gphys 1.1.1a

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  1. data/ChangeLog +1777 -0
  2. data/LICENSE.txt +34 -0
  3. data/README +33 -0
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  5. data/TODO_ep_flux +6 -0
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  378. data/lib/numru/gphys/gphys_hdfeos5_io.rb +672 -0
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  408. data/sample/druby_serv2.rb +64 -0
  409. data/sample/ep_flux/demo_NCEP_1.rb +48 -0
  410. data/sample/ep_flux/demo_NCEP_2.rb +57 -0
  411. data/sample/ep_flux/demo_NCEP_3.rb +81 -0
  412. data/sample/ggraph_latlon_labelling_dr002690.rb +159 -0
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data/doc/grib.html ADDED
@@ -0,0 +1,144 @@
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/grib.rb</title>
8
+ </head>
9
+ <body>
10
+ <h1><a name="label-0" id="label-0">Status</a></h1><!-- RDLabel: "Status" -->
11
+ <ul>
12
+ <li>only a Lon-Lat coordinate is supported</li>
13
+ <li>only simple pakking is supported</li>
14
+ <li>variable list is not complete for NCEP and ECMWF</li>
15
+ </ul>
16
+ <p>if ! 'a'.respond_to?(:ord)</p>
17
+ <pre>class String
18
+ def ord
19
+ self[0]
20
+ end
21
+ end</pre>
22
+ <p>end
23
+ if ! 'a'.respond_to?(:getbyte)</p>
24
+ <pre>class String
25
+ def getbyte(i)
26
+ self[i]
27
+ end
28
+ end</pre>
29
+ <p>end</p>
30
+ <pre>def str2uint1(str)
31
+ return nil if str.length==0
32
+ return str.ord
33
+ end
34
+ def str2uint2(str)
35
+ return nil if str.length==0
36
+ return (str.ord&lt;&lt;8)+str.getbyte(1)
37
+ end
38
+ def str2uint3(str)
39
+ return nil if str.length==0
40
+ return (str.ord&lt;&lt;16)+(str.getbyte(1)&lt;&lt;8)+str.getbyte(2)
41
+ end</pre>
42
+ <pre>index[1].each{|j|
43
+ jj = j-index[1].first
44
+ sb = j*nlon+index[0].first
45
+ sb = sb-map[true,0..jj-1].count_false if jj&gt;0
46
+ sb = sb*nbits_pack
47
+ eb = sb+mask[true,j].count_true*nbits_pack
48
+ if sb!=eb
49
+ var[mask[true,j].where,jj] = get_value(@sgm.file,@pos+8,sb,eb,nbits_pack,nstep)
50
+ end
51
+ }</pre>
52
+ <pre>sb = index[1].first*nlon*nbits_pack
53
+ eb = (index[1].end+1)*nlon*nbits_pack
54
+ var = get_value(@sgm.file,@pos+8,sb,eb,nbits_pack,nstep)
55
+ var.reshape!(nlon, var.length/nlon)
56
+ var = var[index[0],true]</pre>
57
+ <pre>eb = nlen*nbits_pack
58
+ var = get_value(@sgm.file,@pos+8,0,eb,nbits_pack,nstep)
59
+ var.reshape!(nlon,nlat)</pre>
60
+ <h1><a name="label-1" id="label-1">NumRu::Grib -- a class for Grib datasets</a></h1><!-- RDLabel: "NumRu::Grib &shy;&shy; a class for Grib datasets" -->
61
+ <h2><a name="label-2" id="label-2">Class Methods</a></h2><!-- RDLabel: "Class Methods" -->
62
+ <dl>
63
+ <dt><h4><a name="label-3" id="label-3"><code>Grib.new(<var>filename</var>, <var>mode</var>="<var>r</var>")</code></a></h4></dt><!-- RDLabel: "Grib.new" -->
64
+ <dd>
65
+ <p>make a new Grib object.</p>
66
+ <p>ARGUMENTS</p>
67
+ <ul>
68
+ <li>filename (String): name of the file to open</li>
69
+ <li>mode (String): IO mode. "r" (read only) or "w" (write only).</li>
70
+ </ul></dd>
71
+ <dt><h4><a name="label-4" id="label-4"><code>Grib.open(<var>filename</var>)</code></a></h4></dt><!-- RDLabel: "Grib.open" -->
72
+ <dd>
73
+ open a Grib file.</dd>
74
+ <dt><h4><a name="label-5" id="label-5"><code>Grib.create(<var>filename</var>)</code></a></h4></dt><!-- RDLabel: "Grib.create" -->
75
+ <dd>
76
+ create a Grib file.</dd>
77
+ <dt><h4><a name="label-6" id="label-6"><code>Grib.is_aGrib?(<var>filename</var>)</code></a></h4></dt><!-- RDLabel: "Grib.is_aGrib?" -->
78
+ <dd>
79
+ return true when file is a Grib dataset</dd>
80
+ </dl>
81
+ <h2><a name="label-7" id="label-7">Methods</a></h2><!-- RDLabel: "Methods" -->
82
+ <dl>
83
+ <dt><h4><a name="label-8" id="label-8"><code>close</code></a></h4></dt><!-- RDLabel: "close" -->
84
+ <dt><h4><a name="label-9" id="label-9"><code>parse</code></a></h4></dt><!-- RDLabel: "parse" -->
85
+ <dt><h4><a name="label-10" id="label-10"><code>path</code></a></h4></dt><!-- RDLabel: "path" -->
86
+ <dt><h4><a name="label-11" id="label-11"><code>var_names</code></a></h4></dt><!-- RDLabel: "var_names" -->
87
+ <dt><h4><a name="label-12" id="label-12"><code>var( <var>name</var> )</code></a></h4></dt><!-- RDLabel: "var" -->
88
+ <dt><h4><a name="label-13" id="label-13"><code>def_var( <var>name</var> )</code></a></h4></dt><!-- RDLabel: "def_var" -->
89
+ <dt><h4><a name="label-14" id="label-14"><code>enddef</code></a></h4></dt><!-- RDLabel: "enddef" -->
90
+ <dt><h4><a name="label-15" id="label-15"><code>write</code></a></h4></dt><!-- RDLabel: "write" -->
91
+ </dl>
92
+ <h1><a name="label-16" id="label-16">NumRu::GribDim</a></h1><!-- RDLabel: "NumRu::GribDim" -->
93
+ <h2><a name="label-17" id="label-17">Class Methods</a></h2><!-- RDLabel: "Class Methods" -->
94
+ <dl>
95
+ <dt><h4><a name="label-18" id="label-18"><code>new( <var>vat</var>, <var>name</var>, <var>length</var> )</code></a></h4></dt><!-- RDLabel: "new" -->
96
+ </dl>
97
+ <h2><a name="label-19" id="label-19">Methods</a></h2><!-- RDLabel: "Methods" -->
98
+ <dl>
99
+ <dt><h4><a name="label-20" id="label-20"><code>var</code></a></h4></dt><!-- RDLabel: "var" -->
100
+ <dt><h4><a name="label-21" id="label-21"><code>length</code></a></h4></dt><!-- RDLabel: "length" -->
101
+ <dt><h4><a name="label-22" id="label-22"><code>name</code></a></h4></dt><!-- RDLabel: "name" -->
102
+ <dt><h4><a name="label-23" id="label-23"><code>typecode</code></a></h4></dt><!-- RDLabel: "typecode" -->
103
+ <dt><h4><a name="label-24" id="label-24"><code>get</code></a></h4></dt><!-- RDLabel: "get" -->
104
+ <dt><h4><a name="label-25" id="label-25"><code>[<var>indices</var>]</code></a></h4></dt><!-- RDLabel: "[]" -->
105
+ <dt><h4><a name="label-26" id="label-26"><code>put_att(<var>key</var>,<var>val</var>)</code></a></h4></dt><!-- RDLabel: "put_att" -->
106
+ <dt><h4><a name="label-27" id="label-27"><code>set_att(<var>key</var>,<var>val</var>)</code></a></h4></dt><!-- RDLabel: "set_att" -->
107
+ <dt><h4><a name="label-28" id="label-28"><code>att(<var>key</var>)</code></a></h4></dt><!-- RDLabel: "att" -->
108
+ <dt><h4><a name="label-29" id="label-29"><code>att_names</code></a></h4></dt><!-- RDLabel: "att_names" -->
109
+ <dt><h4><a name="label-30" id="label-30"><code>inspect</code></a></h4></dt><!-- RDLabel: "inspect" -->
110
+ </dl>
111
+ <h1><a name="label-31" id="label-31">NumRu::GribVar</a></h1><!-- RDLabel: "NumRu::GribVar" -->
112
+ <h2><a name="label-32" id="label-32">Class Methods</a></h2><!-- RDLabel: "Class Methods" -->
113
+ <dl>
114
+ <dt><h4><a name="label-33" id="label-33"><code>new( <var>file</var>, <var>name</var>, <var>obj</var>, <var>dims</var> )</code></a></h4></dt><!-- RDLabel: "new" -->
115
+ </dl>
116
+ <h2><a name="label-34" id="label-34">Methods</a></h2><!-- RDLabel: "Methods" -->
117
+ <dl>
118
+ <dt><h4><a name="label-35" id="label-35"><code>file</code></a></h4></dt><!-- RDLabel: "file" -->
119
+ <dt><h4><a name="label-36" id="label-36"><code>name</code></a></h4></dt><!-- RDLabel: "name" -->
120
+ <dt><h4><a name="label-37" id="label-37"><code>rank</code></a></h4></dt><!-- RDLabel: "rank" -->
121
+ <dt><h4><a name="label-38" id="label-38"><code>total</code></a></h4></dt><!-- RDLabel: "total" -->
122
+ <dt><h4><a name="label-39" id="label-39"><code>set_var</code></a></h4></dt><!-- RDLabel: "set_var" -->
123
+ <dt><h4><a name="label-40" id="label-40"><code>set_miss</code></a></h4></dt><!-- RDLabel: "set_miss" -->
124
+ <dt><h4><a name="label-41" id="label-41"><code>dim_names</code></a></h4></dt><!-- RDLabel: "dim_names" -->
125
+ <dt><h4><a name="label-42" id="label-42"><code>dim( <var>index</var> )</code></a></h4></dt><!-- RDLabel: "dim" -->
126
+ <dt><h4><a name="label-43" id="label-43"><code>ndims</code></a></h4></dt><!-- RDLabel: "ndims" -->
127
+ <dt><h4><a name="label-44" id="label-44"><code>def_dim(<var>name</var>,<var>index</var>)</code></a></h4></dt><!-- RDLabel: "def_dim" -->
128
+ <dt><h4><a name="label-45" id="label-45"><code>put_att( <var>key</var>, <var>value</var> )</code></a></h4></dt><!-- RDLabel: "put_att" -->
129
+ <dt><h4><a name="label-46" id="label-46"><code>set_att( <var>key</var>, <var>value</var> )</code></a></h4></dt><!-- RDLabel: "set_att" -->
130
+ <dt><h4><a name="label-47" id="label-47"><code>att( <var>key</var> )</code></a></h4></dt><!-- RDLabel: "att" -->
131
+ <dt><h4><a name="label-48" id="label-48"><code>att_names</code></a></h4></dt><!-- RDLabel: "att_names" -->
132
+ <dt><h4><a name="label-49" id="label-49"><code>shape</code></a></h4></dt><!-- RDLabel: "shape" -->
133
+ <dt><h4><a name="label-50" id="label-50"><code>typecode</code></a></h4></dt><!-- RDLabel: "typecode" -->
134
+ <dt><h4><a name="label-51" id="label-51"><code>get( <var>indics</var> )</code></a></h4></dt><!-- RDLabel: "get" -->
135
+ <dt><h4><a name="label-52" id="label-52"><code>[ <var>indics</var> ]</code></a></h4></dt><!-- RDLabel: "[]" -->
136
+ <dt><h4><a name="label-53" id="label-53"><code>inspect</code></a></h4></dt><!-- RDLabel: "inspect" -->
137
+ </dl>
138
+ <pre>if pds1.time_range!=pds2.time_range
139
+ warn("time range is not same: #{pds1.time_range} != #{pds2.time_range}")
140
+ return true
141
+ end</pre>
142
+
143
+ </body>
144
+ </html>
data/doc/grid.html ADDED
@@ -0,0 +1,212 @@
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/grid.rb</title>
8
+ </head>
9
+ <body>
10
+ <h1><a name="label-0" id="label-0">class NumRU::Grid</a></h1><!-- RDLabel: "class NumRU::Grid" -->
11
+ <p>A class to handle discretized grids of physical quantities.</p>
12
+ <h2><a name="label-1" id="label-1">Class Methods</a></h2><!-- RDLabel: "Class Methods" -->
13
+ <dl>
14
+ <dt><h4><a name="label-2" id="label-2"><code>Grid.new( *<var>axes</var> )</code></a></h4></dt><!-- RDLabel: "Grid.new" -->
15
+ <dd>
16
+ <p>Constructor.</p>
17
+ <p>RETURN VALUE</p>
18
+ <ul>
19
+ <li>a Grid</li>
20
+ </ul></dd>
21
+ </dl>
22
+ <h2><a name="label-3" id="label-3">Instance Methods</a></h2><!-- RDLabel: "Instance Methods" -->
23
+ <dl>
24
+ <dt><h4><a name="label-4" id="label-4"><code>axnames</code></a></h4></dt><!-- RDLabel: "axnames" -->
25
+ <dd>
26
+ <p>Returns the names of the axes</p>
27
+ <p>RETURN VALUE</p>
28
+ <ul>
29
+ <li>an Array of String</li>
30
+ </ul></dd>
31
+ <dt><h4><a name="label-5" id="label-5"><code>lost_axes</code></a></h4></dt><!-- RDLabel: "lost_axes" -->
32
+ <dd>
33
+ <p>Returns info on axes eliminated during operations.</p>
34
+ <p>Useful for annotation in plots, for example (See the code of GGraph
35
+ for an application).</p>
36
+ <p>RETURN VALUE</p>
37
+ <ul>
38
+ <li>an Array of String</li>
39
+ </ul></dd>
40
+ <dt><h4><a name="label-6" id="label-6"><code>axis(<var>dim_or_dimname</var>)</code></a></h4></dt><!-- RDLabel: "axis" -->
41
+ <dd>
42
+ <p>Returns an Axis</p>
43
+ <p>ARGUMENTS</p>
44
+ <ul>
45
+ <li>dim_or_dimname (String or Integer) to specify an axis.</li>
46
+ </ul>
47
+ <p>RETURN VALUE</p>
48
+ <ul>
49
+ <li>an Axis</li>
50
+ </ul></dd>
51
+ <dt><h4><a name="label-7" id="label-7"><code>dim_index(<var>dimname</var>)</code></a></h4></dt><!-- RDLabel: "dim_index" -->
52
+ <dd>
53
+ <p>Returns the integer id (count from zero) of the dimension</p>
54
+ <p>ARGUMENT</p>
55
+ <ul>
56
+ <li>dimname (String or Integer) : this method is trivial if is is an integer</li>
57
+ </ul>
58
+ <p>RETURN VALUE</p>
59
+ <ul>
60
+ <li>an Integer</li>
61
+ </ul></dd>
62
+ <dt><h4><a name="label-8" id="label-8"><code>coord_dim_indices(<var>coordname</var>)</code></a></h4></dt><!-- RDLabel: "coord_dim_indices" -->
63
+ <dd>
64
+ <p>Coordinate name --&gt; dimension indices.</p>
65
+ <p>ARGUMENT</p>
66
+ <ul>
67
+ <li>coordname (String) : Name of a coordinate</li>
68
+ </ul>
69
+ <p>RETURN VALUE</p>
70
+ <ul>
71
+ <li>Array of Integer or nil --
72
+ If the coordinate is present it is an Array
73
+ containing dimension indices (If the coordinate is 1D,
74
+ the lengthof the array is 1.)</li>
75
+ </ul></dd>
76
+ <dt><h4><a name="label-9" id="label-9"><code>set_axis(<var>dim_or_dimname</var>,<var>ax</var>)</code></a></h4></dt><!-- RDLabel: "set_axis" -->
77
+ <dd>
78
+ <p>Sets an axis.</p>
79
+ <p>ARGUMENTS</p>
80
+ <ul>
81
+ <li>dim_or_dimname (String or Integer) to specify an axis.</li>
82
+ <li>ax (Axis) the axis</li>
83
+ </ul>
84
+ <p>RETURN VALUE</p>
85
+ <ul>
86
+ <li>self</li>
87
+ </ul></dd>
88
+ <dt><h4><a name="label-10" id="label-10"><code>set_lost_axes( <var>lost</var> )</code></a></h4></dt><!-- RDLabel: "set_lost_axes" -->
89
+ <dd>
90
+ <p>Sets info on axes eliminated.</p>
91
+ <p>RETURN VALUE</p>
92
+ <ul>
93
+ <li>self</li>
94
+ </ul></dd>
95
+ <dt><h4><a name="label-11" id="label-11"><code>add_lost_axes( <var>lost</var> )</code></a></h4></dt><!-- RDLabel: "add_lost_axes" -->
96
+ <dd>
97
+ <p>Adds info on axes eliminated to existing ones.</p>
98
+ <p>RETURN VALUE</p>
99
+ <ul>
100
+ <li>self</li>
101
+ </ul></dd>
102
+ <dt><h4><a name="label-12" id="label-12"><code>delete_axes( <var>at</var>, <var>deleted_by</var>=<var>nil</var> )</code></a></h4></dt><!-- RDLabel: "delete_axes" -->
103
+ <dd>
104
+ <p>Delete an axis.</p>
105
+ <p>ARGUMENTS</p>
106
+ <ul>
107
+ <li>at (String or Integer) to specify an axis.</li>
108
+ <li>deleted_by (String or nil) if non-nil, it is written in
109
+ the internal lost-axis info. Best if you put the name of the
110
+ method, in which this method is called.</li>
111
+ </ul>
112
+ <p>RETURN VALUE</p>
113
+ <ul>
114
+ <li>a Grid</li>
115
+ </ul></dd>
116
+ <dt><h4><a name="label-13" id="label-13"><code>copy</code></a></h4></dt><!-- RDLabel: "copy" -->
117
+ <dd>
118
+ <p>Makes a deep clone onto memory.</p>
119
+ <p>RETURN VALUE</p>
120
+ <ul>
121
+ <li>a Grid</li>
122
+ </ul></dd>
123
+ <dt><h4><a name="label-14" id="label-14"><code>merge(<var>other</var>)</code></a></h4></dt><!-- RDLabel: "merge" -->
124
+ <dd>
125
+ <p>merge two grids by basically using copies of self's axes but
126
+ using the other's if the length in self is 1 and
127
+ the length in the other is longer</p>
128
+ <p>ARGUMENTS</p>
129
+ <ul>
130
+ <li>other (Grid)</li>
131
+ </ul>
132
+ <p>RETURN VALUE</p>
133
+ <ul>
134
+ <li>a Grid</li>
135
+ </ul></dd>
136
+ <dt><h4><a name="label-15" id="label-15"><code>shape</code></a></h4></dt><!-- RDLabel: "shape" -->
137
+ <dd>
138
+ <p>Returns the shape of self.</p>
139
+ <p>RETURN VALUE</p>
140
+ <ul>
141
+ <li>an Array of Integer</li>
142
+ </ul></dd>
143
+ <dt><h4><a name="label-16" id="label-16"><code>[*<var>slicer</var>]</code></a></h4></dt><!-- RDLabel: "[]" -->
144
+ <dd>
145
+ <p>Returns a subset.</p>
146
+ <p>ARGUMENTS</p>
147
+ <ul>
148
+ <li>Same as those for NArray#[], NetCDFVar#[], etc.</li>
149
+ </ul>
150
+ <p>RETURN VALUE</p>
151
+ <ul>
152
+ <li>a Grid</li>
153
+ </ul></dd>
154
+ <dt><h4><a name="label-17" id="label-17"><code>cut(*<var>args</var>)</code></a></h4></dt><!-- RDLabel: "cut" -->
155
+ <dd>
156
+ <p>Similar to <a href="#label-16">[]</a>, but the subset is specified by physical coordinate.</p>
157
+ <p>ARGUMENTS</p>
158
+ <ul>
159
+ <li>pattern 1: similar to those for <a href="#label-16">[]</a>, where the first
160
+ argument specifies a subset for the first dimension.</li>
161
+ <li>pattern 2: by a Hash, in which keys are axis names.</li>
162
+ </ul>
163
+ <p>EXAMPLES</p>
164
+ <ul>
165
+ <li><p>Pattern 1</p>
166
+ <pre>gphys.cut(135.5,0..20.5,false)</pre></li>
167
+ <li><p>Pattern 2</p>
168
+ <pre>gphys.cut({'lon'=&gt;135.5,'lat'=&gt;0..20})</pre></li>
169
+ </ul>
170
+ <p>RETURN VALUE</p>
171
+ <ul>
172
+ <li>an Array : [a Grid, slicer], where slicer is an array
173
+ to be used to make a subset of an corresponding varray
174
+ (to be used in GPhys#cut).</li>
175
+ </ul></dd>
176
+ <dt><h4><a name="label-18" id="label-18"><code>cut_rank_conserving(*<var>args</var>)</code></a></h4></dt><!-- RDLabel: "cut_rank_conserving" -->
177
+ <dd>
178
+ Similar to <a href="#label-17">cut</a>, but the rank is conserved by not eliminating
179
+ any dimension (whose length could be one).</dd>
180
+ <dt><h4><a name="label-19" id="label-19"><code>cut_assoccoord(<var>hasharg</var>)</code></a></h4></dt><!-- RDLabel: "cut_assoccoord" -->
181
+ <dd>
182
+ Cut with respect to the asscoated coordinates. Similar to cut,
183
+ when the argeuemnt is a Hash, but hash keys are the names of the
184
+ asscoated coordinates.</dd>
185
+ <dt><h4><a name="label-20" id="label-20"><code>change_axis(<var>dim</var>, <var>axis</var>)</code></a></h4></dt><!-- RDLabel: "change_axis" -->
186
+ <dd>
187
+ <p>Replaces an axis. (Returns a new object)</p>
188
+ <p>ARGUMENTS</p>
189
+ <ul>
190
+ <li>dim_or_dimname (String or Integer) to specify an axis.</li>
191
+ <li>axis (Axis)</li>
192
+ </ul>
193
+ <p>RETURN VALUE</p>
194
+ <ul>
195
+ <li>a Grid</li>
196
+ </ul></dd>
197
+ <dt><h4><a name="label-21" id="label-21"><code>transpose( *<var>dims</var> )</code></a></h4></dt><!-- RDLabel: "transpose" -->
198
+ <dd>
199
+ <p>Transpose.</p>
200
+ <p>ARGUMENTS</p>
201
+ <ul>
202
+ <li>dims (integers) : for example, [1,0] to transpose a 2D object.
203
+ For 3D objects, [1,0,2], [2,1,0], etc.etc.</li>
204
+ </ul>
205
+ <p>RETURN VALUE</p>
206
+ <ul>
207
+ <li>a Grid</li>
208
+ </ul></dd>
209
+ </dl>
210
+
211
+ </body>
212
+ </html>
data/doc/index.html ADDED
@@ -0,0 +1,133 @@
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>index.rd</title>
8
+ </head>
9
+ <body>
10
+ <h1><a name="label-0" id="label-0">Reference manuals of the GPhys library</a></h1><!-- RDLabel: "Reference manuals of the GPhys library" -->
11
+ <h2><a name="label-1" id="label-1">Index</a></h2><!-- RDLabel: "Index" -->
12
+ <ul>
13
+ <li><a href="#label-2">GPhys and its components</a>
14
+ <ul>
15
+ <li><a href="gphys.html">class NumRu::GPhys</a> : Core part of the GPhys class</li>
16
+ </ul></li>
17
+ <li><a href="#label-7">Applications distributed with GPhys</a>
18
+ <ul>
19
+ <li><a href="ggraph.html">module NumRu::GGraph</a> : A graphic library using GPhys.</li>
20
+ </ul></li>
21
+ <li><a href="#label-8">Application Commands</a></li>
22
+ </ul>
23
+ <p>---------------------------------------------------------------------</p>
24
+ <h2><a name="label-2" id="label-2">GPhys and its components</a></h2><!-- RDLabel: "GPhys and its components" -->
25
+ <h4><a name="label-3" id="label-3">GPhys Core Part</a></h4><!-- RDLabel: "GPhys Core Part" -->
26
+ <p>A GPhys object has the following structure:</p>
27
+ <pre>-
28
+ has 1
29
+ a GPhys --------- array-like data (VArray)
30
+ | has 1
31
+ --------- grid (Grid)
32
+ | has rank
33
+ ------------ axis (Axis)
34
+ | has 1
35
+ -------- 1D position data (VArray)
36
+ | has 0..
37
+ -------- ancillary data (VArray)</pre>
38
+ <p>That is, a GPhys object consists of data (whose class is VArray) and
39
+ grid (whose class is Grid). The latter consists of axes (whose class is
40
+ Axis), which consist of VArray objects (such as ones that have
41
+ 1-dimensional grid-point position data). To use GPhys, it is
42
+ useful to know these four classes.</p>
43
+ <ul>
44
+ <li><a href="varray.html">class NumRu::VArray</a> :
45
+ Virtual Array class, which holds multi-dimensional data of various
46
+ format and media (on memory or in file).
47
+ <ul>
48
+ <li><a href="varraycomposite.html">class NumRu::VArrayComposite</a> :
49
+ Subclass of VArray to bundle multiple VArrays by "tiling".</li>
50
+ </ul></li>
51
+ <li><a href="axis.html">class NumRu::Axis</a> : A class to represent a discretized physical coordinate.</li>
52
+ <li><a href="grid.html">class NumRu::Grid</a> : A class to represent discretized grids of physical quantities.</li>
53
+ <li><a href="gphys.html">class NumRu::GPhys</a> : Core part of the GPhys class</li>
54
+ </ul>
55
+ <h4><a name="label-4" id="label-4">Miscellaneous Extensions of GPhys</a></h4><!-- RDLabel: "Miscellaneous Extensions of GPhys" -->
56
+ <ul>
57
+ <li><a href="coordtransform.html">coordinate transformation</a> :
58
+ Extension of the NumRu::GPhys class for coordinate transformation.</li>
59
+ <li><a href="gphys_fft.html">FFT</a> :
60
+ Extension of the NumRu::GPhys class
61
+ for the Fast Fourier Transformation and its applications</li>
62
+ <li><a href="derivative/index.html">module NumRu::GPhys::Derivative</a> :
63
+ Module functions to make differentiation of GPhys objects.</li>
64
+ <li><a href="ep_flux/index.html">module NumRu::GPhys::EP_Flux</a> :
65
+ Module functions to derive the Eliassen-Palm flux and related
66
+ quantities (such as the residual circulation and its mass stream function).</li>
67
+ <li><a href="interpolate/index.html">intepolation</a> : Interpolation library</li>
68
+ <li><a href="ganalysis_met/index.html">GAnalysis::Met</a> : Meteorological analysis library</li>
69
+ </ul>
70
+ <h4><a name="label-5" id="label-5">Miscellaneous Dependent Libraries Distributed with GPhys</a></h4><!-- RDLabel: "Miscellaneous Dependent Libraries Distributed with GPhys" -->
71
+ <ul>
72
+ <li><a href="unumeric.html">class NumRu::UNumeric</a> :
73
+ Numeric with units (combination of Numeric and Units)</li>
74
+ <li><a href="derivative/index.html">module NumRu::Derivative</a> :
75
+ Module functions to make differentiation using NArray.</li>
76
+ <li><!-- Reference, RDLabel "class NumRu::SubsetMapping" doesn't exist --><em class="label-not-found">class NumRu::SubsetMapping</em><!-- Reference end --> : Sorry, yet to be written.</li>
77
+ <li><a href="attribute.html">class NumRu::Attribute</a> : A Hash class compatible with NetCDF attributes.</li>
78
+ <li><a href="coordmapping.html">class NumRu::CoordMapping</a> :
79
+ <ul>
80
+ <li><a href="coordmapping.html">class NumRu::LinearCoordMapping</a> :</li>
81
+ </ul></li>
82
+ <li><a href="grads_gridded.html">class NumRu::GrADS_Gridded</a> :
83
+ Class to handle GrADS data.</li>
84
+ <li><a href="grib.html">class NumRu::Grib</a> :
85
+ a class for Grib datasets.</li>
86
+ <li><a href="htdir.html">class NumRu::GDir::HtDir</a> :
87
+ A class to treat the URL of a "directory" as a directory (used in
88
+ GDir).</li>
89
+ </ul>
90
+ <h4><a name="label-6" id="label-6">External File Handlers of GPhys</a></h4><!-- RDLabel: "External File Handlers of GPhys" -->
91
+ <ul>
92
+ <li><a href="gphys_io.html">module NumRu::GPhys::IO</a> :
93
+ GPhys file IO module for all file types.</li>
94
+ <li><a href="gphys_netcdf_io.html">module NumRu::GPhys::NetCDF_IO</a> :
95
+ NetCDF data input/output.</li>
96
+ <li><a href="netcdf_convention.html">module NumRu::NetCDF_Conventions,
97
+ module NumRu::NetCDF_Convention_Users_Guide etc.
98
+ </a> :
99
+ NetCDF convention handler.</li>
100
+ <li><a href="gphys_grads_io.html">module NumRu::GPhys::GrADS_IO</a> :
101
+ GrADS data input/output.</li>
102
+ <li><a href="gphys_grib_io.html">module NumRu::GPhys::Grib_IO</a> :
103
+ Grib data IO.</li>
104
+ </ul>
105
+ <h2><a name="label-7" id="label-7">Applications distributed with GPhys</a></h2><!-- RDLabel: "Applications distributed with GPhys" -->
106
+ <p>To use the following, you have to <var>require</var> explicitly. </p>
107
+ <ul>
108
+ <li><a href="ggraph.html">module NumRu::GGraph</a> :
109
+ A graphic library using GPhys.</li>
110
+ <li><a href="gdir.html">class NumRu::GDir</a> :
111
+ A class to represent diretories and data files for GPhys.</li>
112
+ <li><a href="gdir_connect_ftp-like.html">irb start-up program gdir_connect_ftp-like</a> A library to be required
113
+ to interactively connect with a <a href="gdir_server.html">gdir_server</a>.</li>
114
+ </ul>
115
+ <h2><a name="label-8" id="label-8">Application Commands</a></h2><!-- RDLabel: "Application Commands" -->
116
+ <ul>
117
+ <li><a href="grads2nc_with_gphys.html">grads2nc_with_gphys</a> file converter
118
+ from the GrADS format to NetCDF</li>
119
+ <li><a href="gdir_server.html">gdir_server</a> A dRuby server with a GDir
120
+ at the front end.</li>
121
+ <li><a href="gdir_client.html">gdir_client</a> : A client of gdir_server
122
+ using irb with <a href="gdir_connect_ftp-like.html">gdir_connect_ftp-like</a></li>
123
+ <li><a href="gpcat.html">gpcat</a> Read a variable in multiple NetCDF files, concatenate and write them to a single netcdf file. </li>
124
+ <li><a href="gpcut.html">gpcut</a> extract, slicing and thinning a GPhys variable</li>
125
+ <li><a href="gplist.html">gplist</a> print out variables and their dimnsions</li>
126
+ <li><a href="gpmath.html">gpmath</a> operate a math function to a GPhys variable</li>
127
+ <li><a href="gpmaxmin.html">gpmaxmin</a> prints maximum and minimum values of a GPhys variable</li>
128
+ <li><a href="gpprint.html">gpprint</a> prints the values of a GPhys variable </li>
129
+ <li><a href="gpview.html">gpview</a> visualizer (2D, 1D)</li>
130
+ </ul>
131
+
132
+ </body>
133
+ </html>
data/doc/index.rd ADDED
@@ -0,0 +1,127 @@
1
+ =begin
2
+
3
+ =Reference manuals of the GPhys library
4
+
5
+ ==Index
6
+ * ((<GPhys and its components>))
7
+ * ((<class NumRu::GPhys|URL:gphys.html>)) : Core part of the GPhys class
8
+ * ((<Applications distributed with GPhys>))
9
+ * ((<module NumRu::GGraph|URL:ggraph.html>)) : A graphic library using GPhys.
10
+ * ((<Application Commands>))
11
+
12
+ ---------------------------------------------------------------------
13
+
14
+ ==GPhys and its components
15
+
16
+ ====GPhys Core Part
17
+
18
+ A GPhys object has the following structure:
19
+
20
+ -
21
+ has 1
22
+ a GPhys --------- array-like data (VArray)
23
+ | has 1
24
+ --------- grid (Grid)
25
+ | has rank
26
+ ------------ axis (Axis)
27
+ | has 1
28
+ -------- 1D position data (VArray)
29
+ | has 0..
30
+ -------- ancillary data (VArray)
31
+
32
+ That is, a GPhys object consists of data (whose class is VArray) and
33
+ grid (whose class is Grid). The latter consists of axes (whose class is
34
+ Axis), which consist of VArray objects (such as ones that have
35
+ 1-dimensional grid-point position data). To use GPhys, it is
36
+ useful to know these four classes.
37
+
38
+ * ((<class NumRu::VArray|URL:varray.html>)) :
39
+ Virtual Array class, which holds multi-dimensional data of various
40
+ format and media (on memory or in file).
41
+
42
+ * ((<class NumRu::VArrayComposite|URL:varraycomposite.html>)) :
43
+ Subclass of VArray to bundle multiple VArrays by "tiling".
44
+
45
+ * ((<class NumRu::Axis|URL:axis.html>)) : A class to represent a discretized physical coordinate.
46
+ * ((<class NumRu::Grid|URL:grid.html>)) : A class to represent discretized grids of physical quantities.
47
+ * ((<class NumRu::GPhys|URL:gphys.html>)) : Core part of the GPhys class
48
+
49
+ ====Miscellaneous Extensions of GPhys
50
+
51
+ * ((<coordinate transformation|URL:coordtransform.html>)) :
52
+ Extension of the NumRu::GPhys class for coordinate transformation.
53
+ * ((<FFT|URL:gphys_fft.html>)) :
54
+ Extension of the NumRu::GPhys class
55
+ for the Fast Fourier Transformation and its applications
56
+ * ((<module NumRu::GPhys::Derivative|URL:derivative/index.html>)) :
57
+ Module functions to make differentiation of GPhys objects.
58
+ * ((<module NumRu::GPhys::EP_Flux|URL:ep_flux/index.html>)) :
59
+ Module functions to derive the Eliassen-Palm flux and related
60
+ quantities (such as the residual circulation and its mass stream function).
61
+ * ((<intepolation|URL:interpolate/index.html>)) : Interpolation library
62
+ * ((<GAnalysis::Met|URL:ganalysis_met/index.html>)) : Meteorological analysis library
63
+
64
+ ====Miscellaneous Dependent Libraries Distributed with GPhys
65
+
66
+ * ((<class NumRu::UNumeric|URL:unumeric.html>)) :
67
+ Numeric with units (combination of Numeric and Units)
68
+ * ((<module NumRu::Derivative|URL:derivative/index.html>)) :
69
+ Module functions to make differentiation using NArray.
70
+ * ((<class NumRu::SubsetMapping>)) : Sorry, yet to be written.
71
+ * ((<class NumRu::Attribute|URL:attribute.html>)) : A Hash class compatible with NetCDF attributes.
72
+ * ((<class NumRu::CoordMapping|URL:coordmapping.html>)) :
73
+ * ((<class NumRu::LinearCoordMapping|URL:coordmapping.html>)) :
74
+ * ((<class NumRu::GrADS_Gridded|URL:grads_gridded.html>)) :
75
+ Class to handle GrADS data.
76
+ * ((<class NumRu::Grib|URL:grib.html>)) :
77
+ a class for Grib datasets.
78
+ * ((<class NumRu::GDir::HtDir|URL:htdir.html>)) :
79
+ A class to treat the URL of a "directory" as a directory (used in
80
+ GDir).
81
+
82
+ ====External File Handlers of GPhys
83
+
84
+ * ((<module NumRu::GPhys::IO|URL:gphys_io.html>)) :
85
+ GPhys file IO module for all file types.
86
+ * ((<module NumRu::GPhys::NetCDF_IO|URL:gphys_netcdf_io.html>)) :
87
+ NetCDF data input/output.
88
+ * ((<module NumRu::NetCDF_Conventions,
89
+ module NumRu::NetCDF_Convention_Users_Guide etc.
90
+ |URL:netcdf_convention.html>)) :
91
+ NetCDF convention handler.
92
+ * ((<module NumRu::GPhys::GrADS_IO|URL:gphys_grads_io.html>)) :
93
+ GrADS data input/output.
94
+ * ((<module NumRu::GPhys::Grib_IO|URL:gphys_grib_io.html>)) :
95
+ Grib data IO.
96
+
97
+ ==Applications distributed with GPhys
98
+
99
+ To use the following, you have to ((|require|)) explicitly.
100
+
101
+ * ((<module NumRu::GGraph|URL:ggraph.html>)) :
102
+ A graphic library using GPhys.
103
+
104
+ * ((<class NumRu::GDir|URL:gdir.html>)) :
105
+ A class to represent diretories and data files for GPhys.
106
+
107
+ * ((<irb start-up program gdir_connect_ftp-like|URL:gdir_connect_ftp-like.html>)) A library to be required
108
+ to interactively connect with a ((<gdir_server|URL:gdir_server.html>)).
109
+
110
+ ==Application Commands
111
+
112
+ * ((<grads2nc_with_gphys|URL:grads2nc_with_gphys.html>)) file converter
113
+ from the GrADS format to NetCDF
114
+ * ((<gdir_server|URL:gdir_server.html>)) A dRuby server with a GDir
115
+ at the front end.
116
+ * ((<gdir_client|URL:gdir_client.html>)) : A client of gdir_server
117
+ using irb with ((<gdir_connect_ftp-like|URL:gdir_connect_ftp-like.html>))
118
+
119
+ * ((<gpcat|URL:gpcat.html>)) Read a variable in multiple NetCDF files, concatenate and write them to a single netcdf file.
120
+ * ((<gpcut|URL:gpcut.html>)) extract, slicing and thinning a GPhys variable
121
+ * ((<gplist|URL:gplist.html>)) print out variables and their dimnsions
122
+ * ((<gpmath|URL:gpmath.html>)) operate a math function to a GPhys variable
123
+ * ((<gpmaxmin|URL:gpmaxmin.html>)) prints maximum and minimum values of a GPhys variable
124
+ * ((<gpprint|URL:gpprint.html>)) prints the values of a GPhys variable
125
+ * ((<gpview|URL:gpview.html>)) visualizer (2D, 1D)
126
+
127
+ =end