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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@@ -0,0 +1,136 @@
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+ <?xml version="1.0" ?>
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+ <!DOCTYPE html
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+ PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN"
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+ "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
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+ <html xmlns="http://www.w3.org/1999/xhtml">
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+ <head>
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+ <title>../lib/numru/gphys/netcdf_convention.rb</title>
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+ </head>
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+ <body>
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+ <h2><a name="label-0" id="label-0">INDEX</a></h2><!-- RDLabel: "INDEX" -->
11
+ <ul>
12
+ <li><a href="#label-1">module NumRu::NetCDF_Conventions</a></li>
13
+ <li><a href="#label-6">module NumRu::NetCDF_Convention_Users_Guide</a>
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+ <ul>
15
+ <li><a href="#label-15">module NumRu::NetCDF_Convention_Users_Guide::Attribute_Mixin</a></li>
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+ <li><a href="#label-18">module NumRu::NetCDF_Convention_Users_Guide::VArray_Mixin</a></li>
17
+ </ul></li>
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+ <li><a href="#label-20">module NumRu::NetCDF_Convention_Wind_Profiler</a></li>
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+ </ul>
20
+ <h1><a name="label-1" id="label-1">module NumRu::NetCDF_Conventions</a></h1><!-- RDLabel: "module NumRu::NetCDF_Conventions" -->
21
+ <p>NetCDF_Conventions is the general handler of NetCDF conventions for the
22
+ GPhys library.</p>
23
+ <h2><a name="label-2" id="label-2">Module Functions</a></h2><!-- RDLabel: "Module Functions" -->
24
+ <dl>
25
+ <dt><h4><a name="label-3" id="label-3"><code>find( <var>netcdf</var> )</code></a></h4></dt><!-- RDLabel: "find" -->
26
+ <dd>
27
+ <p>Figures out what NetCDF convention a netcdf file is following.</p>
28
+ <p>ARGUMENTS</p>
29
+ <ul>
30
+ <li><var>netcdf</var> (NetCDF): the file</li>
31
+ </ul>
32
+ <p>RETURN VALUE</p>
33
+ <ul>
34
+ <li>a Module (NumRu::NetCDF_Convention_Users_Guide etc.)</li>
35
+ </ul>
36
+ <p>REMARK</p>
37
+ <ul>
38
+ <li>The convention is figured out from the 'Conventions' global attribute.
39
+ You can instead fix the convention by using <a href="#label-4">fix_to</a>.</li>
40
+ </ul></dd>
41
+ <dt><h4><a name="label-4" id="label-4"><code>fix_to( <var>convention</var> )</code></a></h4></dt><!-- RDLabel: "fix_to" -->
42
+ <dd>
43
+ <p>Fix the convention to be returned by <a href="#label-3">find</a> regardless the value
44
+ of the 'Conventions' attribute.</p>
45
+ <p>ARGUMENTS</p>
46
+ <ul>
47
+ <li><var>convention</var> (Module): NumRu::NetCDF_Convention_Users_Guide etc.</li>
48
+ </ul>
49
+ <p>RETURN VALUE</p>
50
+ <ul>
51
+ <li>convention</li>
52
+ </ul></dd>
53
+ <dt><h4><a name="label-5" id="label-5"><code>add_history(<var>netcdf</var>, <var>str</var>=<var>nil</var>)</code></a></h4></dt><!-- RDLabel: "add_history" -->
54
+ <dd>
55
+ <p>Adds a line to the 'history' global convention of <var>netcdf</var>.
56
+ The line consists of date, time, user name, and <var>str</var>
57
+ if present (e.g., '2004-03-02 17:52:25 JST horinout&gt; '+str).</p>
58
+ <p>ARGUMENTS</p>
59
+ <ul>
60
+ <li><var>netcdf</var> (NetCDF): the file in which the history is updated</li>
61
+ <li><var>str</var> (nil or String): if present, added to the end of the line.</li>
62
+ </ul></dd>
63
+ </dl>
64
+ <h1><a name="label-6" id="label-6">module NumRu::NetCDF_Convention_Users_Guide</a></h1><!-- RDLabel: "module NumRu::NetCDF_Convention_Users_Guide" -->
65
+ <p>The NetCDF Users Guide Convention
66
+ (http://www.unidata.ucar.edu/packages/netcdf/docs.html).</p>
67
+ <h2><a name="label-7" id="label-7">Constants</a></h2><!-- RDLabel: "Constants" -->
68
+ <dl>
69
+ <dt><h4><a name="label-8" id="label-8"><code>Attribute_Mixin</code></a></h4></dt><!-- RDLabel: "Attribute_Mixin" -->
70
+ </dl>
71
+ <p>See below: <a href="#label-15">module NumRu::NetCDF_Convention_Users_Guide::Attribute_Mixin</a>.</p>
72
+ <dl>
73
+ <dt><h4><a name="label-9" id="label-9"><code>VArray_Mixin</code></a></h4></dt><!-- RDLabel: "VArray_Mixin" -->
74
+ </dl>
75
+ <p>See below: <a href="#label-18">module NumRu::NetCDF_Convention_Users_Guide::VArray_Mixin</a>.</p>
76
+ <h2><a name="label-10" id="label-10">Module Functions</a></h2><!-- RDLabel: "Module Functions" -->
77
+ <dl>
78
+ <dt><h4><a name="label-11" id="label-11"><code>to_s</code></a></h4></dt><!-- RDLabel: "to_s" -->
79
+ <dd>
80
+ Returns a string to be used as representing the convention.
81
+ The Users Guide Convention does not have one, so a string
82
+ was tentatively assigned by Horinouchi.</dd>
83
+ <dt><h4><a name="label-12" id="label-12"><code>coord_var_names(<var>ncvar</var>)</code></a></h4></dt><!-- RDLabel: "coord_var_names" -->
84
+ <dd>
85
+ <p>Returns the names of coordinate variables for all the dimensions
86
+ of <var>ncvar</var>.</p>
87
+ <p>ARGUMENTS</p>
88
+ <ul>
89
+ <li><var>ncvar</var> (NetCDFVar)</li>
90
+ </ul>
91
+ <p>RETURN VALUE</p>
92
+ <ul>
93
+ <li>Array of strings, whose length is the rank of <var>ncvar</var>.</li>
94
+ </ul></dd>
95
+ <dt><h4><a name="label-13" id="label-13"><code>cell_bounds?(<var>coord_var</var>)</code></a></h4></dt><!-- RDLabel: "cell_bounds?" -->
96
+ <dd>
97
+ Document to be written. (returns false&amp;nil in this convention.)
98
+ Might be reorganized in future when the gtool4 convention is supported.</dd>
99
+ <dt><h4><a name="label-14" id="label-14"><code>cell_center?(<var>coord_var</var>)</code></a></h4></dt><!-- RDLabel: "cell_center?" -->
100
+ <dd>
101
+ Document to be written. (returns false&amp;nil in this convention.)
102
+ Might be reorganized in future when the gtool4 convention is supported.</dd>
103
+ </dl>
104
+ <p>--------------------------------------------------</p>
105
+ <h2><a name="label-15" id="label-15">module NumRu::NetCDF_Convention_Users_Guide::Attribute_Mixin</a></h2><!-- RDLabel: "module NumRu::NetCDF_Convention_Users_Guide::Attribute_Mixin" -->
106
+ <p>The module to be mixed in NumRu::AttributeNetCDF.</p>
107
+ <h3><a name="label-16" id="label-16">Instance Methods</a></h3><!-- RDLabel: "Instance Methods" -->
108
+ <p>Methods below will become sigular methods of NumRu::AttributeNetCDF.</p>
109
+ <dl>
110
+ <dt><h4><a name="label-17" id="label-17"><code>copy(<var>to</var>=<var>nil</var>)</code></a></h4></dt><!-- RDLabel: "copy" -->
111
+ <dd>
112
+ Same as super (the one overridden by this method),
113
+ but edits some standard attributes if to is nil (copy onto memory)):
114
+ <ul>
115
+ <li>scale_factor, add_offset: removed, since data copying includes
116
+ "unpaking" by interpreting them</li>
117
+ <li>valid_*, missing_value: unpacked if packed.</li>
118
+ <li>_FillValue, FORTRAN_format, C_format: eliminated</li>
119
+ </ul></dd>
120
+ </dl>
121
+ <p>---------------------------------------------------</p>
122
+ <h2><a name="label-18" id="label-18">module NumRu::NetCDF_Convention_Users_Guide::VArray_Mixin</a></h2><!-- RDLabel: "module NumRu::NetCDF_Convention_Users_Guide::VArray_Mixin" -->
123
+ <p>The module to be mixed in NumRu::VArrayNetCDF.</p>
124
+ <h3><a name="label-19" id="label-19">Instance Methods</a></h3><!-- RDLabel: "Instance Methods" -->
125
+ <p>Currently none, meaning is that no modification is made
126
+ in VArrayNetCDF.</p>
127
+ <p>---------------------------------------------------------------------</p>
128
+ <h1><a name="label-20" id="label-20">module NumRu::NetCDF_Convention_Wind_Profiler</a></h1><!-- RDLabel: "module NumRu::NetCDF_Convention_Wind_Profiler" -->
129
+ <p>The Wind Profiler convention
130
+ (http://www.kurasc.kyoto-u.ac.jp/radar-group/wind_profiler_conventions/).</p>
131
+ <p>Inherits NetCDF_Convention_Users_Guide and makes appropriate redefinitions.
132
+ See <a href="#label-6">module NumRu::NetCDF_Convention_Users_Guide</a> for the description
133
+ of constants and module functions.</p>
134
+
135
+ </body>
136
+ </html>
data/doc/unumeric.html ADDED
@@ -0,0 +1,176 @@
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+ <?xml version="1.0" ?>
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+ <!DOCTYPE html
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+ PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN"
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+ "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
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+ <html xmlns="http://www.w3.org/1999/xhtml">
6
+ <head>
7
+ <title>../lib/numru/gphys/unumeric.rb</title>
8
+ </head>
9
+ <body>
10
+ <h1><a name="label-0" id="label-0">class NumRu::UNumeric</a></h1><!-- RDLabel: "class NumRu::UNumeric" -->
11
+ <p>Class of Numeric with Units.</p>
12
+ <p>Dependent on
13
+ <a href="http://ruby.gfd-dennou.org/products/numru=units">NumRu::Units</a>
14
+ and Rational, a standard library.</p>
15
+ <h2><a name="label-1" id="label-1">Class Methods</a></h2><!-- RDLabel: "Class Methods" -->
16
+ <dl>
17
+ <dt><h4><a name="label-2" id="label-2"><code>new(<var>val</var>, <var>uni</var>)</code></a></h4></dt><!-- RDLabel: "new" -->
18
+ <dd>
19
+ <p>Constractor.</p>
20
+ <p>ARGUMENTS</p>
21
+ <ul>
22
+ <li><var>val</var> (Numeric)</li>
23
+ <li><var>units</var> (NumRu::Units or String): if string, internally converted to
24
+ a NumRu::Units</li>
25
+ </ul></dd>
26
+ <dt><h4><a name="label-3" id="label-3"><code>[val, <var>uni</var>]</code></a></h4></dt><!-- RDLabel: "[val, uni]" -->
27
+ <dd>
28
+ Same as new</dd>
29
+ <dt><h4><a name="label-4" id="label-4"><code>from_date(<var>date</var>, <var>units</var>)</code></a></h4></dt><!-- RDLabel: "from_date" -->
30
+ <dd>
31
+ <p>Convert a DateTime (or Date) to a UNUmeric</p>
32
+ <p>ARGUMENTS</p>
33
+ <ul>
34
+ <li>date (Date or DateTime)</li>
35
+ <li>units (Units or String) : units of the UNumeric to be created</li>
36
+ </ul></dd>
37
+ </dl>
38
+ <h2><a name="label-5" id="label-5">Methods</a></h2><!-- RDLabel: "Methods" -->
39
+ <dl>
40
+ <dt><h4><a name="label-6" id="label-6"><code>val</code></a></h4></dt><!-- RDLabel: "val" -->
41
+ <dd>
42
+ RETURN VALUE
43
+ <ul>
44
+ <li>the value (Numeric)</li>
45
+ </ul></dd>
46
+ <dt><h4><a name="label-7" id="label-7"><code>units</code></a></h4></dt><!-- RDLabel: "units" -->
47
+ <dd>
48
+ RETURN VALUE
49
+ <ul>
50
+ <li>the units (NumRu::Units)</li>
51
+ </ul></dd>
52
+ <dt><h4><a name="label-8" id="label-8"><code>inspect</code></a></h4></dt><!-- RDLabel: "inspect" -->
53
+ <dd>
54
+ RETURN VALUE
55
+ <ul>
56
+ <li>a String (e.g., '1 m')</li>
57
+ </ul></dd>
58
+ <dt><h4><a name="label-9" id="label-9"><code>to_s</code></a></h4></dt><!-- RDLabel: "to_s" -->
59
+ <dd>
60
+ aliasesed to <a href="#label-8">inspect</a>.</dd>
61
+ <dt><h4><a name="label-10" id="label-10"><code>to_f</code></a></h4></dt><!-- RDLabel: "to_f" -->
62
+ <dd>
63
+ RETURN VALUE
64
+ <ul>
65
+ <li>val.to_f</li>
66
+ </ul></dd>
67
+ <dt><h4><a name="label-11" id="label-11"><code>to_i</code></a></h4></dt><!-- RDLabel: "to_i" -->
68
+ <dd>
69
+ RETURN VALUE
70
+ <ul>
71
+ <li>val.to_i</li>
72
+ </ul></dd>
73
+ <dt><h4><a name="label-12" id="label-12"><code>convert(<var>to_units</var>)</code></a></h4></dt><!-- RDLabel: "convert" -->
74
+ <dd>
75
+ <p>Convert to <var>to_units</var>.</p>
76
+ <p>RETURN VALUE</p>
77
+ <ul>
78
+ <li>a UNumeric</li>
79
+ </ul>
80
+ <p>EXCEPTION</p>
81
+ <ul>
82
+ <li>when the current units is incompatible with to_units.</li>
83
+ </ul></dd>
84
+ <dt><h4><a name="label-13" id="label-13"><code>convert2</code></a></h4></dt><!-- RDLabel: "convert2" -->
85
+ <dd>
86
+ <p>Same as <a href="#label-12">convert</a>, but returns <var>self</var> if the units are
87
+ incompatible (Warned).</p>
88
+ <p>EXCEPTION</p>
89
+ <ul>
90
+ <li>none</li>
91
+ </ul>
92
+ <p>WARING MADE</p>
93
+ <p>Warning is made to $stderr if the following
94
+ condition is satisfied.</p>
95
+ <ul>
96
+ <li>the units of <var>self</var> and <var>to_units</var> are incompatible.</li>
97
+ </ul></dd>
98
+ <dt><h4><a name="label-14" id="label-14"><code>coerce(<var>other</var>)</code></a></h4></dt><!-- RDLabel: "coerce" -->
99
+ <dd>
100
+ As you know. Can handle Numeric, Array, NArray.
101
+ NOTE: VArray and GPhys know UNumeric.</dd>
102
+ <dt><h4><a name="label-15" id="label-15"><code>*(<var>other</var>)</code></a></h4></dt><!-- RDLabel: "*" -->
103
+ <dd>
104
+ <p>Multiplication. Knows Numeric, UNumeric, VArray, and GPhys.
105
+ The units are multipled too. (if other is Numeric, it is assumed
106
+ to be non-dimension)</p>
107
+ <p>RETURN VALUE</p>
108
+ <ul>
109
+ <li>a UNumeric, VArray, or GPhys</li>
110
+ </ul></dd>
111
+ <dt><h4><a name="label-16" id="label-16"><code>/(<var>other</var>)</code></a></h4></dt><!-- RDLabel: "/" -->
112
+ <dd>
113
+ Division. See <a href="#label-15">*</a>.</dd>
114
+ <dt><h4><a name="label-17" id="label-17"><code>+(<var>other</var>)</code></a></h4></dt><!-- RDLabel: "+" -->
115
+ <dd>
116
+ <p>Addition. Knows Numeric, UNumeric, VArray, and GPhys.
117
+ The return value will have the units of <var>self</var>.</p>
118
+ <p>SPECIAL REMARK!</p>
119
+ <p>If <var>other</var> has units within a factor and/or offset
120
+ of difference, It is CONVERTED before addition (by using <a href="#label-13">convert2</a>)!</p>
121
+ <p>RETURN VALUE</p>
122
+ <ul>
123
+ <li>a UNumeric, VArray, or GPhys</li>
124
+ </ul>
125
+ <p>WARING MADE </p>
126
+ <p>Warning is made to $stderr if the following
127
+ condition is satisfied.</p>
128
+ <ul>
129
+ <li>the units of <var>self</var> and <var>to_units</var> are incompatible.</li>
130
+ <li><var>other</var> is Numeric.</li>
131
+ </ul></dd>
132
+ <dt><h4><a name="label-18" id="label-18"><code>-(<var>other</var>)</code></a></h4></dt><!-- RDLabel: "-" -->
133
+ <dd>
134
+ Subtraction. See <a href="#label-17">+</a>.</dd>
135
+ <dt><h4><a name="label-19" id="label-19"><code>**(<var>num</var>)</code></a></h4></dt><!-- RDLabel: "**" -->
136
+ <dd>
137
+ Power.</dd>
138
+ <dt><h4><a name="label-20" id="label-20"><code>abs</code></a></h4></dt><!-- RDLabel: "abs" -->
139
+ <dd>
140
+ Absolute value. Other math functions are also avialable as instance
141
+ methods.</dd>
142
+ <dt><h4><a name="label-21" id="label-21"><code>to_datetime(<var>eps_sec</var>=<var>0</var>.<var>0</var>)</code></a></h4></dt><!-- RDLabel: "to_datetime" -->
143
+ <dd>
144
+ <p>Convert a time UNumeric into a DateTime</p>
145
+ <p>ARGUMENTS</p>
146
+ <ul>
147
+ <li>eps_sec (Float) : Magic epsilon to prevent the round-off of
148
+ DateTime [seconds]. Recommended value is 0.1.</li>
149
+ </ul>
150
+ <p>RETURN VALUE</p>
151
+ <ul>
152
+ <li>a DateTime </li>
153
+ </ul>
154
+ <p>EXCEPTION</p>
155
+ <ul>
156
+ <li>raised if self does not have a time unit with a since field</li>
157
+ </ul></dd>
158
+ <dt><h4><a name="label-22" id="label-22"><code>strftime(<var>fmt</var>)</code></a></h4></dt><!-- RDLabel: "strftime" -->
159
+ <dd>
160
+ <p>Text expression of the date and time of a time UNumeric.
161
+ Implemented as</p>
162
+ <pre>self.to_datetime(0.1).strftime(fmt)</pre>
163
+ <p>ARGUMENTS</p>
164
+ <ul>
165
+ <li><p>fmt (Sting) : the format. Try</p>
166
+ <pre>% man 3 strftime</pre>
167
+ <p>to find how to write it.</p></li>
168
+ </ul>
169
+ <p>RETURN VALUE</p>
170
+ <ul>
171
+ <li>a String</li>
172
+ </ul></dd>
173
+ </dl>
174
+
175
+ </body>
176
+ </html>
data/doc/update ADDED
@@ -0,0 +1,64 @@
1
+ #/bin/csh
2
+
3
+ set sources = ( \
4
+ ../lib/numru/gphys/attribute.rb \
5
+ ../lib/numru/gphys/attributenetcdf.rb \
6
+ ../lib/numru/gphys/axis.rb \
7
+ ../lib/numru/gphys/coordmapping.rb \
8
+ ../lib/numru/gphys/coordtransform.rb \
9
+ ### ../lib/numru/gphys/derivative.rb \
10
+ ### ../lib/numru/gphys/ep_flux.rb \
11
+ ../lib/numru/gphys/gphys.rb \
12
+ ../lib/numru/gphys/gphys_fft.rb \
13
+ ../lib/numru/gphys/gphys_grads_io.rb \
14
+ ../lib/numru/gphys/gphys_grib_io.rb \
15
+ ../lib/numru/gphys/gphys_io.rb \
16
+ ../lib/numru/gphys/gphys_io_common.rb \
17
+ ../lib/numru/gphys/gphys_netcdf_io.rb \
18
+ ../lib/numru/gphys/grads_gridded.rb \
19
+ ../lib/numru/gphys/grib.rb \
20
+ # ../lib/numru/gphys/grib_params.rb \
21
+ ../lib/numru/gphys/grid.rb \
22
+ ../lib/numru/gphys/netcdf_convention.rb \
23
+ # ../lib/numru/gphys/subsetmapping.rb \
24
+ ../lib/numru/gphys/unumeric.rb \
25
+ ../lib/numru/gphys/varray.rb \
26
+ ../lib/numru/gphys/varraycomposite.rb \
27
+ # ../lib/numru/gphys/varraygrads.rb \
28
+ # ../lib/numru/gphys/varraygrib.rb \
29
+ # ../lib/numru/gphys/varraynetcdf.rb \
30
+ ### ../lib/numru/derivative.rb \
31
+ ../lib/numru/ggraph.rb \
32
+ ../lib/numru/gdir.rb \
33
+ ### ../lib/numru/ggraph_on_merdional_section.rb \
34
+ ### ../lib/numru/gphys.rb \
35
+ ../bin/grads2nc_with_gphys \
36
+ ../bin/gdir_server \
37
+ ../bin/gpcat \
38
+ ../bin/gpcut \
39
+ ../bin/gplist \
40
+ ../bin/gpmath \
41
+ ../bin/gpmaxmin \
42
+ ../bin/gpprint \
43
+ ../bin/gpview \
44
+ ../lib/numru/gdir_connect_ftp-like.rb \
45
+ index.rd \
46
+ )
47
+
48
+ foreach source ( $sources )
49
+ set html = `echo $source | sed -e 's/^.*\///' -e 's/\.rb$//' -e 's/\.rd$//' -e 's/$/.html/'`
50
+ if ( `test ! -f $html && echo 1` ) then
51
+ #< html file does not exist >
52
+ rd2 $source | sed -e 's/<dt>/<dt><h4>/' -e 's/<\/dt>/<\/h4><\/dt>/' \
53
+ >! $html
54
+ echo '* Created ' $html
55
+ else if ( `/usr/bin/test $source -nt $html && echo 1` ) then
56
+ #< html file exists but the source file is newer >
57
+ rd2 $source | sed -e 's/<dt>/<dt><h4>/' -e 's/<\/dt>/<\/h4><\/dt>/' \
58
+ >! tmp.html
59
+ diff tmp.html $html > /dev/null || \mv tmp.html $html \
60
+ && echo '* Updated ' $html
61
+ endif
62
+ end
63
+
64
+ \rm -f tmp.html