gphys 1.1.1 → 1.2.2

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (369) hide show
  1. data/.gitignore +17 -0
  2. data/ChangeLog +221 -0
  3. data/Gemfile +4 -0
  4. data/LICENSE.txt +18 -30
  5. data/README +23 -26
  6. data/README.md +29 -0
  7. data/Rakefile +1 -56
  8. data/bin/gpaop +2 -1
  9. data/bin/gpcut +3 -2
  10. data/bin/gpedit +6 -2
  11. data/bin/gpmath +3 -2
  12. data/bin/gpmaxmin +3 -2
  13. data/bin/gpprint +2 -1
  14. data/bin/gpvect +28 -5
  15. data/bin/gpview +43 -5
  16. data/extconf.rb +5 -6
  17. data/gphys.gemspec +34 -0
  18. data/interpo.c +63 -24
  19. data/lib/gphys.rb +2 -0
  20. data/lib/numru/dclext.rb +2636 -0
  21. data/lib/numru/derivative.rb +53 -12
  22. data/lib/numru/ganalysis/eof.rb +4 -0
  23. data/lib/numru/ganalysis/histogram.rb +73 -5
  24. data/lib/numru/ganalysis/met.rb +163 -2
  25. data/lib/numru/ganalysis/planet.rb +230 -20
  26. data/lib/numru/ggraph.rb +147 -2247
  27. data/lib/numru/gphys/assoccoords.rb +19 -3
  28. data/lib/numru/gphys/axis.rb +1 -1
  29. data/lib/numru/gphys/coordmapping.rb +2 -2
  30. data/lib/numru/gphys/derivative.rb +56 -13
  31. data/lib/numru/gphys/gphys.rb +17 -1
  32. data/lib/numru/gphys/gphys_grads_io.rb +6 -5
  33. data/lib/numru/gphys/gphys_grib_io.rb +6 -6
  34. data/lib/numru/gphys/gphys_io.rb +25 -6
  35. data/lib/numru/gphys/grads_gridded.rb +31 -29
  36. data/lib/numru/gphys/grib.rb +13 -9
  37. data/lib/numru/gphys/interpolate.rb +153 -29
  38. data/lib/numru/gphys/unumeric.rb +29 -6
  39. data/lib/numru/gphys/varray.rb +9 -0
  40. data/lib/numru/gphys/varraygrib.rb +70 -8
  41. data/lib/version.rb +3 -0
  42. metadata +247 -531
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  44. data/doc/attributenetcdf.html +0 -15
  45. data/doc/axis.html +0 -376
  46. data/doc/coordmapping.html +0 -111
  47. data/doc/coordtransform.html +0 -36
  48. data/doc/derivative/gphys-derivative.html +0 -80
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data/doc/netcdf_convention.html DELETED
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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>
7
- <title>../lib/numru/gphys/netcdf_convention.rb</title>
8
- </head>
9
- <body>
10
- <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>
14
- <ul>
15
- <li><a href="#label-15">module NumRu::NetCDF_Convention_Users_Guide::Attribute_Mixin</a></li>
16
- <li><a href="#label-18">module NumRu::NetCDF_Convention_Users_Guide::VArray_Mixin</a></li>
17
- </ul></li>
18
- <li><a href="#label-20">module NumRu::NetCDF_Convention_Wind_Profiler</a></li>
19
- </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>
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- </html>
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- <?xml version="1.0" ?>
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- <!DOCTYPE html
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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>
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 DELETED
@@ -1,64 +0,0 @@
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