vasputils 0.0.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- data/.document +5 -0
- data/Gemfile +18 -0
- data/LICENSE.txt +20 -0
- data/README.rdoc +19 -0
- data/Rakefile +54 -0
- data/VERSION +1 -0
- data/bin/addVolumeToten.rb +19 -0
- data/bin/latticeconstants +14 -0
- data/bin/lsvaspdir +60 -0
- data/bin/lsvaspseries +95 -0
- data/bin/repeatvasp +47 -0
- data/bin/symposcar +154 -0
- data/lib/vasputils/calcinspector.rb +24 -0
- data/lib/vasputils/calcrepeater.rb +27 -0
- data/lib/vasputils/calcseries.rb +98 -0
- data/lib/vasputils/incar.rb +55 -0
- data/lib/vasputils/kpoints.rb +41 -0
- data/lib/vasputils/outcar.rb +59 -0
- data/lib/vasputils/poscar.rb +168 -0
- data/lib/vasputils/potcar.rb +18 -0
- data/lib/vasputils/vaspdir.rb +278 -0
- data/lib/vasputils.rb +0 -0
- data/test/calcseries/dup_finished/try00/CONTCAR +17 -0
- data/test/calcseries/dup_finished/try00/INCAR +28 -0
- data/test/calcseries/dup_finished/try00/KPOINTS +6 -0
- data/test/calcseries/dup_finished/try00/OUTCAR +28 -0
- data/test/calcseries/dup_finished/try00/POSCAR +12 -0
- data/test/calcseries/dup_finished/try00/POTCAR +2 -0
- data/test/calcseries/dup_finished/try00/lock +0 -0
- data/test/calcseries/dup_finished/try01/CONTCAR +17 -0
- data/test/calcseries/dup_finished/try01/INCAR +28 -0
- data/test/calcseries/dup_finished/try01/KPOINTS +6 -0
- data/test/calcseries/dup_finished/try01/OUTCAR +28 -0
- data/test/calcseries/dup_finished/try01/POSCAR +12 -0
- data/test/calcseries/dup_finished/try01/POTCAR +2 -0
- data/test/calcseries/dup_finished/try01/lock +0 -0
- data/test/calcseries/normal_finished/try00/CONTCAR +17 -0
- data/test/calcseries/normal_finished/try00/INCAR +28 -0
- data/test/calcseries/normal_finished/try00/KPOINTS +6 -0
- data/test/calcseries/normal_finished/try00/OUTCAR +40 -0
- data/test/calcseries/normal_finished/try00/POSCAR +12 -0
- data/test/calcseries/normal_finished/try00/POTCAR +2 -0
- data/test/calcseries/normal_finished/try00/lock +0 -0
- data/test/calcseries/normal_finished/try01/CONTCAR +17 -0
- data/test/calcseries/normal_finished/try01/INCAR +28 -0
- data/test/calcseries/normal_finished/try01/KPOINTS +6 -0
- data/test/calcseries/normal_finished/try01/OUTCAR +33 -0
- data/test/calcseries/normal_finished/try01/POSCAR +12 -0
- data/test/calcseries/normal_finished/try01/POTCAR +2 -0
- data/test/calcseries/normal_finished/try01/lock +0 -0
- data/test/calcseries/not_finished/try00/CONTCAR +17 -0
- data/test/calcseries/not_finished/try00/INCAR +28 -0
- data/test/calcseries/not_finished/try00/KPOINTS +6 -0
- data/test/calcseries/not_finished/try00/OUTCAR +38 -0
- data/test/calcseries/not_finished/try00/POSCAR +12 -0
- data/test/calcseries/not_finished/try00/POTCAR +2 -0
- data/test/calcseries/not_finished/try00/lock +0 -0
- data/test/helper.rb +17 -0
- data/test/incar/INCAR.00 +35 -0
- data/test/incar/INCAR.01 +28 -0
- data/test/kpoints/g123-456 +6 -0
- data/test/kpoints/m123-456 +6 -0
- data/test/outcar/01-03-INT.OUTCAR +619 -0
- data/test/outcar/01-13-FIN.OUTCAR +1436 -0
- data/test/outcar/02-05-FIN.OUTCAR +2025 -0
- data/test/outcar/03-05-FIN.OUTCAR +2602 -0
- data/test/outcar/10-01-FIN.OUTCAR +437 -0
- data/test/poscar/NOT_POSCAR +0 -0
- data/test/poscar/POSCAR.00 +10 -0
- data/test/poscar/POSCAR.01 +12 -0
- data/test/poscarparser/POSCAR.00 +10 -0
- data/test/poscarparser/POSCAR.01 +12 -0
- data/test/potcar/POTCAR +5279 -0
- data/test/potcar/POTCAR.allElement +165 -0
- data/test/potcar/POTCAR.dummy +3 -0
- data/test/repeatVasp/Iter2-Nsw2.00/INCAR +35 -0
- data/test/repeatVasp/Iter2-Nsw2.00/KPOINTS +6 -0
- data/test/repeatVasp/Iter2-Nsw2.00/POSCAR +12 -0
- data/test/repeatVasp/Iter2-Nsw2.00/POTCAR +3151 -0
- data/test/repeatVasp/test.sh +3 -0
- data/test/test_calcinspector.rb +53 -0
- data/test/test_calcrepeater.rb +69 -0
- data/test/test_calcseries.rb +77 -0
- data/test/test_incar.rb +126 -0
- data/test/test_kpoints.rb +110 -0
- data/test/test_outcar.rb +162 -0
- data/test/test_poscar.rb +209 -0
- data/test/test_potcar.rb +65 -0
- data/test/test_vaspdir.rb +253 -0
- data/test/vaspdir/IBRION-1-NSW000-OUTCAR-Iter1/CONTCAR +17 -0
- data/test/vaspdir/IBRION-1-NSW000-OUTCAR-Iter1/INCAR +27 -0
- data/test/vaspdir/IBRION-1-NSW000-OUTCAR-Iter1/KPOINTS +6 -0
- data/test/vaspdir/IBRION-1-NSW000-OUTCAR-Iter1/OUTCAR +1436 -0
- data/test/vaspdir/IBRION-1-NSW000-OUTCAR-Iter1/POSCAR +12 -0
- data/test/vaspdir/IBRION-1-NSW000-OUTCAR-Iter1/POTCAR +3151 -0
- data/test/vaspdir/IBRION-1-NSW000-OUTCAR-Iter1/lock +0 -0
- data/test/vaspdir/ISIF2-NSW000-OUTCAR-Iter1/CONTCAR +17 -0
- data/test/vaspdir/ISIF2-NSW000-OUTCAR-Iter1/INCAR +28 -0
- data/test/vaspdir/ISIF2-NSW000-OUTCAR-Iter1/KPOINTS +6 -0
- data/test/vaspdir/ISIF2-NSW000-OUTCAR-Iter1/OUTCAR +1436 -0
- data/test/vaspdir/ISIF2-NSW000-OUTCAR-Iter1/POSCAR +12 -0
- data/test/vaspdir/ISIF2-NSW000-OUTCAR-Iter1/POTCAR +3151 -0
- data/test/vaspdir/ISIF2-NSW000-OUTCAR-Iter1/lock +0 -0
- data/test/vaspdir/ISIF2-NSW001-OUTCAR-Iter1/CONTCAR +17 -0
- data/test/vaspdir/ISIF2-NSW001-OUTCAR-Iter1/INCAR +28 -0
- data/test/vaspdir/ISIF2-NSW001-OUTCAR-Iter1/KPOINTS +6 -0
- data/test/vaspdir/ISIF2-NSW001-OUTCAR-Iter1/OUTCAR +1436 -0
- data/test/vaspdir/ISIF2-NSW001-OUTCAR-Iter1/POSCAR +12 -0
- data/test/vaspdir/ISIF2-NSW001-OUTCAR-Iter1/POTCAR +3151 -0
- data/test/vaspdir/ISIF2-NSW001-OUTCAR-Iter1/lock +0 -0
- data/test/vaspdir/ISIF2-NSW100-OUTCAR-Iter1/CONTCAR +17 -0
- data/test/vaspdir/ISIF2-NSW100-OUTCAR-Iter1/INCAR +28 -0
- data/test/vaspdir/ISIF2-NSW100-OUTCAR-Iter1/KPOINTS +6 -0
- data/test/vaspdir/ISIF2-NSW100-OUTCAR-Iter1/OUTCAR +1436 -0
- data/test/vaspdir/ISIF2-NSW100-OUTCAR-Iter1/POSCAR +12 -0
- data/test/vaspdir/ISIF2-NSW100-OUTCAR-Iter1/POTCAR +3151 -0
- data/test/vaspdir/ISIF2-NSW100-OUTCAR-Iter1/lock +0 -0
- data/test/vaspdir/ISIF2-NSW100-OUTCAR-Iter3/CONTCAR +17 -0
- data/test/vaspdir/ISIF2-NSW100-OUTCAR-Iter3/INCAR +28 -0
- data/test/vaspdir/ISIF2-NSW100-OUTCAR-Iter3/KPOINTS +6 -0
- data/test/vaspdir/ISIF2-NSW100-OUTCAR-Iter3/OUTCAR +2602 -0
- data/test/vaspdir/ISIF2-NSW100-OUTCAR-Iter3/POSCAR +12 -0
- data/test/vaspdir/ISIF2-NSW100-OUTCAR-Iter3/POTCAR +3151 -0
- data/test/vaspdir/ISIF2-NSW100-OUTCAR-Iter3/lock +0 -0
- data/test/vaspdir/ISIF3-NSW000-OUTCAR-Iter1/CONTCAR +17 -0
- data/test/vaspdir/ISIF3-NSW000-OUTCAR-Iter1/INCAR +28 -0
- data/test/vaspdir/ISIF3-NSW000-OUTCAR-Iter1/KPOINTS +6 -0
- data/test/vaspdir/ISIF3-NSW000-OUTCAR-Iter1/OUTCAR +1436 -0
- data/test/vaspdir/ISIF3-NSW000-OUTCAR-Iter1/POSCAR +12 -0
- data/test/vaspdir/ISIF3-NSW000-OUTCAR-Iter1/POTCAR +3151 -0
- data/test/vaspdir/ISIF3-NSW000-OUTCAR-Iter1/lock +0 -0
- data/test/vaspdir/ISIF3-NSW001-OUTCAR-Iter1/CONTCAR +17 -0
- data/test/vaspdir/ISIF3-NSW001-OUTCAR-Iter1/INCAR +28 -0
- data/test/vaspdir/ISIF3-NSW001-OUTCAR-Iter1/KPOINTS +6 -0
- data/test/vaspdir/ISIF3-NSW001-OUTCAR-Iter1/OUTCAR +1436 -0
- data/test/vaspdir/ISIF3-NSW001-OUTCAR-Iter1/POSCAR +12 -0
- data/test/vaspdir/ISIF3-NSW001-OUTCAR-Iter1/POTCAR +3151 -0
- data/test/vaspdir/ISIF3-NSW001-OUTCAR-Iter1/lock +0 -0
- data/test/vaspdir/ISIF3-NSW002-OUTCAR-Iter2/CONTCAR +17 -0
- data/test/vaspdir/ISIF3-NSW002-OUTCAR-Iter2/INCAR +28 -0
- data/test/vaspdir/ISIF3-NSW002-OUTCAR-Iter2/KPOINTS +6 -0
- data/test/vaspdir/ISIF3-NSW002-OUTCAR-Iter2/OUTCAR +2025 -0
- data/test/vaspdir/ISIF3-NSW002-OUTCAR-Iter2/POSCAR +12 -0
- data/test/vaspdir/ISIF3-NSW002-OUTCAR-Iter2/POTCAR +3151 -0
- data/test/vaspdir/ISIF3-NSW002-OUTCAR-Iter2/lock +0 -0
- data/test/vaspdir/ISIF3-NSW100-OUTCAR-Iter1-INT/CONTCAR +0 -0
- data/test/vaspdir/ISIF3-NSW100-OUTCAR-Iter1-INT/INCAR +28 -0
- data/test/vaspdir/ISIF3-NSW100-OUTCAR-Iter1-INT/KPOINTS +6 -0
- data/test/vaspdir/ISIF3-NSW100-OUTCAR-Iter1-INT/OUTCAR +619 -0
- data/test/vaspdir/ISIF3-NSW100-OUTCAR-Iter1-INT/POSCAR +12 -0
- data/test/vaspdir/ISIF3-NSW100-OUTCAR-Iter1-INT/POTCAR +3151 -0
- data/test/vaspdir/ISIF3-NSW100-OUTCAR-Iter1-INT/lock +0 -0
- data/test/vaspdir/ISIF3-NSW100-OUTCAR-Iter3/CONTCAR +17 -0
- data/test/vaspdir/ISIF3-NSW100-OUTCAR-Iter3/INCAR +28 -0
- data/test/vaspdir/ISIF3-NSW100-OUTCAR-Iter3/KPOINTS +6 -0
- data/test/vaspdir/ISIF3-NSW100-OUTCAR-Iter3/OUTCAR +2602 -0
- data/test/vaspdir/ISIF3-NSW100-OUTCAR-Iter3/POSCAR +12 -0
- data/test/vaspdir/ISIF3-NSW100-OUTCAR-Iter3/POTCAR +3151 -0
- data/test/vaspdir/ISIF3-NSW100-OUTCAR-Iter3/lock +0 -0
- data/test/vaspdir/PI/INCAR +28 -0
- data/test/vaspdir/PI/KPOINTS +5 -0
- data/test/vaspdir/PI/PI12345 +0 -0
- data/test/vaspdir/PI/POSCAR +57 -0
- data/test/vaspdir/PI/POTCAR +698 -0
- data/test/vaspdir/lack-INCAR/KPOINTS +5 -0
- data/test/vaspdir/lack-INCAR/POSCAR +57 -0
- data/test/vaspdir/lack-INCAR/POTCAR +698 -0
- data/test/vaspdir/lack-KPOINTS/INCAR +28 -0
- data/test/vaspdir/lack-KPOINTS/POSCAR +57 -0
- data/test/vaspdir/lack-KPOINTS/POTCAR +698 -0
- data/test/vaspdir/lack-POSCAR/INCAR +28 -0
- data/test/vaspdir/lack-POSCAR/KPOINTS +5 -0
- data/test/vaspdir/lack-POSCAR/POTCAR +698 -0
- data/test/vaspdir/lack-POTCAR/INCAR +28 -0
- data/test/vaspdir/lack-POTCAR/KPOINTS +5 -0
- data/test/vaspdir/lack-POTCAR/POSCAR +57 -0
- data/test/vaspdir/lock/INCAR +28 -0
- data/test/vaspdir/lock/KPOINTS +5 -0
- data/test/vaspdir/lock/POSCAR +57 -0
- data/test/vaspdir/lock/POTCAR +698 -0
- data/test/vaspdir/lock/lock +0 -0
- data/test/vaspdir/lock-PI/INCAR +28 -0
- data/test/vaspdir/lock-PI/KPOINTS +5 -0
- data/test/vaspdir/lock-PI/PI12345 +0 -0
- data/test/vaspdir/lock-PI/POSCAR +57 -0
- data/test/vaspdir/lock-PI/POTCAR +698 -0
- data/test/vaspdir/lock-PI/lock +0 -0
- data/test/vaspdir/next-try00/CONTCAR +17 -0
- data/test/vaspdir/next-try00/INCAR +28 -0
- data/test/vaspdir/next-try00/KPOINTS +6 -0
- data/test/vaspdir/next-try00/OUTCAR +2025 -0
- data/test/vaspdir/next-try00/POSCAR +12 -0
- data/test/vaspdir/next-try00/POTCAR +3151 -0
- data/test/vaspdir/next-try00/lock +0 -0
- data/test/vaspdir/not-yet-ISIF2/INCAR +28 -0
- data/test/vaspdir/not-yet-ISIF2/KPOINTS +5 -0
- data/test/vaspdir/not-yet-ISIF2/PI17489 +2 -0
- data/test/vaspdir/not-yet-ISIF2/PI17736 +2 -0
- data/test/vaspdir/not-yet-ISIF2/PI1858 +2 -0
- data/test/vaspdir/not-yet-ISIF2/PI1866 +2 -0
- data/test/vaspdir/not-yet-ISIF2/PI2059 +2 -0
- data/test/vaspdir/not-yet-ISIF2/POSCAR +57 -0
- data/test/vaspdir/not-yet-ISIF2/POTCAR +698 -0
- data/test/vaspdir/not-yet-ISIF3/INCAR +28 -0
- data/test/vaspdir/not-yet-ISIF3/KPOINTS +5 -0
- data/test/vaspdir/not-yet-ISIF3/POSCAR +57 -0
- data/test/vaspdir/not-yet-ISIF3/POTCAR +698 -0
- data/vasputils.gemspec +272 -0
- metadata +409 -0
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#! /usr/bin/env ruby
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# coding: utf-8
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require "test/unit"
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require "vasputils/calcinspector.rb"
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class YetCalc
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def started? ; return false; end
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def normal_ended? ; return false; end
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def to_be_continued?; return false; end
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def finished? ; return false; end
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end
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class StartedCalc
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def started? ; return true ; end
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def normal_ended? ; return false; end
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def to_be_continued?; return false; end
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def finished? ; return false; end
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end
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class NextCalc
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def started? ; return true ; end
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def normal_ended? ; return true ; end
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def to_be_continued?; return true ; end
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def finished? ; return false; end
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end
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class FinishedCalc
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def started? ; return true ; end
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def normal_ended? ; return true ; end
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def to_be_continued?; return false; end
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def finished? ; return true ; end
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end
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class TC_ListCalculation < Test::Unit::TestCase
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def setup
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@dc00 = YetCalc.new
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@dc01 = StartedCalc.new
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@dc02 = NextCalc.new
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@dc03 = FinishedCalc.new
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end
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def test_self_inspect
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assert_equal("YET", CalcInspector.inspect(@dc00))
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assert_equal("STARTED", CalcInspector.inspect(@dc01))
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assert_equal("NEXT", CalcInspector.inspect(@dc02))
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assert_equal("FINISHED", CalcInspector.inspect(@dc03))
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end
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end
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#! /usr/bin/env ruby
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# coding: utf-8
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require "test/unit"
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require "stringio"
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require "vasputils/calcrepeater.rb"
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# assert_equal( cor, data)
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# assert_in_delta( cor, data, $tolerance )
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# assert_raise( RuntimeError ){}
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class DummyCalc
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attr_reader :num
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def initialize
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@num = 0
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@internal_steps = 0
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@lock = false
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end
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def calculatable?
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return (! @lock)
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end
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def calculate
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@lock = true
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# calculate
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10.times { @internal_steps += 1 }
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end
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def normal_ended?
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return @internal_steps == 10
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end
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def to_be_continued?
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return @num < 3
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end
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def next
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@num += 1
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@lock = false
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@internal_steps = 0
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end
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def teardown
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# do nothing
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end
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def name
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"calc00"
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end
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end
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class TC_CalcRepeater < Test::Unit::TestCase
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def setup
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@cr00 = CalcRepeater.new
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@dc00 = DummyCalc.new
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end
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def test_repeat
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io = StringIO.new
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assert_equal(0, @dc00.num)
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@cr00.repeat(@dc00, io)
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assert_equal(3, @dc00.num)
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end
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end
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#! /usr/bin/env ruby
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# coding: utf-8
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require "test/unit"
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require "vasputils/calcseries.rb"
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class CalcSeries
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public :belonged_calculations
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end
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class TC_CalcSeries < Test::Unit::TestCase
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def setup
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@cs00 = CalcSeries.new("test/calcseries/dup_finished" )
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@cs01 = CalcSeries.new("test/calcseries/normal_finished")
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@cs02 = CalcSeries.new("test/calcseries/not_finished" )
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end
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def test_self_guess
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assert_equal(VaspDir, CalcSeries.guess("test/calcseries/dup_finished" ))
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assert_equal(VaspDir, CalcSeries.guess("test/calcseries/normal_finished"))
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assert_equal(VaspDir, CalcSeries.guess("test/calcseries/not_finished" ))
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end
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def test_finished_calc
|
25
|
+
assert_raise(CalcSeries::FinishedCalcError){@cs00.finished_calc}
|
26
|
+
assert_equal("test/calcseries/normal_finished/try01", @cs01.finished_calc.name)
|
27
|
+
assert_raise(CalcSeries::FinishedCalcError){@cs02.finished_calc}
|
28
|
+
end
|
29
|
+
|
30
|
+
# def test_internal_steps
|
31
|
+
# assert_equal(26, @cs00.internal_steps)
|
32
|
+
# assert_equal(36, @cs01.internal_steps)
|
33
|
+
# assert_equal(23, @cs02.internal_steps)
|
34
|
+
# end
|
35
|
+
#
|
36
|
+
# def test_external_steps
|
37
|
+
# assert_equal(2, @cs00.external_steps)
|
38
|
+
# assert_equal(4, @cs01.external_steps)
|
39
|
+
# assert_equal(3, @cs02.external_steps)
|
40
|
+
# end
|
41
|
+
#
|
42
|
+
# def test_elapsed_time
|
43
|
+
# assert_in_delta(328.268, @cs00.elapsed_time)
|
44
|
+
# assert_in_delta(328.268, @cs01.elapsed_time)
|
45
|
+
# assert_in_delta(164.134, @cs02.elapsed_time)
|
46
|
+
# end
|
47
|
+
#
|
48
|
+
# def test_belonged_calculations
|
49
|
+
# t = @cs00.belonged_calculations
|
50
|
+
# assert_equal(2, t.size)
|
51
|
+
# assert_equal(VaspDir, t[0].class)
|
52
|
+
# assert_equal(VaspDir, t[1].class)
|
53
|
+
# #pp t
|
54
|
+
# assert_equal("test/calcseries/dup_finished/try00", t[0].name)
|
55
|
+
# assert_equal("test/calcseries/dup_finished/try01", t[1].name)
|
56
|
+
#
|
57
|
+
# t = @cs01.belonged_calculations
|
58
|
+
# assert_equal(2, t.size)
|
59
|
+
# assert_equal(VaspDir, t[0].class)
|
60
|
+
# assert_equal(VaspDir, t[1].class)
|
61
|
+
# assert_equal("test/calcseries/normal_finished/try00", t[0].name)
|
62
|
+
# assert_equal("test/calcseries/normal_finished/try01", t[1].name)
|
63
|
+
#
|
64
|
+
# t = @cs02.belonged_calculations
|
65
|
+
# assert_equal(1, t.size)
|
66
|
+
# assert_equal(VaspDir, t[0].class)
|
67
|
+
# assert_equal("test/calcseries/not_finished/try00", t[0].name)
|
68
|
+
# end
|
69
|
+
#
|
70
|
+
# def test_normal_ended?
|
71
|
+
# assert_equal(false, @cs00.normal_ended?)
|
72
|
+
# assert_equal(true , @cs01.normal_ended?)
|
73
|
+
# assert_equal(false, @cs02.normal_ended?)
|
74
|
+
# end
|
75
|
+
|
76
|
+
end
|
77
|
+
|
data/test/test_incar.rb
ADDED
@@ -0,0 +1,126 @@
|
|
1
|
+
#! /usr/bin/env ruby
|
2
|
+
# coding: utf-8
|
3
|
+
|
4
|
+
require "test/unit"
|
5
|
+
require "vasputils/incar.rb"
|
6
|
+
require "stringio"
|
7
|
+
|
8
|
+
# assert_equal( cor, data)
|
9
|
+
# assert_in_delta( cor, data, $tolerance )
|
10
|
+
# assert_raise( RuntimeError ){}
|
11
|
+
|
12
|
+
class TC_Incar < Test::Unit::TestCase
|
13
|
+
#def setup
|
14
|
+
# @k = Incar.new
|
15
|
+
#end
|
16
|
+
|
17
|
+
SAMPLE_PAIRS = {
|
18
|
+
"SYSTEM" => "Untitled",
|
19
|
+
"PREC" => "High",
|
20
|
+
"IBRION" => "2",
|
21
|
+
"NSW" => "100",
|
22
|
+
"ISIF" => "2",
|
23
|
+
"ENCUT" => "400",
|
24
|
+
"NELM" => "60",
|
25
|
+
"NELMIN" => "2",
|
26
|
+
"EDIFF" => "1.0e-05",
|
27
|
+
"EDIFFG" => "-0.02",
|
28
|
+
"VOSKOWN" => "1",
|
29
|
+
"NBLOCK" => "1",
|
30
|
+
"ISPIN" => "1",
|
31
|
+
"INIWAV" => "1",
|
32
|
+
"ISTART" => "1",
|
33
|
+
"ICHARG" => "1",
|
34
|
+
"LWAVE" => ".TRUE.",
|
35
|
+
"LCHARG" => ".TRUE.",
|
36
|
+
"ISMEAR" => "0",
|
37
|
+
"SIGMA" => "0.1",
|
38
|
+
"IALGO" => "38",
|
39
|
+
"LREAL" => "Auto",
|
40
|
+
"NGX" => "36",
|
41
|
+
"NGY" => "36",
|
42
|
+
"NGZ" => "42",
|
43
|
+
}
|
44
|
+
|
45
|
+
def test_self_parse
|
46
|
+
io = StringIO.new
|
47
|
+
io.puts "# SCF input for VASP"
|
48
|
+
io.puts "# Note that VASP uses the FIRST occurence of a keyword"
|
49
|
+
io.puts "# if single point calc, IBRION = -1, NSW = 0, and comment out ISIF"
|
50
|
+
io.puts ""
|
51
|
+
io.puts "SYSTEM = Untitled (VASP)"
|
52
|
+
io.puts " PREC = High"
|
53
|
+
io.puts " IBRION = 2 #-1:atoms not moved, 1:quasi-Newton, 2:conjugate-gradient"
|
54
|
+
io.puts " NSW = 100 #maximum number of ionic steps"
|
55
|
+
io.puts " ISIF = 2"
|
56
|
+
io.puts " ENCUT = 400"
|
57
|
+
io.puts " NELM = 60 #maximum number of electronic steps"
|
58
|
+
io.puts " NELMIN = 2 #minimum number of electronic steps"
|
59
|
+
io.puts " EDIFF = 1.0e-05"
|
60
|
+
io.puts " EDIFFG = -0.02"
|
61
|
+
io.puts " VOSKOWN = 1"
|
62
|
+
io.puts " NBLOCK = 1"
|
63
|
+
io.puts " ISPIN = 1 #1:non spin polarized, 2:spin polarized"
|
64
|
+
io.puts " INIWAV = 1"
|
65
|
+
io.puts " ISTART = 1"
|
66
|
+
io.puts " ICHARG = 1"
|
67
|
+
io.puts " LWAVE = .TRUE."
|
68
|
+
io.puts " LCHARG = .TRUE."
|
69
|
+
io.puts " ISMEAR = 0"
|
70
|
+
io.puts " SIGMA = 0.1"
|
71
|
+
io.puts " IALGO = 38 #38:KosugiAlgorithm, 48:RMM-DIIS"
|
72
|
+
io.puts " LREAL = Auto #fast & not accurate"
|
73
|
+
io.puts " NGX = 36"
|
74
|
+
io.puts " NGY = 36"
|
75
|
+
io.puts " NGZ = 42"
|
76
|
+
io.rewind
|
77
|
+
pairs = Incar.parse(io)
|
78
|
+
assert_equal(SAMPLE_PAIRS, pairs)
|
79
|
+
end
|
80
|
+
|
81
|
+
def test_self_load_file
|
82
|
+
pairs = Incar.load_file "test/incar/INCAR.00"
|
83
|
+
assert_equal(SAMPLE_PAIRS, pairs)
|
84
|
+
|
85
|
+
corrects = {
|
86
|
+
"SYSTEM" => "Untitled",
|
87
|
+
"PREC" => "High",
|
88
|
+
"IBRION" => "2",
|
89
|
+
"NSW" => "0",
|
90
|
+
"ISIF" => "2",
|
91
|
+
"ENCUT" => "400",
|
92
|
+
"NELM" => "60",
|
93
|
+
"NELMIN" => "2",
|
94
|
+
"EDIFF" => "1.0e-05",
|
95
|
+
"EDIFFG" => "-0.02",
|
96
|
+
"VOSKOWN" => "1",
|
97
|
+
"NBLOCK" => "1",
|
98
|
+
"ISPIN" => "1",
|
99
|
+
"INIWAV" => "1",
|
100
|
+
"ISTART" => "1",
|
101
|
+
"ICHARG" => "1",
|
102
|
+
"LWAVE" => ".TRUE.",
|
103
|
+
"LCHARG" => ".TRUE.",
|
104
|
+
"ISMEAR" => "0",
|
105
|
+
"SIGMA" => "0.1",
|
106
|
+
"IALGO" => "38",
|
107
|
+
"LREAL" => "Auto",
|
108
|
+
"NGX" => "36",
|
109
|
+
"NGY" => "36",
|
110
|
+
"NGZ" => "42",
|
111
|
+
}
|
112
|
+
pairs = Incar.load_file "test/incar/INCAR.01"
|
113
|
+
assert_equal(corrects, pairs)
|
114
|
+
|
115
|
+
# not exist
|
116
|
+
assert_raise(Errno::ENOENT){Incar.load_file("")}
|
117
|
+
end
|
118
|
+
|
119
|
+
#def test_dump
|
120
|
+
#
|
121
|
+
#
|
122
|
+
# TODO
|
123
|
+
#end
|
124
|
+
|
125
|
+
end
|
126
|
+
|
@@ -0,0 +1,110 @@
|
|
1
|
+
#! /usr/bin/env ruby
|
2
|
+
# coding: utf-8
|
3
|
+
|
4
|
+
require "test/unit"
|
5
|
+
require "stringio"
|
6
|
+
require "vasputils/kpoints.rb"
|
7
|
+
|
8
|
+
class TC_Kpoints < Test::Unit::TestCase
|
9
|
+
|
10
|
+
$tolerance = 1E-10
|
11
|
+
|
12
|
+
def test_self_parse
|
13
|
+
io = StringIO.new
|
14
|
+
io.puts "Automatic mesh"
|
15
|
+
io.puts "0"
|
16
|
+
io.puts "Monkhorst Pack"
|
17
|
+
io.puts " 1 2 3"
|
18
|
+
io.puts " 0.4 0.5 0.6"
|
19
|
+
io.rewind
|
20
|
+
k00 = Kpoints.parse(io)
|
21
|
+
assert_equal("Automatic mesh", k00[:comment])
|
22
|
+
assert_equal(:monkhorst, k00[:type])
|
23
|
+
assert_equal([1, 2, 3], k00[:mesh])
|
24
|
+
#pp k00
|
25
|
+
assert_in_delta(0.4, k00[:shift][0], $tolerance)
|
26
|
+
assert_in_delta(0.5, k00[:shift][1], $tolerance)
|
27
|
+
assert_in_delta(0.6, k00[:shift][2], $tolerance)
|
28
|
+
|
29
|
+
io = StringIO.new
|
30
|
+
io.puts "Automatic mesh"
|
31
|
+
io.puts "0"
|
32
|
+
io.puts "Gamma-Center"
|
33
|
+
io.puts " 1 2 3"
|
34
|
+
io.puts " 0.4 0.5 0.6"
|
35
|
+
io.rewind
|
36
|
+
k01 = Kpoints.parse(io)
|
37
|
+
assert_equal("Automatic mesh", k01[:comment])
|
38
|
+
assert_equal(:gamma_center, k01[:type])
|
39
|
+
assert_equal([1, 2, 3], k01[:mesh])
|
40
|
+
assert_in_delta(0.4, k01[:shift][0])
|
41
|
+
assert_in_delta(0.5, k01[:shift][1])
|
42
|
+
assert_in_delta(0.6, k01[:shift][2])
|
43
|
+
end
|
44
|
+
|
45
|
+
def test_self_load_file
|
46
|
+
k00 = Kpoints.load_file("test/kpoints/m123-456")
|
47
|
+
assert_equal("Automatic mesh", k00[:comment])
|
48
|
+
assert_equal(:monkhorst, k00[:type])
|
49
|
+
assert_equal([1, 2, 3], k00[:mesh])
|
50
|
+
assert_in_delta(0.4, k00[:shift][0])
|
51
|
+
assert_in_delta(0.5, k00[:shift][1])
|
52
|
+
assert_in_delta(0.6, k00[:shift][2])
|
53
|
+
|
54
|
+
k01 = Kpoints.load_file("test/kpoints/g123-456")
|
55
|
+
assert_equal("Automatic mesh", k01[:comment])
|
56
|
+
assert_equal(:gamma_center, k01[:type])
|
57
|
+
assert_equal([1, 2, 3], k01[:mesh])
|
58
|
+
assert_in_delta(0.4, k01[:shift][0])
|
59
|
+
assert_in_delta(0.5, k01[:shift][1])
|
60
|
+
assert_in_delta(0.6, k01[:shift][2])
|
61
|
+
end
|
62
|
+
|
63
|
+
def test_dump
|
64
|
+
hash = {
|
65
|
+
:comment => "Automatic mesh",
|
66
|
+
:type => :monkhorst,
|
67
|
+
:mesh => [1, 2, 3],
|
68
|
+
:shift => [0.4, 0.5, 0.6],
|
69
|
+
}
|
70
|
+
io = StringIO.new
|
71
|
+
Kpoints.dump(hash, io)
|
72
|
+
io.rewind
|
73
|
+
results = io.readlines
|
74
|
+
corrects = [
|
75
|
+
"Automatic mesh\n",
|
76
|
+
"0\n",
|
77
|
+
"Monkhorst\n",
|
78
|
+
"1 2 3\n",
|
79
|
+
"0.4 0.5 0.6\n",
|
80
|
+
]
|
81
|
+
corrects.each_with_index do |line, index|
|
82
|
+
assert_equal(line, results[index], "line #{index + 1}")
|
83
|
+
end
|
84
|
+
assert_equal(corrects.size, results.size)
|
85
|
+
|
86
|
+
hash = {
|
87
|
+
:comment => "Automatic mesh",
|
88
|
+
:type => :gamma_center,
|
89
|
+
:mesh => [1, 2, 3],
|
90
|
+
:shift => [0.4, 0.5, 0.6],
|
91
|
+
}
|
92
|
+
io = StringIO.new
|
93
|
+
Kpoints.dump(hash, io)
|
94
|
+
io.rewind
|
95
|
+
results = io.readlines
|
96
|
+
corrects = [
|
97
|
+
"Automatic mesh\n",
|
98
|
+
"0\n",
|
99
|
+
"Gamma_center\n",
|
100
|
+
"1 2 3\n",
|
101
|
+
"0.4 0.5 0.6\n",
|
102
|
+
]
|
103
|
+
corrects.each_with_index do |line, index|
|
104
|
+
assert_equal(line, results[index], "line #{index + 1}")
|
105
|
+
end
|
106
|
+
assert_equal(corrects.size, results.size)
|
107
|
+
end
|
108
|
+
|
109
|
+
end
|
110
|
+
|
data/test/test_outcar.rb
ADDED
@@ -0,0 +1,162 @@
|
|
1
|
+
#! /usr/bin/ruby
|
2
|
+
|
3
|
+
require 'test/unit'
|
4
|
+
require 'vasputils/outcar.rb'
|
5
|
+
|
6
|
+
class TC_Outcar < Test::Unit::TestCase
|
7
|
+
$tolerance = 10**(-10)
|
8
|
+
|
9
|
+
def setup
|
10
|
+
@o01 = Outcar.load_file( "test/outcar/01-13-FIN.OUTCAR" )
|
11
|
+
@o01int = Outcar.load_file( "test/outcar/01-03-INT.OUTCAR" )
|
12
|
+
@o02 = Outcar.load_file( "test/outcar/02-05-FIN.OUTCAR" )
|
13
|
+
@o03 = Outcar.load_file( "test/outcar/03-05-FIN.OUTCAR" )
|
14
|
+
@o04 = Outcar.load_file( "test/outcar/10-01-FIN.OUTCAR" )
|
15
|
+
end
|
16
|
+
|
17
|
+
def test_self_load_file
|
18
|
+
assert_raise(Errno::ENOENT){Outcar.load_file( "" )}
|
19
|
+
end
|
20
|
+
|
21
|
+
#def test_nsw
|
22
|
+
# assert_equal(100, @o01.nsw )
|
23
|
+
# assert_equal(100, @o01int.nsw )
|
24
|
+
# assert_equal( 2, @o02.nsw )
|
25
|
+
# assert_equal(100, @o03.nsw )
|
26
|
+
#end
|
27
|
+
|
28
|
+
def test_normal_ended?
|
29
|
+
assert_equal(true , @o01 [:normal_ended])
|
30
|
+
assert_equal(false, @o01int[:normal_ended])
|
31
|
+
assert_equal(true , @o02 [:normal_ended])
|
32
|
+
assert_equal(true , @o03 [:normal_ended])
|
33
|
+
assert_equal(true , @o04 [:normal_ended])
|
34
|
+
end
|
35
|
+
|
36
|
+
def test_ionic_steps
|
37
|
+
assert_equal( 1, @o01 [:ionic_steps])
|
38
|
+
assert_equal( 1, @o01int[:ionic_steps])
|
39
|
+
assert_equal( 2, @o02 [:ionic_steps])
|
40
|
+
assert_equal( 3, @o03 [:ionic_steps])
|
41
|
+
assert_equal(10, @o04 [:ionic_steps])
|
42
|
+
end
|
43
|
+
|
44
|
+
def test_electronic_steps
|
45
|
+
assert_equal(13, @o01 [:electronic_steps])
|
46
|
+
assert_equal( 3, @o01int[:electronic_steps])
|
47
|
+
assert_equal(18, @o02 [:electronic_steps])
|
48
|
+
assert_equal(23, @o03 [:electronic_steps])
|
49
|
+
assert_equal(30, @o04 [:electronic_steps])
|
50
|
+
end
|
51
|
+
|
52
|
+
def test_totens
|
53
|
+
assert_in_delta( 64.17161363, @o01int[:totens][ 0], $tolerance )
|
54
|
+
assert_in_delta( -11.78292768, @o01int[:totens][ 1], $tolerance )
|
55
|
+
assert_in_delta( -19.56675908, @o01int[:totens][ 2], $tolerance )
|
56
|
+
|
57
|
+
assert_in_delta( 64.17161363, @o01 [:totens][ 0], $tolerance)
|
58
|
+
assert_in_delta( -11.78292768, @o01 [:totens][ 1], $tolerance)
|
59
|
+
assert_in_delta( -19.56675908, @o01 [:totens][ 2], $tolerance)
|
60
|
+
assert_in_delta( -19.74290414, @o01 [:totens][ 3], $tolerance)
|
61
|
+
assert_in_delta( -19.74509430, @o01 [:totens][ 4], $tolerance)
|
62
|
+
assert_in_delta( -15.85257458, @o01 [:totens][ 5], $tolerance)
|
63
|
+
assert_in_delta( -15.67846403, @o01 [:totens][ 6], $tolerance)
|
64
|
+
assert_in_delta( -15.65919488, @o01 [:totens][ 7], $tolerance)
|
65
|
+
assert_in_delta( -15.64209986, @o01 [:totens][ 8], $tolerance)
|
66
|
+
assert_in_delta( -15.64268703, @o01 [:totens][ 9], $tolerance)
|
67
|
+
assert_in_delta( -15.64251873, @o01 [:totens][10], $tolerance)
|
68
|
+
assert_in_delta( -15.64251991, @o01 [:totens][11], $tolerance)
|
69
|
+
assert_in_delta( -15.64251763, @o01 [:totens][12], $tolerance)
|
70
|
+
assert_in_delta( -15.642518 , @o01 [:totens][13], $tolerance)
|
71
|
+
|
72
|
+
assert_in_delta( 64.17161363, @o02 [:totens][ 0], $tolerance )
|
73
|
+
assert_in_delta( -11.78292768, @o02 [:totens][ 1], $tolerance )
|
74
|
+
assert_in_delta( -19.56675908, @o02 [:totens][ 2], $tolerance )
|
75
|
+
assert_in_delta( -19.74290414, @o02 [:totens][ 3], $tolerance )
|
76
|
+
assert_in_delta( -19.74509430, @o02 [:totens][ 4], $tolerance )
|
77
|
+
assert_in_delta( -15.85257458, @o02 [:totens][ 5], $tolerance )
|
78
|
+
assert_in_delta( -15.67846403, @o02 [:totens][ 6], $tolerance )
|
79
|
+
assert_in_delta( -15.65919488, @o02 [:totens][ 7], $tolerance )
|
80
|
+
assert_in_delta( -15.64209986, @o02 [:totens][ 8], $tolerance )
|
81
|
+
assert_in_delta( -15.64268703, @o02 [:totens][ 9], $tolerance )
|
82
|
+
assert_in_delta( -15.64251873, @o02 [:totens][10], $tolerance )
|
83
|
+
assert_in_delta( -15.64251991, @o02 [:totens][11], $tolerance )
|
84
|
+
assert_in_delta( -15.64251763, @o02 [:totens][12], $tolerance )
|
85
|
+
assert_in_delta( -15.642518 , @o02 [:totens][13], $tolerance )
|
86
|
+
assert_in_delta( -15.65990112, @o02 [:totens][14], $tolerance )
|
87
|
+
assert_in_delta( -15.64955447, @o02 [:totens][15], $tolerance )
|
88
|
+
assert_in_delta( -15.64799040, @o02 [:totens][16], $tolerance )
|
89
|
+
assert_in_delta( -15.64765795, @o02 [:totens][17], $tolerance )
|
90
|
+
assert_in_delta( -15.64765312, @o02 [:totens][18], $tolerance )
|
91
|
+
assert_in_delta( -15.647653 , @o02 [:totens][19], $tolerance )
|
92
|
+
|
93
|
+
assert_in_delta( 64.17161363, @o03 [:totens][ 0], $tolerance )
|
94
|
+
assert_in_delta( -11.78292768, @o03 [:totens][ 1], $tolerance )
|
95
|
+
assert_in_delta( -19.56675908, @o03 [:totens][ 2], $tolerance )
|
96
|
+
assert_in_delta( -19.74290414, @o03 [:totens][ 3], $tolerance )
|
97
|
+
assert_in_delta( -19.74509430, @o03 [:totens][ 4], $tolerance )
|
98
|
+
assert_in_delta( -15.85257458, @o03 [:totens][ 5], $tolerance )
|
99
|
+
assert_in_delta( -15.67846403, @o03 [:totens][ 6], $tolerance )
|
100
|
+
assert_in_delta( -15.65919488, @o03 [:totens][ 7], $tolerance )
|
101
|
+
assert_in_delta( -15.64209986, @o03 [:totens][ 8], $tolerance )
|
102
|
+
assert_in_delta( -15.64268703, @o03 [:totens][ 9], $tolerance )
|
103
|
+
assert_in_delta( -15.64251873, @o03 [:totens][10], $tolerance )
|
104
|
+
assert_in_delta( -15.64251991, @o03 [:totens][11], $tolerance )
|
105
|
+
assert_in_delta( -15.64251763, @o03 [:totens][12], $tolerance )
|
106
|
+
assert_in_delta( -15.642518 , @o03 [:totens][13], $tolerance )
|
107
|
+
assert_in_delta( -15.65990112, @o03 [:totens][14], $tolerance )
|
108
|
+
assert_in_delta( -15.64955447, @o03 [:totens][15], $tolerance )
|
109
|
+
assert_in_delta( -15.64799040, @o03 [:totens][16], $tolerance )
|
110
|
+
assert_in_delta( -15.64765795, @o03 [:totens][17], $tolerance )
|
111
|
+
assert_in_delta( -15.64765312, @o03 [:totens][18], $tolerance )
|
112
|
+
assert_in_delta( -15.647653 , @o03 [:totens][19], $tolerance )
|
113
|
+
assert_in_delta( -15.65100443, @o03 [:totens][20], $tolerance )
|
114
|
+
assert_in_delta( -15.64889598, @o03 [:totens][21], $tolerance )
|
115
|
+
assert_in_delta( -15.64857840, @o03 [:totens][22], $tolerance )
|
116
|
+
assert_in_delta( -15.64849678, @o03 [:totens][23], $tolerance )
|
117
|
+
assert_in_delta( -15.64849543, @o03 [:totens][24], $tolerance )
|
118
|
+
assert_in_delta( -15.648495 , @o03 [:totens][25], $tolerance )
|
119
|
+
|
120
|
+
#assert_in_delta( Iter1-Nsw0/OUTCAR:549: free energy TOTEN = -51450.70587600
|
121
|
+
#assert_in_delta( Iter1-Nsw0/OUTCAR:585: free energy TOTEN = -52760.43385845
|
122
|
+
#assert_in_delta( Iter1-Nsw0/OUTCAR:621: free energy TOTEN = -52974.33537688
|
123
|
+
#assert_in_delta( Iter1-Nsw0/OUTCAR:657: free energy TOTEN = -53114.51699744
|
124
|
+
#assert_in_delta( Iter1-Nsw0/OUTCAR:693: free energy TOTEN = -53178.90296722
|
125
|
+
#assert_in_delta( Iter1-Nsw0/OUTCAR:729: free energy TOTEN = -53226.44533651
|
126
|
+
#assert_in_delta( Iter1-Nsw0/OUTCAR:772: free energy TOTEN = -53233.03344036
|
127
|
+
#assert_in_delta( Iter1-Nsw0/OUTCAR:821: free energy TOTEN = -53232.27944261
|
128
|
+
#assert_in_delta( Iter1-Nsw0/OUTCAR:870: free energy TOTEN = -53232.72830304
|
129
|
+
#assert_in_delta( Iter1-Nsw0/OUTCAR:919: free energy TOTEN = -53232.71484487
|
130
|
+
#assert_in_delta( Iter1-Nsw0/OUTCAR:968: free energy TOTEN = -53232.70895409
|
131
|
+
#assert_in_delta( Iter1-Nsw0/OUTCAR:1017: free energy TOTEN = -53232.70751179
|
132
|
+
#assert_in_delta( Iter1-Nsw0/OUTCAR:1055: free energy TOTEN = -53232.70759898
|
133
|
+
#assert_in_delta( Iter1-Nsw0/OUTCAR:1463: free energy TOTEN = -53232.707599
|
134
|
+
end
|
135
|
+
|
136
|
+
def test_volume
|
137
|
+
assert_in_delta( 44.88, @o01 [:volumes][0], $tolerance )
|
138
|
+
assert_in_delta( 44.88, @o01 [:volumes][1], $tolerance )
|
139
|
+
assert_in_delta( 44.88, @o01int[:volumes][0], $tolerance )
|
140
|
+
assert_in_delta( 44.88, @o02 [:volumes][0], $tolerance )
|
141
|
+
assert_in_delta( 44.88, @o02 [:volumes][1], $tolerance )
|
142
|
+
assert_in_delta( 44.16, @o02 [:volumes][2], $tolerance )
|
143
|
+
assert_in_delta( 44.88, @o03 [:volumes][0], $tolerance )
|
144
|
+
assert_in_delta( 44.88, @o03 [:volumes][1], $tolerance )
|
145
|
+
assert_in_delta( 44.16, @o03 [:volumes][2], $tolerance )
|
146
|
+
assert_in_delta( 43.84, @o03 [:volumes][3], $tolerance )
|
147
|
+
|
148
|
+
#assert_in_delta( Iter1-Nsw0/OUTCAR:343: volume of cell : 1258.66
|
149
|
+
#assert_in_delta( Iter1-Nsw0/OUTCAR:1488: volume of cell : 1258.66
|
150
|
+
|
151
|
+
end
|
152
|
+
|
153
|
+
def test_elapsed_time
|
154
|
+
assert_equal(nil, @o01int[:elapsed_time])
|
155
|
+
assert_in_delta(164.134, @o04[:elapsed_time], $tolerance )
|
156
|
+
end
|
157
|
+
|
158
|
+
def test_irreducible_kpoints
|
159
|
+
assert_equal(15, @o01[:irreducible_kpoints])
|
160
|
+
end
|
161
|
+
|
162
|
+
end
|