[301] | 1 | // ----------------------------------------------------------------------- |
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| 2 | // getStats.cc: Basic functions to calculate statistical parameters |
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| 3 | // such as mean, median, rms, madfm, min, max. |
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| 4 | // ----------------------------------------------------------------------- |
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| 5 | // Copyright (C) 2006, Matthew Whiting, ATNF |
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| 6 | // |
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| 7 | // This program is free software; you can redistribute it and/or modify it |
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| 8 | // under the terms of the GNU General Public License as published by the |
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| 9 | // Free Software Foundation; either version 2 of the License, or (at your |
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| 10 | // option) any later version. |
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| 11 | // |
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| 12 | // Duchamp is distributed in the hope that it will be useful, but WITHOUT |
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| 13 | // ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or |
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| 14 | // FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License |
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| 15 | // for more details. |
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| 16 | // |
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| 17 | // You should have received a copy of the GNU General Public License |
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| 18 | // along with Duchamp; if not, write to the Free Software Foundation, |
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| 19 | // Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307, USA |
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| 20 | // |
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| 21 | // Correspondence concerning Duchamp may be directed to: |
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| 22 | // Internet email: Matthew.Whiting [at] atnf.csiro.au |
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| 23 | // Postal address: Dr. Matthew Whiting |
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| 24 | // Australia Telescope National Facility, CSIRO |
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| 25 | // PO Box 76 |
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| 26 | // Epping NSW 1710 |
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| 27 | // AUSTRALIA |
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| 28 | // ----------------------------------------------------------------------- |
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[3] | 29 | #include <iostream> |
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[204] | 30 | #include <algorithm> |
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[3] | 31 | #include <math.h> |
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[393] | 32 | #include <duchamp/Utils/utils.hh> |
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[3] | 33 | |
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[848] | 34 | template <class T> float findMean(T *array, size_t size) |
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[70] | 35 | { |
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[528] | 36 | /// @details |
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| 37 | /// Find the mean of an array of numbers. Type independent. |
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| 38 | /// \param array The array of numbers. |
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| 39 | /// \param size The length of the array. |
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| 40 | /// \return The mean value of the array, returned as a float |
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[848] | 41 | double mean = 0; |
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| 42 | for(size_t i=0;i<size;i++) mean += double(array[i]); |
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| 43 | if(size>0) |
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| 44 | mean /= double(size); |
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[653] | 45 | return float(mean); |
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[53] | 46 | } |
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[848] | 47 | template float findMean<int>(int *array, size_t size); |
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| 48 | template float findMean<long>(long *array, size_t size); |
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| 49 | template float findMean<float>(float *array, size_t size); |
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| 50 | template float findMean<double>(double *array, size_t size); |
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[190] | 51 | //-------------------------------------------------------------------- |
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[53] | 52 | |
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[849] | 53 | template <class T> float findMeanDiff(T *first, T *second, size_t size) |
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| 54 | { |
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| 55 | /// @details |
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| 56 | /// Find the mean of an array of numbers. Type independent. |
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| 57 | /// \param array The array of numbers. |
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| 58 | /// \param size The length of the array. |
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| 59 | /// \return The mean value of the array, returned as a float |
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| 60 | double mean = 0; |
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| 61 | for(size_t i=0;i<size;i++) mean += double(first[i]-second[i]); |
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| 62 | if(size>0) |
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| 63 | mean /= double(size); |
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| 64 | return float(mean); |
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| 65 | } |
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| 66 | template float findMeanDiff<int>(int *first, int *second, size_t size); |
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| 67 | template float findMeanDiff<long>(long *first, long *second, size_t size); |
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| 68 | template float findMeanDiff<float>(float *first, float *second, size_t size); |
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| 69 | template float findMeanDiff<double>(double *first, double *second, size_t size); |
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| 70 | //-------------------------------------------------------------------- |
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| 71 | |
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[848] | 72 | template <class T> float findMean(T *array, bool *mask, size_t size) |
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[53] | 73 | { |
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[528] | 74 | /// @details |
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[848] | 75 | /// Find the mean of an array of numbers. Type independent. |
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[528] | 76 | /// \param array The array of numbers. |
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[848] | 77 | /// \param mask An array of the same length that says whether to |
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| 78 | /// include each member of the array in the calculations. Only use |
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| 79 | /// values where mask=true. |
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[528] | 80 | /// \param size The length of the array. |
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[848] | 81 | /// \return The mean value of the array, returned as a float |
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| 82 | double mean = 0.; |
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| 83 | int ct=0; |
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| 84 | for(size_t i=0;i<size;i++){ |
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| 85 | if(mask[i]){ |
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| 86 | mean += double(array[i]); |
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| 87 | ct++; |
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| 88 | } |
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[646] | 89 | } |
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[848] | 90 | if(ct>0) mean /= double(ct); |
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| 91 | return float(mean); |
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[53] | 92 | } |
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[848] | 93 | template float findMean<int>(int *array, bool *mask, size_t size); |
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| 94 | template float findMean<long>(long *array, bool *mask, size_t size); |
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| 95 | template float findMean<float>(float *array, bool *mask, size_t size); |
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| 96 | template float findMean<double>(double *array, bool *mask, size_t size); |
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[190] | 97 | //-------------------------------------------------------------------- |
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[53] | 98 | |
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[849] | 99 | template <class T> float findMeanDiff(T *first, T *second, bool *mask, size_t size) |
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| 100 | { |
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| 101 | /// @details |
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| 102 | /// Find the mean of an array of numbers. Type independent. |
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| 103 | /// \param array The array of numbers. |
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| 104 | /// \param mask An array of the same length that says whether to |
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| 105 | /// include each member of the array in the calculations. Only use |
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| 106 | /// values where mask=true. |
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| 107 | /// \param size The length of the array. |
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| 108 | /// \return The mean value of the array, returned as a float |
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| 109 | double mean = 0.; |
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| 110 | int ct=0; |
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| 111 | for(size_t i=0;i<size;i++){ |
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| 112 | if(mask[i]){ |
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| 113 | mean += double(first[i]-second[i]); |
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| 114 | ct++; |
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| 115 | } |
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| 116 | } |
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| 117 | if(ct>0) mean /= double(ct); |
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| 118 | return float(mean); |
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| 119 | } |
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| 120 | template float findMeanDiff<int>(int *first, int *second, bool *mask, size_t size); |
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| 121 | template float findMeanDiff<long>(long *first, long *second, bool *mask, size_t size); |
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| 122 | template float findMeanDiff<float>(float *first, float *second, bool *mask, size_t size); |
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| 123 | template float findMeanDiff<double>(double *first, double *second, bool *mask, size_t size); |
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| 124 | //-------------------------------------------------------------------- |
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| 125 | |
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[848] | 126 | template <class T> float findStddev(T *array, size_t size) |
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[53] | 127 | { |
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[848] | 128 | /// @details Find the rms or standard deviation of an array of |
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| 129 | /// numbers. Type independent. Calculated by iterating only once, |
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| 130 | /// using \sum x and \sum x^2 (no call to findMean) |
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[528] | 131 | /// \param array The array of numbers. |
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| 132 | /// \param size The length of the array. |
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[848] | 133 | /// \return The rms value of the array, returned as a float |
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[646] | 134 | |
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[848] | 135 | // double mean = double(findMean(array,size)); |
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| 136 | // double stddev = (double(array[0])-mean) * (double(array[0])-mean); |
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| 137 | // for(size_t i=1;i<size;i++) stddev += (double(array[i])-mean)*(double(array[i])-mean); |
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| 138 | // double stddev = stddev/double(size-1)); |
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[190] | 139 | |
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[891] | 140 | // T sumx=0,sumxx=0; |
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| 141 | double sumx=0.,sumxx=0.; |
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| 142 | double stddev=0.; |
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| 143 | double dsize=double(size); |
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[848] | 144 | for(size_t i=0;i<size;i++){ |
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| 145 | sumx += array[i]; |
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| 146 | sumxx += (array[i]*array[i]); |
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[756] | 147 | } |
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[891] | 148 | // std::cerr << sumx << " " << sumxx << " " << size << " " << size*size <<"\n"; |
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| 149 | // std::cerr << double(sumx) << " " << double(sumxx) << " " << double(size) << " " << double(size*size)<< "\n"; |
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| 150 | // double mean=double(sumx)/double(size); |
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| 151 | double mean=sumx/dsize; |
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[848] | 152 | if(size>0) |
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[866] | 153 | // stddev = sqrt(double(sumxx)/double(size) - double(sumx*sumx)/double(size*size)); |
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[891] | 154 | // stddev = sqrt(double(sumxx)/double(size) - mean*mean); |
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| 155 | stddev = sqrt(sumxx/dsize - mean*mean); |
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| 156 | // std::cerr << stddev << " " << float(stddev) << "\n"; |
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[848] | 157 | return float(stddev); |
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[756] | 158 | } |
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[848] | 159 | template float findStddev<int>(int *array, size_t size); |
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| 160 | template float findStddev<long>(long *array, size_t size); |
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| 161 | template float findStddev<float>(float *array, size_t size); |
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| 162 | template float findStddev<double>(double *array, size_t size); |
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[756] | 163 | //-------------------------------------------------------------------- |
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| 164 | |
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[849] | 165 | template <class T> float findStddevDiff(T *first, T *second, size_t size) |
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| 166 | { |
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| 167 | /// @details Find the rms or standard deviation of an array of |
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| 168 | /// numbers. Type independent. Calculated by iterating only once, |
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| 169 | /// using \sum x and \sum x^2 (no call to findMean) |
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| 170 | /// \param array The array of numbers. |
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| 171 | /// \param size The length of the array. |
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| 172 | /// \return The rms value of the array, returned as a float |
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| 173 | |
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[891] | 174 | // T sumx=0,sumxx=0; |
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| 175 | double sumx=0.,sumxx=0.; |
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| 176 | double stddev=0.; |
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| 177 | double dsize=double(size); |
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[849] | 178 | for(size_t i=0;i<size;i++){ |
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| 179 | sumx += (first[i]-second[i]); |
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| 180 | sumxx += ((first[i]-second[i])*(first[i]-second[i])); |
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| 181 | } |
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[891] | 182 | double mean=sumx/dsize; |
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[849] | 183 | if(size>0) |
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[891] | 184 | stddev = sqrt(sumxx/dsize - mean*mean); |
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| 185 | // stddev = sqrt(double(sumxx)/double(size) - double(sumx*sumx)/double(size*size)); |
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[849] | 186 | return float(stddev); |
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| 187 | } |
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| 188 | template float findStddevDiff<int>(int *first, int *second, size_t size); |
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| 189 | template float findStddevDiff<long>(long *first, long *second, size_t size); |
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| 190 | template float findStddevDiff<float>(float *first, float *second, size_t size); |
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| 191 | template float findStddevDiff<double>(double *first, double *second, size_t size); |
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| 192 | //-------------------------------------------------------------------- |
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| 193 | |
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[848] | 194 | template <class T> float findStddev(T *array, bool *mask, size_t size) |
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[3] | 195 | { |
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[848] | 196 | /// @details Find the rms or standard deviation of an array of |
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| 197 | /// numbers. Type independent. Calculated by iterating only once, |
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| 198 | /// using \sum x and \sum x^2 (no call to findMean) |
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[528] | 199 | /// \param array The array of numbers. |
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| 200 | /// \param mask An array of the same length that says whether to |
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| 201 | /// include each member of the array in the calculations. Only use |
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| 202 | /// values where mask=true. |
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[848] | 203 | /// \param size The length of the array. |
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| 204 | /// \return The rms value of the array, returned as a float |
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[528] | 205 | |
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[891] | 206 | // T sumx=0,sumxx=0; |
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| 207 | double sumx=0.,sumxx=0.; |
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| 208 | double stddev=0.; |
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[848] | 209 | int ct=0; |
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| 210 | for(size_t i=0;i<size;i++){ |
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| 211 | if(mask[i]){ |
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| 212 | sumx += array[i]; |
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| 213 | sumxx += (array[i]*array[i]); |
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| 214 | ct++; |
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| 215 | } |
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[190] | 216 | } |
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[891] | 217 | double dct=double(ct); |
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| 218 | double mean=sumx/dct; |
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[848] | 219 | if(ct>0) |
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[891] | 220 | stddev = sqrt(sumxx/dct - mean*mean); |
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| 221 | // stddev = sqrt(double(sumxx)/double(ct) - double(sumx*sumx)/double(ct*ct)); |
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[848] | 222 | return float(stddev); |
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[3] | 223 | } |
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[848] | 224 | template float findStddev<int>(int *array, bool *mask, size_t size); |
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| 225 | template float findStddev<long>(long *array, bool *mask, size_t size); |
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| 226 | template float findStddev<float>(float *array, bool *mask, size_t size); |
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| 227 | template float findStddev<double>(double *array, bool *mask, size_t size); |
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[190] | 228 | //-------------------------------------------------------------------- |
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[3] | 229 | |
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[849] | 230 | template <class T> float findStddevDiff(T *first, T *second, bool *mask, size_t size) |
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| 231 | { |
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| 232 | /// @details Find the rms or standard deviation of an array of |
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| 233 | /// numbers. Type independent. Calculated by iterating only once, |
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| 234 | /// using \sum x and \sum x^2 (no call to findMean) |
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| 235 | /// \param array The array of numbers. |
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| 236 | /// \param mask An array of the same length that says whether to |
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| 237 | /// include each member of the array in the calculations. Only use |
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| 238 | /// values where mask=true. |
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| 239 | /// \param size The length of the array. |
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| 240 | /// \return The rms value of the array, returned as a float |
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| 241 | |
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[891] | 242 | // T sumx=0,sumxx=0; |
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| 243 | double sumx=0,sumxx=0; |
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[849] | 244 | double stddev=0; |
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| 245 | int ct=0; |
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| 246 | for(size_t i=0;i<size;i++){ |
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| 247 | if(mask[i]){ |
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| 248 | sumx += (first[i]-second[i]); |
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| 249 | sumxx += ((first[i]-second[i])*(first[i]-second[i])); |
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| 250 | ct++; |
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| 251 | } |
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| 252 | } |
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[891] | 253 | double dct=double(ct); |
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| 254 | double mean=sumx/dct; |
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[849] | 255 | if(ct>0) |
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[891] | 256 | stddev = sqrt(sumxx/dct - mean*mean); |
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| 257 | // stddev = sqrt(double(sumxx)/double(ct) - double(sumx*sumx)/double(ct*ct)); |
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[849] | 258 | return float(stddev); |
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| 259 | } |
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| 260 | template float findStddevDiff<int>(int *first, int *second, bool *mask, size_t size); |
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| 261 | template float findStddevDiff<long>(long *first, long *second, bool *mask, size_t size); |
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| 262 | template float findStddevDiff<float>(float *first, float *second, bool *mask, size_t size); |
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| 263 | template float findStddevDiff<double>(double *first, double *second, bool *mask, size_t size); |
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| 264 | //-------------------------------------------------------------------- |
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| 265 | |
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[848] | 266 | template <class T> void findNormalStats(T *array, size_t size, |
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[190] | 267 | float &mean, float &stddev) |
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[3] | 268 | { |
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[528] | 269 | /// @details |
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| 270 | /// Find the mean and rms or standard deviation of an array of |
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| 271 | /// numbers. Type independent. |
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| 272 | /// |
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| 273 | /// \param array The array of numbers. |
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| 274 | /// \param size The length of the array. |
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| 275 | /// \param mean The mean value of the array, returned as a float. |
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| 276 | /// \param stddev The rms or standard deviation of the array, |
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| 277 | /// returned as a float. |
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| 278 | |
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[190] | 279 | if(size==0){ |
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| 280 | std::cerr << "Error in findNormalStats: zero sized array!\n"; |
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| 281 | return; |
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| 282 | } |
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[3] | 283 | mean = array[0]; |
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[848] | 284 | for(size_t i=1;i<size;i++){ |
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[3] | 285 | mean += array[i]; |
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| 286 | } |
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| 287 | mean /= float(size); |
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| 288 | |
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[79] | 289 | stddev = (array[0]-mean) * (array[0]-mean); |
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[848] | 290 | for(size_t i=1;i<size;i++) stddev += (array[i]-mean)*(array[i]-mean); |
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[79] | 291 | stddev = sqrt(stddev/float(size-1)); |
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[3] | 292 | |
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| 293 | } |
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[848] | 294 | template void findNormalStats<int>(int *array, size_t size, |
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[222] | 295 | float &mean, float &stddev); |
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[848] | 296 | template void findNormalStats<long>(long *array, size_t size, |
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[222] | 297 | float &mean, float &stddev); |
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[848] | 298 | template void findNormalStats<float>(float *array, size_t size, |
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[222] | 299 | float &mean, float &stddev); |
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[848] | 300 | template void findNormalStats<double>(double *array, size_t size, |
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[222] | 301 | float &mean, float &stddev); |
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[190] | 302 | //-------------------------------------------------------------------- |
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[3] | 303 | |
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[848] | 304 | template <class T> void findNormalStats(T *array, size_t size, bool *mask, |
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[190] | 305 | float &mean, float &stddev) |
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[70] | 306 | { |
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[528] | 307 | /// @details |
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| 308 | /// Find the mean and rms or standard deviation of a subset of an |
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| 309 | /// array of numbers. The subset is defined by an array of bool |
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| 310 | /// variables. Type independent. |
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| 311 | /// |
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| 312 | /// \param array The array of numbers. |
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| 313 | /// \param size The length of the array. |
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| 314 | /// \param mask An array of the same length that says whether to |
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| 315 | /// include each member of the array in the calculations. Only look |
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| 316 | /// at values where mask=true. |
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| 317 | /// \param mean The mean value of the array, returned as a float. |
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| 318 | /// \param stddev The rms or standard deviation of the array, |
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| 319 | /// returned as a float. |
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| 320 | |
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[190] | 321 | int goodSize=0; |
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[848] | 322 | for(size_t i=0;i<size;i++) if(mask[i]) goodSize++; |
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[190] | 323 | if(goodSize==0){ |
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| 324 | std::cerr << "Error in findNormalStats: no good values!\n"; |
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| 325 | return; |
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| 326 | } |
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| 327 | int start=0; |
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[275] | 328 | while(!mask[start]){start++;} |
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[190] | 329 | mean = array[start]; |
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[848] | 330 | for(size_t i=start+1;i<size;i++){ |
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[275] | 331 | if(mask[i]) mean += array[i]; |
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[190] | 332 | } |
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| 333 | mean /= float(goodSize); |
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[70] | 334 | |
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[190] | 335 | stddev = (array[start]-mean) * (array[start]-mean); |
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[848] | 336 | for(size_t i=1;i<size;i++){ |
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[275] | 337 | if(mask[i]) stddev += (array[i]-mean)*(array[i]-mean); |
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[190] | 338 | } |
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| 339 | stddev = sqrt(stddev/float(goodSize-1)); |
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| 340 | |
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| 341 | } |
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[848] | 342 | template void findNormalStats<int>(int *array, size_t size, bool *mask, |
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[222] | 343 | float &mean, float &stddev); |
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[848] | 344 | template void findNormalStats<long>(long *array, size_t size, bool *mask, |
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[222] | 345 | float &mean, float &stddev); |
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[848] | 346 | template void findNormalStats<float>(float *array, size_t size, bool *mask, |
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[222] | 347 | float &mean, float &stddev); |
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[848] | 348 | template void findNormalStats<double>(double *array, size_t size, bool *mask, |
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[222] | 349 | float &mean, float &stddev); |
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[848] | 350 | //-------------------------------------------------------------------- |
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[275] | 351 | |
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[848] | 352 | template <class T> void findNormalStatsDiff(T *first, T *second, size_t size, |
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| 353 | float &mean, float &stddev) |
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[275] | 354 | { |
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[528] | 355 | /// @details |
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[848] | 356 | /// Find the mean and rms or standard deviation of the difference between two arrays of |
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| 357 | /// numbers. The difference is defined as first - second. Type independent. |
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[528] | 358 | /// |
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[848] | 359 | /// \param first The first array |
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| 360 | /// \param second The second array |
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[528] | 361 | /// \param size The length of the array. |
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| 362 | /// \param mean The mean value of the array, returned as a float. |
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| 363 | /// \param stddev The rms or standard deviation of the array, |
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| 364 | /// returned as a float. |
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| 365 | |
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[275] | 366 | if(size==0){ |
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[848] | 367 | std::cerr << "Error in findNormalStats: zero sized array!\n"; |
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[275] | 368 | return; |
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| 369 | } |
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[848] | 370 | mean = first[0]-second[0]; |
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| 371 | for(size_t i=1;i<size;i++){ |
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| 372 | mean += (first[i]-second[i]); |
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| 373 | } |
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| 374 | mean /= float(size); |
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[275] | 375 | |
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[848] | 376 | stddev = (first[0]-second[0]-mean) * (first[0]-second[0]-mean); |
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| 377 | for(size_t i=1;i<size;i++) stddev += (first[i]-second[i]-mean)*(first[i]-second[i]-mean); |
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| 378 | stddev = sqrt(stddev/float(size-1)); |
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[275] | 379 | |
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| 380 | } |
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[848] | 381 | template void findNormalStatsDiff<int>(int *first, int *second, size_t size, |
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| 382 | float &mean, float &stddev); |
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| 383 | template void findNormalStatsDiff<long>(long *first, long *second, size_t size, |
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| 384 | float &mean, float &stddev); |
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| 385 | template void findNormalStatsDiff<float>(float *first, float *second, size_t size, |
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| 386 | float &mean, float &stddev); |
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| 387 | template void findNormalStatsDiff<double>(double *first, double *second, size_t size, |
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| 388 | float &mean, float &stddev); |
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[275] | 389 | //-------------------------------------------------------------------- |
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| 390 | |
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[848] | 391 | template <class T> void findNormalStatsDiff(T *first, T *second, size_t size, bool *mask, |
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| 392 | float &mean, float &stddev) |
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[275] | 393 | { |
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[848] | 394 | /// @details Find the mean and rms or standard deviation of the |
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| 395 | /// difference between two arrays of numbers, where some elements |
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| 396 | /// are masked out. The mask is defined by an array of bool |
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| 397 | /// variables, and the difference is defined as first - second. Type |
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| 398 | /// independent. |
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[528] | 399 | /// |
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[848] | 400 | /// \param first The first array |
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| 401 | /// \param second The second array |
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[528] | 402 | /// \param size The length of the array. |
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| 403 | /// \param mask An array of the same length that says whether to |
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| 404 | /// include each member of the array in the calculations. Only look |
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| 405 | /// at values where mask=true. |
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| 406 | /// \param mean The mean value of the array, returned as a float. |
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| 407 | /// \param stddev The rms or standard deviation of the array, |
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| 408 | /// returned as a float. |
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| 409 | |
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[275] | 410 | int goodSize=0; |
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[848] | 411 | for(size_t i=0;i<size;i++) if(mask[i]) goodSize++; |
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[275] | 412 | if(goodSize==0){ |
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[848] | 413 | std::cerr << "Error in findNormalStats: no good values!\n"; |
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[275] | 414 | return; |
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| 415 | } |
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[848] | 416 | int start=0; |
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| 417 | while(!mask[start]){start++;} |
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| 418 | mean = first[start]-second[start]; |
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| 419 | for(size_t i=start+1;i<size;i++){ |
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| 420 | if(mask[i]) mean += (first[i]-second[i]); |
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| 421 | } |
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| 422 | mean /= float(goodSize); |
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[275] | 423 | |
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[848] | 424 | stddev = (first[start]-second[start]-mean) * (first[start]-second[start]-mean); |
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| 425 | for(size_t i=1;i<size;i++){ |
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| 426 | if(mask[i]) stddev += (first[i]-second[i]-mean)*(first[i]-second[i]-mean); |
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| 427 | } |
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| 428 | stddev = sqrt(stddev/float(goodSize-1)); |
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[275] | 429 | |
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| 430 | } |
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[848] | 431 | template void findNormalStatsDiff<int>(int *first, int *second, size_t size, bool *mask, |
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| 432 | float &mean, float &stddev); |
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| 433 | template void findNormalStatsDiff<long>(long *first, long *second, size_t size, bool *mask, |
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| 434 | float &mean, float &stddev); |
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| 435 | template void findNormalStatsDiff<float>(float *first, float *second, size_t size, bool *mask, |
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| 436 | float &mean, float &stddev); |
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| 437 | template void findNormalStatsDiff<double>(double *first, double *second, size_t size, bool *mask, |
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| 438 | float &mean, float &stddev); |
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[275] | 439 | //-------------------------------------------------------------------- |
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