gphys 1.4.3.2 → 1.5.0
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/.ChangeLog.until201303 +2156 -0
- data/.gitignore +7 -1
- data/Rakefile +36 -1
- data/bin/gpview +75 -58
- data/{dim_op.c → ext/numru/gphys/dim_op.c} +4 -1
- data/{ext_coord.c → ext/numru/gphys/ext_coord.c} +35 -17
- data/{ext_init.c → ext/numru/gphys/ext_init.c} +0 -0
- data/ext/numru/gphys/extconf.rb +43 -0
- data/{interpo.c → ext/numru/gphys/interpo.c} +35 -30
- data/{multibitIO.c → ext/numru/gphys/multibitIO.c} +19 -15
- data/gphys-bigmem.gemspec +44 -0
- data/gphys.gemspec +4 -4
- data/lib/numru/dclext.rb +55 -0
- data/lib/numru/derivative.rb +6 -5
- data/lib/numru/ganalysis/met.rb +27 -10
- data/lib/numru/ganalysis/qg.rb +4 -3
- data/lib/numru/ganalysis/sph_harmonic_iso_g.rb +290 -0
- data/lib/numru/ggraph.rb +81 -2
- data/lib/numru/gphys/derivative.rb +3 -2
- data/lib/numru/gphys/gpcommon.rb +7 -1
- data/lib/numru/gphys/gphys_fft.rb +3 -3
- data/lib/numru/gphys/gphys_hdfeos5_io.rb +14 -13
- data/lib/numru/gphys/grib.rb +18 -7
- data/lib/numru/gphys/gtool3.rb +53 -52
- data/lib/numru/gphys/interpolate.rb +3 -2
- data/lib/numru/gphys/varraycomposite.rb +1 -1
- data/lib/numru/gphys/varraynetcdf.rb +38 -0
- data/lib/numru/gphys/version.rb +2 -1
- data/test/test_axis.rb +1 -5
- data/test/test_fitting.rb +0 -1
- data/test/test_gphys.rb +9 -5
- data/test/test_met_z.rb +1 -2
- data/test/test_sigma_coord.rb +0 -1
- metadata +36 -19
- checksums.yaml +0 -15
- data/.rspec +0 -2
- data/.travis.yml +0 -3
- data/ChangeLog +0 -7007
- data/extconf.rb +0 -51
- data/spec/gphys_spec.rb +0 -11
- data/spec/spec_helper.rb +0 -2
data/lib/numru/ggraph.rb
CHANGED
@@ -115,6 +115,40 @@ library if you like.
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==Module Functions
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---startup(options)
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If called, it calls some DCL methods for easy start-up.
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By default, it does a typical setting. You can change it by
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giving options. This methods covers only a few DCL parameters.
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For neat graphics, you will need to call DCL methods directly.
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ARGUMENTS
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* options (Hash) : options to change the default behavior if specified.
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option name default value # description:
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"iws" 1 # DCL sgpack param: Workstation ID (1:display, 2:file
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# if DCL ver>=6)
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"ifl" 4 # DCL swpack param (for DCL ver.>=6): file format num
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# for iws==2 (1:png,2:eps,3:svg,4:pdf)
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"colormap" 1 # DCL color map number (Integer)
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"iwidth" nil # DCL swpack param (Integer): display width
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# (pixcels)
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"iheight" nil # DCL swpack param (Integer): display height
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# (pixcels)
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"lwait" true # DCL swpack param (true/false): wait mouse click
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# to show next page
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"isub" 96 # DCL sgpack param (Integer): control character of
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# subscription 96=>"`"; 95=>"_". Note that DCL's
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# default is 95.
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"lmiss" true # DCL glpack param (true/false): whether to do
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# missing value processing. Note that DCL's default
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# is false.
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"help" false # show help message if true
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---close
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Close. (it just calls DCL.grcls).
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---margin_info(program=nil, data_source=nil, char_height=nil, date=nil, xl=0.0, xr=0.0, yb=nil, yt=0.0)
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Sets the strings to appear in the bottom margin.
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@@ -1105,6 +1139,34 @@ module NumRu
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module_function
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@@startup_options = Misc::KeywordOptAutoHelp.new(
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['iws', 1, 'DCL sgpack param: Workstation ID (1:display, 2:file if DCL ver>=6)'],
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['ifl', 4, 'DCL swpack param (for DCL ver.>=6): file format num for iws==2 (1:png,2:eps,3:svg,4:pdf)'],
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['colormap', 1, 'DCL color map number (Integer)'],
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['iwidth', nil, 'DCL swpack param (Integer): display width (pixcels)'],
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['iheight', nil, 'DCL swpack param (Integer): display height (pixcels)'],
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['lwait', true, 'DCL swpack param (true/false): wait mouse click to show next page'],
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['isub', 96, 'DCL sgpack param (Integer): control character of subscription 96=>"`"; 95=>"_". Note that DCL\'s default is 95.'],
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['lmiss', true, 'DCL glpack param (true/false): whether to do missing value processing. Note that DCL\'s default is false.']
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)
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def startup(options=nil)
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opts = @@startup_options.interpret(options)
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DCL.swpset('iwidth',opts['iwidth']) if opts['iwidth']
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DCL.swpset('iheight',opts['iheight']) if opts['iheight']
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DCL.swpset('ifl',opts['ifl']) if DCL::DCLVERSION >= "6"
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DCL.sgscmn(opts['colormap'])
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DCL.gropn(opts['iws'])
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DCL.sgpset('isub', opts['isub'])
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DCL.glpset('lmiss', opts['lmiss'])
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end
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def close
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DCL.grcls
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end
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def gropn_1_if_not_yet
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if DCL.sgpget("iws") == 0
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DCL.gropn(1)
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@@ -2738,7 +2800,7 @@ module NumRu
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val = gp.data.val
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if ( opts['ltone'] &&
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-
( opts['tonf'] || opts['auto'] &&
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( opts['tonf'] || opts['auto'] && !opts['tonb'] && !opts['tonc'] &&
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( val.length >= TONE_TONF_THRES_SIZE || val.shape.min >= TONE_TONF_THRES_LEN ) ) )
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DCL.uetonf(val)
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elsif opts['tonb'] && opts['ltone']
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@@ -3051,11 +3113,28 @@ module NumRu
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@@data_prep_options
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)
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def set_vector(options)
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@@vector_options.set(options)
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end
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@@next_vector = nil
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def next_vector(options)
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if options.is_a?(Hash)
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@@next_vector = options
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else
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raise TypeError,"Hash expected"
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end
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nil
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end
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def vector(fx, fy, newframe=true, options=nil)
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gropn_1_if_not_yet
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if newframe!=true && newframe!=false
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raise ArgumentError, "2nd arg (newframe) must be true or false"
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end
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if @@next_vector
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options = ( options ? @@next_vector.update(options) : @@next_vector )
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@@next_vector = nil
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end
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opts = @@vector_options.interpret(options)
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xax, yax, closer, fx, fy = data_prep_2D([fx,fy], newframe, opts)
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if newframe
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@@ -3670,7 +3749,7 @@ if $0 == __FILE__
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#/ graph 45 /
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GGraph.set_fig('viewport'=>[0.2,0.8,0.2,0.8])
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-
GGraph.tone(gphys, true, "auto"=>true
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GGraph.tone(gphys, true, "auto"=>true)
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GGraph.contour(gphys, false)
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GGraph.color_bar
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@@ -1,3 +1,4 @@
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# -*- coding: utf-8 -*-
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require 'narray'
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require 'numru/gphys'
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require 'numru/derivative'
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@@ -36,7 +37,7 @@ Module functions of Derivative Operater for GPhys.
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to. z.rank must be 1.
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* dim (Numeric): a Numeric represents the dimention which derivative
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respect to. you can give number count backward (((<dim>))<0), but
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((<z.rank
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((<z.rank +dim>)) must be > 0.
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* bc (Numeric) : a Numeric which represent boundary condition.
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Supported conditions are:
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* LINEAR_EXT(=1) : default value
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@@ -59,7 +60,7 @@ Module functions of Derivative Operater for GPhys.
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* gp (GPhys): a GPhys which you want to derivative.
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* dim_or_dimname (Numeric or String): a Numeric or String represents
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the dimension which derivate respect to. you can give number count
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-
backward (((<dim>))<0), but ((<z.rank
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backward (((<dim>))<0), but ((<z.rank +dim>)) must be > 0.
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* bc (Numeric) : a Numeric which represent boundary condition.
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Supported conditions are:
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* LINEAR_EXT(=1) : default value
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data/lib/numru/gphys/gpcommon.rb
CHANGED
@@ -16,12 +16,18 @@
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2005/08/23 S Takehiro (created)
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2008/02/14 S Takehiro (copy_global_att can deal with GPhys
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which consists of multiple files)
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2015/09/06 H Kashimura && S Takehiro (fixed for installation by gem)
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=end
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#------------------------ print help message ------------------------
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def help
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begin
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file = File.open(Gem.bin_path("gphys",File.basename($0)))
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rescue
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file = File.open($0)
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end
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# file = File.open($0)
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after_begin = false
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after_end = false
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while (line = file.gets)
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@@ -463,7 +463,7 @@ module NumRu
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end
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if dir == @@fft_forward
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if dims.length == 0
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fcoef = fcoef / fcoef.length
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fcoef = fcoef / fcoef.length.to_f # normalized if forward FT
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else
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sh = fcoef.shape
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len = 1
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@@ -483,7 +483,7 @@ module NumRu
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cv = gfc.coord(i).val
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n = cv.length
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clen = (cv.max - cv.min) * n / (n-1)
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wn = (2*Math::PI/clen) * NArray.new(cv.typecode,cv.length).indgen
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wn = (2*Math::PI/clen) * NArray.new(cv.typecode,cv.length).indgen!.to_f
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if (!backward)
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gfc.coord(i).set_att('origin_in_real_space',cv[0..0])
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else
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if !factor
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factor = dwn**(-1)
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else
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factor = factor / dwn
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factor = factor / dwn.to_f
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end
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}
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self * factor
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@@ -1,3 +1,4 @@
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# -*- coding: utf-8 -*-
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require "numru/gphys/gphys"
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require "numru/gphys/varrayhdfeos5"
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@@ -337,8 +338,8 @@ module NumRu
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end
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def __make_gd_axes(var0, grid, data)
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dim_names = var0.dim_names #
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unlocated_dim_names = var0.dim_names #
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dim_names = var0.dim_names # 次元の名前
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unlocated_dim_names = var0.dim_names # まだ軸の決まっていない次元の名前
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unused_var_names = grid.var_names
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axes = Array.new
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@@ -358,7 +359,7 @@ module NumRu
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end
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# (#2) Empirical rule (from EOS-AURA, MLS, etc)
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# (#2-1)
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# (#2-1) 軸が未確定の次元に対し、次元名と一致する名前を持つ1次元変数を座標変数として採用する
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unlocated_dim_names.each do |dim_nm|
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if unused_var_names.include?(dim_nm)
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vary = __files2varray( grid, dim_nm)
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@@ -370,7 +371,7 @@ module NumRu
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end
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end
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# (#2-2)
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# (#2-2) 軸が未確定の次元に対し、その次元を使って定義されている1次元変数を座標変数として採用する
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# (a) select variables match to Regexp.
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@@predef_gdcoords.each do |reg_exp|
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unlocated_dim_names.each do |dim_nm|
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@@ -397,8 +398,8 @@ module NumRu
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end
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end
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# (#2-3)
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#
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# (#2-3) 座標変数はファイル中にないものとみなし,
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# ダミーとして 0,1,2,... が割り当てられるようにする.
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unlocated_dim_names.each do |dim_nm|
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nary_length = data.shape_current[dim_names.index(dim_nm)]
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nary = NArray[0...nary_length]
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@@ -413,14 +414,14 @@ module NumRu
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private :__make_gd_axes
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def __make_za_axes(var0, za, data)
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dim_names = var0.dim_names #
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unlocated_dim_names = var0.dim_names #
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dim_names = var0.dim_names # 次元の名前
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unlocated_dim_names = var0.dim_names # まだ軸の決まっていない次元の名前
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unused_var_names = za.var_names
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axes = Array.new
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# (#1) HDF-EOS5 standard rule is none.
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# (#2) Empirical rule (from EOS-AURA, MLS, etc)
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# (#2-1)
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# (#2-1) 次元名と一致する名前を持つ1次元変数を座標変数として採用する
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unlocated_dim_names.each do |dim_nm|
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if unused_var_names.include?(dim_nm)
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vary = __files2varray( za, dim_nm)
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@@ -432,7 +433,7 @@ module NumRu
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end
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end
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-
# (#2-2)
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# (#2-2) 軸が未確定の次元に対し、その次元を使って定義されている1次元変数を座標変数として採用する
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# (a) select variables match to Regexp.
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@@predef_zacoords.each do |reg_exp|
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unlocated_dim_names.each do |dim_nm|
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@@ -459,8 +460,8 @@ module NumRu
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end
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end
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-
# (#2-3)
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-
#
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# (#2-3) 座標変数はファイル中にないものとみなし,
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# ダミーとして 0,1,2,... が割り当てられるようにする.
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unlocated_dim_names.each do |dim_nm|
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nary_length = data.shape_current[dim_names.index(dim_nm)]
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nary = NArray[0...nary_length]
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@@ -474,7 +475,7 @@ module NumRu
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end
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private :__make_za_axes
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-
# dim_index
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# dim_index に関して実質1次元の変数ならば VArray を返す。そうでなければ nil を返す。
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def __make_field_one_dimension(aHE5GdField, dim_index)
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rank = aHE5GdField.rank
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indexes = Array.new
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data/lib/numru/gphys/grib.rb
CHANGED
@@ -611,12 +611,19 @@ class GPhys
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end
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alias :initial= :set_initial
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def date
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-
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-
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-
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-
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dt = DateTime.new((@pds.to_uint1(21)-1)*100 + @pds.to_uint1(9),
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@pds.to_uint1(10), @pds.to_uint1(11),
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@pds.to_uint1(12), @pds.to_uint1(13) )
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617
|
+
dt += Units[time_unit].convert(p1,"day")
|
618
|
+
# REMARK (horinouchi):
|
619
|
+
# Just to add p1 should be OK in the crudest sense,
|
620
|
+
# though one can further consider time_range
|
621
|
+
# (ref: http://rda.ucar.edu/docs/formats/grib/gribdoc/timer.html)
|
622
|
+
d = dt.to_date
|
623
|
+
h = [dt.hour, dt.min]
|
618
624
|
return [d,h]
|
619
625
|
end
|
626
|
+
|
620
627
|
def time_unit
|
621
628
|
return TIME_UNITS[ @pds.to_uint1(14) ]
|
622
629
|
end
|
@@ -1238,11 +1245,15 @@ class GPhys
|
|
1238
1245
|
#j = nil
|
1239
1246
|
#i = nil
|
1240
1247
|
if map
|
1241
|
-
var = NArrayMiss.sfloat(
|
1248
|
+
var = NArrayMiss.sfloat(nlon,nlat)
|
1242
1249
|
map.reshape!(nlon,nlat)
|
1243
|
-
mask = map
|
1250
|
+
mask = map
|
1244
1251
|
nd = mask.count_true
|
1245
|
-
|
1252
|
+
wh = mask.where
|
1253
|
+
if wh.length>0
|
1254
|
+
var[wh] = @sgm.mbio.read2D(@pos+8, nbits_pack, nd, 1, 0, nd-1, 1, 0, 0, 1, nil, nil, e, r).reshape!(nd)
|
1255
|
+
end
|
1256
|
+
var = var[*index]
|
1246
1257
|
=begin
|
1247
1258
|
index[1].each{|j|
|
1248
1259
|
jj = j-index[1].first
|
data/lib/numru/gphys/gtool3.rb
CHANGED
@@ -1,19 +1,20 @@
|
|
1
|
+
# -*- coding: utf-8 -*-
|
1
2
|
=begin
|
2
|
-
= Gtool3
|
3
|
+
= Gtool3 形式 IO ライブラリー(といっても O (書き) はなし)
|
3
4
|
|
4
|
-
==
|
5
|
+
== 軸ファイル(格子情報ファイル)について
|
5
6
|
|
6
|
-
|
7
|
-
Gtool3.gtaxdir=
|
7
|
+
環境変数 GTAXDIR で,軸ファイルのありかを指定するか,
|
8
|
+
Gtool3.gtaxdir= メソッドを使って指定する.
|
8
9
|
|
9
|
-
== Development Memo /
|
10
|
+
== Development Memo / 開発メモ
|
10
11
|
|
11
|
-
|
12
|
-
|
13
|
-
|
14
|
-
|
12
|
+
複数(一個以上)の変数の組の繰り返しを仮定する.よって,ヘッダを読んで
|
13
|
+
いって,変数名が,T,U,PS,T,..などと同じのに戻ったら,その時点で T,U,PS
|
14
|
+
の3変数の繰り返しであるとみなす.こうすることで,GrADS とほぼ同じように
|
15
|
+
扱えるようになる.なお,実際の Gtool3 ファイルはすべてこれでいけるはず.
|
15
16
|
|
16
|
-
|
17
|
+
エンディアンはブロック区切りから自動判別する.
|
17
18
|
|
18
19
|
|
19
20
|
|
@@ -414,7 +415,7 @@ module NumRu
|
|
414
415
|
#p "*****",varinfo[:rlen]
|
415
416
|
varinfo[:natyp] = NATYP[varinfo["DFMT"]]
|
416
417
|
@varh[ varinfo["ITEM"] ] = varinfo
|
417
|
-
start_byte += skip_a_data_block(varinfo, @file) # shape
|
418
|
+
start_byte += skip_a_data_block(varinfo, @file) # shapeと型の利用にかえるべき
|
418
419
|
else
|
419
420
|
time_seq = true # second turn --> regarded as a time sequence
|
420
421
|
break
|
@@ -724,48 +725,48 @@ if $0 == __FILE__
|
|
724
725
|
end
|
725
726
|
|
726
727
|
=begin
|
727
|
-
1 & IDFM & I10 #&
|
728
|
-
2 & DSET & A16 #&
|
729
|
-
3 & ITEM & A16 #&
|
730
|
-
4 & EDIT1 & A16 #&
|
731
|
-
5 & EDIT2 & A16 #&
|
728
|
+
1 & IDFM & I10 #& フォーマットid & 9009
|
729
|
+
2 & DSET & A16 #& データセット名 & AP01
|
730
|
+
3 & ITEM & A16 #& 識別名称(変数名)& TMP
|
731
|
+
4 & EDIT1 & A16 #& 編集略記号(1) & TM1D
|
732
|
+
5 & EDIT2 & A16 #& 編集略記号(2) & XFK1
|
732
733
|
...
|
733
|
-
11 & EDIT8 & A16 #&
|
734
|
-
12 & FNUM & I10 #&
|
735
|
-
13 & DNUM & I10 #&
|
736
|
-
14 & TITL1 & A16 #&
|
737
|
-
15 & TITL2 & A16 #& \ \
|
738
|
-
16 & UNIT & A16 #&
|
739
|
-
17 & ETTL1 & A16 #&
|
740
|
-
18 & ETTL2 & A16 #&
|
734
|
+
11 & EDIT8 & A16 #& 編集略記号(8) &
|
735
|
+
12 & FNUM & I10 #& ファイル番号 & 1
|
736
|
+
13 & DNUM & I10 #& データ番号 & 100
|
737
|
+
14 & TITL1 & A16 #& タイトル & Temperature
|
738
|
+
15 & TITL2 & A16 #& \ \ 〃 \ \ 続き &
|
739
|
+
16 & UNIT & A16 #& 単位 & K
|
740
|
+
17 & ETTL1 & A16 #& 編集タイトル(1) & Dayly mean
|
741
|
+
18 & ETTL2 & A16 #& 編集タイトル(2) & filter (X)
|
741
742
|
...
|
742
|
-
24 & ETTL8 & A16 #&
|
743
|
-
25 & TIME & I10 #&
|
744
|
-
27 & UTIM & A16 #&
|
745
|
-
26 & DATE & A16 #&
|
746
|
-
28 & TDUR & I10 #&
|
747
|
-
29 & AITM1 & A16 #&
|
748
|
-
30 & ASTR1 & I10 #&
|
749
|
-
31 & AEND1 & I10 #&
|
750
|
-
32 & AITM2 & A16 #&
|
751
|
-
33 & ASTR2 & I10 #&
|
752
|
-
34 & AEND2 & I10 #&
|
753
|
-
35 & AITM3 & A16 #&
|
754
|
-
36 & ASTR3 & I10 #&
|
755
|
-
37 & AEND3 & I10 #&
|
756
|
-
38 & DFMT & A16 #&
|
757
|
-
39 & MISS & E15.7 #&
|
758
|
-
40 & DMIN & E15.7 #&
|
759
|
-
41 & DMAX & E15.7 #&
|
760
|
-
42 & DIVS & E15.7 #&
|
761
|
-
43 & DIVL & E15.7 #&
|
762
|
-
44 & STYP & I10 #&
|
763
|
-
45--47& OPTNx & A16 #&
|
764
|
-
48--59& MEMOxx & A16 #&
|
765
|
-
60 & CDATE & A16 #&
|
766
|
-
61 & CSIGN & A16 #&
|
767
|
-
62 & MDATE & A16 #&
|
768
|
-
63 & MSIGN & A16 #&
|
769
|
-
64 & SIZE & I10 #&
|
743
|
+
24 & ETTL8 & A16 #& 編集タイトル(8) &
|
744
|
+
25 & TIME & I10 #& 時刻(通し) & 18769650900
|
745
|
+
27 & UTIM & A16 #& 時刻単位 & SEC
|
746
|
+
26 & DATE & A16 #& 時刻(yyyymmddhhmmss) & 19900813122800
|
747
|
+
28 & TDUR & I10 #& データ代表時間 & 3600
|
748
|
+
29 & AITM1 & A16 #& 軸1の格子識別名称 & GLON128
|
749
|
+
30 & ASTR1 & I10 #& 軸1の格子番号始め & 1
|
750
|
+
31 & AEND1 & I10 #& 軸1の格子番号終り & 128
|
751
|
+
32 & AITM2 & A16 #& 軸2の格子識別名称 & GGLA64
|
752
|
+
33 & ASTR2 & I10 #& 軸2の格子番号始め & 1
|
753
|
+
34 & AEND2 & I10 #& 軸2の格子番号終り & 64
|
754
|
+
35 & AITM3 & A16 #& 軸3の格子識別名称 & SIGA12
|
755
|
+
36 & ASTR3 & I10 #& 軸3の格子番号始め & 1
|
756
|
+
37 & AEND3 & I10 #& 軸3の格子番号終り & 12
|
757
|
+
38 & DFMT & A16 #& データフォーマット & (32F12.5) or UR4
|
758
|
+
39 & MISS & E15.7 #& 欠損値の値 & -9999.
|
759
|
+
40 & DMIN & E15.7 #& レンジ(最小) & 100.
|
760
|
+
41 & DMAX & E15.7 #& レンジ(最大) & 300.
|
761
|
+
42 & DIVS & E15.7 #& 間隔(小) & 10.
|
762
|
+
43 & DIVL & E15.7 #& 間隔(大) & 50.
|
763
|
+
44 & STYP & I10 #& スケーリングタイプ & 1
|
764
|
+
45--47& OPTNx & A16 #& 空き &
|
765
|
+
48--59& MEMOxx & A16 #& メモ &
|
766
|
+
60 & CDATE & A16 #& データ作成日付 & 19900813122800
|
767
|
+
61 & CSIGN & A16 #& データ作成者 & SWAMP
|
768
|
+
62 & MDATE & A16 #& データ変更日付 & 19900926225422
|
769
|
+
63 & MSIGN & A16 #& データ変更者 & SWAMP
|
770
|
+
64 & SIZE & I10 #& 配列のサイズ & 98304
|
770
771
|
|
771
772
|
=end
|