AtomMapper Class Reference

#include <AtomMap.h>

Public Member Functions
	AtomMapper (PatchID _pid)
	~AtomMapper ()
void	registerIDsCompAtomExt (const CompAtomExt *begin, const CompAtomExt *end)
void	registerIDsFullAtom (const FullAtom *begin, const FullAtom *end)
void	unregisterIDsCompAtomExt (const CompAtomExt *begin, const CompAtomExt *end)
void	unregisterIDsFullAtom (const FullAtom *begin, const FullAtom *end)

Detailed Description

Definition at line 85 of file AtomMap.h.

Constructor & Destructor Documentation

AtomMapper()

AtomMapper::AtomMapper ( PatchID  _pid )

inline

Definition at line 87 of file AtomMap.h.

: pid(_pid), mapped(0), map(AtomMap::Object()) {}

~AtomMapper()

AtomMapper::~AtomMapper ( )

inline

Definition at line 93 of file AtomMap.h.

References NAMD_bug().

                {
    if ( mapped ) NAMD_bug("deleted AtomMapper with atoms still mapped");
  }

Member Function Documentation

registerIDsCompAtomExt()

void AtomMapper::registerIDsCompAtomExt	(	const CompAtomExt *	begin,
		const CompAtomExt *	end
	)

Definition at line 24 of file AtomMap.C.

References NAMD_bug().

Referenced by Patch::positionsReady().

                                                                                        {
  if ( mapped ) return;
  mapped = 1;
#ifdef MEM_OPT_VERSION
  if ( ! map->onlyUseTbl ) {
    int n = end - begin;
    entries.resize(n);
    AtomMapEntry *e = entries.begin();
    for ( int i=0; i<n; ++i, ++e ) {
      e->pid = pid;
      e->index = i;
      AtomID aid = begin[i].id;
      short aid_upper = aid >> MAXBITS;
      e->aid_upper = aid_upper;
      int aid_hash = aid & (MAXNUMATOMS-1);
      AtomMapEntry **me = map->entries + aid_hash;
      while ( *me && (*me)->aid_upper < aid_upper ) me = &((*me)->next);
      e->next = *me;
      *me = e;
    }
  } else
#endif
  if ( map->registerIDsCompAtomExt(pid, begin, end) ) NAMD_bug("atom map failed");
}

registerIDsFullAtom()

void AtomMapper::registerIDsFullAtom	(	const FullAtom *	begin,
		const FullAtom *	end
	)

Definition at line 50 of file AtomMap.C.

References NAMD_bug().

Referenced by Sequencer::integrate(), Sequencer::minimize(), HomePatch::recvCheckpointLoad(), HomePatch::recvExchangeMsg(), and HomePatch::revert().

                                                                               {
  if ( mapped ) return;
  mapped = 1;
#ifdef MEM_OPT_VERSION
  if ( ! map->onlyUseTbl ) {
    int n = end - begin;
    entries.resize(n);
    AtomMapEntry *e = entries.begin();
    for ( int i=0; i<n; ++i, ++e ) {
      e->pid = pid;
      e->index = i;
      AtomID aid = begin[i].id;
      short aid_upper = aid >> MAXBITS;
      e->aid_upper = aid_upper;
      int aid_hash = aid & (MAXNUMATOMS-1);
      AtomMapEntry **me = map->entries + aid_hash;
      while ( *me && (*me)->aid_upper < aid_upper ) me = &((*me)->next);
      e->next = *me;
      *me = e;
    }
  } else
#endif
  if ( map->registerIDsFullAtom(pid, begin, end) ) NAMD_bug("atom map failed");
}

unregisterIDsCompAtomExt()

void AtomMapper::unregisterIDsCompAtomExt	(	const CompAtomExt *	begin,
		const CompAtomExt *	end
	)

Definition at line 76 of file AtomMap.C.

References NAMD_bug().

Referenced by ProxyPatch::receiveAll(), and ProxyPatch::~ProxyPatch().

                                                                                          {
  if ( ! mapped ) return;
  mapped = 0;
#ifdef MEM_OPT_VERSION
  if ( ! map->onlyUseTbl ) {
    int n = end - begin;
    if ( entries.size() != n ) {
      CkPrintf("AtomMapper entries.size() %d != %d\n", entries.size(), n);
      NAMD_bug("AtomMapper::unregisterIDsCompAtomExt size mismatch");
    }
    AtomMapEntry *e = entries.begin();
    for ( int i=0; i<n; ++i, ++e ) {
      AtomID aid = begin[i].id;
      int aid_hash = aid & (MAXNUMATOMS-1);
      AtomMapEntry **me = map->entries + aid_hash;
      while ( *me != e ) me = &((*me)->next);
      *me = e->next;
    }
  } else
#endif
  if ( map->unregisterIDsCompAtomExt(pid, begin, end) ) NAMD_bug("atom map failed");
}

unregisterIDsFullAtom()

void AtomMapper::unregisterIDsFullAtom	(	const FullAtom *	begin,
		const FullAtom *	end
	)

Definition at line 100 of file AtomMap.C.

References NAMD_bug().

Referenced by HomePatch::doAtomMigration(), HomePatch::recvCheckpointLoad(), HomePatch::recvExchangeMsg(), HomePatch::revert(), and HomePatch::~HomePatch().

                                                                                 {
  if ( ! mapped ) return;
  mapped = 0;
#ifdef MEM_OPT_VERSION
  if ( ! map->onlyUseTbl ) {
    int n = end - begin;
    if ( entries.size() != n ) {
      CkPrintf("AtomMapper entries.size() %d != %d\n", entries.size(), n);
      NAMD_bug("AtomMapper::unregisterIDsFullAtom size mismatch");
    }
    AtomMapEntry *e = entries.begin();
    for ( int i=0; i<n; ++i, ++e ) {
      AtomID aid = begin[i].id;
      int aid_hash = aid & (MAXNUMATOMS-1);
      AtomMapEntry **me = map->entries + aid_hash;
      while ( *me != e ) me = &((*me)->next);
      *me = e->next;
    }
  } else
#endif
  if ( map->unregisterIDsFullAtom(pid, begin, end) ) NAMD_bug("atom map failed");
}

---

The documentation for this class was generated from the following files:

• AtomMap.h
• AtomMap.C