gphys 1.1.1 → 1.2.2
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- data/.gitignore +17 -0
- data/ChangeLog +221 -0
- data/Gemfile +4 -0
- data/LICENSE.txt +18 -30
- data/README +23 -26
- data/README.md +29 -0
- data/Rakefile +1 -56
- data/bin/gpaop +2 -1
- data/bin/gpcut +3 -2
- data/bin/gpedit +6 -2
- data/bin/gpmath +3 -2
- data/bin/gpmaxmin +3 -2
- data/bin/gpprint +2 -1
- data/bin/gpvect +28 -5
- data/bin/gpview +43 -5
- data/extconf.rb +5 -6
- data/gphys.gemspec +34 -0
- data/interpo.c +63 -24
- data/lib/gphys.rb +2 -0
- data/lib/numru/dclext.rb +2636 -0
- data/lib/numru/derivative.rb +53 -12
- data/lib/numru/ganalysis/eof.rb +4 -0
- data/lib/numru/ganalysis/histogram.rb +73 -5
- data/lib/numru/ganalysis/met.rb +163 -2
- data/lib/numru/ganalysis/planet.rb +230 -20
- data/lib/numru/ggraph.rb +147 -2247
- data/lib/numru/gphys/assoccoords.rb +19 -3
- data/lib/numru/gphys/axis.rb +1 -1
- data/lib/numru/gphys/coordmapping.rb +2 -2
- data/lib/numru/gphys/derivative.rb +56 -13
- data/lib/numru/gphys/gphys.rb +17 -1
- data/lib/numru/gphys/gphys_grads_io.rb +6 -5
- data/lib/numru/gphys/gphys_grib_io.rb +6 -6
- data/lib/numru/gphys/gphys_io.rb +25 -6
- data/lib/numru/gphys/grads_gridded.rb +31 -29
- data/lib/numru/gphys/grib.rb +13 -9
- data/lib/numru/gphys/interpolate.rb +153 -29
- data/lib/numru/gphys/unumeric.rb +29 -6
- data/lib/numru/gphys/varray.rb +9 -0
- data/lib/numru/gphys/varraygrib.rb +70 -8
- data/lib/version.rb +3 -0
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<h1><a name="label-0" id="label-0">class NumRu::Axis</a></h1><!-- RDLabel: "class NumRu::Axis" -->
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<p>A class of to handle a descretized physical coordinate.</p>
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<p>An NumRu::Axis object is meant to represent a dimension in a NumRu::Grid
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object, which is used in NumRu::Grid (Hereafter, NumRu:: is omitted).
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An Axis has 1-dimensional data on grid-point posisions as a VArray.
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In addition, it can have supplementary data (as VArray objects).</p>
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<p>Three types of axes are supported in this class:</p>
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<pre>1. Simple (mostly point-sampled) axes
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2. Cell-type axes. In this case, grid points are either
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at cell boundaries or within the cells (oftern at the center).
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3. Simple ("bare") indexing (without particular physical meaning)</pre>
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<p>In most applications, the 1st type would be enough, but
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the 2nd type would be useful for some type of numerical
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simulation. The 3rd is not physical and may not be considered as
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"axes", but this could be convenient for some practical applications.</p>
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<h2><a name="label-2" id="label-2">Class Methods</a></h2><!-- RDLabel: "Class Methods" -->
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<dl>
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<dt><h4><a name="label-3" id="label-3"><code>Axis.new(<var>cell</var>=<var>false</var>,<var>bare_index</var>=<var>false</var>,<var>name</var>=<var>nil</var>)</code></a></h4></dt><!-- RDLabel: "Axis.new" -->
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<dd>
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<p>Constructor. The first two arguments are to specify one of the
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types explained above.</p>
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<p>ARGUMENTS</p>
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<ul>
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<li>cell (true or false)</li>
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<li>bare_index (true or false)</li>
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<li>name (String or nil): the default name (when nil) is "noname"</li>
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</ul>
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<p>RETURN VALUE</p>
|
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|
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<ul>
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40
|
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<li>an Axis</li>
|
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|
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</ul></dd>
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<dt><h4><a name="label-4" id="label-4"><code>Axis.defined_operations</code></a></h4></dt><!-- RDLabel: "Axis.defined_operations" -->
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<dd>
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<p>Returns the name of the methods defined in Axis to do
|
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|
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some operation along the axis.</p>
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|
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<p>RETURN VALUE</p>
|
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|
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<ul>
|
|
48
|
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<li>an Array of String. Current default value is ["integrate","average"].</li>
|
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49
|
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</ul></dd>
|
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<dt><h4><a name="label-5" id="label-5"><code>Axis.humane_messaging = <var>t_or_f</var></code></a></h4></dt><!-- RDLabel: "Axis.humane_messaging = t_or_f" -->
|
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|
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<dd>
|
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|
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If false is given, the [] method is changed to return a naive
|
|
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|
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straightforward message if the axis is lost. -- By default,
|
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|
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it returns a fancy but sometimes unwanted message if the
|
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|
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axis is the time with since field in the form of yyyy-mm-dd.... </dd>
|
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|
-
</dl>
|
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|
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<h2><a name="label-6" id="label-6">Instance Methods</a></h2><!-- RDLabel: "Instance Methods" -->
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<dl>
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<dt><h4><a name="label-7" id="label-7"><code>name=(<var>nm</var>)</code></a></h4></dt><!-- RDLabel: "name=" -->
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<dd>
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<p>Set a name.</p>
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<p>ARGUMENTS</p>
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<ul>
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64
|
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<li>name (String)</li>
|
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65
|
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</ul>
|
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<p>RETURN VALUE</p>
|
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|
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<ul>
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|
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<li>name (the argument)</li>
|
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|
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</ul></dd>
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<dt><h4><a name="label-8" id="label-8"><code>name</code></a></h4></dt><!-- RDLabel: "name" -->
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<dd>
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<p>Returns the name.</p>
|
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|
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<p>RETURN VALUE</p>
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<ul>
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|
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<li>a String</li>
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</ul></dd>
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<dt><h4><a name="label-9" id="label-9"><code>cell?</code></a></h4></dt><!-- RDLabel: "cell?" -->
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<dd>
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<p>Whether or not self is a cell-type axis.</p>
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<p>RETURN VALUE</p>
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<ul>
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<li>true or false</li>
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</ul></dd>
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<dt><h4><a name="label-10" id="label-10"><code>cell_center?</code></a></h4></dt><!-- RDLabel: "cell_center?" -->
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<dd>
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<p>Whether or not self represents data points within the cells (which is
|
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often, but not necessarily, the centers of the cells).</p>
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<p>RETURN VALUE</p>
|
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<ul>
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<li>true, false, or nil (when the axis is not cell-type)</li>
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</ul></dd>
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<dt><h4><a name="label-11" id="label-11"><code>cell_bounds?</code></a></h4></dt><!-- RDLabel: "cell_bounds?" -->
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<dd>
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<p>Whether or not self represents data points at the cell bondaries.</p>
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|
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<p>RETURN VALUE</p>
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<ul>
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<li>true, false, or nil (when the axis is not cell-type)</li>
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</ul></dd>
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<dt><h4><a name="label-12" id="label-12"><code>bare_index?</code></a></h4></dt><!-- RDLabel: "bare_index?" -->
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<dd>
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<p>Whether or not self is of the bare-index type.</p>
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<p>RETURN VALUE</p>
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<ul>
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<li>true or false.</li>
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</ul></dd>
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<dt><h4><a name="label-13" id="label-13"><code>flatten</code></a></h4></dt><!-- RDLabel: "flatten" -->
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<dd>
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<p>Returns the VArray objects in self as a flat Array. No cloning is made.</p>
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<p>RETURN VALUE</p>
|
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|
-
<ul>
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111
|
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<li>an Array of VArray objects.</li>
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</ul></dd>
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<dt><h4><a name="label-14" id="label-14"><code>each_varray</code></a></h4></dt><!-- RDLabel: "each_varray" -->
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<dd>
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<p>Iterator for each VArray object in self (dependent on <a href="#label-13">flatten</a>.</p>
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<p>RETURN VALUE</p>
|
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|
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<ul>
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118
|
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<li>an Array of VArray objects (same as <a href="#label-13">flatten</a>).</li>
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</ul></dd>
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<dt><h4><a name="label-15" id="label-15"><code>copy</code></a></h4></dt><!-- RDLabel: "copy" -->
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<dd>
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<p>Make a deep clone onto memory.
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All the VArray objects in the return value will be
|
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of the root class of VArray.</p>
|
|
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|
-
<p>RETURN VALUE</p>
|
|
126
|
-
<ul>
|
|
127
|
-
<li>an Axis</li>
|
|
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|
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</ul></dd>
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<dt><h4><a name="label-16" id="label-16"><code>collect</code></a></h4></dt><!-- RDLabel: "collect" -->
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<dd>
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<p>This method is like <a href="#label-15">copy</a>, but it is the 'collect'
|
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|
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iterator for each VArray in self (block required).</p>
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|
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<p>RETURN VALUE</p>
|
|
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|
-
<ul>
|
|
135
|
-
<li>an Axis</li>
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|
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</ul></dd>
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<dt><h4><a name="label-17" id="label-17"><code>pos=(<var>pos</var>)</code></a></h4></dt><!-- RDLabel: "pos=" -->
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<dd>
|
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139
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<p>Sets the grid-point positions (disretized coordinate values).</p>
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140
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<p>ARGUMENTS</p>
|
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141
|
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<ul>
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142
|
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<li>pos (a 1D VArray)</li>
|
|
143
|
-
</ul>
|
|
144
|
-
<p>RETURN VALUE</p>
|
|
145
|
-
<ul>
|
|
146
|
-
<li>pos (the argument)</li>
|
|
147
|
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</ul></dd>
|
|
148
|
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<dt><h4><a name="label-18" id="label-18"><code>set_pos(<var>pos</var>)</code></a></h4></dt><!-- RDLabel: "set_pos" -->
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149
|
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<dd>
|
|
150
|
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<p>Sets the grid-point positions (disretized coordinate values).</p>
|
|
151
|
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<p>ARGUMENTS</p>
|
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152
|
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<ul>
|
|
153
|
-
<li>pos (a 1D VArray)</li>
|
|
154
|
-
</ul>
|
|
155
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<p>RETURN VALUE</p>
|
|
156
|
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<ul>
|
|
157
|
-
<li>self</li>
|
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158
|
-
</ul></dd>
|
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159
|
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<dt><h4><a name="label-19" id="label-19"><code>pos</code></a></h4></dt><!-- RDLabel: "pos" -->
|
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160
|
-
<dd>
|
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161
|
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<p>Returns the grid-point positions (disretized coordinate values).</p>
|
|
162
|
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<p>RETURN VALUE</p>
|
|
163
|
-
<ul>
|
|
164
|
-
<li>a VArray (no duplication is made)</li>
|
|
165
|
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</ul></dd>
|
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166
|
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<dt><h4><a name="label-20" id="label-20"><code>cell_center</code></a></h4></dt><!-- RDLabel: "cell_center" -->
|
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167
|
-
<dd>
|
|
168
|
-
<p>When cell-type, returns the positions of grid points at cell centers.</p>
|
|
169
|
-
<p>RETURN VALUE</p>
|
|
170
|
-
<ul>
|
|
171
|
-
<li>a VArray (no duplication is made)</li>
|
|
172
|
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</ul></dd>
|
|
173
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<dt><h4><a name="label-21" id="label-21"><code>cell_bounds</code></a></h4></dt><!-- RDLabel: "cell_bounds" -->
|
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174
|
-
<dd>
|
|
175
|
-
<p>When cell-type, returns the positions of grid points at cell boundaries.</p>
|
|
176
|
-
<p>RETURN VALUE</p>
|
|
177
|
-
<ul>
|
|
178
|
-
<li>a VArray (no duplication is made)</li>
|
|
179
|
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</ul></dd>
|
|
180
|
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<dt><h4><a name="label-22" id="label-22"><code>length</code></a></h4></dt><!-- RDLabel: "length" -->
|
|
181
|
-
<dd>
|
|
182
|
-
<p>Returns the length of the axis.</p>
|
|
183
|
-
<p>RETURN VALUE</p>
|
|
184
|
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<ul>
|
|
185
|
-
<li>an Integer</li>
|
|
186
|
-
</ul></dd>
|
|
187
|
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<dt><h4><a name="label-23" id="label-23"><code>set_cell(<var>center</var>, <var>bounds</var>, <var>name</var>=<var>nil</var>)</code></a></h4></dt><!-- RDLabel: "set_cell" -->
|
|
188
|
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<dd>
|
|
189
|
-
<p>Set up cell-type axis, by giving both the cell centers and boundaries.
|
|
190
|
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Completion of the set up is deferred until one of <a href="#label-25">set_pos_to_center</a>
|
|
191
|
-
and <a href="#label-26">set_pos_to_bounds</a> is called.</p>
|
|
192
|
-
<p>ARGUMENTS</p>
|
|
193
|
-
<ul>
|
|
194
|
-
<li>center (a 1D VArray)</li>
|
|
195
|
-
<li>bounds (a 1D VArray)</li>
|
|
196
|
-
<li>name (String)</li>
|
|
197
|
-
</ul>
|
|
198
|
-
<p>RETURN VALUE</p>
|
|
199
|
-
<ul>
|
|
200
|
-
<li>self</li>
|
|
201
|
-
</ul></dd>
|
|
202
|
-
<dt><h4><a name="label-24" id="label-24"><code>set_cell_guess_bounds(<var>center</var>, <var>name</var>=<var>nil</var>)</code></a></h4></dt><!-- RDLabel: "set_cell_guess_bounds" -->
|
|
203
|
-
<dd>
|
|
204
|
-
<p>Set up cell-type axis, by specifing only the cell centers
|
|
205
|
-
and deriving bounds with a naive assumption.</p>
|
|
206
|
-
<p>ARGUMENTS</p>
|
|
207
|
-
<ul>
|
|
208
|
-
<li>center (a 1D VArray)</li>
|
|
209
|
-
<li>name (String)</li>
|
|
210
|
-
</ul>
|
|
211
|
-
<p>RETURN VALUE</p>
|
|
212
|
-
<ul>
|
|
213
|
-
<li>self</li>
|
|
214
|
-
</ul></dd>
|
|
215
|
-
<dt><h4><a name="label-25" id="label-25"><code>set_pos_to_center</code></a></h4></dt><!-- RDLabel: "set_pos_to_center" -->
|
|
216
|
-
<dd>
|
|
217
|
-
Set the position of the current axis to the centers of the cells.
|
|
218
|
-
This or <a href="#label-26">set_pos_to_bounds</a> is needed to complete the set up
|
|
219
|
-
with set_cell_* methods.</dd>
|
|
220
|
-
<dt><h4><a name="label-26" id="label-26"><code>set_pos_to_bounds</code></a></h4></dt><!-- RDLabel: "set_pos_to_bounds" -->
|
|
221
|
-
<dd>
|
|
222
|
-
Set the position of the current axis to the cell bondaries.
|
|
223
|
-
This or <a href="#label-25">set_pos_to_center</a> is needed to complete the set up
|
|
224
|
-
with set_cell_* methods.</dd>
|
|
225
|
-
<dt><h4><a name="label-27" id="label-27"><code>set_aux(<var>name</var>,<var>vary</var>)</code></a></h4></dt><!-- RDLabel: "set_aux" -->
|
|
226
|
-
<dd>
|
|
227
|
-
<p>Set auxiliary data</p>
|
|
228
|
-
<p>ARGUMENTS</p>
|
|
229
|
-
<ul>
|
|
230
|
-
<li>name (String) a tag to express the kind of the data</li>
|
|
231
|
-
<li>vary (a VArray) the data</li>
|
|
232
|
-
</ul>
|
|
233
|
-
<p>RETURN VALUE</p>
|
|
234
|
-
<ul>
|
|
235
|
-
<li>vary (the 2nd argument)</li>
|
|
236
|
-
</ul></dd>
|
|
237
|
-
<dt><h4><a name="label-28" id="label-28"><code>get_aux(<var>name</var>)</code></a></h4></dt><!-- RDLabel: "get_aux" -->
|
|
238
|
-
<dd>
|
|
239
|
-
<p>Returns auxiliary data</p>
|
|
240
|
-
<p>ARGUMENTS</p>
|
|
241
|
-
<ul>
|
|
242
|
-
<li>name (String) a tag to express the kind of the data (see <a href="#label-27">set_aux</a>).</li>
|
|
243
|
-
</ul>
|
|
244
|
-
<p>RETURN VALUE</p>
|
|
245
|
-
<ul>
|
|
246
|
-
<li>a VArray</li>
|
|
247
|
-
</ul></dd>
|
|
248
|
-
<dt><h4><a name="label-29" id="label-29"><code>aux_names</code></a></h4></dt><!-- RDLabel: "aux_names" -->
|
|
249
|
-
<dd>
|
|
250
|
-
<p>Returns a list of the names of auxiliary data</p>
|
|
251
|
-
<p>RETURN VALUE</p>
|
|
252
|
-
<ul>
|
|
253
|
-
<li>an Array of String</li>
|
|
254
|
-
</ul></dd>
|
|
255
|
-
<dt><h4><a name="label-30" id="label-30"><code>to_gphys(<var>datavary1d</var>=<var>nil</var>)</code></a></h4></dt><!-- RDLabel: "to_gphys" -->
|
|
256
|
-
<dd>
|
|
257
|
-
<p>To construct a GPhys object from an Axis.</p>
|
|
258
|
-
<p>ARGUMENTS</p>
|
|
259
|
-
<ul>
|
|
260
|
-
<li>datavary1d (nil or VArray) :
|
|
261
|
-
If nil, the position object of self becomes the main data object.
|
|
262
|
-
If a VArray, it is used as the main data object.</li>
|
|
263
|
-
</ul>
|
|
264
|
-
<p>RETURN VALUE</p>
|
|
265
|
-
<ul>
|
|
266
|
-
<li>a GPhys</li>
|
|
267
|
-
</ul></dd>
|
|
268
|
-
<dt><h4><a name="label-31" id="label-31"><code>[<var>slicer</var>]</code></a></h4></dt><!-- RDLabel: "[]" -->
|
|
269
|
-
<dd>
|
|
270
|
-
<p>Returns a subset. Its specification is the same as in NArray.</p>
|
|
271
|
-
<p>RETURN VALUE</p>
|
|
272
|
-
<ul>
|
|
273
|
-
<li>an Axis</li>
|
|
274
|
-
</ul></dd>
|
|
275
|
-
<dt><h4><a name="label-32" id="label-32"><code>cut(<var>coord_cutter</var>)</code></a></h4></dt><!-- RDLabel: "cut" -->
|
|
276
|
-
<dd>
|
|
277
|
-
<p>Similar to <a href="#label-31">[]</a>, but is based on the physical coordinate.</p>
|
|
278
|
-
<p>RETURN VALUE</p>
|
|
279
|
-
<ul>
|
|
280
|
-
<li>an Axis</li>
|
|
281
|
-
</ul></dd>
|
|
282
|
-
<dt><h4><a name="label-33" id="label-33"><code>cut_rank_conserving(<var>coord_cutter</var>)</code></a></h4></dt><!-- RDLabel: "cut_rank_conserving" -->
|
|
283
|
-
<dd>
|
|
284
|
-
<p>Similar to <a href="#label-32">cut</a>, but is always rank-conserving. That is,
|
|
285
|
-
a subset specification like [i] is treated as [i..i]</p>
|
|
286
|
-
<p>RETURN VALUE</p>
|
|
287
|
-
<ul>
|
|
288
|
-
<li>an Axis</li>
|
|
289
|
-
</ul></dd>
|
|
290
|
-
<dt><h4><a name="label-34" id="label-34"><code>integrate(<var>ary</var>,<var>dim</var>)</code></a></h4></dt><!-- RDLabel: "integrate" -->
|
|
291
|
-
<dd>
|
|
292
|
-
<p>Does integration along the axis</p>
|
|
293
|
-
<p>ARGUMENTS</p>
|
|
294
|
-
<ul>
|
|
295
|
-
<li>ary (NArray or NArray-like multi-dimensional data class)
|
|
296
|
-
the data, whose dim-th dimension must have the same length as the axis.</li>
|
|
297
|
-
<li>dim (Integer) : The dimension of ary, to which the operation is applied.</li>
|
|
298
|
-
</ul>
|
|
299
|
-
<p>RETURN VALUE</p>
|
|
300
|
-
<ul>
|
|
301
|
-
<li>an obejct with the same class as ary, or of a Numeric
|
|
302
|
-
class if ary is 1D.</li>
|
|
303
|
-
</ul></dd>
|
|
304
|
-
<dt><h4><a name="label-35" id="label-35"><code>integ_weight</code></a></h4></dt><!-- RDLabel: "integ_weight" -->
|
|
305
|
-
<dd>
|
|
306
|
-
Returns the integration weight (whose default is nil).</dd>
|
|
307
|
-
<dt><h4><a name="label-36" id="label-36"><code>integ_weight=(<var>wgt</var>)</code></a></h4></dt><!-- RDLabel: "integ_weight=" -->
|
|
308
|
-
<dd>
|
|
309
|
-
Sets the integration weight (whose default is nil).</dd>
|
|
310
|
-
<dt><h4><a name="label-37" id="label-37"><code>average(<var>ary</var>,<var>dim</var>)</code></a></h4></dt><!-- RDLabel: "average" -->
|
|
311
|
-
<dd>
|
|
312
|
-
<p>Similar to <a href="#label-34">integrate</a>, but does averaging</p>
|
|
313
|
-
<p>ARGUMENTS</p>
|
|
314
|
-
<ul>
|
|
315
|
-
<li>see <a href="#label-34">integrate</a></li>
|
|
316
|
-
</ul>
|
|
317
|
-
<p>RETURN VALUE</p>
|
|
318
|
-
<ul>
|
|
319
|
-
<li>see <a href="#label-34">integrate</a></li>
|
|
320
|
-
</ul></dd>
|
|
321
|
-
<dt><h4><a name="label-38" id="label-38"><code>average_weight</code></a></h4></dt><!-- RDLabel: "average_weight" -->
|
|
322
|
-
<dd>
|
|
323
|
-
Returns the integration weight (whose default is nil).</dd>
|
|
324
|
-
<dt><h4><a name="label-39" id="label-39"><code>average_weight=(<var>wgt</var>)</code></a></h4></dt><!-- RDLabel: "average_weight=" -->
|
|
325
|
-
<dd>
|
|
326
|
-
Sets the integration weight (whose default is nil).</dd>
|
|
327
|
-
<dt><h4><a name="label-40" id="label-40"><code>draw_positive</code></a></h4></dt><!-- RDLabel: "draw_positive" -->
|
|
328
|
-
<dd>
|
|
329
|
-
<p>Returns the direction to plot the axis, which relies on the
|
|
330
|
-
VArray#axis_draw_positive method.</p>
|
|
331
|
-
<p>RETURN VALUE</p>
|
|
332
|
-
<ul>
|
|
333
|
-
<li>one of the following:
|
|
334
|
-
<ul>
|
|
335
|
-
<li>true: axis should be drawn in the increasing order (to right/upward)</li>
|
|
336
|
-
<li>false: axis should be drawn in the decreasing order</li>
|
|
337
|
-
<li>nil: not specified</li>
|
|
338
|
-
</ul></li>
|
|
339
|
-
</ul></dd>
|
|
340
|
-
<dt><h4><a name="label-41" id="label-41"><code>cyclic?</code></a></h4></dt><!-- RDLabel: "cyclic?" -->
|
|
341
|
-
<dd>
|
|
342
|
-
<p>Returns whether the axis is cyclic.
|
|
343
|
-
(Relies on the VArray#axis_cyclic? method.)</p>
|
|
344
|
-
<p>RETURN VALUE</p>
|
|
345
|
-
<ul>
|
|
346
|
-
<li>one of the following:
|
|
347
|
-
<ul>
|
|
348
|
-
<li>true: cyclic</li>
|
|
349
|
-
<li>false: not cyclic</li>
|
|
350
|
-
<li>nil: not specified</li>
|
|
351
|
-
</ul></li>
|
|
352
|
-
</ul></dd>
|
|
353
|
-
<dt><h4><a name="label-42" id="label-42"><code>modulo</code></a></h4></dt><!-- RDLabel: "modulo" -->
|
|
354
|
-
<dd>
|
|
355
|
-
<p>Returns the modulo of a cyclic axis
|
|
356
|
-
(Relies on the VArray#axis_modulo method.)</p>
|
|
357
|
-
<p>RETURN VALUE</p>
|
|
358
|
-
<ul>
|
|
359
|
-
<li>one of the following:
|
|
360
|
-
<ul>
|
|
361
|
-
<li>Float if the modulo is defined</li>
|
|
362
|
-
<li>nil if modulo is not found</li>
|
|
363
|
-
</ul></li>
|
|
364
|
-
</ul></dd>
|
|
365
|
-
<dt><h4><a name="label-43" id="label-43"><code>cyclic_extendible?</code></a></h4></dt><!-- RDLabel: "cyclic_extendible?" -->
|
|
366
|
-
<dd>
|
|
367
|
-
<p>Returns whether the axis is cyclic and appropriate to extend.
|
|
368
|
-
(Relies on the VArray#axis_cyclic_extendible? method.)</p>
|
|
369
|
-
<p>RETURN VALUE</p>
|
|
370
|
-
<ul>
|
|
371
|
-
<li>true or false</li>
|
|
372
|
-
</ul></dd>
|
|
373
|
-
</dl>
|
|
374
|
-
|
|
375
|
-
</body>
|
|
376
|
-
</html>
|
data/doc/coordmapping.html
DELETED
|
@@ -1,111 +0,0 @@
|
|
|
1
|
-
<?xml version="1.0" ?>
|
|
2
|
-
<!DOCTYPE html
|
|
3
|
-
PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN"
|
|
4
|
-
"http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
|
|
5
|
-
<html xmlns="http://www.w3.org/1999/xhtml">
|
|
6
|
-
<head>
|
|
7
|
-
<title>../lib/numru/gphys/coordmapping.rb</title>
|
|
8
|
-
</head>
|
|
9
|
-
<body>
|
|
10
|
-
<h1><a name="label:0" id="label:0">class CoordMapping</a></h1><!-- RDLabel: "class CoordMapping" -->
|
|
11
|
-
<h2><a name="label:1" id="label:1">Overview</a></h2><!-- RDLabel: "Overview" -->
|
|
12
|
-
<p>Mapping of a coordinate to another. It supports analytic and
|
|
13
|
-
grid-point-based mapping in subclasses. Here in this root
|
|
14
|
-
CoordMapping class only the invariant unity mapping (or no mapping)
|
|
15
|
-
is defined.</p>
|
|
16
|
-
<h2><a name="label:2" id="label:2">Class methods</a></h2><!-- RDLabel: "Class methods" -->
|
|
17
|
-
<dl>
|
|
18
|
-
<dt><h4><a name="label:3" id="label:3"><code>CoordMapping.new</code></a></h4></dt><!-- RDLabel: "CoordMapping.new" -->
|
|
19
|
-
<dd>
|
|
20
|
-
<p>Constructor. One or more arguments can be needed in subclasses</p></dd>
|
|
21
|
-
</dl>
|
|
22
|
-
<h2><a name="label:4" id="label:4">Methods</a></h2><!-- RDLabel: "Methods" -->
|
|
23
|
-
<dl>
|
|
24
|
-
<dt><h4><a name="label:5" id="label:5"><code>map(<var>x</var>,<var>y</var>,<var>z</var>,...)</code></a></h4></dt><!-- RDLabel: "map" -->
|
|
25
|
-
<dd>
|
|
26
|
-
<p>Maps data point(s)</p>
|
|
27
|
-
<p>ARGUMENTS</p>
|
|
28
|
-
<ul>
|
|
29
|
-
<li>x,y,z,... (one or more Numeric or NArray) : data points.
|
|
30
|
-
Mapping is made of [x,y,z,..] (if Numeric) or
|
|
31
|
-
[x[0],y[0],z[0],..], [x[1],y[1],z[1],..], ..(if NArray).
|
|
32
|
-
Thus, the number of arguments must be equal to the rank of
|
|
33
|
-
the mapping. Also, their lengths must agree with each other.</li>
|
|
34
|
-
</ul>
|
|
35
|
-
<p>RETURN VALUE</p>
|
|
36
|
-
<ul>
|
|
37
|
-
<li>Array of p,q,r,... (Numeric or NArray) : mapping result</li>
|
|
38
|
-
</ul></dd>
|
|
39
|
-
<dt><h4><a name="label:6" id="label:6"><code>map_grid(<var>x</var>,<var>y</var>,<var>z</var>,...)</code></a></h4></dt><!-- RDLabel: "map_grid" -->
|
|
40
|
-
<dd>
|
|
41
|
-
<p>Same as <a href="#label:5">map</a> but for a regular grid.</p>
|
|
42
|
-
<p>ARGUMENTS</p>
|
|
43
|
-
<ul>
|
|
44
|
-
<li>x,y,z,... (one or more 1D NArray) : coordinate values of
|
|
45
|
-
a regular grid [x_i, y_j, z_k,..]. The shape of the grid is thus
|
|
46
|
-
[x.length, y.length, z.length,..]. This method needs no redefinition,
|
|
47
|
-
since it calls <a href="#label:5">map</a> inside.</li>
|
|
48
|
-
</ul></dd>
|
|
49
|
-
<dt><h4><a name="label:7" id="label:7"><code>inverse_map(<var>p</var>,<var>q</var>,<var>r</var>,...)</code></a></h4></dt><!-- RDLabel: "inverse_map" -->
|
|
50
|
-
<dd>
|
|
51
|
-
<p>Inversely maps data point(s).</p>
|
|
52
|
-
<p>ARGUMENTS</p>
|
|
53
|
-
<ul>
|
|
54
|
-
<li>p,q,r,... (one or more Numeric or NArray) : data points.
|
|
55
|
-
Inverse mapping is made of [p,q,r,..] (if Numeric) or
|
|
56
|
-
[p[0],q[0],r[0],..], [p[1],q[1],r[1],..], ..(if NArray).
|
|
57
|
-
Thus, the number of arguments must be equal to the rank of
|
|
58
|
-
the mapping. Also, if NArray, their lengths must agree with each other.</li>
|
|
59
|
-
</ul>
|
|
60
|
-
<p>RETURN VALUE</p>
|
|
61
|
-
<ul>
|
|
62
|
-
<li>Array of x,y,z,... (Numeric or NArray) : inverse mapping result</li>
|
|
63
|
-
</ul></dd>
|
|
64
|
-
<dt><h4><a name="label:8" id="label:8"><code>inverse</code></a></h4></dt><!-- RDLabel: "inverse" -->
|
|
65
|
-
<dd>
|
|
66
|
-
<p>Returns the inverse mapping.</p>
|
|
67
|
-
<p>RETURN VALUE</p>
|
|
68
|
-
<ul>
|
|
69
|
-
<li>a CoordMapping</li>
|
|
70
|
-
</ul></dd>
|
|
71
|
-
<dt><h4><a name="label:9" id="label:9"><code>inversion_rigorous?</code></a></h4></dt><!-- RDLabel: "inversion_rigorous?" -->
|
|
72
|
-
<dd>
|
|
73
|
-
<p>Whether the inversion is rigorous (analytical)</p>
|
|
74
|
-
<p>RETURN VALUE</p>
|
|
75
|
-
<ul>
|
|
76
|
-
<li>true or false</li>
|
|
77
|
-
</ul></dd>
|
|
78
|
-
</dl>
|
|
79
|
-
<h1><a name="label:10" id="label:10">class LinearCoordMapping < CoordMapping</a></h1><!-- RDLabel: "class LinearCoordMapping < CoordMapping" -->
|
|
80
|
-
<h2><a name="label:11" id="label:11">Overview</a></h2><!-- RDLabel: "Overview" -->
|
|
81
|
-
<p>Linear coordinate mapping expressed as offset + factor*x,
|
|
82
|
-
where offset is a vector (NVect) and factor is a matrix (NMatrix).</p>
|
|
83
|
-
<p>Methods listed below are only those newly defined or those whose
|
|
84
|
-
arguments are changed.</p>
|
|
85
|
-
<h2><a name="label:12" id="label:12">Class methods</a></h2><!-- RDLabel: "Class methods" -->
|
|
86
|
-
<dl>
|
|
87
|
-
<dt><h4><a name="label:13" id="label:13"><code>LinearCoordMapping.new(<var>offset</var>=<var>nil</var>, <var>factor</var>=<var>nil</var>)</code></a></h4></dt><!-- RDLabel: "LinearCoordMapping.new" -->
|
|
88
|
-
<dd>
|
|
89
|
-
<p>Constructor. If one of offset and factor is not
|
|
90
|
-
specified (nil), a zero vector / a unit matrix is used (at least
|
|
91
|
-
one of them must be given).</p>
|
|
92
|
-
<p>ARGUMENTS</p>
|
|
93
|
-
<ul>
|
|
94
|
-
<li>offset (NVector or nil) : the offset. Its length represents the rank
|
|
95
|
-
of mapping. (if nil a zero vector is assumed)</li>
|
|
96
|
-
<li>factor (NMatrix or nil) : the factor. For consistency,
|
|
97
|
-
( offset.length == factor.shape[0] == factor.shape[1] ) is required.</li>
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</ul></dd>
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</dl>
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<h2><a name="label:14" id="label:14">Methods</a></h2><!-- RDLabel: "Methods" -->
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<dl>
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<dt><h4><a name="label:15" id="label:15"><code>offset</code></a></h4></dt><!-- RDLabel: "offset" -->
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<dd>
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<p>Returns the internally stored offset.</p></dd>
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<dt><h4><a name="label:16" id="label:16"><code>factor</code></a></h4></dt><!-- RDLabel: "factor" -->
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<dd>
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<p>Returns the internally stored factor.</p></dd>
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</dl>
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<body>
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<h1><a name="label:0" id="label:0">class NumRu::GPhys</a></h1><!-- RDLabel: "class NumRu::GPhys" -->
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<p>Additional methods regarding coordinate transformation.</p>
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<h2><a name="label:1" id="label:1">Methods</a></h2><!-- RDLabel: "Methods" -->
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<dl>
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<dt><h4><a name="label:2" id="label:2"><code>coordtransform( <var>coordmapping</var>, <var>axes_to</var>, *<var>dims</var> )</code></a></h4></dt><!-- RDLabel: "coordtransform" -->
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<dd>
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<p>Coordinate transformation with <var>coordmapping</var> into <var>axes_to</var>.</p>
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<p>ARGUMENTS</p>
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<ul>
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<li><var>coordmapping</var> (CoordMapping) : relation between the new and
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original coordinate systems. Mapping is defined from the new one to
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the orinal one. If the rank of the mapping is smaller than
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the rank of self, <var>dims</var> must be used to specify the
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correspondence. e.g., if the rank of the mapping is 2 and that
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of self is 3 and the mapping is regarding the first 2 dimensions
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of the three, <var>dims</var> must be [0,1].</li>
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<li><var>axes_to</var> (Array of Axis) : grid in the new coordinate system.
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Its length must be the same as the rank of <var>coordmapping</var></li>
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<li><var>dims</var> (integers) : Specifies the dimensions to which
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<var>coordmapping</var> is applied. Needed if
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<code>self.rank!=coordmapping.rank</code> (neglected otherwise).
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The number of integers must agree with the rank of the mapping.</li>
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</ul></dd>
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<title>../../lib/numru/gphys/derivative.rb</title>
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<h1><a name="label:0" id="label:0">module NumRu::GPhys::Derivative in derivative.rb</a></h1><!-- RDLabel: "module NumRu::GPhys::Derivative in derivative.rb" -->
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<h2><a name="label:1" id="label:1">Index</a></h2><!-- RDLabel: "Index" -->
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<ul>
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<li><a href="#label:2">module NumRu::GPhys::Derivative</a>
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<ul>
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<li><a href="#label:3">threepoint_O2nd_deriv</a>
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<ul>
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17
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<li>First derivative (2nd Order difference use three point.)</li>
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</ul></li>
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<li><a href="#label:4">cderiv</a>
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20
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<ul>
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21
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<li>First derivative (using center difference method)</li>
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22
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</ul></li>
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23
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-
</ul></li>
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</ul>
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<h1><a name="label:2" id="label:2">module NumRu::GPhys::Derivative</a></h1><!-- RDLabel: "module NumRu::GPhys::Derivative" -->
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<p>Module functions of Derivative Operater for GPhys.</p>
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<dl>
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<dt><a name="label:3" id="label:3"><code>threepoint_O2nd_deriv(<var>gp</var>, <var>dim_or_dimname</var>, <var>bc</var>=<var>NumRu</var>::<var>Derivative</var>::<var>LINEAR_EXT</var>))</code></a></dt><!-- RDLabel: "threepoint_O2nd_deriv" -->
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|
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<dd>
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30
|
-
<p>Derivate <code>z</code> respect to <code>dim</code> th dimension with 2nd Order difference.
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31
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-
return an NArray which result of the difference <!-- Reference, RDLabel "z" doesn't exist --><em class="label-not-found">z</em><!-- Reference end --> divided difference
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<code>x</code> (in other wards, </p>
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33
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-
<pre>(s**2*z_{i+1} + (t**2 - s**2)*f_{i} - t**2*f_{i-1}) / (s*t*(s + t)):
|
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34
|
-
now s represents (x_{i} - x_{i-1}) ,t represents (x_{i+1} - x_{i})
|
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35
|
-
and _{i} represents the suffix of {i} th element in the ((<dim>)) th
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36
|
-
dimension of array. ).</pre>
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37
|
-
<p>ARGUMENTS</p>
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38
|
-
<ul>
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39
|
-
<li>z (NArray): a NArray which you want to derivative.</li>
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40
|
-
<li>x (NArray): a NArray represents the dimension which derivative respect
|
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41
|
-
to. z.rank must be 1.</li>
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42
|
-
<li>dim (Numeric): a Numeric represents the dimention which derivative
|
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43
|
-
respect to. you can give number count backward (<!-- Reference, RDLabel "dim" doesn't exist --><em class="label-not-found">dim</em><!-- Reference end --><0), but
|
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44
|
-
<!-- Reference, RDLabel "z.rank ��dim" doesn't exist --><em class="label-not-found">z.rank ��dim</em><!-- Reference end --> must be > 0. </li>
|
|
45
|
-
<li>bc (Numeric) : a Numeric which represent boundary condition.
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46
|
-
now only LINEAR_EXT(=1) supported. LINEAR_EXT load <!-- Reference, RDLabel "b_expand_linear_ext" doesn't exist --><em class="label-not-found">b_expand_linear_ext</em><!-- Reference end -->
|
|
47
|
-
which extend boundary with lenear value.</li>
|
|
48
|
-
</ul>
|
|
49
|
-
<p>RETURN VALUE</p>
|
|
50
|
-
<ul>
|
|
51
|
-
<li>O2nd_deriv_data (NArray):
|
|
52
|
-
(s**2*z_{i+1} + (t**2 - s**2)*f_{i} - t**2*f_{i-1}) / (s*t*(s + t))</li>
|
|
53
|
-
</ul></dd>
|
|
54
|
-
<dt><a name="label:4" id="label:4"><code>cderiv(<var>gp</var>, <var>dim_or_dimname</var>, <var>bc</var>=<var>NumRu</var>::<var>Derivative</var>::<var>LINEAR_EXT</var>)</code></a></dt><!-- RDLabel: "cderiv" -->
|
|
55
|
-
<dd>
|
|
56
|
-
<p>Derivate <code>gp</code> respect to <code>dim</code> th or <code>dimname</code> dimension
|
|
57
|
-
with center difference. return a GPhys which result of the difference
|
|
58
|
-
<!-- Reference, RDLabel "gp" doesn't exist --><em class="label-not-found">gp</em><!-- Reference end --> divided difference axis.
|
|
59
|
-
( in other wards, (z_{i+1} - z_{i-1}) / (x_{i+1} - x_{i-1}): now x is
|
|
60
|
-
axis array which you wants to respects to, _{i} represents the suffix
|
|
61
|
-
of {i} th element in the <!-- Reference, RDLabel "dim" doesn't exist --><em class="label-not-found">dim</em><!-- Reference end --> th dimension of array. ).</p>
|
|
62
|
-
<p>ARGUMENTS</p>
|
|
63
|
-
<ul>
|
|
64
|
-
<li>gp (GPhys): a GPhys which you want to derivative.</li>
|
|
65
|
-
<li>dim_or_dimname (Numeric or String): a Numeric or String represents
|
|
66
|
-
the dimension which derivate respect to. you can give number count
|
|
67
|
-
backward (<!-- Reference, RDLabel "dim" doesn't exist --><em class="label-not-found">dim</em><!-- Reference end --><0), but <!-- Reference, RDLabel "z.rank ��dim" doesn't exist --><em class="label-not-found">z.rank ��dim</em><!-- Reference end --> must be > 0. </li>
|
|
68
|
-
<li>bc (Numeric) : a Numeric which represent boundary condition.
|
|
69
|
-
now only NumRu::Derivative::LINEAR_EXT(=1) supported. LINEAR_EXT load
|
|
70
|
-
<!-- Reference, RDLabel "NumRu::Derivative::b_expand_linear_ext" doesn't exist --><em class="label-not-found">NumRu::Derivative::b_expand_linear_ext</em><!-- Reference end --> which extend boundary
|
|
71
|
-
with linear value.</li>
|
|
72
|
-
</ul>
|
|
73
|
-
<p>RETURN VALUE</p>
|
|
74
|
-
<ul>
|
|
75
|
-
<li>a GPhys</li>
|
|
76
|
-
</ul></dd>
|
|
77
|
-
</dl>
|
|
78
|
-
|
|
79
|
-
</body>
|
|
80
|
-
</html>
|