bn4r 0.1.0 → 0.1.2
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- data/CHANGELOG +12 -0
- data/README +71 -5
- data/doc/classes/BNTPGFromPositiveNegativeRelations.html +172 -0
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<span class="ruby-keyword kw">def</span> <span class="ruby-identifier">config_dir_ext</span>(<span class="ruby-identifier">rel</span>)
|
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<span class="ruby-identifier">extconf</span> <span class="ruby-keyword kw">if</span> <span class="ruby-identifier">extdir?</span>(<span class="ruby-identifier">curr_srcdir</span>())
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<pre><span class="ruby-comment cmt"># File setup.rb, line 1237</span>
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<span class="ruby-keyword kw">def</span> <span class="ruby-identifier">extconf</span>
|
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<span class="ruby-identifier">ruby</span> <span class="ruby-node">"#{curr_srcdir()}/extconf.rb"</span>, <span class="ruby-operator">*</span><span class="ruby-ivar">@config</span>.<span class="ruby-identifier">config_opt</span>
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<pre><span class="ruby-comment cmt"># File setup.rb, line 1245</span>
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<span class="ruby-keyword kw">def</span> <span class="ruby-identifier">exec_setup</span>
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<span class="ruby-identifier">exec_task_traverse</span> <span class="ruby-value str">'setup'</span>
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<pre><span class="ruby-comment cmt"># File setup.rb, line 1249</span>
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<span class="ruby-keyword kw">def</span> <span class="ruby-identifier">setup_dir_bin</span>(<span class="ruby-identifier">rel</span>)
|
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|
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<span class="ruby-identifier">files_of</span>(<span class="ruby-identifier">curr_srcdir</span>()).<span class="ruby-identifier">each</span> <span class="ruby-keyword kw">do</span> <span class="ruby-operator">|</span><span class="ruby-identifier">fname</span><span class="ruby-operator">|</span>
|
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<span class="ruby-identifier">update_shebang_line</span> <span class="ruby-node">"#{curr_srcdir()}/#{fname}"</span>
|
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<span class="ruby-keyword kw">end</span>
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<pre><span class="ruby-comment cmt"># File setup.rb, line 1257</span>
|
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<span class="ruby-keyword kw">def</span> <span class="ruby-identifier">setup_dir_ext</span>(<span class="ruby-identifier">rel</span>)
|
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|
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<span class="ruby-identifier">make</span> <span class="ruby-keyword kw">if</span> <span class="ruby-identifier">extdir?</span>(<span class="ruby-identifier">curr_srcdir</span>())
|
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<pre><span class="ruby-comment cmt"># File setup.rb, line 1265</span>
|
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|
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<span class="ruby-keyword kw">def</span> <span class="ruby-identifier">update_shebang_line</span>(<span class="ruby-identifier">path</span>)
|
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|
+
<span class="ruby-keyword kw">return</span> <span class="ruby-keyword kw">if</span> <span class="ruby-identifier">no_harm?</span>
|
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|
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<span class="ruby-keyword kw">return</span> <span class="ruby-keyword kw">if</span> <span class="ruby-identifier">config</span>(<span class="ruby-value str">'shebang'</span>) <span class="ruby-operator">==</span> <span class="ruby-value str">'never'</span>
|
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|
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<span class="ruby-identifier">old</span> = <span class="ruby-constant">Shebang</span>.<span class="ruby-identifier">load</span>(<span class="ruby-identifier">path</span>)
|
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|
+
<span class="ruby-keyword kw">if</span> <span class="ruby-identifier">old</span>
|
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|
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<span class="ruby-identifier">$stderr</span>.<span class="ruby-identifier">puts</span> <span class="ruby-node">"warning: #{path}: Shebang line includes too many args. It is not portable and your program may not work."</span> <span class="ruby-keyword kw">if</span> <span class="ruby-identifier">old</span>.<span class="ruby-identifier">args</span>.<span class="ruby-identifier">size</span> <span class="ruby-operator">></span> <span class="ruby-value">1</span>
|
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|
+
<span class="ruby-identifier">new</span> = <span class="ruby-identifier">new_shebang</span>(<span class="ruby-identifier">old</span>)
|
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<span class="ruby-keyword kw">return</span> <span class="ruby-keyword kw">if</span> <span class="ruby-identifier">new</span>.<span class="ruby-identifier">to_s</span> <span class="ruby-operator">==</span> <span class="ruby-identifier">old</span>.<span class="ruby-identifier">to_s</span>
|
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|
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<span class="ruby-keyword kw">else</span>
|
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|
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<span class="ruby-keyword kw">return</span> <span class="ruby-keyword kw">unless</span> <span class="ruby-identifier">config</span>(<span class="ruby-value str">'shebang'</span>) <span class="ruby-operator">==</span> <span class="ruby-value str">'all'</span>
|
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<span class="ruby-identifier">new</span> = <span class="ruby-constant">Shebang</span>.<span class="ruby-identifier">new</span>(<span class="ruby-identifier">config</span>(<span class="ruby-value str">'rubypath'</span>))
|
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|
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<span class="ruby-keyword kw">end</span>
|
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|
+
<span class="ruby-identifier">$stderr</span>.<span class="ruby-identifier">puts</span> <span class="ruby-node">"updating shebang: #{File.basename(path)}"</span> <span class="ruby-keyword kw">if</span> <span class="ruby-identifier">verbose?</span>
|
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|
+
<span class="ruby-identifier">open_atomic_writer</span>(<span class="ruby-identifier">path</span>) {<span class="ruby-operator">|</span><span class="ruby-identifier">output</span><span class="ruby-operator">|</span>
|
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|
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<span class="ruby-constant">File</span>.<span class="ruby-identifier">open</span>(<span class="ruby-identifier">path</span>, <span class="ruby-value str">'rb'</span>) {<span class="ruby-operator">|</span><span class="ruby-identifier">f</span><span class="ruby-operator">|</span>
|
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|
+
<span class="ruby-identifier">f</span>.<span class="ruby-identifier">gets</span> <span class="ruby-keyword kw">if</span> <span class="ruby-identifier">old</span> <span class="ruby-comment cmt"># discard</span>
|
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|
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<span class="ruby-identifier">output</span>.<span class="ruby-identifier">puts</span> <span class="ruby-identifier">new</span>.<span class="ruby-identifier">to_s</span>
|
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|
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<span class="ruby-identifier">output</span>.<span class="ruby-identifier">print</span> <span class="ruby-identifier">f</span>.<span class="ruby-identifier">read</span>
|
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|
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}
|
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|
+
}
|
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|
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<span class="ruby-keyword kw">end</span></pre>
|
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<pre><span class="ruby-comment cmt"># File setup.rb, line 1287</span>
|
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|
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<span class="ruby-keyword kw">def</span> <span class="ruby-identifier">new_shebang</span>(<span class="ruby-identifier">old</span>)
|
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|
+
<span class="ruby-keyword kw">if</span> <span class="ruby-regexp re">/\Aruby/</span> <span class="ruby-operator">=~</span> <span class="ruby-constant">File</span>.<span class="ruby-identifier">basename</span>(<span class="ruby-identifier">old</span>.<span class="ruby-identifier">cmd</span>)
|
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|
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<span class="ruby-constant">Shebang</span>.<span class="ruby-identifier">new</span>(<span class="ruby-identifier">config</span>(<span class="ruby-value str">'rubypath'</span>), <span class="ruby-identifier">old</span>.<span class="ruby-identifier">args</span>)
|
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|
+
<span class="ruby-keyword kw">elsif</span> <span class="ruby-constant">File</span>.<span class="ruby-identifier">basename</span>(<span class="ruby-identifier">old</span>.<span class="ruby-identifier">cmd</span>) <span class="ruby-operator">==</span> <span class="ruby-value str">'env'</span> <span class="ruby-keyword kw">and</span> <span class="ruby-identifier">old</span>.<span class="ruby-identifier">args</span>.<span class="ruby-identifier">first</span> <span class="ruby-operator">==</span> <span class="ruby-value str">'ruby'</span>
|
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|
+
<span class="ruby-constant">Shebang</span>.<span class="ruby-identifier">new</span>(<span class="ruby-identifier">config</span>(<span class="ruby-value str">'rubypath'</span>), <span class="ruby-identifier">old</span>.<span class="ruby-identifier">args</span>[<span class="ruby-value">1</span><span class="ruby-operator">..</span><span class="ruby-value">-1</span>])
|
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|
+
<span class="ruby-keyword kw">else</span>
|
20
|
+
<span class="ruby-keyword kw">return</span> <span class="ruby-identifier">old</span> <span class="ruby-keyword kw">unless</span> <span class="ruby-identifier">config</span>(<span class="ruby-value str">'shebang'</span>) <span class="ruby-operator">==</span> <span class="ruby-value str">'all'</span>
|
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|
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<span class="ruby-constant">Shebang</span>.<span class="ruby-identifier">new</span>(<span class="ruby-identifier">config</span>(<span class="ruby-value str">'rubypath'</span>))
|
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|
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<span class="ruby-keyword kw">end</span>
|
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|
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<span class="ruby-keyword kw">end</span></pre>
|
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<pre><span class="ruby-comment cmt"># File setup.rb, line 1298</span>
|
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|
+
<span class="ruby-keyword kw">def</span> <span class="ruby-identifier">open_atomic_writer</span>(<span class="ruby-identifier">path</span>, <span class="ruby-operator">&</span><span class="ruby-identifier">block</span>)
|
15
|
+
<span class="ruby-identifier">tmpfile</span> = <span class="ruby-constant">File</span>.<span class="ruby-identifier">basename</span>(<span class="ruby-identifier">path</span>) <span class="ruby-operator">+</span> <span class="ruby-value str">'.tmp'</span>
|
16
|
+
<span class="ruby-keyword kw">begin</span>
|
17
|
+
<span class="ruby-constant">File</span>.<span class="ruby-identifier">open</span>(<span class="ruby-identifier">tmpfile</span>, <span class="ruby-value str">'wb'</span>, <span class="ruby-operator">&</span><span class="ruby-identifier">block</span>)
|
18
|
+
<span class="ruby-constant">File</span>.<span class="ruby-identifier">rename</span> <span class="ruby-identifier">tmpfile</span>, <span class="ruby-constant">File</span>.<span class="ruby-identifier">basename</span>(<span class="ruby-identifier">path</span>)
|
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|
+
<span class="ruby-keyword kw">ensure</span>
|
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|
+
<span class="ruby-constant">File</span>.<span class="ruby-identifier">unlink</span> <span class="ruby-identifier">tmpfile</span> <span class="ruby-keyword kw">if</span> <span class="ruby-constant">File</span>.<span class="ruby-identifier">exist?</span>(<span class="ruby-identifier">tmpfile</span>)
|
21
|
+
<span class="ruby-keyword kw">end</span>
|
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|
+
<span class="ruby-keyword kw">end</span></pre>
|
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<pre><span class="ruby-comment cmt"># File setup.rb, line 1340</span>
|
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|
+
<span class="ruby-keyword kw">def</span> <span class="ruby-identifier">exec_install</span>
|
15
|
+
<span class="ruby-identifier">rm_f</span> <span class="ruby-value str">'InstalledFiles'</span>
|
16
|
+
<span class="ruby-identifier">exec_task_traverse</span> <span class="ruby-value str">'install'</span>
|
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|
+
<span class="ruby-keyword kw">end</span></pre>
|
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|
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|
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<pre><span class="ruby-comment cmt"># File setup.rb, line 1345</span>
|
14
|
+
<span class="ruby-keyword kw">def</span> <span class="ruby-identifier">install_dir_bin</span>(<span class="ruby-identifier">rel</span>)
|
15
|
+
<span class="ruby-identifier">install_files</span> <span class="ruby-identifier">targetfiles</span>(), <span class="ruby-node">"#{config('bindir')}/#{rel}"</span>, <span class="ruby-value">0755</span>
|
16
|
+
<span class="ruby-keyword kw">end</span></pre>
|
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|
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|
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|
|
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|
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|
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+
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|
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|
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|
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<title>install_dir_lib (Installer)</title>
|
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|
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|
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|
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|
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|
+
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|
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+
<pre><span class="ruby-comment cmt"># File setup.rb, line 1349</span>
|
14
|
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<span class="ruby-keyword kw">def</span> <span class="ruby-identifier">install_dir_lib</span>(<span class="ruby-identifier">rel</span>)
|
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<span class="ruby-identifier">install_files</span> <span class="ruby-identifier">libfiles</span>(), <span class="ruby-node">"#{config('rbdir')}/#{rel}"</span>, <span class="ruby-value">0644</span>
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<span class="ruby-keyword kw">end</span></pre>
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<title>install_dir_ext (Installer)</title>
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<pre><span class="ruby-comment cmt"># File setup.rb, line 1353</span>
|
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<span class="ruby-keyword kw">def</span> <span class="ruby-identifier">install_dir_ext</span>(<span class="ruby-identifier">rel</span>)
|
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<span class="ruby-keyword kw">return</span> <span class="ruby-keyword kw">unless</span> <span class="ruby-identifier">extdir?</span>(<span class="ruby-identifier">curr_srcdir</span>())
|
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<span class="ruby-identifier">install_files</span> <span class="ruby-identifier">rubyextentions</span>(<span class="ruby-value str">'.'</span>),
|
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<span class="ruby-node">"#{config('sodir')}/#{File.dirname(rel)}"</span>,
|
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<span class="ruby-value">0555</span>
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<span class="ruby-keyword kw">end</span></pre>
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<title>install_dir_data (Installer)</title>
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<pre><span class="ruby-comment cmt"># File setup.rb, line 1360</span>
|
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<span class="ruby-keyword kw">def</span> <span class="ruby-identifier">install_dir_data</span>(<span class="ruby-identifier">rel</span>)
|
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|
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<span class="ruby-identifier">install_files</span> <span class="ruby-identifier">targetfiles</span>(), <span class="ruby-node">"#{config('datadir')}/#{rel}"</span>, <span class="ruby-value">0644</span>
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<span class="ruby-keyword kw">end</span></pre>
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<title>install_dir_conf (Installer)</title>
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<pre><span class="ruby-comment cmt"># File setup.rb, line 1364</span>
|
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<span class="ruby-keyword kw">def</span> <span class="ruby-identifier">install_dir_conf</span>(<span class="ruby-identifier">rel</span>)
|
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|
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<span class="ruby-comment cmt"># FIXME: should not remove current config files</span>
|
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|
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<span class="ruby-comment cmt"># (rename previous file to .old/.org)</span>
|
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|
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<span class="ruby-identifier">install_files</span> <span class="ruby-identifier">targetfiles</span>(), <span class="ruby-node">"#{config('sysconfdir')}/#{rel}"</span>, <span class="ruby-value">0644</span>
|
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<span class="ruby-keyword kw">end</span></pre>
|
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<head>
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<title>install_dir_man (Installer)</title>
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<pre><span class="ruby-comment cmt"># File setup.rb, line 1370</span>
|
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<span class="ruby-keyword kw">def</span> <span class="ruby-identifier">install_dir_man</span>(<span class="ruby-identifier">rel</span>)
|
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|
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<span class="ruby-identifier">install_files</span> <span class="ruby-identifier">targetfiles</span>(), <span class="ruby-node">"#{config('mandir')}/#{rel}"</span>, <span class="ruby-value">0644</span>
|
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|
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<span class="ruby-keyword kw">end</span></pre>
|
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<title>install_files (Installer)</title>
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<pre><span class="ruby-comment cmt"># File setup.rb, line 1374</span>
|
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|
+
<span class="ruby-keyword kw">def</span> <span class="ruby-identifier">install_files</span>(<span class="ruby-identifier">list</span>, <span class="ruby-identifier">dest</span>, <span class="ruby-identifier">mode</span>)
|
15
|
+
<span class="ruby-identifier">mkdir_p</span> <span class="ruby-identifier">dest</span>, <span class="ruby-ivar">@config</span>.<span class="ruby-identifier">install_prefix</span>
|
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|
+
<span class="ruby-identifier">list</span>.<span class="ruby-identifier">each</span> <span class="ruby-keyword kw">do</span> <span class="ruby-operator">|</span><span class="ruby-identifier">fname</span><span class="ruby-operator">|</span>
|
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<span class="ruby-identifier">install</span> <span class="ruby-identifier">fname</span>, <span class="ruby-identifier">dest</span>, <span class="ruby-identifier">mode</span>, <span class="ruby-ivar">@config</span>.<span class="ruby-identifier">install_prefix</span>
|
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|
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<span class="ruby-keyword kw">end</span>
|
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|
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<span class="ruby-keyword kw">end</span></pre>
|
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|
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<title>libfiles (Installer)</title>
|
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|
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|
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|
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<pre><span class="ruby-comment cmt"># File setup.rb, line 1381</span>
|
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|
+
<span class="ruby-keyword kw">def</span> <span class="ruby-identifier">libfiles</span>
|
15
|
+
<span class="ruby-identifier">glob_reject</span>(<span class="ruby-node">%w(*.y *.output)</span>, <span class="ruby-identifier">targetfiles</span>())
|
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|
+
<span class="ruby-keyword kw">end</span></pre>
|
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