gs2crmod 0.12.6 → 0.12.7
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- checksums.yaml +7 -0
- data/VERSION +1 -1
- data/gs2crmod.gemspec +7 -5
- data/lib/gs2crmod/calculations.rb +13 -5
- data/lib/gs2crmod/gsl_data.rb +0 -5
- data/lib/gs2crmod/ingen.rb +1 -1
- metadata +22 -40
checksums.yaml
ADDED
@@ -0,0 +1,7 @@
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---
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SHA1:
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metadata.gz: 568cfbc0a1fc2307c4b7c755592ee17f7f9fbc4a
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data.tar.gz: e14ed923d45e461fbcaf01d9f2fc06f61003dac6
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SHA512:
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metadata.gz: 7e8963f9e76f7e5e4ac70bd36a5c2e2d37d5de6062751000f5825fbd53bc0420a65487b04d967b216f035ca268f71a2ca4475f3e224ccb916963c05200ae7283
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7
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data.tar.gz: 30055389356e6646941eb0fba2fa48fe89f2a55cac3f28f0f62a4f9d9a33814d36525911304441814d51ce1a3c22f8f99656ea3fedbde9787974177c63b96c39
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data/VERSION
CHANGED
@@ -1 +1 @@
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1
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-
0.12.
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1
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+
0.12.7
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data/gs2crmod.gemspec
CHANGED
@@ -2,14 +2,17 @@
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2
2
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# DO NOT EDIT THIS FILE DIRECTLY
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3
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# Instead, edit Jeweler::Tasks in Rakefile, and run 'rake gemspec'
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# -*- encoding: utf-8 -*-
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5
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+
# stub: gs2crmod 0.12.7 ruby lib
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+
# stub: ext/extconf.rb
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5
7
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Gem::Specification.new do |s|
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7
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s.name = "gs2crmod"
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8
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-
s.version = "0.12.
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10
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+
s.version = "0.12.7"
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9
11
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10
12
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s.required_rubygems_version = Gem::Requirement.new(">= 0") if s.respond_to? :required_rubygems_version=
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13
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+
s.require_paths = ["lib"]
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11
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s.authors = ["Edmund Highcock", "Ferdinand van Wyk"]
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12
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-
s.date = "2015-08-
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15
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+
s.date = "2015-08-28"
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s.description = "GS2 is a gyrokinetic flux tube initial value turbulence code which can be used for fusion or astrophysical plasmas. CodeRunner is a framework for the automated running and analysis of large simulations. This module allows GS2 (and its sister code AstroGK) to harness the power of the CodeRunner framework."
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14
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s.email = "edmundhighcock@sourceforge.net"
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s.extensions = ["ext/extconf.rb"]
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@@ -76,13 +79,12 @@ Gem::Specification.new do |s|
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]
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s.homepage = "http://gs2crmod.sourceforge.net"
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s.licenses = ["GSLv3"]
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79
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-
s.require_paths = ["lib"]
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s.required_ruby_version = Gem::Requirement.new(">= 1.9.1")
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-
s.rubygems_version = "
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83
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+
s.rubygems_version = "2.2.2"
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s.summary = "Module to allow CodeRunner to run and analyse the GS2 and AstroGK codes."
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if s.respond_to? :specification_version then
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-
s.specification_version =
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+
s.specification_version = 4
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if Gem::Version.new(Gem::VERSION) >= Gem::Version.new('1.2.0') then
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s.add_runtime_dependency(%q<coderunner>, [">= 0.15.5"])
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@@ -24,25 +24,33 @@ def calculate_time_averaged_fluxes
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24
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@hflux_tot_stav_error = saturated_time_average_error('hflux_tot_over_time', {})
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25
25
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@hflux_tot_stav_std_dev = saturated_time_average_std_dev('hflux_tot_over_time', {})
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26
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@phi2_tot_stav = saturated_time_average('phi2tot_over_time', {})
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-
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-
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+
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@es_part_flux_stav = {}
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@es_mom_flux_stav = {}
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@es_heat_flux_stav = {}
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+
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@es_part_flux_stav_error = {}
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@es_mom_flux_stav_error = {}
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-
@es_mom_flux_stav_std_dev = {}
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@es_heat_flux_stav_error = {}
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+
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@es_part_flux_stav_std_dev = {}
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@es_mom_flux_stav_std_dev = {}
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@es_heat_flux_stav_std_dev = {}
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@nspec.times do |i|
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species_index = i + 1
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42
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@es_part_flux_stav[species_index] = saturated_time_average('es_part_flux_over_time', {species_index: species_index})
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@es_mom_flux_stav[species_index] = saturated_time_average('es_mom_flux_over_time', {species_index: species_index})
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@es_heat_flux_stav[species_index] = saturated_time_average('es_heat_flux_over_time', {species_index: species_index})
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45
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+
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@es_part_flux_stav_error[species_index] = saturated_time_average_error('es_part_flux_over_time', {species_index: species_index})
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40
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@es_mom_flux_stav_error[species_index] = saturated_time_average_error('es_mom_flux_over_time', {species_index: species_index})
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41
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-
@es_mom_flux_stav_std_dev[species_index] = saturated_time_average_std_dev('es_heat_flux_over_time', {species_index: species_index})
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42
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@es_heat_flux_stav_error[species_index] = saturated_time_average_error('es_heat_flux_over_time', {species_index: species_index})
|
49
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+
|
50
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@es_part_flux_stav_std_dev[species_index] = saturated_time_average_std_dev('es_part_flux_over_time', {species_index: species_index})
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51
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@es_mom_flux_stav_std_dev[species_index] = saturated_time_average_std_dev('es_mom_flux_over_time', {species_index: species_index})
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43
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@es_heat_flux_stav_std_dev[species_index] = saturated_time_average_std_dev('es_heat_flux_over_time', {species_index: species_index})
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44
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end
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-
# ep @es_mom_flux_stav, @es_heat_flux_stav
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46
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end
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alias :ctaf :calculate_time_averaged_fluxes
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data/lib/gs2crmod/gsl_data.rb
CHANGED
@@ -770,10 +770,6 @@ module GSLVectors
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770
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#eputs "Start theta_along_field_line"
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771
771
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kx_elements = gsl_vector('linked_kx_elements', options).to_a
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773
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-
#if @grid_option == "range"
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774
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-
#kx_elements = kx_elements.to_gslv.from_box_order.to_a
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-
#end
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776
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-
ep 'kx_elements', kx_elements.to_a
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773
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# ep list(:kx).keys.max
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# ep kx_elements[0], list(:kx)[(kx_elements[0] + 1).to_i]
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779
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# ep kx_elements[-1], list(:kx)[(kx_elements[-1] + 1).to_i]
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@@ -1148,7 +1144,6 @@ module GSLVectorComplexes
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1148
1144
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#temp = GSL::Vector.alloc(a.to_a[0].values_at(*kx_elements).flatten)
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1149
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temp = GSL::Vector.alloc(a.to_a[0][0].flatten)
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when "box"
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-
ep 'kx_elements', kx_elements = gsl_vector('linked_kx_elements', options).to_a
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1152
1147
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a = netcdf_file.var('phi').get({'start' => [0, 0, 0, options[:ky_index] - 1], 'end' => [-1, -1, -1, options[:ky_index] - 1]})
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1153
1148
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temp = GSL::Vector.alloc(a.to_a[0].values_at(*kx_elements).flatten)
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else
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data/lib/gs2crmod/ingen.rb
CHANGED
@@ -228,7 +228,7 @@ def check_parameters
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warning("You are submitting a nonlinear run with no dissipation.") if @nonlinear_mode == "on" and @hyper_option=="none" and @collision_model=="none"
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-
warning("You have no
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warning("You have no spatial implicitness: (bakdif) for one of your species. Be prepared for numerical instabilities!") if (1..@nspec).to_a.find{|i| bd = send("bakdif_#{i}") and bd == 0}
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warning("The system will abort with rapid timestep changes...") if !@abort_rapid_time_step_change or @abort_rapid_time_step_change.fortran_true?
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metadata
CHANGED
@@ -1,8 +1,7 @@
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1
1
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--- !ruby/object:Gem::Specification
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name: gs2crmod
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version: !ruby/object:Gem::Version
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version: 0.12.
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prerelease:
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version: 0.12.7
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platform: ruby
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authors:
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- Edmund Highcock
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@@ -10,60 +9,53 @@ authors:
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autorequire:
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bindir: bin
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cert_chain: []
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-
date: 2015-08-
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+
date: 2015-08-28 00:00:00.000000000 Z
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dependencies:
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- !ruby/object:Gem::Dependency
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name: coderunner
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requirement: !ruby/object:Gem::Requirement
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none: false
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requirements:
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-
- -
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+
- - ">="
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- !ruby/object:Gem::Version
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version: 0.15.5
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type: :runtime
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prerelease: false
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version_requirements: !ruby/object:Gem::Requirement
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none: false
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requirements:
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-
- -
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+
- - ">="
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- !ruby/object:Gem::Version
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version: 0.15.5
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- !ruby/object:Gem::Dependency
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name: rubyhacks
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requirement: !ruby/object:Gem::Requirement
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none: false
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requirements:
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-
- -
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+
- - ">="
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- !ruby/object:Gem::Version
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version: 0.1.2
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type: :runtime
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prerelease: false
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version_requirements: !ruby/object:Gem::Requirement
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none: false
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requirements:
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-
- -
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- - ">="
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- !ruby/object:Gem::Version
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version: 0.1.2
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- !ruby/object:Gem::Dependency
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name: ruby-netcdf
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requirement: !ruby/object:Gem::Requirement
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none: false
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requirements:
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-
- -
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- - ">="
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- !ruby/object:Gem::Version
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version: 0.7.1
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type: :runtime
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prerelease: false
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version_requirements: !ruby/object:Gem::Requirement
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none: false
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requirements:
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-
- -
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+
- - ">="
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- !ruby/object:Gem::Version
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version: 0.7.1
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- !ruby/object:Gem::Dependency
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name: shoulda
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requirement: !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - '='
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- !ruby/object:Gem::Version
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@@ -71,7 +63,6 @@ dependencies:
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type: :development
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prerelease: false
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version_requirements: !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - '='
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- !ruby/object:Gem::Version
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@@ -79,65 +70,57 @@ dependencies:
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- !ruby/object:Gem::Dependency
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name: rdoc
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requirement: !ruby/object:Gem::Requirement
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none: false
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requirements:
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-
- - ~>
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- - "~>"
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- !ruby/object:Gem::Version
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version: '3.12'
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type: :development
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prerelease: false
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version_requirements: !ruby/object:Gem::Requirement
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-
none: false
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requirements:
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-
- - ~>
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- - "~>"
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- !ruby/object:Gem::Version
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version: '3.12'
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- !ruby/object:Gem::Dependency
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name: bundler
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requirement: !ruby/object:Gem::Requirement
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none: false
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requirements:
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-
- -
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- - ">"
|
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- !ruby/object:Gem::Version
|
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version: 1.0.0
|
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type: :development
|
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prerelease: false
|
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version_requirements: !ruby/object:Gem::Requirement
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none: false
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requirements:
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-
- -
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- - ">"
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- !ruby/object:Gem::Version
|
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version: 1.0.0
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- !ruby/object:Gem::Dependency
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name: jeweler
|
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requirement: !ruby/object:Gem::Requirement
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none: false
|
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requirements:
|
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-
- -
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+
- - ">="
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- !ruby/object:Gem::Version
|
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version: 1.8.4
|
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type: :development
|
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prerelease: false
|
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version_requirements: !ruby/object:Gem::Requirement
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-
none: false
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requirements:
|
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-
- -
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+
- - ">="
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- !ruby/object:Gem::Version
|
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version: 1.8.4
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- !ruby/object:Gem::Dependency
|
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name: minitest
|
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requirement: !ruby/object:Gem::Requirement
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none: false
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requirements:
|
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-
- - ~>
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+
- - "~>"
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- !ruby/object:Gem::Version
|
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version: '4'
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type: :development
|
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prerelease: false
|
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version_requirements: !ruby/object:Gem::Requirement
|
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none: false
|
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requirements:
|
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-
- - ~>
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+
- - "~>"
|
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- !ruby/object:Gem::Version
|
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version: '4'
|
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description: GS2 is a gyrokinetic flux tube initial value turbulence code which can
|
@@ -153,7 +136,7 @@ extra_rdoc_files:
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- README.md
|
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- README.rdoc
|
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files:
|
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|
-
- .document
|
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|
+
- ".document"
|
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|
- Gemfile
|
158
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- LICENSE.txt
|
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- README.md
|
@@ -210,26 +193,25 @@ files:
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homepage: http://gs2crmod.sourceforge.net
|
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|
licenses:
|
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195
|
- GSLv3
|
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|
+
metadata: {}
|
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|
post_install_message:
|
214
198
|
rdoc_options: []
|
215
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|
require_paths:
|
216
200
|
- lib
|
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required_ruby_version: !ruby/object:Gem::Requirement
|
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-
none: false
|
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requirements:
|
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|
-
- -
|
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|
+
- - ">="
|
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- !ruby/object:Gem::Version
|
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version: 1.9.1
|
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required_rubygems_version: !ruby/object:Gem::Requirement
|
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none: false
|
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requirements:
|
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|
-
- -
|
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+
- - ">="
|
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- !ruby/object:Gem::Version
|
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version: '0'
|
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|
requirements: []
|
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|
rubyforge_project:
|
231
|
-
rubygems_version:
|
213
|
+
rubygems_version: 2.2.2
|
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|
signing_key:
|
233
|
-
specification_version:
|
215
|
+
specification_version: 4
|
234
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|
summary: Module to allow CodeRunner to run and analyse the GS2 and AstroGK codes.
|
235
217
|
test_files: []
|