana/dummy
-- spec/locked_outputted/input_a
-- spec/locked_outputted/input_b
-- spec/locked_outputted/lock_comana/dummy
-- spec/locked_outputted/output
-- spec/machineinfo
-- spec/machineinfo_spec.rb
-- spec/not_started/input_a
-- spec/not_started/input_b
-- spec/outputted/input_a
-- spec/outputted/input_b
-- spec/outputted/output
-- spec/queuesubmitter/locked/lock_queuesubmitter/dummy
-- spec/queuesubmitter/unlocked/dummy
-- spec/queuesubmitter_spec.rb
-- spec/spec_helper.rb
+- test/helper.rb
+- test/locked/input_a
+- test/locked/input_b
+- test/locked/lock_comana/dummy
+- test/locked_outputted/input_a
+- test/locked_outputted/input_b
+- test/locked_outputted/lock_comana/dummy
+- test/locked_outputted/output
+- test/not_executable/dummy
+- test/not_started/input_a
+- test/not_started/input_b
+- test/outputted/input_a
+- test/outputted/input_b
+- test/outputted/output
+- test/pbsnodes/Br09.xml
+- test/pbsnodes/Br10.xml
+- test/pbsnodes/Ge00.xml
+- test/pbsnodes/Ge08.xml
+- test/pbsnodes/all.xml
+- test/queuesubmitter/locked/lock_queuesubmitter/dummy
+- test/queuesubmitter/unlocked/dummy
+- test/test_clustersetting.rb
+- test/test_computationmanager.rb
+- test/test_hostinspector_pbsnodes.rb
+- test/test_hostinspector_ping.rb
+- test/test_hostselector.rb
+- test/test_queuesubmitter.rb
 homepage: http://github.com/ippei94da/comana
 licenses:
 - MIT
@@ -125,7 +168,7 @@ required_ruby_version: !ruby/object:Gem::Requirement
       version: '0'
       segments:
       - 0
-      hash: 67223151
+      hash: -3582063889889649984
 required_rubygems_version: !ruby/object:Gem::Requirement
   none: false
   requirements:
@@ -134,7 +177,7 @@ required_rubygems_version: !ruby/object:Gem::Requirement
       version: '0'
 requirements: []
 rubyforge_project: 
-rubygems_version: 1.8.11
+rubygems_version: 1.8.23
 signing_key: 
 specification_version: 3
 summary: Manager for scientific computing

data/comana.gemspec

@@ -1,84 +0,0 @@
-# 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 = "comana"
-  s.version = "0.0.9"
-
-  s.required_rubygems_version = Gem::Requirement.new(">= 0") if s.respond_to? :required_rubygems_version=
-  s.authors = ["ippei94da"]
-  s.date = "2012-05-29"
-  s.description = "Comana, COmputation MANAger,\n    is a software to provide a framework of\n    managing scientific computing.\n    Researchers on computing have to check calculation and\n    generate new calculation and execute, repeatedly.\n    The abstract class that this gem provide would help the work.\n  "
-  s.email = "ippei94da@gmail.com"
-  s.extra_rdoc_files = [
-    "LICENSE.txt",
-    "README.rdoc"
-  ]
-  s.files = [
-    ".document",
-    ".rspec",
-    "Gemfile",
-    "LICENSE.txt",
-    "README.rdoc",
-    "Rakefile",
-    "VERSION",
-    "comana.gemspec",
-    "dot.machineinfo",
-    "lib/comana.rb",
-    "lib/comana/computationmanager.rb",
-    "lib/comana/machineinfo.rb",
-    "lib/comana/queuesubmitter.rb",
-    "memo.txt",
-    "spec/computationmanager_spec.rb",
-    "spec/locked/input_a",
-    "spec/locked/input_b",
-    "spec/locked/lock_comana/dummy",
-    "spec/locked_outputted/input_a",
-    "spec/locked_outputted/input_b",
-    "spec/locked_outputted/lock_comana/dummy",
-    "spec/locked_outputted/output",
-    "spec/machineinfo",
-    "spec/machineinfo_spec.rb",
-    "spec/not_started/input_a",
-    "spec/not_started/input_b",
-    "spec/outputted/input_a",
-    "spec/outputted/input_b",
-    "spec/outputted/output",
-    "spec/queuesubmitter/locked/lock_queuesubmitter/dummy",
-    "spec/queuesubmitter/unlocked/dummy",
-    "spec/queuesubmitter_spec.rb",
-    "spec/spec_helper.rb"
-  ]
-  s.homepage = "http://github.com/ippei94da/comana"
-  s.licenses = ["MIT"]
-  s.require_paths = ["lib"]
-  s.rubygems_version = "1.8.11"
-  s.summary = "Manager for scientific computing"
-
-  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_development_dependency(%q<rspec>, [">= 2.10.0"])
-      s.add_development_dependency(%q<rdoc>, [">= 3.12"])
-      s.add_development_dependency(%q<bundler>, [">= 1.1.3"])
-      s.add_development_dependency(%q<jeweler>, [">= 1.8.3"])
-      s.add_development_dependency(%q<simplecov>, [">= 0"])
-    else
-      s.add_dependency(%q<rspec>, [">= 2.10.0"])
-      s.add_dependency(%q<rdoc>, [">= 3.12"])
-      s.add_dependency(%q<bundler>, [">= 1.1.3"])
-      s.add_dependency(%q<jeweler>, [">= 1.8.3"])
-      s.add_dependency(%q<simplecov>, [">= 0"])
-    end
-  else
-    s.add_dependency(%q<rspec>, [">= 2.10.0"])
-    s.add_dependency(%q<rdoc>, [">= 3.12"])
-    s.add_dependency(%q<bundler>, [">= 1.1.3"])
-    s.add_dependency(%q<jeweler>, [">= 1.8.3"])
-    s.add_dependency(%q<simplecov>, [">= 0"])
-  end
-end
-

data/dot.machineinfo

@@ -1,14 +0,0 @@
---- # vim:syntax=yaml
-
-fileserver: Pt
-
-SeriesA:
-  economy_nodes: 1 # num of nodes for prior efficiency mode.
-  speed_nodes: 4   # num of nodes for prior speed mode.
-  vasp: "/usr/local/calc/bin/mpiexec /usr/local/calc/bin/vasp4631-mpich2"
-
-SeriesB:
-  economy_nodes: 1
-  speed_nodes: 8
-  vasp: "/usr/local/calc/bin/mpiexec /usr/local/calc/bin/vasp4631-mpich2"
-

data/lib/comana/machineinfo.rb

@@ -1,44 +0,0 @@
-#! /usr/bin/env ruby
-# coding: utf-8
-
-require "yaml"
-
-# Series name is composed only of alphabets.
-# Host name is started by the series name and followed by integers.
-# E.g.,
-#   "Fe", "Fe00", "Fe01" are of series "Fe" and not "F"
-#
-class MachineInfo
-
-  class NoEntryError < Exception; end
-
-  #
-  def initialize(data)
-    @data = data
-  end
-
-  def self.load_file(data_file = (ENV["HOME"] + "/.machineinfo"))
-    data = YAML.load_file(data_file)
-    MachineInfo.new data
-  end
-
-  def get_info(host)
-    series = host.sub(/\d*$/, "")
-    unless @data.has_key?(series)
-      raise NoEntryError,
-        "#{series}"
-    end
-    @data[series]
-  end
-
-  #def has_info?(host)
-  #  series = host.sub(/\d*$/, "")
-  #  unless @data.has_key?(series)
-  #    raise NoEntryError,
-  #      "#{series}"
-  #  end
-  #  @data[series]
-  #end
-
-end
-

data/spec/computationmanager_spec.rb

@@ -1,158 +0,0 @@
-require "fileutils"
-require File.expand_path(File.dirname(__FILE__) + '/spec_helper')
-
-NOW = Time.now
-
-class ComputationManager
-  public :latest_modified_time, :started?
-end
-
-describe ComputationManager, "not started" do
-  class CalcYet < ComputationManager
-    def finished?         ; false     ; end
-  end
-  before do
-    calc_dir = "spec/not_started"
-    @calc = CalcYet.new(calc_dir)
-
-    File.utime(NOW - 1000 ,NOW - 1000, "#{calc_dir}/input_a")
-    File.utime(NOW - 2000 ,NOW - 2000, "#{calc_dir}/input_b")
-    @lockdir = "#{calc_dir}/lock_comana"
-    FileUtils.rm(@lockdir) if File.exist?(@lockdir)
-  end
-
-  it "should return the state" do
-    @calc.state.should == :yet
-  end
-
-  it "should return latest modified time" do
-    @calc.latest_modified_time.should == (NOW - 1000)
-  end
-
-  it "should return false without lock." do
-    @calc.started?.should_not == nil
-    @calc.started?.should be_false
-  end
-
-  it "should return true with lock." do
-    @calc.started?.should be_false
-  end
-
-  #after do
-  #  FileUtils.rm(@lockdir) if File.exist?(@lockdir)
-  #end
-end
-
-describe ComputationManager, "with lock" do
-  class CalcStarted < ComputationManager
-    def finished?         ; false     ; end
-  end
-
-  before do
-    calc_dir = "spec/locked"
-    @calc = CalcStarted   .new(calc_dir)
-    File.utime(NOW - 1000 ,NOW - 1000, "#{calc_dir}/input_a")
-    File.utime(NOW - 2000 ,NOW - 2000, "#{calc_dir}/input_b")
-  end
-
-  it "should return :started" do
-    @calc.state.should == :started
-  end
-end
-
-describe ComputationManager, "with output, without lock" do
-  class CalcStarted < ComputationManager
-    def finished?         ; false     ; end
-  end
-
-  before do
-    calc_dir = "spec/outputted"
-    @calc = CalcStarted   .new(calc_dir)
-    File.utime(NOW - 1000 ,NOW - 1000, "#{calc_dir}/input_a")
-    File.utime(NOW - 2000 ,NOW - 2000, "#{calc_dir}/input_b")
-    File.utime(NOW - 2000 ,NOW - 2000, "#{calc_dir}/output")
-    #File.utime(NOW - 9000 ,NOW - 9000, "#{calc_dir}/lock")
-    #File.open(OUTFILES[0], "w")
-  end
-
-  it "should return :started" do
-    @calc.state.should == :yet
-  end
-
-end
-
-describe ComputationManager, "terminated" do
-  class CalcTerminated < ComputationManager
-    def finished?         ; false     ; end
-    def initialize(dir)
-      @dir = dir
-      @lockdir   = "lock_comana"
-      @alive_time = 500
-    end
-  end
-
-  before do
-    calc_dir = "spec/locked_outputted"
-    @calc_terminated   = CalcTerminated.new(calc_dir)
-
-    File.utime(NOW - 1000 ,NOW - 1000, "#{calc_dir}/input_a")
-    File.utime(NOW - 2000 ,NOW - 2000, "#{calc_dir}/input_b")
-    File.utime(NOW - 9000 ,NOW - 9000, "#{calc_dir}/output")
-    File.utime(NOW - 9000 ,NOW - 9000, "#{calc_dir}/lock_comana")
-  end
-
-  it "should return the state" do
-    @calc_terminated  .state.should == :terminated
-  end
-end
-
-describe ComputationManager, "finished" do
-  class CalcFinished    < ComputationManager
-    def finished?         ; true      ; end
-  end
-
-  before do
-    calc_dir = "spec/locked_outputted"
-    @calc_finished     = CalcFinished  .new(calc_dir)
-
-    File.utime(NOW - 1000 ,NOW - 1000, "#{calc_dir}/input_a")
-    File.utime(NOW - 2000 ,NOW - 2000, "#{calc_dir}/input_b")
-  end
-
-  it "should return the state" do
-    @calc_finished    .state.should == :finished
-  end
-end
-
-describe ComputationManager, "cannot execute" do
-  class CalcNotExecutable    < ComputationManager
-    def calculate
-      end_status = system "" # notExistCommand
-      raise ExecuteError unless end_status
-    end
-
-    def finished?
-      return false
-    end
-
-    def prepare_next
-      #return false
-      raise
-    end
-  end
-
-  before do
-    calc_dir = "spec/not_executable"
-    @calc     = CalcNotExecutable  .new(calc_dir)
-    #File.utime(NOW - 1000 ,NOW - 1000, "#{calc_dir}/input_a")
-    #File.utime(NOW - 2000 ,NOW - 2000, "#{calc_dir}/input_b")
-    @lockdir = calc_dir + "/lock_comana"
-
-    Dir.rmdir(@lockdir) if File.exist?(@lockdir)
-  end
-
-  it "should raise error" do
-    lambda{@calc.start}.should raise_error(ComputationManager::ExecuteError)
-  end
-end
-