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<li><a href="index.html"><span>Main Page</span></a></li>
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<li><a href="annotated.html"><span>Data Structures</span></a></li>
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<h1>memhandler.h File Reference</h1><code>#include <stdio.h></code><br>
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<code>#include <stdlib.h></code><br>
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<code>#include <unistd.h></code><br>
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<code>#include <string.h></code><br>
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<code>#include <ctype.h></code><br>
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<code>#include <limits.h></code><br>
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<p>
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<a href="memhandler_8h-source.html">Go to the source code of this file.</a><table border="0" cellpadding="0" cellspacing="0">
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<tr><td></td></tr>
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<tr><td colspan="2"><br><h2>Defines</h2></td></tr>
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<tr><td class="memItemLeft" nowrap align="right" valign="top">#define </td><td class="memItemRight" valign="bottom"><a class="el" href="memhandler_8h.html#8a57038b88458823b98d134429bee762">M_EXIT</a> 1</td></tr>
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<tr><td class="memItemLeft" nowrap align="right" valign="top">#define </td><td class="memItemRight" valign="bottom"><a class="el" href="memhandler_8h.html#4ea8501c8a1fa369fd57f72776a74ab2">M_CONTINUE</a> 0</td></tr>
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<tr><td colspan="2"><br><h2>Functions</h2></td></tr>
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<tr><td class="memItemLeft" nowrap align="right" valign="top">void * </td><td class="memItemRight" valign="bottom"><a class="el" href="memhandler_8h.html#de7308a1600115ffc6537f7875cf935c">my_malloc</a> (size_t nb)</td></tr>
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<tr><td class="memItemLeft" nowrap align="right" valign="top">void * </td><td class="memItemRight" valign="bottom"><a class="el" href="memhandler_8h.html#e1a54755aeeb11b927875d686a5248c7">my_calloc</a> (size_t nb, size_t s)</td></tr>
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<tr><td class="memItemLeft" nowrap align="right" valign="top">void * </td><td class="memItemRight" valign="bottom"><a class="el" href="memhandler_8h.html#6c39f36183b8d5badfcab534c965621e">my_realloc</a> (void *ptr, size_t nb)</td></tr>
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<tr><td class="memItemLeft" nowrap align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="memhandler_8h.html#a49400242a007d208c641f79856ea4c6">my_free</a> (void *bloc)</td></tr>
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<tr><td class="memItemLeft" nowrap align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="memhandler_8h.html#43e8f90500abd74cfb3c2902915b0b33">my_exit</a> (void)</td></tr>
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<tr><td class="memItemLeft" nowrap align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="memhandler_8h.html#1f6dcf997eec81b90449165a0cfbcc8f">print_number_of_objects_in_memory</a> (void)</td></tr>
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<tr><td class="memItemLeft" nowrap align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="memhandler_8h.html#506df742641c3db2e00869a5c2f4dcd9">free_all</a> (void)</td></tr>
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<tr><td class="memItemLeft" nowrap align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="memhandler_8h.html#a766572a8cc9a5223991ea29f4086cb5">print_ptr_lst</a> (void)</td></tr>
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</table>
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<hr><h2>Define Documentation</h2>
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<a class="anchor" name="4ea8501c8a1fa369fd57f72776a74ab2"></a><!-- doxytag: member="memhandler.h::M_CONTINUE" ref="4ea8501c8a1fa369fd57f72776a74ab2" args="" -->
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<div class="memitem">
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<div class="memproto">
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<table class="memname">
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<tr>
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<td class="memname">#define M_CONTINUE 0 </td>
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</tr>
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</table>
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</div>
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<div class="memdoc">
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<p>
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continue flag
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<p>Definition at line <a class="el" href="memhandler_8h-source.html#l00049">49</a> of file <a class="el" href="memhandler_8h-source.html">memhandler.h</a>.</p>
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</div>
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</div><p>
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<a class="anchor" name="8a57038b88458823b98d134429bee762"></a><!-- doxytag: member="memhandler.h::M_EXIT" ref="8a57038b88458823b98d134429bee762" args="" -->
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<div class="memitem">
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<div class="memproto">
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<table class="memname">
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<tr>
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<td class="memname">#define M_EXIT 1 </td>
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</tr>
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</table>
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</div>
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<div class="memdoc">
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<p>
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exit flag
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<p>Definition at line <a class="el" href="memhandler_8h-source.html#l00048">48</a> of file <a class="el" href="memhandler_8h-source.html">memhandler.h</a>.</p>
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</div>
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</div><p>
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<hr><h2>Function Documentation</h2>
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<a class="anchor" name="506df742641c3db2e00869a5c2f4dcd9"></a><!-- doxytag: member="memhandler.h::free_all" ref="506df742641c3db2e00869a5c2f4dcd9" args="(void)" -->
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<div class="memitem">
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<div class="memproto">
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<table class="memname">
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<tr>
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<td class="memname">void free_all </td>
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<td>(</td>
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<td class="paramtype">void </td>
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<td class="paramname"> </td>
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<td> ) </td>
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<td></td>
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</tr>
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</table>
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<div class="memdoc">
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<p>
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## FUNCTION: free_all<p>
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## SPECIFICATION: Free all pointers allocated and present in the list ST_lst_alloc. If a NULL pointer is found, ignore it.<p>
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## PARAMETRES: void<p>
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## RETURN: void
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<p>Definition at line <a class="el" href="memhandler_8c-source.html#l00427">427</a> of file <a class="el" href="memhandler_8c-source.html">memhandler.c</a>.</p>
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<p>References <a class="el" href="memhandler_8c-source.html#l00089">ptr_lst::first</a>, <a class="el" href="memhandler_8c-source.html#l00081">ptr_node::next</a>, and <a class="el" href="memhandler_8c-source.html#l00082">ptr_node::ptr</a>.</p>
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<p>Referenced by <a class="el" href="dpmain_8c-source.html#l00067">main()</a>, and <a class="el" href="memhandler_8c-source.html#l00483">my_exit()</a>.</p>
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<div class="fragment"><pre class="fragment"><a name="l00428"></a>00428 {
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<a name="l00429"></a>00429 <span class="keywordflow">if</span>(<a class="code" href="memhandler_8c.html#10361581b824a5c1822de8d1844fad79">ST_lst_alloc</a>) {
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<a name="l00430"></a>00430
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<a name="l00431"></a>00431 <a class="code" href="structptr__node.html">ptr_node</a> *cur = <a class="code" href="memhandler_8c.html#10361581b824a5c1822de8d1844fad79">ST_lst_alloc</a>-><a class="code" href="structptr__lst.html#539453cc2c8aa194070c998ae4c0d3bd">first</a>,
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<a name="l00432"></a>00432 *tmp = cur ;
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<a name="l00433"></a>00433 <span class="keywordflow">while</span>(cur) {
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<a name="l00434"></a>00434 <span class="keywordflow">if</span>(cur-><a class="code" href="structptr__node.html#cd388f7d69011add91232e01caeb6a44">ptr</a>) {
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<a name="l00435"></a>00435 <span class="preprocessor"> #ifdef M_MEM_DEBUG</span>
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<a name="l00436"></a>00436 <span class="preprocessor"></span> <span class="keywordflow">if</span>(ST_fdebug) fprintf(ST_fdebug, <span class="stringliteral">"> Freeing <%p>.\n"</span>, cur-><a class="code" href="structptr__node.html#cd388f7d69011add91232e01caeb6a44">ptr</a>) ;
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<a name="l00437"></a>00437 <span class="preprocessor"> #endif</span>
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<a name="l00438"></a>00438 <span class="preprocessor"></span> free(cur-><a class="code" href="structptr__node.html#cd388f7d69011add91232e01caeb6a44">ptr</a>) ;
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<a name="l00439"></a>00439 cur-><a class="code" href="structptr__node.html#cd388f7d69011add91232e01caeb6a44">ptr</a> = NULL ;
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<a name="l00440"></a>00440 }
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<a name="l00441"></a>00441 <span class="preprocessor"> #ifdef M_MEM_DEBUG</span>
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<a name="l00442"></a>00442 <span class="preprocessor"></span> <span class="keywordflow">else</span> {
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<a name="l00443"></a>00443 <span class="keywordflow">if</span>(ST_fdebug) fprintf(ST_fdebug, <span class="stringliteral">"! A NULL bloc has been found in free_all!! Ignoring this bloc...\n"</span>) ;
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<a name="l00444"></a>00444 }
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<a name="l00445"></a>00445 <span class="preprocessor"> #endif</span>
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<a name="l00446"></a>00446 <span class="preprocessor"></span>
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<a name="l00447"></a>00447 tmp = cur-><a class="code" href="structptr__node.html#ff3a76cac5d9052a20ddeceed0e9b1cf">next</a> ;
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<a name="l00448"></a>00448 cur-><a class="code" href="structptr__node.html#ff3a76cac5d9052a20ddeceed0e9b1cf">next</a> = NULL ;
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<a name="l00449"></a>00449 free(cur) ;
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<a name="l00450"></a>00450
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<a name="l00451"></a>00451 cur = tmp ;
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<a name="l00452"></a>00452 }
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<a name="l00453"></a>00453
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<a name="l00454"></a>00454 free(<a class="code" href="memhandler_8c.html#10361581b824a5c1822de8d1844fad79">ST_lst_alloc</a>) ;
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<a name="l00455"></a>00455 <a class="code" href="memhandler_8c.html#10361581b824a5c1822de8d1844fad79">ST_lst_alloc</a> = NULL ;
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<a name="l00456"></a>00456
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<a name="l00457"></a>00457 }
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<a name="l00458"></a>00458 <span class="preprocessor">#ifdef M_MEM_DEBUG</span>
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<a name="l00459"></a>00459 <span class="preprocessor"></span> <span class="keywordflow">else</span> {
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<a name="l00460"></a>00460 <span class="keywordflow">if</span>(ST_fdebug) fprintf(ST_fdebug, <span class="stringliteral">"! No bloc allocated -> cannot free memory...\n"</span>) ;
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<a name="l00461"></a>00461 }
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<a name="l00462"></a>00462 <span class="preprocessor">#endif</span>
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<a name="l00463"></a>00463 <span class="preprocessor"></span>}
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</pre></div>
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<p>
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</div>
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</div><p>
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<a class="anchor" name="e1a54755aeeb11b927875d686a5248c7"></a><!-- doxytag: member="memhandler.h::my_calloc" ref="e1a54755aeeb11b927875d686a5248c7" args="(size_t nb, size_t s)" -->
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<div class="memitem">
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<div class="memproto">
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<td class="memname">void* my_calloc </td>
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<td>(</td>
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<td class="paramtype">size_t </td>
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<td class="paramname"> <em>nb</em>, </td>
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</tr>
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<tr>
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<td class="paramkey"></td>
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<td></td>
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<td class="paramtype">size_t </td>
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<td class="paramname"> <em>s</em></td><td> </td>
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</tr>
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<tr>
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<td></td>
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<td>)</td>
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<td></td><td></td><td></td>
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</table>
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</div>
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<div class="memdoc">
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<p>
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## FUNCTION: my_calloc<p>
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## SPECIFICATION: Allocate memory for nb bloc of size s using calloc standart function.<p>
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## PARAMETRES: @ size_t nb : Number of bloc to allocate @ size_t s : Size of the bloc to allocate<p>
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## RETURN: void *: Pointer to the allocated bloc
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<p>Definition at line <a class="el" href="memhandler_8c-source.html#l00153">153</a> of file <a class="el" href="memhandler_8c-source.html">memhandler.c</a>.</p>
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<p>References <a class="el" href="memhandler_8c-source.html#l00289">add_bloc()</a>, and <a class="el" href="memhandler_8c-source.html#l00483">my_exit()</a>.</p>
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<p>Referenced by <a class="el" href="voronoi_8c-source.html#l00187">fill_vvertices()</a>, <a class="el" href="pocket_8c-source.html#l01369">get_pocket_pvertices()</a>, <a class="el" href="rpdb_8c-source.html#l00478">rpdb_open()</a>, <a class="el" href="psorting_8c-source.html#l00087">sort_pockets()</a>, <a class="el" href="utils_8c-source.html#l00764">str_split()</a>, and <a class="el" href="check_8c-source.html#l00340">test_pdb_line()</a>.</p>
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<div class="fragment"><pre class="fragment"><a name="l00154"></a>00154 {
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<a name="l00155"></a>00155 <span class="keywordtype">void</span> *bloc = calloc(nb, s) ;
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<a name="l00156"></a>00156
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<a name="l00157"></a>00157 <span class="keywordflow">if</span>(bloc == NULL){
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<a name="l00158"></a>00158 fprintf(stderr, <span class="stringliteral">"! malloc failed in my_bloc_malloc. Programm will exit, as demanded.\n"</span>) ;
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<a name="l00159"></a>00159 <a class="code" href="memhandler_8c.html#43e8f90500abd74cfb3c2902915b0b33">my_exit</a>() ;
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<a name="l00160"></a>00160 }
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<a name="l00161"></a>00161 <span class="preprocessor"> #ifdef M_MEM_DEBUG</span>
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<a name="l00162"></a>00162 <span class="preprocessor"></span> <span class="keywordflow">if</span>(ST_fdebug) fprintf(ST_fdebug, <span class="stringliteral">"> (C)Allocation success at: <%p>\n"</span>, bloc) ;
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<a name="l00163"></a>00163 <span class="preprocessor"> #endif</span>
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<a name="l00164"></a>00164 <span class="preprocessor"></span> <a class="code" href="memhandler_8c.html#a71f76a5140b2027627c0a665edfb3cd">add_bloc</a>(bloc) ;
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<a name="l00165"></a>00165
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<a name="l00166"></a>00166 <span class="keywordflow">return</span> bloc ;
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<a name="l00167"></a>00167 }
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</pre></div>
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<p>
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</div><p>
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<a class="anchor" name="43e8f90500abd74cfb3c2902915b0b33"></a><!-- doxytag: member="memhandler.h::my_exit" ref="43e8f90500abd74cfb3c2902915b0b33" args="(void)" -->
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<div class="memitem">
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<td class="memname">void my_exit </td>
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<td>(</td>
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<td class="paramtype">void </td>
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<td class="paramname"> </td>
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<td> ) </td>
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<td></td>
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<div class="memdoc">
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<p>
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## FUNCTION: my_exit<p>
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## SPECIFICATION: Before exiting the programm, just free all allocated pointers (if any). This allows to exit the programme whenever one wants during the execution without dealing with memory allocation/desallocation.<p>
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This implies to use my_malloc and my_free functions instead of standart functions. Only memory blocs allocated with those functions will be freed when my_exit is called.<p>
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## PARAMETRES: void<p>
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## RETURN: void
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<p>Definition at line <a class="el" href="memhandler_8c-source.html#l00483">483</a> of file <a class="el" href="memhandler_8c-source.html">memhandler.c</a>.</p>
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<p>References <a class="el" href="memhandler_8c-source.html#l00427">free_all()</a>.</p>
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<p>Referenced by <a class="el" href="memhandler_8c-source.html#l00289">add_bloc()</a>, <a class="el" href="memhandler_8c-source.html#l00153">my_calloc()</a>, <a class="el" href="memhandler_8c-source.html#l00121">my_malloc()</a>, <a class="el" href="memhandler_8c-source.html#l00184">my_realloc()</a>, and <a class="el" href="memhandler_8c-source.html#l00225">ptr_node_alloc()</a>.</p>
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<div class="fragment"><pre class="fragment"><a name="l00484"></a>00484 {
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<a name="l00485"></a>00485 <a class="code" href="memhandler_8c.html#506df742641c3db2e00869a5c2f4dcd9">free_all</a>() ;
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<a name="l00486"></a>00486
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<a name="l00487"></a>00487 exit(1) ;
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<a name="l00488"></a>00488 }
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</pre></div>
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<a class="anchor" name="a49400242a007d208c641f79856ea4c6"></a><!-- doxytag: member="memhandler.h::my_free" ref="a49400242a007d208c641f79856ea4c6" args="(void *bloc)" -->
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<td class="memname">void my_free </td>
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<td>(</td>
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<td class="paramtype">void * </td>
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<td class="paramname"> <em>bloc</em> </td>
|
|
<td> ) </td>
|
|
<td></td>
|
|
</tr>
|
|
</table>
|
|
</div>
|
|
<div class="memdoc">
|
|
|
|
<p>
|
|
## FUNCTION: my_free<p>
|
|
## SPECIFICATION: Free memory for the given bloc, and remove this pointer from the list.<p>
|
|
## PARAMETRES: @ void *bloc: Pointer to free.<p>
|
|
## RETURN:
|
|
<p>Definition at line <a class="el" href="memhandler_8c-source.html#l00255">255</a> of file <a class="el" href="memhandler_8c-source.html">memhandler.c</a>.</p>
|
|
|
|
<p>References <a class="el" href="memhandler_8c-source.html#l00343">remove_bloc()</a>.</p>
|
|
|
|
<p>Referenced by <a class="el" href="pocket_8c-source.html#l01214">c_lst_pocket_free()</a>, <a class="el" href="voronoi__lst_8c-source.html#l00188">c_lst_vertices_free()</a>, <a class="el" href="check_8c-source.html#l00173">check_fparams()</a>, <a class="el" href="check_8c-source.html#l00105">check_fpocket()</a>, <a class="el" href="tpocket_8c-source.html#l00661">check_pockets()</a>, <a class="el" href="pocket_8c-source.html#l00098">clusterPockets()</a>, <a class="el" href="dpocket_8c-source.html#l00184">desc_pocket()</a>, <a class="el" href="pocket_8c-source.html#l01016">dropPocket()</a>, <a class="el" href="utils_8c-source.html#l00156">f_readl()</a>, <a class="el" href="dparams_8c-source.html#l00440">free_dparams()</a>, <a class="el" href="fparams_8c-source.html#l00562">free_fparams()</a>, <a class="el" href="mdpbase_8c-source.html#l00545">free_mdconcat()</a>, <a class="el" href="mdparams_8c-source.html#l00397">free_mdparams()</a>, <a class="el" href="rpdb_8c-source.html#l00794">free_pdb_atoms()</a>, <a class="el" href="sort_8c-source.html#l00328">free_s_vsort()</a>, <a class="el" href="utils_8c-source.html#l00294">free_tab_str()</a>, <a class="el" href="tparams_8c-source.html#l00397">free_tparams()</a>, <a class="el" href="voronoi_8c-source.html#l00530">free_vert_lst()</a>, <a class="el" href="tpocket_8c-source.html#l00601">get_actual_pocket_DEPRECATED()</a>, <a class="el" href="dpocket_8c-source.html#l00336">get_explicit_desc()</a>, <a class="el" href="mdpbase_8c-source.html#l00438">init_md_grid()</a>, <a class="el" href="voronoi_8c-source.html#l00090">load_vvertices()</a>, <a class="el" href="mdpocket_8c-source.html#l00217">mdpocket_characterize()</a>, <a class="el" href="pocket_8c-source.html#l01061">mergePockets()</a>, <a class="el" href="rpdb_8c-source.html#l00478">rpdb_open()</a>, <a class="el" href="pocket_8c-source.html#l00582">set_pockets_descriptors()</a>, <a class="el" href="psorting_8c-source.html#l00087">sort_pockets()</a>, <a class="el" href="check_8c-source.html#l00340">test_pdb_line()</a>, <a class="el" href="tpocket_8c-source.html#l00440">test_set()</a>, <a class="el" href="writepocket_8c-source.html#l00495">write_pocket_pdb()</a>, and <a class="el" href="writepocket_8c-source.html#l00115">write_pocket_pdb_DB()</a>.</p>
|
|
<div class="fragment"><pre class="fragment"><a name="l00256"></a>00256 {
|
|
<a name="l00257"></a>00257 <span class="keywordflow">if</span>(bloc) {
|
|
<a name="l00258"></a>00258 <span class="preprocessor"> #ifdef M_MEM_DEBUG</span>
|
|
<a name="l00259"></a>00259 <span class="preprocessor"></span> <span class="keywordflow">if</span>(ST_fdebug) fprintf(ST_fdebug, <span class="stringliteral">"> (my_free) Freeing bloc <%p>!\n"</span>, bloc) ;
|
|
<a name="l00260"></a>00260 fflush(ST_fdebug) ;
|
|
<a name="l00261"></a>00261 <span class="preprocessor"> #endif</span>
|
|
<a name="l00262"></a>00262 <span class="preprocessor"></span> <a class="code" href="memhandler_8c.html#f840f1b8e7e96f68cc4e424e6d7b1643">remove_bloc</a>(bloc) ;
|
|
<a name="l00263"></a>00263 free(bloc) ;
|
|
<a name="l00264"></a>00264 }
|
|
<a name="l00265"></a>00265 <span class="keywordflow">else</span> {
|
|
<a name="l00266"></a>00266 <span class="preprocessor"> #ifdef M_MEM_DEBUG</span>
|
|
<a name="l00267"></a>00267 <span class="preprocessor"></span> <span class="keywordflow">if</span>(ST_fdebug) fprintf(ST_fdebug, <span class="stringliteral">"! Cannot free a NULL variable!\n"</span>) ;
|
|
<a name="l00268"></a>00268 <span class="preprocessor"> #endif</span>
|
|
<a name="l00269"></a>00269 <span class="preprocessor"></span> }
|
|
<a name="l00270"></a>00270
|
|
<a name="l00271"></a>00271 }
|
|
</pre></div>
|
|
<p>
|
|
|
|
</div>
|
|
</div><p>
|
|
<a class="anchor" name="de7308a1600115ffc6537f7875cf935c"></a><!-- doxytag: member="memhandler.h::my_malloc" ref="de7308a1600115ffc6537f7875cf935c" args="(size_t nb)" -->
|
|
<div class="memitem">
|
|
<div class="memproto">
|
|
<table class="memname">
|
|
<tr>
|
|
<td class="memname">void* my_malloc </td>
|
|
<td>(</td>
|
|
<td class="paramtype">size_t </td>
|
|
<td class="paramname"> <em>s</em> </td>
|
|
<td> ) </td>
|
|
<td></td>
|
|
</tr>
|
|
</table>
|
|
</div>
|
|
<div class="memdoc">
|
|
|
|
<p>
|
|
## FUNCTION: my_malloc<p>
|
|
## SPECIFICATION: Allocate memory for a bloc of size s.<p>
|
|
## PARAMETRES: @ size_t s : Size of the bloc to allocate<p>
|
|
## RETURN: void *: Pointer to the allocated bloc
|
|
<p>Definition at line <a class="el" href="memhandler_8c-source.html#l00121">121</a> of file <a class="el" href="memhandler_8c-source.html">memhandler.c</a>.</p>
|
|
|
|
<p>References <a class="el" href="memhandler_8c-source.html#l00289">add_bloc()</a>, and <a class="el" href="memhandler_8c-source.html#l00483">my_exit()</a>.</p>
|
|
|
|
<p>Referenced by <a class="el" href="dparams_8c-source.html#l00301">add_complexe()</a>, <a class="el" href="tparams_8c-source.html#l00306">add_prot()</a>, <a class="el" href="mdparams_8c-source.html#l00303">add_snapshot()</a>, <a class="el" href="mdpbase_8c-source.html#l00490">alloc_first_md_concat()</a>, <a class="el" href="pocket_8c-source.html#l01137">alloc_pocket()</a>, <a class="el" href="descriptors_8c-source.html#l00086">allocate_s_desc()</a>, <a class="el" href="pocket_8c-source.html#l01161">c_lst_pockets_alloc()</a>, <a class="el" href="voronoi__lst_8c-source.html#l00071">c_lst_vertices_alloc()</a>, <a class="el" href="check_8c-source.html#l00173">check_fparams()</a>, <a class="el" href="check_8c-source.html#l00105">check_fpocket()</a>, <a class="el" href="utils_8c-source.html#l00156">f_readl()</a>, <a class="el" href="voronoi_8c-source.html#l00187">fill_vvertices()</a>, <a class="el" href="mdpbase_8c-source.html#l00397">float_get_min_max_from_pockets()</a>, <a class="el" href="fparams_8c-source.html#l00088">get_fpocket_args()</a>, <a class="el" href="neighbor_8c-source.html#l00090">get_mol_atm_neigh()</a>, <a class="el" href="neighbor_8c-source.html#l00332">get_mol_ctd_atm_neigh()</a>, <a class="el" href="neighbor_8c-source.html#l00213">get_mol_vert_neigh()</a>, <a class="el" href="pocket_8c-source.html#l01269">get_pocket_contacted_atms()</a>, <a class="el" href="sort_8c-source.html#l00086">get_sorted_list()</a>, <a class="el" href="voronoi__lst_8c-source.html#l00225">get_vert_contacted_atms()</a>, <a class="el" href="mdpocket_8c-source.html#l00386">get_wanted_atom_ids()</a>, <a class="el" href="dparams_8c-source.html#l00076">init_def_dparams()</a>, <a class="el" href="fparams_8c-source.html#l00048">init_def_fparams()</a>, <a class="el" href="mdparams_8c-source.html#l00076">init_def_mdparams()</a>, <a class="el" href="tparams_8c-source.html#l00075">init_def_tparams()</a>, <a class="el" href="mdpbase_8c-source.html#l00374">init_md_concat()</a>, <a class="el" href="mdpbase_8c-source.html#l00438">init_md_grid()</a>, <a class="el" href="voronoi_8c-source.html#l00090">load_vvertices()</a>, <a class="el" href="mdpocket_8c-source.html#l00217">mdpocket_characterize()</a>, <a class="el" href="pocket_8c-source.html#l01188">node_pocket_alloc()</a>, <a class="el" href="voronoi__lst_8c-source.html#l00097">node_vertice_alloc()</a>, <a class="el" href="cluster_8c-source.html#l00070">pck_final_clust()</a>, <a class="el" href="mdpbase_8c-source.html#l00518">realloc_md_concat()</a>, <a class="el" href="rpdb_8c-source.html#l00478">rpdb_open()</a>, <a class="el" href="asa_8c-source.html#l00267">set_ASA()</a>, <a class="el" href="pocket_8c-source.html#l00582">set_pockets_descriptors()</a>, <a class="el" href="writepocket_8c-source.html#l00495">write_pocket_pdb()</a>, and <a class="el" href="writepocket_8c-source.html#l00115">write_pocket_pdb_DB()</a>.</p>
|
|
<div class="fragment"><pre class="fragment"><a name="l00122"></a>00122 {
|
|
<a name="l00123"></a>00123 <span class="keywordtype">void</span> *bloc = malloc(s) ;
|
|
<a name="l00124"></a>00124
|
|
<a name="l00125"></a>00125 <span class="keywordflow">if</span>(bloc == NULL) {
|
|
<a name="l00126"></a>00126 fprintf(stderr, <span class="stringliteral">"! malloc failed in my_bloc_malloc. Programm will exit, as demanded.\n"</span>) ;
|
|
<a name="l00127"></a>00127 <a class="code" href="memhandler_8c.html#43e8f90500abd74cfb3c2902915b0b33">my_exit</a>() ;
|
|
<a name="l00128"></a>00128 }
|
|
<a name="l00129"></a>00129
|
|
<a name="l00130"></a>00130 <span class="preprocessor"> #ifdef M_MEM_DEBUG</span>
|
|
<a name="l00131"></a>00131 <span class="preprocessor"></span> <span class="keywordflow">if</span>(ST_fdebug) fprintf(ST_fdebug, <span class="stringliteral">"> (M)Allocation success at: <%p>\n"</span>, bloc) ;
|
|
<a name="l00132"></a>00132 <span class="preprocessor"> #endif</span>
|
|
<a name="l00133"></a>00133 <span class="preprocessor"></span> <a class="code" href="memhandler_8c.html#a71f76a5140b2027627c0a665edfb3cd">add_bloc</a>(bloc) ;
|
|
<a name="l00134"></a>00134
|
|
<a name="l00135"></a>00135 <span class="keywordflow">return</span> bloc ;
|
|
<a name="l00136"></a>00136 }
|
|
</pre></div>
|
|
<p>
|
|
|
|
</div>
|
|
</div><p>
|
|
<a class="anchor" name="6c39f36183b8d5badfcab534c965621e"></a><!-- doxytag: member="memhandler.h::my_realloc" ref="6c39f36183b8d5badfcab534c965621e" args="(void *ptr, size_t nb)" -->
|
|
<div class="memitem">
|
|
<div class="memproto">
|
|
<table class="memname">
|
|
<tr>
|
|
<td class="memname">void* my_realloc </td>
|
|
<td>(</td>
|
|
<td class="paramtype">void * </td>
|
|
<td class="paramname"> <em>ptr</em>, </td>
|
|
</tr>
|
|
<tr>
|
|
<td class="paramkey"></td>
|
|
<td></td>
|
|
<td class="paramtype">size_t </td>
|
|
<td class="paramname"> <em>s</em></td><td> </td>
|
|
</tr>
|
|
<tr>
|
|
<td></td>
|
|
<td>)</td>
|
|
<td></td><td></td><td></td>
|
|
</tr>
|
|
</table>
|
|
</div>
|
|
<div class="memdoc">
|
|
|
|
<p>
|
|
## FUNCTION: my_realloc<p>
|
|
## SPECIFICATION: Allocate memory for a bloc of size s using calloc standart function.<p>
|
|
## PARAMETRES: @ size_t s : Size of the bloc to allocate @ int exit : Whether we exit the programm if malloc fails.<p>
|
|
## RETURN: void *: Pointer to the allocated bloc
|
|
<p>Definition at line <a class="el" href="memhandler_8c-source.html#l00184">184</a> of file <a class="el" href="memhandler_8c-source.html">memhandler.c</a>.</p>
|
|
|
|
<p>References <a class="el" href="memhandler_8c-source.html#l00289">add_bloc()</a>, <a class="el" href="memhandler_8c-source.html#l00483">my_exit()</a>, and <a class="el" href="memhandler_8c-source.html#l00343">remove_bloc()</a>.</p>
|
|
|
|
<p>Referenced by <a class="el" href="dparams_8c-source.html#l00301">add_complexe()</a>, <a class="el" href="tparams_8c-source.html#l00306">add_prot()</a>, <a class="el" href="mdparams_8c-source.html#l00303">add_snapshot()</a>, <a class="el" href="neighbor_8c-source.html#l00090">get_mol_atm_neigh()</a>, <a class="el" href="neighbor_8c-source.html#l00332">get_mol_ctd_atm_neigh()</a>, <a class="el" href="neighbor_8c-source.html#l00213">get_mol_vert_neigh()</a>, <a class="el" href="pocket_8c-source.html#l01269">get_pocket_contacted_atms()</a>, <a class="el" href="mdpocket_8c-source.html#l00386">get_wanted_atom_ids()</a>, <a class="el" href="voronoi_8c-source.html#l00090">load_vvertices()</a>, <a class="el" href="mdpbase_8c-source.html#l00518">realloc_md_concat()</a>, and <a class="el" href="writepocket_8c-source.html#l00495">write_pocket_pdb()</a>.</p>
|
|
<div class="fragment"><pre class="fragment"><a name="l00185"></a>00185 {
|
|
<a name="l00186"></a>00186 <span class="keywordtype">void</span> *tmp = ptr ;
|
|
<a name="l00187"></a>00187 ptr = realloc(ptr, s) ;
|
|
<a name="l00188"></a>00188
|
|
<a name="l00189"></a>00189 <span class="keywordflow">if</span>(ptr == NULL){
|
|
<a name="l00190"></a>00190 fprintf(stderr, <span class="stringliteral">"! malloc failed in my_bloc_malloc. Programm will exit, as demanded.\n"</span>) ;
|
|
<a name="l00191"></a>00191 <a class="code" href="memhandler_8c.html#43e8f90500abd74cfb3c2902915b0b33">my_exit</a>() ;
|
|
<a name="l00192"></a>00192 }
|
|
<a name="l00193"></a>00193 <span class="keywordflow">else</span> {
|
|
<a name="l00194"></a>00194 <span class="keywordflow">if</span>(tmp && tmp != ptr) {
|
|
<a name="l00195"></a>00195 <span class="preprocessor"> #ifdef M_MEM_DEBUG</span>
|
|
<a name="l00196"></a>00196 <span class="preprocessor"></span> <span class="keywordflow">if</span>(ST_fdebug) fprintf(ST_fdebug, <span class="stringliteral">"> Realloc generates a new pointer: <%p> newly allocated at %p. \n"</span>, tmp, ptr) ;
|
|
<a name="l00197"></a>00197 <span class="preprocessor"> #endif</span>
|
|
<a name="l00198"></a>00198 <span class="preprocessor"></span>
|
|
<a name="l00199"></a>00199 <span class="comment">/* If the newly allocated pointer is different from previou s</span>
|
|
<a name="l00200"></a>00200 <span class="comment"> one, remove previous from the list and add new one. Else, </span>
|
|
<a name="l00201"></a>00201 <span class="comment"> ptr doesn't need to be added. */</span>
|
|
<a name="l00202"></a>00202 <a class="code" href="memhandler_8c.html#f840f1b8e7e96f68cc4e424e6d7b1643">remove_bloc</a>(tmp) ;
|
|
<a name="l00203"></a>00203 <a class="code" href="memhandler_8c.html#a71f76a5140b2027627c0a665edfb3cd">add_bloc</a>(ptr) ;
|
|
<a name="l00204"></a>00204 }
|
|
<a name="l00205"></a>00205 }
|
|
<a name="l00206"></a>00206
|
|
<a name="l00207"></a>00207 <span class="keywordflow">return</span> ptr ;
|
|
<a name="l00208"></a>00208 }
|
|
</pre></div>
|
|
<p>
|
|
|
|
</div>
|
|
</div><p>
|
|
<a class="anchor" name="1f6dcf997eec81b90449165a0cfbcc8f"></a><!-- doxytag: member="memhandler.h::print_number_of_objects_in_memory" ref="1f6dcf997eec81b90449165a0cfbcc8f" args="(void)" -->
|
|
<div class="memitem">
|
|
<div class="memproto">
|
|
<table class="memname">
|
|
<tr>
|
|
<td class="memname">void print_number_of_objects_in_memory </td>
|
|
<td>(</td>
|
|
<td class="paramtype">void </td>
|
|
<td class="paramname"> </td>
|
|
<td> ) </td>
|
|
<td></td>
|
|
</tr>
|
|
</table>
|
|
</div>
|
|
<div class="memdoc">
|
|
|
|
<p>
|
|
|
|
<p>Definition at line <a class="el" href="memhandler_8c-source.html#l00408">408</a> of file <a class="el" href="memhandler_8c-source.html">memhandler.c</a>.</p>
|
|
|
|
<p>References <a class="el" href="memhandler_8c-source.html#l00092">ptr_lst::n_ptr</a>.</p>
|
|
<div class="fragment"><pre class="fragment"><a name="l00408"></a>00408 {
|
|
<a name="l00409"></a>00409 <span class="keywordflow">if</span>(<a class="code" href="memhandler_8c.html#10361581b824a5c1822de8d1844fad79">ST_lst_alloc</a>) {
|
|
<a name="l00410"></a>00410 printf(<span class="stringliteral">"\nHaving %d objects in memory\n"</span>,<a class="code" href="memhandler_8c.html#10361581b824a5c1822de8d1844fad79">ST_lst_alloc</a>-><a class="code" href="structptr__lst.html#d9352af5c811f1b59e7706a1dbdc672b">n_ptr</a>);
|
|
<a name="l00411"></a>00411 }
|
|
<a name="l00412"></a>00412 }
|
|
</pre></div>
|
|
<p>
|
|
|
|
</div>
|
|
</div><p>
|
|
<a class="anchor" name="a766572a8cc9a5223991ea29f4086cb5"></a><!-- doxytag: member="memhandler.h::print_ptr_lst" ref="a766572a8cc9a5223991ea29f4086cb5" args="(void)" -->
|
|
<div class="memitem">
|
|
<div class="memproto">
|
|
<table class="memname">
|
|
<tr>
|
|
<td class="memname">void print_ptr_lst </td>
|
|
<td>(</td>
|
|
<td class="paramtype">void </td>
|
|
<td class="paramname"> </td>
|
|
<td> ) </td>
|
|
<td></td>
|
|
</tr>
|
|
</table>
|
|
</div>
|
|
<div class="memdoc">
|
|
|
|
<p>
|
|
## FUNCTION: print_ptr_lst<p>
|
|
## SPECIFICATION: Print allocated pointers stored in ST_lst_alloc for debugging purpose.<p>
|
|
## PARAMETRES: void<p>
|
|
## RETURN: void
|
|
<p>Definition at line <a class="el" href="memhandler_8c-source.html#l00502">502</a> of file <a class="el" href="memhandler_8c-source.html">memhandler.c</a>.</p>
|
|
|
|
<p>References <a class="el" href="memhandler_8c-source.html#l00089">ptr_lst::first</a>, <a class="el" href="memhandler_8c-source.html#l00090">ptr_lst::last</a>, <a class="el" href="memhandler_8c-source.html#l00092">ptr_lst::n_ptr</a>, <a class="el" href="memhandler_8c-source.html#l00081">ptr_node::next</a>, and <a class="el" href="memhandler_8c-source.html#l00082">ptr_node::ptr</a>.</p>
|
|
<div class="fragment"><pre class="fragment"><a name="l00503"></a>00503 {
|
|
<a name="l00504"></a>00504 <span class="keywordflow">if</span>(<a class="code" href="memhandler_8c.html#10361581b824a5c1822de8d1844fad79">ST_lst_alloc</a> && <a class="code" href="memhandler_8c.html#10361581b824a5c1822de8d1844fad79">ST_lst_alloc</a>-><a class="code" href="structptr__lst.html#d9352af5c811f1b59e7706a1dbdc672b">n_ptr</a> > 0) {
|
|
<a name="l00505"></a>00505 <span class="keywordtype">int</span> i = 0 ;
|
|
<a name="l00506"></a>00506 <a class="code" href="structptr__node.html">ptr_node</a> *cur = <a class="code" href="memhandler_8c.html#10361581b824a5c1822de8d1844fad79">ST_lst_alloc</a>-><a class="code" href="structptr__lst.html#539453cc2c8aa194070c998ae4c0d3bd">first</a> ;
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<a name="l00507"></a>00507 fprintf(stdout, <span class="stringliteral">"\t==============\n\tLst of %d allocated ptr: \n"</span>, (<span class="keywordtype">int</span>) <a class="code" href="memhandler_8c.html#10361581b824a5c1822de8d1844fad79">ST_lst_alloc</a>-><a class="code" href="structptr__lst.html#d9352af5c811f1b59e7706a1dbdc672b">n_ptr</a>) ;
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<a name="l00508"></a>00508 fprintf(stdout, <span class="stringliteral">"\tFirst: <%p> - Last: <%p>\n"</span>, <a class="code" href="memhandler_8c.html#10361581b824a5c1822de8d1844fad79">ST_lst_alloc</a>-><a class="code" href="structptr__lst.html#539453cc2c8aa194070c998ae4c0d3bd">first</a>-><a class="code" href="structptr__node.html#cd388f7d69011add91232e01caeb6a44">ptr</a>, <a class="code" href="memhandler_8c.html#10361581b824a5c1822de8d1844fad79">ST_lst_alloc</a>-><a class="code" href="structptr__lst.html#11b468c69baf674880cd3440a63819d3">last</a>-><a class="code" href="structptr__node.html#cd388f7d69011add91232e01caeb6a44">ptr</a>) ;
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<a name="l00509"></a>00509
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<a name="l00510"></a>00510 <span class="keywordflow">while</span>(cur) {
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<a name="l00511"></a>00511 <span class="keywordflow">if</span>(cur-><a class="code" href="structptr__node.html#cd388f7d69011add91232e01caeb6a44">ptr</a>) {
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<a name="l00512"></a>00512 fprintf(stdout, <span class="stringliteral">"\t<%p> <%d>\n"</span>, cur-><a class="code" href="structptr__node.html#cd388f7d69011add91232e01caeb6a44">ptr</a>, (<span class="keywordtype">int</span>)<span class="keyword">sizeof</span>(cur-><a class="code" href="structptr__node.html#cd388f7d69011add91232e01caeb6a44">ptr</a>)) ;
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|
<a name="l00513"></a>00513 }
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|
<a name="l00514"></a>00514 <span class="keywordflow">else</span> {
|
|
<a name="l00515"></a>00515 fprintf(stdout, <span class="stringliteral">"\t! A NULL bloc has been found in position %d.\n"</span>, i) ;
|
|
<a name="l00516"></a>00516 }
|
|
<a name="l00517"></a>00517
|
|
<a name="l00518"></a>00518 cur = cur-><a class="code" href="structptr__node.html#ff3a76cac5d9052a20ddeceed0e9b1cf">next</a> ;
|
|
<a name="l00519"></a>00519 }
|
|
<a name="l00520"></a>00520 }
|
|
<a name="l00521"></a>00521 <span class="keywordflow">else</span> {
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|
<a name="l00522"></a>00522 fprintf(stdout, <span class="stringliteral">"\t! No bloc allocated yet...\n"</span>) ;
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|
<a name="l00523"></a>00523 }
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|
<a name="l00524"></a>00524 }
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</pre></div>
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<p>
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</div>
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</div><p>
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</div>
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<hr size="1"><address style="text-align: right;"><small>Generated on Mon Jun 7 16:44:23 2010 for fpocket by
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<a href="http://www.doxygen.org/index.html">
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<img src="doxygen.png" alt="doxygen" align="middle" border="0"></a> 1.5.6 </small></address>
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</body>
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</html>
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