src/brains/BlockSnapshotManager.hpp

/*
 * Copyright (c) 2005 The University of Notre Dame. All Rights Reserved.
 *
 * The University of Notre Dame grants you ("Licensee") a
 * non-exclusive, royalty free, license to use, modify and
 * redistribute this software in source and binary code form, provided
 * that the following conditions are met:
 *
 * 1. Redistributions of source code must retain the above copyright
 *    notice, this list of conditions and the following disclaimer.
 *
 * 2. Redistributions in binary form must reproduce the above copyright
 *    notice, this list of conditions and the following disclaimer in the
 *    documentation and/or other materials provided with the
 *    distribution.
 *
 * This software is provided "AS IS," without a warranty of any
 * kind. All express or implied conditions, representations and
 * warranties, including any implied warranty of merchantability,
 * fitness for a particular purpose or non-infringement, are hereby
 * excluded.  The University of Notre Dame and its licensors shall not
 * be liable for any damages suffered by licensee as a result of
 * using, modifying or distributing the software or its
 * derivatives. In no event will the University of Notre Dame or its
 * licensors be liable for any lost revenue, profit or data, or for
 * direct, indirect, special, consequential, incidental or punitive
 * damages, however caused and regardless of the theory of liability,
 * arising out of the use of or inability to use software, even if the
 * University of Notre Dame has been advised of the possibility of
 * such damages.
 *
 * SUPPORT OPEN SCIENCE!  If you use OpenMD or its source code in your
 * research, please cite the appropriate papers when you publish your
 * work.  Good starting points are:
 *                                                                      
 * [1]  Meineke, et al., J. Comp. Chem. 26, 252-271 (2005).             
 * [2]  Fennell & Gezelter, J. Chem. Phys. 124, 234104 (2006).          
 * [3]  Sun, Lin & Gezelter, J. Chem. Phys. 128, 24107 (2008).          
 * [4]  Vardeman & Gezelter, in progress (2009).                        
 */
#ifndef BRAINS_BLOCKSNAPSHOTMANAGER_HPP
#define BRAINS_BLOCKSNAPSHOTMANAGER_HPP
#include <vector>

#include "brains/SnapshotManager.hpp"
namespace OpenMD {

  class SimInfo;
  class DumpReader;

  typedef std::pair<int, int> SnapshotBlock;

  /**
   * @class BlockSnapshotManager
   * @todo document
   */
  class BlockSnapshotManager : public SnapshotManager{

  public:
    BlockSnapshotManager(SimInfo* info, const std::string& filename, int storageLayout, long long int memSize, int blockCapacity = 2);
    ~BlockSnapshotManager();
        
    virtual Snapshot* getSnapshot(int id);


    /** Returns number of snapshot blocks in this BlockSnapshotManager*/
    int getNBlocks() {
      return blocks_.size();
    }

    SnapshotBlock getSnapshotBlock(int block) {
      return blocks_.at(block);
    }
        
    int getNActiveBlocks();

    void needCOMprops(bool ncp);


    bool isBlockActive(int block) {
      return  findActiveBlock(block) != activeBlocks_.end() ? true : false;
    }        

    bool loadBlock(int block);
        
    bool unloadBlock(int block);

    std::vector<int> getActiveBlocks();

    int getBlockCapacity() {
      return blockCapacity_;                
    }

    int getNFrames();
        
  private:

    std::vector<int>::iterator findActiveBlock(int block) {
      return std::find(activeBlocks_.begin(), activeBlocks_.end(), block);
    }

    bool hasZeroRefBlock();

    int getFirstZeroRefBlock();

    void internalLoad(int block);
    void internalUnload(int block);
    Snapshot* loadFrame(int frame);
        
    SimInfo* info_;
    int blockCapacity_;
    long long int memSize_;

    std::vector<Snapshot*> snapshots_;
    std::vector<SnapshotBlock> blocks_;        
    std::vector<int> activeBlocks_;
    std::vector<int> activeRefCount_;
        
    int nAtoms_;
    int nRigidBodies_;
    int nCutoffGroups_;
    
    DumpReader* reader_;
    int nframes_;
    int nSnapshotPerBlock_;

  };

}

#endif
Revision:	1629
Committed:	Wed Sep 14 21:15:17 2011 UTC (13 years, 7 months ago) by gezelter
File size:	4081 byte(s)
Log Message:	Merging changes from old branch into development branch
#	User	Rev	Content
1	tim	318	/*
2			* Copyright (c) 2005 The University of Notre Dame. All Rights Reserved.
3			*
4			* The University of Notre Dame grants you ("Licensee") a
5			* non-exclusive, royalty free, license to use, modify and
6			* redistribute this software in source and binary code form, provided
7			* that the following conditions are met:
8			*
9	gezelter	1390	* 1. Redistributions of source code must retain the above copyright
10	tim	318	* notice, this list of conditions and the following disclaimer.
11			*
12	gezelter	1390	* 2. Redistributions in binary form must reproduce the above copyright
13	tim	318	* notice, this list of conditions and the following disclaimer in the
14			* documentation and/or other materials provided with the
15			* distribution.
16			*
17			* This software is provided "AS IS," without a warranty of any
18			* kind. All express or implied conditions, representations and
19			* warranties, including any implied warranty of merchantability,
20			* fitness for a particular purpose or non-infringement, are hereby
21			* excluded. The University of Notre Dame and its licensors shall not
22			* be liable for any damages suffered by licensee as a result of
23			* using, modifying or distributing the software or its
24			* derivatives. In no event will the University of Notre Dame or its
25			* licensors be liable for any lost revenue, profit or data, or for
26			* direct, indirect, special, consequential, incidental or punitive
27			* damages, however caused and regardless of the theory of liability,
28			* arising out of the use of or inability to use software, even if the
29			* University of Notre Dame has been advised of the possibility of
30			* such damages.
31	gezelter	1390	*
32			* SUPPORT OPEN SCIENCE! If you use OpenMD or its source code in your
33			* research, please cite the appropriate papers when you publish your
34			* work. Good starting points are:
35			*
36			* [1] Meineke, et al., J. Comp. Chem. 26, 252-271 (2005).
37			* [2] Fennell & Gezelter, J. Chem. Phys. 124, 234104 (2006).
38			* [3] Sun, Lin & Gezelter, J. Chem. Phys. 128, 24107 (2008).
39			* [4] Vardeman & Gezelter, in progress (2009).
40	tim	318	*/
41			#ifndef BRAINS_BLOCKSNAPSHOTMANAGER_HPP
42			#define BRAINS_BLOCKSNAPSHOTMANAGER_HPP
43	tim	323	#include <vector>
44	tim	318
45			#include "brains/SnapshotManager.hpp"
46	gezelter	1390	namespace OpenMD {
47	tim	318
48	gezelter	507	class SimInfo;
49			class DumpReader;
50	tim	318
51	gezelter	507	typedef std::pair<int, int> SnapshotBlock;
52	tim	318
53	gezelter	507	/**
54			* @class BlockSnapshotManager
55			* @todo document
56			*/
57			class BlockSnapshotManager : public SnapshotManager{
58	tim	318
59	gezelter	507	public:
60	gezelter	1629	BlockSnapshotManager(SimInfo* info, const std::string& filename, int storageLayout, long long int memSize, int blockCapacity = 2);
61	gezelter	507	~BlockSnapshotManager();
62	tim	318
63	gezelter	1249	virtual Snapshot* getSnapshot(int id);
64	tim	318
65	xsun	1215
66	gezelter	507	/** Returns number of snapshot blocks in this BlockSnapshotManager*/
67			int getNBlocks() {
68			return blocks_.size();
69			}
70	tim	318
71	gezelter	507	SnapshotBlock getSnapshotBlock(int block) {
72			return blocks_.at(block);
73			}
74	tim	318
75	gezelter	507	int getNActiveBlocks();
76	tim	351
77	gezelter	1106	void needCOMprops(bool ncp);
78
79
80	gezelter	507	bool isBlockActive(int block) {
81			return findActiveBlock(block) != activeBlocks_.end() ? true : false;
82			}
83	tim	351
84	gezelter	507	bool loadBlock(int block);
85	tim	318
86	gezelter	507	bool unloadBlock(int block);
87	tim	318
88	gezelter	507	std::vector<int> getActiveBlocks();
89	tim	318
90	gezelter	507	int getBlockCapacity() {
91			return blockCapacity_;
92			}
93	tim	318
94	gezelter	507	int getNFrames();
95	tim	318
96	gezelter	507	private:
97	tim	318
98	gezelter	507	std::vector<int>::iterator findActiveBlock(int block) {
99			return std::find(activeBlocks_.begin(), activeBlocks_.end(), block);
100			}
101	tim	351
102	gezelter	507	bool hasZeroRefBlock();
103	tim	351
104	gezelter	507	int getFirstZeroRefBlock();
105	tim	351
106	gezelter	507	void internalLoad(int block);
107			void internalUnload(int block);
108			Snapshot* loadFrame(int frame);
109	tim	318
110	gezelter	507	SimInfo* info_;
111			int blockCapacity_;
112	gezelter	1629	long long int memSize_;
113	tim	318
114	gezelter	507	std::vector<Snapshot*> snapshots_;
115			std::vector<SnapshotBlock> blocks_;
116			std::vector<int> activeBlocks_;
117			std::vector<int> activeRefCount_;
118	tim	318
119	gezelter	507	int nAtoms_;
120			int nRigidBodies_;
121	gezelter	1540	int nCutoffGroups_;
122	tim	318
123	gezelter	507	DumpReader* reader_;
124			int nframes_;
125			int nSnapshotPerBlock_;
126	tim	318
127	gezelter	507	};
128	tim	318
129			}
130
131			#endif