Added computation of PDBDistanceGrid for all atoms of the backbone (not just alpha-carbons)
#include "sys.h"
#include "debug.h"
#ifdef CWDEBUG
namespace dionysus
{
namespace debug
{
namespace channels // DEBUGCHANNELS is set to this in debug.h
{
namespace dc
{
// Add new debug channels here.
channel_ct filtration("FILTRATION");
channel_ct transpositions("TRANSPOS");
channel_ct vineyard("VINEYARD");
channel_ct cycle("CYCLE");
channel_ct lsfiltration("LSFILTRATION");
channel_ct orderlist("ORDERLIST");
}
} // namespace DEBUGCHANNELS
// Initialize debugging code from new threads.
void init_thread(void)
{
// Everything below needs to be repeated at the start of every
// thread function, because every thread starts in a completely
// reset state with all debug channels off etc.
#if LIBCWD_THREAD_SAFE // For the non-threaded case this is set by the rcfile.
// Turn on all debug channels by default.
ForAllDebugChannels(while(!debugChannel.is_on()) debugChannel.on());
// Turn off specific debug channels.
Debug(dc::bfd.off());
Debug(dc::malloc.off());
#endif
// Turn on debug output.
// Only turn on debug output when the environment variable SUPPRESS_DEBUG_OUTPUT is not set.
Debug(if (getenv("SUPPRESS_DEBUG_OUTPUT") == NULL) libcw_do.on());
#if LIBCWD_THREAD_SAFE
Debug(libcw_do.set_ostream(&std::cout, &cout_mutex));
// Set the thread id in the margin.
char margin[12];
sprintf(margin, "%-10lu ", pthread_self());
Debug(libcw_do.margin().assign(margin, 11));
#else
Debug(libcw_do.set_ostream(&std::cout));
#endif
// Write a list of all existing debug channels to the default debug device.
Debug(list_channels_on(libcw_do));
}
// Initialize debugging code from main().
void init(void)
{
// You want this, unless you mix streams output with C output.
// Read http://gcc.gnu.org/onlinedocs/libstdc++/27_io/howto.html#8 for an explanation.
// We can't use it, because other code uses printf to write to the console.
//std::ios::sync_with_stdio(false);
// This will warn you when you are using header files that do not belong to the
// shared libcwd object that you linked with.
Debug(check_configuration());
#if CWDEBUG_ALLOC
// Remove all current (pre- main) allocations from the Allocated Memory Overview.
libcwd::make_all_allocations_invisible_except(NULL);
#endif
//Debug(read_rcfile());
init_thread();
}
} // namespace debug
} // namespace dionysus
#endif // CWDEBUG