[3870] | 1 | /* -*- mode: c++; c-basic-offset: 4; indent-tabs-mode: nil -*- */ |
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| 2 | /* |
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| 3 | * Copyright (C) 2004-2013 HUBzero Foundation, LLC |
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| 4 | * |
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| 5 | */ |
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| 6 | |
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| 7 | #include <iostream> |
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| 8 | #include <float.h> |
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| 9 | |
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| 10 | #include <vtkSmartPointer.h> |
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| 11 | #include <vtkDataSet.h> |
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| 12 | #include <vtkImageData.h> |
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[3935] | 13 | #include <vtkPointData.h> |
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[5672] | 14 | #include <vtkCellData.h> |
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[3935] | 15 | #include <vtkDataArray.h> |
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[3870] | 16 | #include <vtkDataSetReader.h> |
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| 17 | #include <vtkCharArray.h> |
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| 18 | |
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| 19 | #include <vrmath/Vector3f.h> |
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| 20 | |
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| 21 | #include "ReaderCommon.h" |
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| 22 | #include "DataSetResample.h" |
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| 23 | |
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| 24 | #include "config.h" |
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| 25 | #include "nanovis.h" |
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| 26 | #include "VtkDataSetReader.h" |
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| 27 | #include "Volume.h" |
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| 28 | #include "Trace.h" |
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| 29 | |
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| 30 | using namespace nv; |
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| 31 | |
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[5672] | 32 | static void print(vtkDataSet *ds) |
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| 33 | { |
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| 34 | if (ds == NULL) |
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| 35 | return; |
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| 36 | |
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| 37 | TRACE("DataSet class: %s", ds->GetClassName()); |
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| 38 | |
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| 39 | TRACE("DataSet memory: %g MiB", ds->GetActualMemorySize()/1024.); |
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| 40 | |
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| 41 | double bounds[6]; |
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| 42 | ds->GetBounds(bounds); |
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| 43 | |
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| 44 | // Topology |
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| 45 | TRACE("DataSet bounds: %g %g %g %g %g %g", |
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| 46 | bounds[0], bounds[1], |
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| 47 | bounds[2], bounds[3], |
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| 48 | bounds[4], bounds[5]); |
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| 49 | TRACE("Points: %d Cells: %d", ds->GetNumberOfPoints(), ds->GetNumberOfCells()); |
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| 50 | |
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| 51 | double dataRange[2]; |
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| 52 | if (ds->GetPointData() != NULL) { |
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| 53 | TRACE("PointData arrays: %d", ds->GetPointData()->GetNumberOfArrays()); |
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| 54 | for (int i = 0; i < ds->GetPointData()->GetNumberOfArrays(); i++) { |
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| 55 | if (ds->GetPointData()->GetArray(i) != NULL) { |
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| 56 | ds->GetPointData()->GetArray(i)->GetRange(dataRange, -1); |
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| 57 | TRACE("PointData[%d]: '%s' comp:%d, (%g,%g)", i, |
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| 58 | ds->GetPointData()->GetArrayName(i), |
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| 59 | ds->GetPointData()->GetAbstractArray(i)->GetNumberOfComponents(), |
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| 60 | dataRange[0], dataRange[1]); |
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| 61 | } else { |
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| 62 | TRACE("PointData[%d]: '%s' comp:%d", i, |
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| 63 | ds->GetPointData()->GetArrayName(i), |
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| 64 | ds->GetPointData()->GetAbstractArray(i)->GetNumberOfComponents()); |
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| 65 | } |
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| 66 | } |
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| 67 | if (ds->GetPointData()->GetScalars() != NULL) { |
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| 68 | TRACE("Active point scalars: %s", ds->GetPointData()->GetScalars()->GetName()); |
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| 69 | } |
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| 70 | if (ds->GetPointData()->GetVectors() != NULL) { |
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| 71 | TRACE("Active point vectors: %s", ds->GetPointData()->GetVectors()->GetName()); |
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| 72 | } |
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| 73 | } |
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| 74 | if (ds->GetCellData() != NULL) { |
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| 75 | TRACE("CellData arrays: %d", ds->GetCellData()->GetNumberOfArrays()); |
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| 76 | for (int i = 0; i < ds->GetCellData()->GetNumberOfArrays(); i++) { |
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| 77 | if (ds->GetCellData()->GetArray(i) != NULL) { |
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| 78 | ds->GetCellData()->GetArray(i)->GetRange(dataRange, -1); |
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| 79 | TRACE("CellData[%d]: '%s' comp:%d, (%g,%g)", i, |
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| 80 | ds->GetCellData()->GetArrayName(i), |
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| 81 | ds->GetCellData()->GetAbstractArray(i)->GetNumberOfComponents(), |
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| 82 | dataRange[0], dataRange[1]); |
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| 83 | } else { |
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| 84 | TRACE("CellData[%d]: '%s' comp:%d", i, |
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| 85 | ds->GetCellData()->GetArrayName(i), |
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| 86 | ds->GetCellData()->GetAbstractArray(i)->GetNumberOfComponents()); |
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| 87 | } |
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| 88 | } |
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| 89 | if (ds->GetCellData()->GetScalars() != NULL) { |
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| 90 | TRACE("Active cell scalars: %s", ds->GetCellData()->GetScalars()->GetName()); |
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| 91 | } |
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| 92 | if (ds->GetCellData()->GetVectors() != NULL) { |
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| 93 | TRACE("Active cell vectors: %s", ds->GetCellData()->GetVectors()->GetName()); |
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| 94 | } |
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| 95 | } |
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| 96 | if (ds->GetFieldData() != NULL) { |
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| 97 | TRACE("FieldData arrays: %d", ds->GetFieldData()->GetNumberOfArrays()); |
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| 98 | for (int i = 0; i < ds->GetFieldData()->GetNumberOfArrays(); i++) { |
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| 99 | if (ds->GetFieldData()->GetArray(i) != NULL) { |
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| 100 | ds->GetFieldData()->GetArray(i)->GetRange(dataRange, -1); |
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| 101 | TRACE("FieldData[%d]: '%s' comp:%d, tuples:%d (%g,%g)", i, |
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| 102 | ds->GetFieldData()->GetArrayName(i), |
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| 103 | ds->GetFieldData()->GetAbstractArray(i)->GetNumberOfComponents(), |
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| 104 | ds->GetFieldData()->GetAbstractArray(i)->GetNumberOfTuples(), |
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| 105 | dataRange[0], dataRange[1]); |
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| 106 | } else { |
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| 107 | TRACE("FieldData[%d]: '%s' comp:%d, tuples:%d", i, |
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| 108 | ds->GetFieldData()->GetArrayName(i), |
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| 109 | ds->GetFieldData()->GetAbstractArray(i)->GetNumberOfComponents(), |
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| 110 | ds->GetFieldData()->GetAbstractArray(i)->GetNumberOfTuples()); |
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| 111 | } |
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| 112 | } |
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| 113 | } |
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| 114 | } |
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| 115 | |
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[3870] | 116 | Volume * |
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[4063] | 117 | nv::load_vtk_volume_stream(const char *tag, const char *bytes, int nBytes) |
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[3870] | 118 | { |
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| 119 | TRACE("Enter tag:%s", tag); |
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| 120 | |
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| 121 | vtkSmartPointer<vtkImageData> resampledDataSet; |
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| 122 | { |
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| 123 | vtkSmartPointer<vtkDataSet> dataSet; |
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| 124 | { |
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| 125 | vtkSmartPointer<vtkDataSetReader> reader = vtkSmartPointer<vtkDataSetReader>::New(); |
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| 126 | vtkSmartPointer<vtkCharArray> dataSetString = vtkSmartPointer<vtkCharArray>::New(); |
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| 127 | |
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| 128 | dataSetString->SetArray(const_cast<char *>(bytes), nBytes, 1); |
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| 129 | reader->SetInputArray(dataSetString); |
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| 130 | reader->ReadFromInputStringOn(); |
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| 131 | //reader->ReadAllNormalsOn(); |
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| 132 | //reader->ReadAllTCoordsOn(); |
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| 133 | reader->ReadAllScalarsOn(); |
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| 134 | //reader->ReadAllColorScalarsOn(); |
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| 135 | reader->ReadAllVectorsOn(); |
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| 136 | //reader->ReadAllTensorsOn(); |
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[4164] | 137 | reader->ReadAllFieldsOn(); |
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[3870] | 138 | reader->SetLookupTableName(""); |
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| 139 | reader->Update(); |
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| 140 | |
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| 141 | dataSet = reader->GetOutput(); |
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| 142 | } |
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| 143 | |
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| 144 | if (dataSet == NULL) |
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| 145 | return NULL; |
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| 146 | |
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[5672] | 147 | print(dataSet); |
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| 148 | |
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[3870] | 149 | int maxDim = 64; |
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| 150 | |
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| 151 | resampledDataSet = vtkImageData::SafeDownCast(dataSet.GetPointer()); |
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| 152 | if (resampledDataSet != NULL) { |
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| 153 | // Have a uniform grid, check if we need to resample |
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| 154 | #ifdef DOWNSAMPLE_DATA |
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| 155 | if (resampledDataSet->GetDimensions()[0] > maxDim || |
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| 156 | resampledDataSet->GetDimensions()[1] > maxDim || |
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| 157 | resampledDataSet->GetDimensions()[2] > maxDim) { |
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| 158 | resampledDataSet = resampleVTKDataSet(dataSet, maxDim); |
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| 159 | } |
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| 160 | #endif |
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| 161 | } else { |
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| 162 | resampledDataSet = resampleVTKDataSet(dataSet, maxDim); |
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| 163 | } |
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| 164 | } |
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| 165 | |
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| 166 | int nx, ny, nz, npts; |
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| 167 | // origin |
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| 168 | double x0, y0, z0; |
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| 169 | // deltas (cell dimensions) |
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| 170 | double dx, dy, dz; |
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| 171 | // length of volume edges |
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| 172 | double lx, ly, lz; |
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| 173 | |
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| 174 | nx = resampledDataSet->GetDimensions()[0]; |
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| 175 | ny = resampledDataSet->GetDimensions()[1]; |
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| 176 | nz = resampledDataSet->GetDimensions()[2]; |
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| 177 | npts = nx * ny * nz; |
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| 178 | resampledDataSet->GetSpacing(dx, dy, dz); |
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| 179 | resampledDataSet->GetOrigin(x0, y0, z0); |
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| 180 | |
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| 181 | lx = (nx - 1) * dx; |
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| 182 | ly = (ny - 1) * dy; |
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| 183 | lz = (nz - 1) * dz; |
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| 184 | |
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| 185 | Volume *volume = NULL; |
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| 186 | double vmin = DBL_MAX; |
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| 187 | double nzero_min = DBL_MAX; |
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| 188 | double vmax = -DBL_MAX; |
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| 189 | |
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| 190 | float *data = new float[npts * 4]; |
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| 191 | memset(data, 0, npts * 4); |
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| 192 | |
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[3935] | 193 | bool isVectorData = (resampledDataSet->GetPointData()->GetVectors() != NULL); |
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| 194 | |
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[3870] | 195 | int ix = 0; |
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| 196 | int iy = 0; |
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| 197 | int iz = 0; |
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[4385] | 198 | vtkDataArray *mask = resampledDataSet->GetPointData()->GetArray("vtkValidPointMask"); |
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[5672] | 199 | int numValidPoints = 0; |
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[3870] | 200 | for (int p = 0; p < npts; p++) { |
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| 201 | int nindex = p * 4; |
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[3935] | 202 | double val; |
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[4385] | 203 | int loc[3]; |
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| 204 | loc[0] = ix; loc[1] = iy; loc[2] = iz; |
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| 205 | vtkIdType idx = resampledDataSet->ComputePointId(loc); |
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[4503] | 206 | bool valid = (mask == NULL) ? true : (mask->GetComponent(idx, 0) != 0.0); |
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[3935] | 207 | if (isVectorData) { |
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| 208 | double vec[3]; |
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| 209 | resampledDataSet->GetPointData()->GetVectors()->GetTuple(idx, vec); |
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[3943] | 210 | val = sqrt(vec[0]*vec[0] + vec[1]*vec[1] + vec[2]*vec[2]); |
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[3935] | 211 | data[nindex] = (float)val; |
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| 212 | data[nindex+1] = (float)vec[0]; |
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| 213 | data[nindex+2] = (float)vec[1]; |
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| 214 | data[nindex+3] = (float)vec[2]; |
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| 215 | } else { |
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[4385] | 216 | //val = resampledDataSet->GetScalarComponentAsDouble(ix, iy, iz, 0); |
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| 217 | val = resampledDataSet->GetPointData()->GetScalars()->GetComponent(idx, 0); |
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| 218 | data[nindex] = valid ? (float)val : -FLT_MAX; |
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[3935] | 219 | } |
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[4385] | 220 | if (valid) { |
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[5672] | 221 | numValidPoints++; |
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[4385] | 222 | if (val < vmin) { |
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| 223 | vmin = val; |
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| 224 | } else if (val > vmax) { |
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| 225 | vmax = val; |
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| 226 | } |
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| 227 | if (val != 0.0 && val < nzero_min) { |
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| 228 | nzero_min = val; |
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| 229 | } |
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[3870] | 230 | } |
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| 231 | |
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| 232 | if (++ix >= nx) { |
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| 233 | ix = 0; |
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| 234 | if (++iy >= ny) { |
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| 235 | iy = 0; |
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| 236 | ++iz; |
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| 237 | } |
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| 238 | } |
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| 239 | } |
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| 240 | |
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[5672] | 241 | if (numValidPoints < 1) { |
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| 242 | ERROR("No valid points in resample volume"); |
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| 243 | vmin = 0.0; |
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| 244 | vmax = 1.0; |
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| 245 | } else { |
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| 246 | TRACE("Valid points: %d of %d", numValidPoints, resampledDataSet->GetNumberOfPoints()); |
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| 247 | } |
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| 248 | |
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[3935] | 249 | if (isVectorData) { |
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| 250 | // Normalize magnitude [0,1] and vector components [0,1] |
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| 251 | normalizeVector(data, npts, vmin, vmax); |
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| 252 | } else { |
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[5672] | 253 | // Normalize all values [0,1], -1 => out of bounds |
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[3935] | 254 | normalizeScalar(data, npts, 4, vmin, vmax); |
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| 255 | computeSimpleGradient(data, nx, ny, nz, |
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| 256 | dx, dy, dz); |
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| 257 | } |
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[3870] | 258 | |
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[3943] | 259 | TRACE("isVectorData: %s", isVectorData ? "yes" : "no"); |
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[3870] | 260 | TRACE("nx = %i ny = %i nz = %i", nx, ny, nz); |
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[5549] | 261 | TRACE("x0 = %g y0 = %g z0 = %g", x0, y0, z0); |
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| 262 | TRACE("lx = %g ly = %g lz = %g", lx, ly, lz); |
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| 263 | TRACE("dx = %g dy = %g dz = %g", dx, dy, dz); |
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| 264 | TRACE("dataMin = %g dataMax = %g nzero_min = %g", |
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[3870] | 265 | vmin, vmax, nzero_min); |
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| 266 | |
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| 267 | volume = NanoVis::loadVolume(tag, nx, ny, nz, 4, data, |
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| 268 | vmin, vmax, nzero_min); |
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| 269 | volume->xAxis.setRange(x0, x0 + lx); |
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| 270 | volume->yAxis.setRange(y0, y0 + ly); |
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| 271 | volume->zAxis.setRange(z0, z0 + lz); |
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| 272 | volume->updatePending = true; |
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| 273 | |
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| 274 | delete [] data; |
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| 275 | |
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| 276 | TRACE("Leave"); |
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| 277 | return volume; |
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| 278 | } |
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