applications/staticProps/GofRAngle.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. Acknowledgement of the program authors must be made in any
 *    publication of scientific results based in part on use of the
 *    program.  An acceptable form of acknowledgement is citation of
 *    the article in which the program was described (Matthew
 *    A. Meineke, Charles F. Vardeman II, Teng Lin, Christopher
 *    J. Fennell and J. Daniel Gezelter, "OOPSE: An Object-Oriented
 *    Parallel Simulation Engine for Molecular Dynamics,"
 *    J. Comput. Chem. 26, pp. 252-271 (2005))
 *
 * 2. Redistributions of source code must retain the above copyright
 *    notice, this list of conditions and the following disclaimer.
 *
 * 3. 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.
 */
#ifndef APPLICATIONS_STATICPROPS_GOFRANGLE_HPP
#define APPLICATIONS_STATICPROPS_GOFRANGLE_HPP

#include "applications/staticProps/RadialDistrFunc.hpp"
namespace oopse {

class GofRAngle : public RadialDistrFunc {
    
    public:
        GofRAngle(SimInfo* info, const std::string& filename, const std::string& sele1, const std::string& sele2);

        void setNRBins(int nbins) {
            assert(nbins > 0);
            nRBins_ = nbins;
            deltaR_ = len_ / nRBins_;
            for (int i = 0 ; i < nRBins_; ++i) {
                histogram_[i].resize(nAngleBins_);
                avgGofr_[i].resize(nAngleBins_);
            }            
        }

        int getNRBins() {
            return nRBins_; 
        }

        void setLength(double len) {
            len_ = len;
            deltaR_ = len_ /nRBins_;                
        }

        double getLength() {
            return len_;
        }
        
        void setNAngleBins(int nbins) {
            assert(nbins >0);
            nAngleBins_ = nbins;
            deltaCosAngle_ = 2.0 / nAngleBins_;
            for (int i = 0 ; i < nRBins_; ++i) {
                histogram_[i].resize(nAngleBins_);
                avgGofr_[i].resize(nAngleBins_);
            }
        }
        
        int getNAngleBins() {return nAngleBins_;}
        
    private:

        virtual void preProcess();
        virtual void initalizeHistogram();
        virtual void collectHistogram(StuntDouble* sd1, StuntDouble* sd2);
        virtual void processHistogram();

        virtual double evaluateAngle(StuntDouble* sd1, StuntDouble* sd2) = 0;

        virtual void writeRdf();

        double deltaCosAngle_;
        int nAngleBins_;
        double len_;
        int nRBins_;
        double deltaR_;
        
        std::vector<std::vector<int> > histogram_;
        std::vector<std::vector<double> > avgGofr_;
        int npairs_;
};


class GofRTheta : public GofRAngle {
    public:
        GofRTheta(SimInfo* info, const std::string& filename, const std::string& sele1, const std::string& sele2) 
            : GofRAngle (info, filename, sele1, sele2) {
                setOutputName(getPrefix(filename) + ".gofrt");
        }
        
    private:

        virtual double evaluateAngle(StuntDouble* sd1, StuntDouble* sd2);        
};


class GofROmega : public GofRAngle {
    public:
        GofROmega(SimInfo* info, const std::string& filename, const std::string& sele1, const std::string& sele2) 
            : GofRAngle (info, filename, sele1, sele2) {
                setOutputName(getPrefix(filename) + ".gofrw");
        }
    
    private:
        virtual double evaluateAngle(StuntDouble* sd1, StuntDouble* sd2);        
};

}
#endif

Revision:	353
Committed:	Wed Feb 16 19:36:30 2005 UTC (20 years, 2 months ago) by tim
Original Path:	*trunk/src/applications/staticProps/GofRAngle.hpp*
File size:	4790 byte(s)
Log Message:	change the suffix of output files;fix the problem of counting in staticProps
#	User	Rev	Content
1	tim	309	/*
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			* 1. Acknowledgement of the program authors must be made in any
10			* publication of scientific results based in part on use of the
11			* program. An acceptable form of acknowledgement is citation of
12			* the article in which the program was described (Matthew
13			* A. Meineke, Charles F. Vardeman II, Teng Lin, Christopher
14			* J. Fennell and J. Daniel Gezelter, "OOPSE: An Object-Oriented
15			* Parallel Simulation Engine for Molecular Dynamics,"
16			* J. Comput. Chem. 26, pp. 252-271 (2005))
17			*
18			* 2. Redistributions of source code must retain the above copyright
19			* notice, this list of conditions and the following disclaimer.
20			*
21			* 3. Redistributions in binary form must reproduce the above copyright
22			* notice, this list of conditions and the following disclaimer in the
23			* documentation and/or other materials provided with the
24			* distribution.
25			*
26			* This software is provided "AS IS," without a warranty of any
27			* kind. All express or implied conditions, representations and
28			* warranties, including any implied warranty of merchantability,
29			* fitness for a particular purpose or non-infringement, are hereby
30			* excluded. The University of Notre Dame and its licensors shall not
31			* be liable for any damages suffered by licensee as a result of
32			* using, modifying or distributing the software or its
33			* derivatives. In no event will the University of Notre Dame or its
34			* licensors be liable for any lost revenue, profit or data, or for
35			* direct, indirect, special, consequential, incidental or punitive
36			* damages, however caused and regardless of the theory of liability,
37			* arising out of the use of or inability to use software, even if the
38			* University of Notre Dame has been advised of the possibility of
39			* such damages.
40			*/
41	tim	311	#ifndef APPLICATIONS_STATICPROPS_GOFRANGLE_HPP
42			#define APPLICATIONS_STATICPROPS_GOFRANGLE_HPP
43	tim	309
44	tim	311	#include "applications/staticProps/RadialDistrFunc.hpp"
45	tim	309	namespace oopse {
46
47			class GofRAngle : public RadialDistrFunc {
48
49			public:
50	tim	310	GofRAngle(SimInfo* info, const std::string& filename, const std::string& sele1, const std::string& sele2);
51	tim	309
52	tim	310	void setNRBins(int nbins) {
53			assert(nbins > 0);
54			nRBins_ = nbins;
55			deltaR_ = len_ / nRBins_;
56			for (int i = 0 ; i < nRBins_; ++i) {
57			histogram_[i].resize(nAngleBins_);
58			avgGofr_[i].resize(nAngleBins_);
59			}
60			}
61
62			int getNRBins() {
63			return nRBins_;
64			}
65	tim	311
66			void setLength(double len) {
67			len_ = len;
68			deltaR_ = len_ /nRBins_;
69			}
70
71			double getLength() {
72			return len_;
73			}
74	tim	310
75			void setNAngleBins(int nbins) {
76			assert(nbins >0);
77			nAngleBins_ = nbins;
78			deltaCosAngle_ = 2.0 / nAngleBins_;
79			for (int i = 0 ; i < nRBins_; ++i) {
80			histogram_[i].resize(nAngleBins_);
81			avgGofr_[i].resize(nAngleBins_);
82			}
83			}
84
85			int getNAngleBins() {return nAngleBins_;}
86
87	tim	309	private:
88
89			virtual void preProcess();
90			virtual void initalizeHistogram();
91			virtual void collectHistogram(StuntDouble* sd1, StuntDouble* sd2);
92			virtual void processHistogram();
93
94	tim	310	virtual double evaluateAngle(StuntDouble* sd1, StuntDouble* sd2) = 0;
95	tim	309
96			virtual void writeRdf();
97	tim	310
98			double deltaCosAngle_;
99			int nAngleBins_;
100			double len_;
101			int nRBins_;
102			double deltaR_;
103	tim	309
104			std::vector<std::vector<int> > histogram_;
105			std::vector<std::vector<double> > avgGofr_;
106			int npairs_;
107			};
108
109
110	tim	311	class GofRTheta : public GofRAngle {
111	tim	309	public:
112	tim	311	GofRTheta(SimInfo* info, const std::string& filename, const std::string& sele1, const std::string& sele2)
113			: GofRAngle (info, filename, sele1, sele2) {
114	tim	353	setOutputName(getPrefix(filename) + ".gofrt");
115	tim	311	}
116
117	tim	309	private:
118
119	tim	310	virtual double evaluateAngle(StuntDouble* sd1, StuntDouble* sd2);
120	tim	309	};
121
122
123	tim	311	class GofROmega : public GofRAngle {
124	tim	309	public:
125	tim	311	GofROmega(SimInfo* info, const std::string& filename, const std::string& sele1, const std::string& sele2)
126			: GofRAngle (info, filename, sele1, sele2) {
127	tim	353	setOutputName(getPrefix(filename) + ".gofrw");
128	tim	311	}
129
130	tim	309	private:
131	tim	310	virtual double evaluateAngle(StuntDouble* sd1, StuntDouble* sd2);
132	tim	309	};
133
134			}
135			#endif
136