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2011-10-26T06:18:54Z

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imported>MichaelDondrup at 10:31, 9 April 2009

2009-04-09T10:31:32Z

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__NOTOC__

== A little workaround for packages using the PThread library ==

=== Example ===
When trying to compile some bioconductor packages eg. the affyio packages in Biobase you may experinece compilation errors
like ''undefined symbol PTHREAD_STACK_MIN'' or ''undefined symbol PTHREAD_DESTRUCTOR_ITERATIONS''.
These are symbols used in included pthread.h but they are defined in limits.h. with the given compilation options however these macros are
not defined, because of a conditional define checking for a given POSIX_C_SOURCE version. A workaround is to place a mock pthread.h include file
in the directory <R-installdirectory>/lib/R/include, which looks like:

<pre><nowiki>
#include "/usr/include/pthread.h"
#include <limits.h>
#include <unistd.h>
#warning Using selfdefined PTHREAD_ macros in my own pthread.h in R_HOME/lib/R/include

extern long _sysconf(int); /* System Private interface to sysconf() */
#ifndef _SC_THREAD_STACK_MIN
#error _SC_THREAD_STACK_MIN is not defined
#endif

#define PTHREAD_STACK_MIN ((size_t)_sysconf(_SC_THREAD_STACK_MIN))
/* Added for UNIX98 conformance */
#define PTHREAD_DESTRUCTOR_ITERATIONS _POSIX_THREAD_DESTRUCTOR_ITERATIONS
#define PTHREAD_KEYS_MAX _POSIX_THREAD_KEYS_MAX
#define PTHREAD_THREADS_MAX _POSIX_THREAD_THREADS_MAX
</nowiki></pre>

This is a bad workaround, because we include the absolute path and define the missing symbols ourselves. If you have abetter idea feel free to fix
either the affyio package or the Solaris pthread.h, limits.h

TheMeanPthreadHack - Revision history

Admin: 1 revision

imported>MichaelDondrup at 10:31, 9 April 2009