HuasoFoundries /
math_histogram
| Total Complexity | 88 |
| Total Lines | 383 |
| Duplicated Lines | 11.23 % |
| Changes | 0 | ||
Duplicate code is one of the most pungent code smells. A rule that is often used is to re-structure code once it is duplicated in three or more places.
Common duplication problems, and corresponding solutions are:
Complex classes like Histogram4D often do a lot of different things. To break such a class down, we need to identify a cohesive component within that class. A common approach to find such a component is to look for fields/methods that share the same prefixes, or suffixes.
Once you have determined the fields that belong together, you can apply the Extract Class refactoring. If the component makes sense as a sub-class, Extract Subclass is also a candidate, and is often faster.
While breaking up the class, it is a good idea to analyze how other classes use Histogram4D, and based on these observations, apply Extract Interface, too.
| 1 | <?php |
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| 15 | class Histogram4D extends AbstractHistogram |
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| 16 | { |
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| 17 | |||
| 18 | /** |
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| 19 | * Constructor for Math_Histogram4D |
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| 20 | * |
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| 21 | * @access public |
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| 22 | * @param optional int $type one of HISTOGRAM_SIMPLE or HISTOGRAM_CUMMULATIVE |
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| 23 | * @param optional array $binOptions an array of options for binning the data |
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| 24 | * @return object Math_Histogram3D |
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| 25 | * |
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| 26 | * @see setBinOptions() |
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| 27 | * @see Math_AbstractHistogram::setType() |
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| 28 | * @see Math_AbstractHistogram |
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| 29 | */ |
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| 30 | public function __construct($type = self::HISTOGRAM_SIMPLE, $binOptions = "") |
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| 36 | // Falling back to default options |
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| 37 | } |
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| 38 | } |
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| 39 | |||
| 40 | /** |
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| 41 | * Sets the binning options. Overrides parent's method. |
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| 42 | * |
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| 43 | * @access public |
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| 44 | * @param array $binOptions an array of options for binning the data |
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| 45 | * @return void |
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| 46 | */ |
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| 47 | public function setBinOptions($binOptions) |
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| 48 | { |
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| 49 | if ($this->_validBinOptions($binOptions)) { |
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| 50 | return parent::setBinOptions($binOptions); |
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| 51 | } else { |
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| 52 | throw new \PEAR_Exception("incorrect options array"); |
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| 53 | } |
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| 54 | } |
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| 55 | |||
| 56 | /** |
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| 57 | * Sets the data to be processed. The data will be validated to |
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| 58 | * be a simple tri-dimensional numerical array |
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| 59 | * |
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| 60 | * @access public |
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| 61 | * @param array $data the numeric array |
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| 62 | * @return mixed boolean true on success, a \PEAR_Error object otherwise |
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| 63 | * |
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| 64 | * @see _clear() |
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| 65 | * @see Math_AbstractHistogram::getData() |
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| 66 | * @see Math_AbstractHistogram |
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| 67 | * @see getHistogramData() |
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| 68 | */ |
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| 69 | public function setData($data) |
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| 70 | { |
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| 71 | $this->_clear(); |
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| 72 | if (!$this->_validData($data)) { |
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| 73 | throw new \PEAR_Exception("array of numeric coordinates expected"); |
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| 74 | } |
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| 75 | |||
| 76 | $this->_data = $data; |
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| 77 | list($xMin, $xMax) = $this->_getMinMax('x'); |
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| 78 | list($yMin, $yMax) = $this->_getMinMax('y'); |
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| 79 | list($zMin, $zMax) = $this->_getMinMax('z'); |
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| 80 | View Code Duplication | if (is_null($this->_rangeLow)) { |
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| 81 | $this->_rangeLow = array('x' => $xMin, 'y' => $yMin, 'z' => $zMin); |
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| 82 | } |
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| 83 | |||
| 84 | View Code Duplication | if (is_null($this->_rangeHigh)) { |
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| 85 | $this->_rangeHigh = array('x' => $xMax, 'y' => $yMax, 'z' => $zMax); |
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| 86 | } |
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| 87 | |||
| 88 | if (is_null($this->_nbins)) { |
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| 89 | $this->_nbins = array('x' => 10, 'y' => 10, 'z' => 10); |
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| 90 | } |
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| 91 | |||
| 92 | return true; |
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| 93 | } |
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| 94 | |||
| 95 | /** |
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| 96 | * Calculates the histogram bins and frequencies |
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| 97 | * |
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| 98 | * @access public |
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| 99 | * @param optional $statsMode calculate basic statistics (STATS_BASIC) or full (STATS_FULL) |
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| 100 | * @return mixed boolean true on success, a \PEAR_Error object otherwise |
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| 101 | * |
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| 102 | * @see Math_Stats |
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| 103 | */ |
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| 104 | public function calculate($statsMode = \HuasoFoundries\Math\Stats::STATS_BASIC) |
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| 105 | { |
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| 106 | $this->_bins = array(); |
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| 107 | $this->_stats = array('x' => new \HuasoFoundries\Math\Stats(), 'y' => new \HuasoFoundries\Math\Stats(), 'z' => new \HuasoFoundries\Math\Stats()); |
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| 108 | $this->_statsMode = $statsMode; |
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| 109 | $deltaX = ($this->_rangeHigh['x'] - $this->_rangeLow['x']) / $this->_nbins['x']; |
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| 110 | $deltaY = ($this->_rangeHigh['y'] - $this->_rangeLow['y']) / $this->_nbins['y']; |
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| 111 | $deltaZ = ($this->_rangeHigh['z'] - $this->_rangeLow['z']) / $this->_nbins['z']; |
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| 112 | $data = $this->_histogramData(); |
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| 113 | $dataX = $data['x']; |
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| 114 | $dataY = $data['y']; |
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| 115 | $dataZ = $data['z']; |
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| 116 | $ignoreList = array(); |
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| 117 | $cumm = 0; |
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| 118 | $nData = count($dataX); |
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| 119 | for ($i = 0; $i < $this->_nbins['x']; $i++) { |
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| 120 | $loXBin = $this->_rangeLow['x'] + $i * $deltaX; |
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| 121 | $hiXBin = $loXBin + $deltaX; |
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| 122 | $xBin = array('low' => $loXBin, 'high' => $hiXBin, |
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| 123 | 'mid' => ($hiXBin + $loXBin) / 2); |
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| 124 | for ($j = 0; $j < $this->_nbins['y']; $j++) { |
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| 125 | $loYBin = $this->_rangeLow['y'] + $j * $deltaY; |
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| 126 | $hiYBin = $loYBin + $deltaY; |
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| 127 | $yBin = array('low' => $loYBin, 'high' => $hiYBin, |
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| 128 | 'mid' => ($hiYBin + $loYBin) / 2); |
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| 129 | for ($m = 0; $m < $this->_nbins['z']; $m++) { |
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| 130 | $loZBin = $this->_rangeLow['z'] + $m * $deltaZ; |
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| 131 | $hiZBin = $loZBin + $deltaZ; |
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| 132 | $zBin = array('low' => $loZBin, 'high' => $hiZBin, |
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| 133 | 'mid' => ($hiZBin + $loZBin) / 2); |
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| 134 | $bin = array('x' => $xBin, 'y' => $yBin, 'z' => $zBin); |
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| 135 | $freq = 0; |
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| 136 | for ($k = 0; $k < $nData; $k++) { |
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| 137 | if (!empty($ignoreList) && in_array($k, $ignoreList)) { |
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| 138 | continue; |
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| 139 | } |
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| 140 | |||
| 141 | $valueX = $dataX[$k]; |
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| 142 | $valueY = $dataY[$k]; |
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| 143 | $valueZ = $dataZ[$k]; |
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| 144 | $inRangeX = $inRangeY = $inRangeZ = false; |
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| 145 | View Code Duplication | if ($i == 0) { |
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| 146 | $inRangeX = ($loXBin <= $valueX && $hiXBin >= $valueX); |
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| 147 | } else { |
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| 148 | $inRangeX = ($loXBin < $valueX && $hiXBin >= $valueX); |
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| 149 | } |
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| 150 | |||
| 151 | View Code Duplication | if ($j == 0) { |
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| 152 | $inRangeY = ($loYBin <= $valueY && $hiYBin >= $valueY); |
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| 153 | } else { |
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| 154 | $inRangeY = ($loYBin < $valueY && $hiYBin >= $valueY); |
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| 155 | } |
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| 156 | |||
| 157 | if ($m == 0) { |
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| 158 | $inRangeZ = ($loZBin <= $valueZ && $hiZBin >= $valueZ); |
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| 159 | } else { |
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| 160 | $inRangeZ = ($loZBin < $valueZ && $hiZBin >= $valueZ); |
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| 161 | } |
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| 162 | |||
| 163 | if ($inRangeX && $inRangeY && $inRangeZ) { |
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| 164 | $freq++; |
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| 165 | $cumm++; |
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| 166 | $ignoreList[] = $k; |
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| 167 | } |
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| 168 | } |
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| 169 | View Code Duplication | if ($this->_type == self::HISTOGRAM_CUMMULATIVE) { |
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| 170 | if ($freq > 0) { |
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| 171 | $bin['count'] = $freq + $cumm - 1; |
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| 172 | } else { |
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| 173 | $bin['count'] = 0; |
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| 174 | } |
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| 175 | } else { |
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| 176 | $bin['count'] = $freq; |
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| 177 | } |
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| 178 | $bin['xbin'] = $i; |
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| 179 | $bin['ybin'] = $j; |
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| 180 | $bin['zbin'] = $m; |
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| 181 | $this->_bins[] = $bin; |
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| 182 | } |
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| 183 | } |
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| 184 | } |
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| 185 | } |
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| 186 | |||
| 187 | /** |
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| 188 | * Returns the statistics for the data set |
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| 189 | * |
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| 190 | * @access public |
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| 191 | * @return mixed an associative array on success, a \PEAR_Error object otherwise |
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| 192 | */ |
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| 193 | public function getDataStats() |
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| 194 | { |
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| 195 | if (empty($this->_bins)) { |
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| 196 | throw new \PEAR_Exception("histogram has not been calculated"); |
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| 197 | } |
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| 198 | |||
| 199 | $this->_stats['x']->setData($this->_data['x']); |
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| 200 | $this->_stats['y']->setData($this->_data['y']); |
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| 201 | $this->_stats['z']->setData($this->_data['z']); |
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| 202 | return array('x' => $this->_stats['x']->calc($this->_statsMode), |
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| 203 | 'y' => $this->_stats['y']->calc($this->_statsMode), |
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| 204 | 'z' => $this->_stats['z']->calc($this->_statsMode)); |
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| 205 | } |
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| 206 | |||
| 207 | /** |
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| 208 | * Returns the statistics for the data set, filtered using the bin ranges |
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| 209 | * |
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| 210 | * @access public |
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| 211 | * @return mixed an associative array on success, a \PEAR_Error object otherwise |
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| 212 | */ |
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| 213 | public function getHistogramDataStats() |
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| 214 | { |
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| 215 | if (empty($this->_bins)) { |
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| 216 | throw new \PEAR_Exception("histogram has not been calculated"); |
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| 217 | } |
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| 218 | |||
| 219 | $data = $this->_histogramData(); |
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| 220 | $this->_stats['x']->setData($data['x']); |
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| 221 | $this->_stats['y']->setData($data['y']); |
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| 222 | $this->_stats['z']->setData($data['z']); |
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| 223 | return array('x' => $this->_stats['x']->calc($this->_statsMode), |
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| 224 | 'y' => $this->_stats['y']->calc($this->_statsMode), |
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| 225 | 'z' => $this->_stats['z']->calc($this->_statsMode)); |
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| 226 | } |
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| 227 | |||
| 228 | /** |
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| 229 | * Returns the bins and frequencies calculated using the given |
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| 230 | * bin mode and separator |
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| 231 | * |
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| 232 | * @access public |
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| 233 | * @param int $mode one of HISTOGRAM_LO_BINS, HISTOGRAM_MID_BINS (default), or HISTOGRAM_HI_BINS |
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| 234 | * @param string $separator the separator, default ", " |
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| 235 | * @return mixed a string on success, a \PEAR_Error object otherwise |
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| 236 | */ |
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| 237 | View Code Duplication | public function toSeparated($mode = self::HISTOGRAM_MID_BINS, $separator = ", ") |
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| 238 | { |
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| 239 | try { |
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| 240 | $bins = $this->getBins($mode); |
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| 241 | } catch (\PEAR_Exception $e) { |
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| 242 | return $bins; |
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| 243 | } |
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| 244 | |||
| 245 | |||
| 246 | $nbins = count($bins); |
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| 247 | $out = array("# x_bin{$separator}y_bin{$separator}z_bin{$separator}frequency"); |
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| 248 | for ($i = 0; $i < $nbins; $i++) { |
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| 249 | $out[] = implode($separator, $bins[$i]); |
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| 250 | } |
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| 251 | |||
| 252 | return implode("\n", $out) . "\n"; |
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| 253 | } |
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| 254 | |||
| 255 | /** |
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| 256 | * Returns the minimum and maximum of the given unidimensional numeric |
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| 257 | * array |
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| 258 | * |
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| 259 | * @access private |
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| 260 | * @param array $elem |
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| 261 | * @return array of values: array(min, max) |
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| 262 | */ |
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| 263 | public function _getMinMax($elem) |
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| 264 | { |
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| 265 | return array(min($this->_data[$elem]), max($this->_data[$elem])); |
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| 266 | } |
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| 267 | |||
| 268 | /** |
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| 269 | * Returns a subset of the bins array by bin value type |
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| 270 | * |
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| 271 | * @access private |
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| 272 | * @param int $mode one of HISTOGRAM_MID_BINS, HISTOGRAM_LO_BINS or HISTOGRAM_HI_BINS |
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| 273 | * @return array |
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| 274 | */ |
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| 275 | public function _filterBins($mode) |
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| 291 | } |
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| 292 | |||
| 293 | /** |
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| 294 | * Checks that the array of options passed is valid |
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| 295 | * Options array should have the form: |
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| 296 | * |
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| 297 | * $opt = array ('low'=>array('x'=>10, 'y'=>10, 'z'=>10), |
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| 298 | * 'high'=>array(...), |
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| 299 | * 'nbins'=>array(...)); |
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| 300 | * |
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| 301 | * @access private |
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| 302 | * @return boolean |
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| 303 | */ |
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| 304 | public function _validBinOptions($binOptions) |
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| 324 | } |
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| 325 | |||
| 326 | /** |
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| 327 | * Checks that the data passed is tri-dimensional numeric array |
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| 328 | * of the form: |
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| 329 | * |
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| 330 | * $data = array ('x'=>array(...), 'y'=>array(...), 'z'=>array(...)); |
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| 331 | * |
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| 332 | * It also checks that: count($data['x']) == count($data['y'] and |
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| 333 | * count($data['x']) == count($data['z'] |
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| 334 | * |
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| 335 | * @access private |
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| 336 | * @return boolean |
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| 337 | */ |
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| 338 | public function _validData($data) |
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| 358 | } |
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| 359 | } |
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| 360 | |||
| 361 | /** |
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| 362 | * Returns an array of data contained within the ranges for the |
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| 363 | * histogram calculation. Overrides the empty implementation in |
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| 364 | * Math_AbstractHistogram::_histogramData() |
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| 365 | * |
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| 366 | * @access private |
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| 367 | * @return array |
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| 368 | */ |
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| 369 | public function _histogramData() |
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| 403 |
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