1 | // $Id: utility.cc 1304 2008-05-14 20:11:57Z peter $ |
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2 | |
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3 | /* |
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4 | Copyright (C) 2005, 2006 Jari Häkkinen, Markus Ringnér |
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5 | Copyright (C) 2007 Jari Häkkinen, Peter Johansson |
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6 | |
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7 | This file is part of the yat library, http://trac.thep.lu.se/yat |
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8 | |
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9 | The yat library is free software; you can redistribute it and/or |
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10 | modify it under the terms of the GNU General Public License as |
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11 | published by the Free Software Foundation; either version 2 of the |
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12 | License, or (at your option) any later version. |
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13 | |
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14 | The yat library is distributed in the hope that it will be useful, |
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15 | but WITHOUT ANY WARRANTY; without even the implied warranty of |
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16 | MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU |
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17 | General Public License for more details. |
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18 | |
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19 | You should have received a copy of the GNU General Public License |
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20 | along with this program; if not, write to the Free Software |
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21 | Foundation, Inc., 59 Temple Place - Suite 330, Boston, MA |
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22 | 02111-1307, USA. |
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23 | */ |
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24 | |
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25 | #include "utility.h" |
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26 | |
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27 | #include "Matrix.h" |
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28 | #include "stl_utility.h" |
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29 | #include "VectorConstView.h" |
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30 | #include "yat/statistics/Averager.h" |
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31 | |
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32 | #include <sstream> |
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33 | #include <string> |
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34 | |
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35 | namespace theplu { |
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36 | namespace yat { |
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37 | namespace utility { |
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38 | |
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39 | bool is_double(const std::string& s) |
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40 | { |
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41 | if (is_nan(s) || is_equal(s, "inf") || is_equal(s, "-inf")) |
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42 | return true; |
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43 | std::stringstream ss(s); |
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44 | double a; |
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45 | ss>>a; |
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46 | if(ss.fail()) |
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47 | return false; |
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48 | // Check that nothing is left on stream |
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49 | std::string b; |
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50 | ss >> b; |
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51 | return (b.size() ? false : true); |
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52 | } |
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53 | |
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54 | |
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55 | bool is_equal(std::string s, std::string other) |
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56 | { |
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57 | std::stringstream ss(s); |
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58 | std::string s2; |
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59 | ss >> s2; // to trim surrounding whitespaces |
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60 | to_lower(s2); |
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61 | // Check that nothing is left on stream |
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62 | std::string s3; |
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63 | ss >> s3; |
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64 | if(s3.size()) |
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65 | return false; |
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66 | return (other==s2); |
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67 | } |
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68 | |
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69 | |
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70 | bool is_float(const std::string& s) |
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71 | { |
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72 | if (is_nan(s) || is_equal(s, "inf") || is_equal(s, "-inf")) |
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73 | return true; |
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74 | std::stringstream ss(s); |
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75 | float a; |
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76 | ss>>a; |
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77 | if(ss.fail()) |
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78 | return false; |
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79 | // Check that nothing is left on stream |
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80 | std::string b; |
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81 | ss >> b; |
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82 | return (b.size() ? false : true); |
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83 | } |
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84 | |
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85 | |
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86 | bool is_int(const std::string& s) |
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87 | { |
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88 | if (is_nan(s) || is_equal(s, "inf") || is_equal(s, "-inf")) |
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89 | return true; |
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90 | std::stringstream ss(s); |
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91 | int a; |
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92 | ss >> a; |
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93 | if(ss.fail()) |
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94 | return false; |
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95 | // Check that nothing is left on stream |
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96 | std::string b; |
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97 | ss >> b; |
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98 | return (b.size() ? false : true); |
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99 | } |
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100 | |
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101 | bool is_nan(const std::string& s) |
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102 | { |
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103 | return is_equal(s, "nan"); |
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104 | } |
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105 | |
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106 | |
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107 | void quantile_normalize(Matrix& data) |
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108 | { |
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109 | Matrix data_copy(data); |
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110 | |
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111 | // sort columns in copy |
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112 | for (size_t column=0; column<data_copy.columns(); ++column){ |
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113 | std::sort(data_copy.begin_column(column), data_copy.end_column(column)); |
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114 | } |
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115 | |
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116 | // calculate average of each row |
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117 | std::vector<yat::statistics::Averager> averager(data_copy.rows()); |
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118 | for (size_t row=0; row<data_copy.rows(); ++row){ |
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119 | add(averager[row], data_copy.begin_row(row), data_copy.end_row(row)); |
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120 | } |
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121 | |
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122 | for (size_t column=0; column<data.columns(); ++column){ |
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123 | std::vector<size_t> index; |
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124 | const VectorConstView col_vec(data,column,false); |
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125 | yat::utility::sort_index(index, data.column_const_view(column)); |
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126 | |
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127 | for (size_t row=0; row<data.rows(); ++row) |
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128 | data(index[row], column) = averager[row].mean(); |
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129 | } |
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130 | } |
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131 | |
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132 | |
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133 | |
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134 | }}} // end of namespace utility, yat and thep |
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