source: src/cleanUp.cpp@ 0ea063

/*
 * Project: MoleCuilder
 * Description: creates and alters molecular systems
 * Copyright (C)  2010-2012 University of Bonn. All rights reserved.
 * Copyright (C)  2013 Frederik Heber. All rights reserved.
 * 
 *
 *   This file is part of MoleCuilder.
 *
 *    MoleCuilder is free software: you can redistribute it and/or modify
 *    it under the terms of the GNU General Public License as published by
 *    the Free Software Foundation, either version 2 of the License, or
 *    (at your option) any later version.
 *
 *    MoleCuilder is distributed in the hope that it will be useful,
 *    but WITHOUT ANY WARRANTY; without even the implied warranty of
 *    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 *    GNU General Public License for more details.
 *
 *    You should have received a copy of the GNU General Public License
 *    along with MoleCuilder.  If not, see <http://www.gnu.org/licenses/>.
 */

/*
 * cleanUp.cpp
 *
 *  Created on: Oct 28, 2011
 *      Author: heber
 */

// include config.h
#ifdef HAVE_CONFIG_H
#include <config.h>
#endif

#include <iostream>
#include <iomanip>

#include "CodePatterns/MemDebug.hpp"

#include "cleanUp.hpp"

#include "Atom/AtomObserver.hpp"

#include "CodePatterns/Chronos.hpp"
#include "CodePatterns/errorlogger.hpp"
#include "CodePatterns/logger.hpp"
#include "CodePatterns/Observer/ObserverLog.hpp"

#include "Actions/ActionQueue.hpp"
#include "Actions/OptionRegistry.hpp"

#include "Fragmentation/Summation/Containers/FragmentationResultContainer.hpp"

#include "Potentials/PotentialFactory.hpp"
#include "Potentials/PotentialRegistry.hpp"

#include "RandomNumbers/RandomNumberDistributionFactory.hpp"
#include "RandomNumbers/RandomNumberEngineFactory.hpp"
#include "RandomNumbers/RandomNumberGeneratorFactory.hpp"

#include "Parser/ChangeTracker.hpp"
#include "Parser/FormatParserStorage.hpp"
#include "Parser/XmlParser.hpp"

#include "Shapes/ShapeFactory.hpp"
#include "Shapes/ShapeRegistry.hpp"

#include "UIElements/CommandLineUI/CommandLineParser.hpp"
#include "UIElements/Menu/MenuDescription.hpp"
#include "UIElements/UIFactory.hpp"
#include "World.hpp"
#include "WorldTime.hpp"

/** In this function all dynamicly allocated member variables to static/global
 * variables are added to the ignore list of Memory/MemDebug.
 *
 * Use this to prevent their listing in the Memory::getState() at the end of the
 * program. Check with valgrind that truely no memory leak occurs!
 */
void AddStaticEntitiestoIgnoreList()
{
  // zeroVec and unitVec are global variables (on the stack) but vectorContent
  // within is situated on the heap and has to be ignored
  Memory::ignore(zeroVec.get());
  Memory::ignore(unitVec[0].get());
  Memory::ignore(unitVec[1].get());
  Memory::ignore(unitVec[2].get());

  // XmlParser has static instance that uses vectorContent as well
  Memory::ignore(FormatParser< xml >::defaultAtomInfo.field.get());
}

/** purges all static (singleton) instances in correct order of dependency.
 *
 */
void purgeStaticInstances()
{
  // make sure that ActionQueue is already purged!
  FragmentationResultContainer::purgeInstance();
  Chronos::purgeInstance();
  PotentialFactory::purgeInstance();
  PotentialRegistry::purgeInstance();
  RandomNumberDistributionFactory::purgeInstance();
  RandomNumberEngineFactory::purgeInstance();
  RandomNumberGeneratorFactory::purgeInstance();
  ShapeFactory::purgeInstance();
  ShapeRegistry::purgeInstance();
  FormatParserStorage::purgeInstance();
  ChangeTracker::purgeInstance();
  World::purgeInstance();
  AtomObserver::purgeInstance();
  MenuDescription::purgeInstance();
  UIFactory::purgeInstance();
  CommandLineParser::purgeInstance();
  logger::purgeInstance();
  errorLogger::purgeInstance();
  WorldTime::purgeInstance();
}

void stopAndPurgeQueue()
{
#ifdef HAVE_ACTION_THREAD
  // adding a wait here such that ActionQueue's run_thread is done any may stop
  waitQueue();
#endif
  MoleCuilder::ActionQueue::purgeInstance();
  MoleCuilder::OptionRegistry::purgeInstance();
}

void printTimings(const MoleCuilder::ActionQueue::ActionTokens_t &tokens);

/** Cleans all singleton instances in an orderly fashion.
 * C++ does not guarantee any specific sequence of removal of single instances
 * which have static/global variables. Some singletons depend on others hence we
 * ascertain a specific ordering here, which is is used via the atexit() hook.
 */
void cleanUp()
{
  // stop queue
  const MoleCuilder::ActionQueue::ActionTokens_t tokens = MoleCuilder::ActionQueue::getInstance().getListOfActions();
  stopAndPurgeQueue();
  // give timings per Action, requires still present Chronos
  printTimings(tokens);

  // purge static instances from memory
  purgeStaticInstances(); 
  // put some static variables' dynamic contents on the Memory::ignore map to avoid their
  // admonishing lateron
  AddStaticEntitiestoIgnoreList();
#ifdef LOG_OBSERVER
  cout << observerLog().getLog();
#endif
#ifndef NDEBUG
  // CodePatterns always initializes observerLog except with NDEBUG
  ObserverLog::purgeInstance();
#endif
  Memory::getState();
}

/** We give a list of all times per action and a total time.
 *
 * We require a list of Action tokens such that we do not access the ActionQueue.
 * Timings are printed when Actions have all been performed, hence the queue should
 * already be purged and we cannot access it anymore.
 *
 * \param tokens
 */
void printTimings(const MoleCuilder::ActionQueue::ActionTokens_t &tokens)
{
//  const MoleCuilder::ActionQueue::ActionTokens_t tokens = MoleCuilder::ActionQueue::getInstance().getListOfActions();
  const Chronos &Chron = Chronos::getInstance();
  if (!DoLog(2)) {
    std::cout << "(Non-zero) Times used per Action [seconds]:" << std::endl;
    for (MoleCuilder::ActionQueue::ActionTokens_t::const_iterator iter = tokens.begin();
        iter != tokens.end(); ++iter)
      if (Chron.getTime(*iter) != 0.) { // dont give if action has not been used
        std::cout << "  " << setiosflags(ios::left) << setw(24) << setfill('.') << *iter;
        std::cout << setiosflags(ios::left)
#ifdef HAVE_SYS_TIMES_H
              << setprecision(3)
#else
              << setprecision(9)
#endif
              << fixed << Chron.getTime(*iter) << std::endl;
      }
  } else {
    std::cout << "Measured times [seconds]:" << std::endl;
    const Chronos::TimekeepingMap &timemap = Chron.getTimekeepingMap();
    for (Chronos::TimekeepingMap::const_iterator iter = timemap.begin();
        iter != timemap.end();
        ++iter) {
      std::cout << "  " << setiosflags(ios::left) << setw(24) << setfill('.') << iter->first;
      std::cout << setiosflags(ios::left)
#ifdef HAVE_SYS_TIMES_H
          << setprecision(3)
#else
          << setprecision(9)
#endif
          << fixed << iter->second << std::endl;
    }
  }
  std::cout << "Total Time: " << Chron.SumUpTotalTime() << " seconds" << std::endl;
  std::cout << "Total Actions called: " << Chron.SumUpTotalFunctions() << std::endl;
}

/** Dump current memory chunks.
 *
 */
void dumpMemory()
{
  ofstream ost("molecuilder.memdump");
  Memory::dumpMemory(ost);
}

/** Save the current World to output files and exit.
 *
 * @return retrieved from World::getExitFlag()
 */
int saveAll()
{
  FormatParserStorage::getInstance().SaveAll();
  ChangeTracker::getInstance().saveStatus();

  int ExitFlag = World::getInstance().getExitFlag();
  return (ExitFlag == 1 ? 0 : ExitFlag);
}

#ifdef HAVE_ACTION_THREAD
/** Stops the queue such that all Actions are done.
 *
 */
void stopQueue()
{
  MoleCuilder::ActionQueue::getInstance().stop();
}

/** Waits for the queue to idle.
 *
 */
void waitQueue()
{
  MoleCuilder::ActionQueue::getInstance().wait();
}
#endif