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yamct.sublime-workspace
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yamct.sublime-workspace
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{
"auto_complete":
{
"selected_items":
[
[
"field",
"fieldProps"
],
[
"corner",
"cornerB"
],
[
"label",
"labelBox"
],
[
"input",
"inputJs"
],
[
"ti",
"tissues"
],
[
"uint",
"uint8_t"
],
[
"get_",
"get_priority"
],
[
"begi",
"begin"
],
[
"ui",
"uint8_t"
],
[
"minFluen",
"minFluenceLog"
],
[
"sliceFluence",
"sliceFluenceLog"
],
[
"currSlice",
"currSliceFluence"
],
[
"currS",
"currSliceFluence"
],
[
"atomi",
"atomicAdd"
],
[
"fluence",
"fluence_dev"
],
[
"fluence_",
"fluence_log"
],
[
"curand",
"curand_uniform"
],
[
"new",
"newTube"
],
[
"const",
"constArgsIn"
],
[
"get_max",
"get_maxMaterial"
],
[
"tissue",
"tissueProps"
],
[
"abso",
"absorbed"
],
[
"fileP",
"filePathString"
],
[
"update",
"update_plot"
],
[
"tissu",
"tissueTypes"
],
[
"optProp",
"optPropHost"
],
[
"optPro",
"optPropHost"
],
[
"tiss",
"tissue"
],
[
"optPr",
"optPropHost"
],
[
"opt",
"optProps"
],
[
"maxVal",
"maxValLog"
],
[
"Input",
"InputFloat3"
],
[
"is",
"is_volume_generated"
],
[
"bgMater",
"bgMaterialId"
],
[
"lower",
"lowerCorner"
],
[
"tisseu",
"tissueTypes"
],
[
"flag",
"flagVerbose"
],
[
"sens",
"sensField"
],
[
"crop",
"cropZStart"
],
[
"fie",
"field_height"
],
[
"iput",
"inputMatrixA"
],
[
"inptu",
"inputMatrixB"
],
[
"inpt",
"inputMatrixA"
],
[
"matrix",
"matrixB_dev"
],
[
"fla",
"float4kernel"
],
[
"simProp",
"simProperties"
],
[
"fiber",
"fiberProperties"
],
[
"target_lin",
"target_link_libraries\tbuiltin"
],
[
"heat_",
"heat_log"
],
[
"target",
"target_link_libraries\tcommand"
],
[
"add",
"add_library\tcommand"
]
]
},
"buffers":
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{
"contents": "Searching 495 files for \"heat_type\"\n\n/home/hofmannu/Code/yamct/src/interface.cu:\n 675 \t\tImGui::Separator();\n 676 \n 677: \t\theat_type* sliceX = sim.get_slice(0, xPos, flagLog, flagFluence);\n 678: \t\theat_type* sliceY = sim.get_slice(1, yPos, flagLog, flagFluence);\n 679 \n 680 \t\tImImagesc(sliceX,\n ...\n 685 \t\tImGui::Image((void*)(intptr_t)fluence_texture_y, ImVec2(width, height2));\n 686 \n 687: \t\theat_type maxVal, minVal;\n 688 \t\tif (flagFluence)\n 689 \t\t{\n ...\n 717 \t\t// // plot axial crossection\n 718 \t\tImGui::PlotConfig conf;\n 719: \t\theat_type* plotVec = sim.get_plot(0, &posXYZ[0], flagLog, flagFluence);\n 720 \t\tfloat* plotVecF = new float [sim.get_dim(0)];\n 721 \t\tfor (uint32_t iElement = 0; iElement < sim.get_dim(0); iElement++)\n ...\n 727 \t\t\n 728 \t\t// run through vector to get min and max in y scale\n 729: \t\theat_type maxValPlot = plotVec[0];\n 730: \t\theat_type minValPlot = plotVec[0];\n 731 \t\tfor (uint32_t iX = 0; iX < sim.get_dim(0); iX++)\n 732 \t\t{\n\n/home/hofmannu/Code/yamct/src/interface.cuh:\n 14 \n 15 */\n 16: #define heat_type float\n 17 \n 18 \n\n/home/hofmannu/Code/yamct/src/mc.cu:\n 407 __device__ void pushToHeatFMA(\n 408 \tconst vec3& pos, // position of where our absorption event is happening \n 409: \tconst heat_type weight, // amount of absorption event\n 410: \tconst heat_type scaleH, // weight of the photon stored in fluence map\n 411: \tconst heat_type scaleF, \n 412: \theat_type* heat, // matrix containing the heat\n 413: \theat_type* fluence,\n 414 \tconst constArgsIn* inArgs) // constant input arguments for kernel\n 415 {\n ...\n 447 \tvery confusing name for a function. what we actually \n 448 */\n 449: __device__ heat_type findDistFace(\n 450 \tconst vec3& posA, \n 451 \tconst constArgsIn* inArgs,\n ...\n 460 const int iz2 = (vel.z >= 0) ? (iz1 + 1) : (iz1);\n 461 \n 462: \tconst heat_type deltaX = fmaf((heat_type) ix2, inArgs->res[0], -posA.x);\n 463: \t\tconst heat_type deltaY = fmaf((heat_type) iy2, inArgs->res[1], -posA.y);\n 464: \t\tconst heat_type deltaZ = fmaf((heat_type) iz2, inArgs->res[2], -posA.z);\t\t\n 465 \n 466: const heat_type tx = fabs(deltaX / vel.x);\n 467: const heat_type ty = fabs(deltaY / vel.y);\n 468: const heat_type tz = fabs(deltaZ / vel.z);\n 469 \n 470: const heat_type tmin = min3(tx, ty, tz);\n 471 \n 472 // now we could convert tmin into s by\n ...\n 495 // function sets weight to 0 if photon is beyond boundaries and \n 496 // kills it if this is the case\n 497: __device__ heat_type checkBoundary(\n 498 \tconst vec3& pos, // current position of photon \n 499 \tconst constArgsIn* inArgs, // constant input arguments\n 500: \theat_type weight, // weight of photon\n 501: \theat_type* heat_dev)\n 502 {\n 503 \tif ((pos.x < inArgs->origin[0]) || (pos.x > inArgs->maxPos[0]))\n ...\n 519 __global__ void simPhoton\n 520 (\n 521: \t\theat_type* heat_dev, // output matrix to which we write our absorption\n 522: \t\theat_type* fluence_dev, \n 523 \t\t// const float * R_dev, // 1d vector containing reflectance\n 524 \t\tconst constArgsIn* inArgs, // constant simulation parameters\n ...\n 529 \t// temp variables for scattering\n 530 \tconst unsigned int tid = threadIdx.x + blockIdx.x * blockDim.x; \n 531: \tconst heat_type ls = 1e-3;// minimum travel distance [mm}\n 532: \theat_type weight; // ranges from 0 to 1 representing the weight of ph\n 533 \t\n 534 \t// generate and initialize random number generator \n ...\n 573 \t\t\t\t\t// const float expFact = expf(-currProps.mu_a * s);\n 574 \t\t\t\t\t// const float scaleH = 1.0 - expFact;\n 575: \t\t\t\t\tconst heat_type scaleH = -expm1f(-currProps.mu_a * s);\n 576: \t\t\t\t\tconst heat_type expFact = 1 - scaleH;\n 577 \t\t\t\t\t// absorb = weight * (1.0 - exp(scaler));\t\n 578 \t\t\t\t\t// pushToHeat(pos, absorb, weight * s, heat_dev, fluence_dev, inArgs);\n ...\n 589 \t\t\t\t\t// const float expFact = expf(-currProps.mu_a * s);\n 590 \t\t\t\t\t// const float scaleH = 1.0 - expFact;\n 591: \t\t\t\t\tconst heat_type scaleH = -expm1f(-currProps.mu_a * s);\n 592: \t\t\t\t\tconst heat_type expFact = 1 - scaleH;\n 593 \t\t\t\t\tpushToHeatFMA(pos, weight, scaleH, s, heat_dev, fluence_dev, inArgs);\n 594 \t\t\t\t\t\n ...\n 683 }\n 684 \n 685: heat_type* mc::get_slice(\n 686 \tconst uint8_t iDim, // dimension which we cut \n 687 \tconst float pos, // position where we cut\n ...\n 707 \t}\n 708 \n 709: \theat_type* retSlice;\n 710 \n 711 \tif (flagFluence)\n ...\n 735 }\n 736 \n 737: heat_type* mc::get_plot(\n 738 \tconst uint8_t iDim, // dimension along which we request\n 739 \tconst float* pos, // three element vector describing center position\n ...\n 768 \t}\n 769 \n 770: \theat_type* returnedPlot;\n 771 \n 772 \tif (flagFluence) // here we are supposed to return fluence\n ...\n 802 \n 803 \tuint32_t idxIn; // iX + nX * (iY * iZ * nY)\n 804: \theat_type* currPlot;\n 805 \n 806 \tfor (uint32_t iX = 0; iX < dims[0]; iX++)\n ...\n 861 void mc::update_slice(const uint8_t iDim, const uint32_t idx)\n 862 {\n 863: \theat_type* currSlice = slice[iDim]; // get pointer to slice\n 864: \theat_type* currSliceFluence = sliceFluence[iDim];\n 865 \n 866 \tuint32_t idxIn, idxOut;\n ...\n 917 void mc::update_slice_log(const uint8_t iDim, const uint32_t idx)\n 918 {\n 919: \theat_type* currSlice = sliceLog[iDim]; // get pointer to slice\n 920: \theat_type* currSliceFluence = sliceFluenceLog[iDim]; // get pointer to flu slice\n 921 \tuint32_t idxIn, idxOut;\n 922 \n ...\n 996 \n 997 \t// allocate memory for heat and fluence on host\n 998: \theat = new heat_type [volume.get_nElem() + 1]; // last element is container for overfly\n 999: \theat_log = new heat_type [volume.get_nElem()];\n 1000: \tfluence = new heat_type [volume.get_nElem()];\n 1001: \tfluence_log = new heat_type [volume.get_nElem()];\n 1002 \n 1003 \t// grab dimensions etc from volume\n ....\n 1017 \t\t\tcurrVec[iXYZ] = origin[iDim] + res[iDim] + ((float) iXYZ + 0.5);\n 1018 \n 1019: \t\tplotHeat[iDim] = new heat_type [dims[iDim]];\n 1020: \t\tplotHeatLog[iDim] = new heat_type [dims[iDim]];\n 1021: \t\tplotFluence[iDim] = new heat_type [dims[iDim]];\n 1022: \t\tplotFluenceLog[iDim] = new heat_type [dims[iDim]];\n 1023 \t}\n 1024 \n 1025 \t// allocate memory for slices\n 1026: \tslice[0] = new heat_type [dims[1] * dims[2]]; // along x\n 1027: \tslice[1] = new heat_type [dims[0] * dims[2]]; // along y\n 1028: \tslice[2] = new heat_type [dims[0] * dims[1]]; // along z\n 1029: \tsliceLog[0] = new heat_type [dims[1] * dims[2]]; // along x\n 1030: \tsliceLog[1] = new heat_type [dims[0] * dims[2]]; // along y\n 1031: \tsliceLog[2] = new heat_type [dims[0] * dims[1]]; // along z\n 1032 \n 1033: \tsliceFluence[0] = new heat_type [dims[1] * dims[2]]; // along x\n 1034: \tsliceFluence[1] = new heat_type [dims[0] * dims[2]]; // along y\n 1035: \tsliceFluence[2] = new heat_type [dims[0] * dims[1]]; // along z\n 1036: \tsliceFluenceLog[0] = new heat_type [dims[1] * dims[2]]; // along x\n 1037: \tsliceFluenceLog[1] = new heat_type [dims[0] * dims[2]]; // along y\n 1038: \tsliceFluenceLog[2] = new heat_type [dims[0] * dims[1]]; // along z\n 1039 \n 1040 \tisHeatAlloc = 1;\n\n/home/hofmannu/Code/yamct/src/mc.cuh:\n 19 */\n 20 \n 21: #define heat_type float\n 22 \n 23 \n ..\n 52 \n 53 \t// arrays containing our heat map [ix + iy * nx + iz * nx * ny]\n 54: \theat_type* heat; // normal heat map\n 55: \theat_type* heat_log; // logarthmic scaled heat map\n 56: \theat_type* fluence; // fluence map in linear scale\n 57: \theat_type* fluence_log; // fluence map in log scale\n 58 \tbool isHeatAlloc = 0;\n 59 \t\n 60 \t// same arrays but this time on our device\n 61: \theat_type* heat_dev; // pointer to memory for heat map on device\n 62: \theat_type* fluence_dev; // pointer to fluence memory on device\n 63 \tbool isHeatDevAlloc = 0;\n 64 \t\n 65 \t// minimum and maximum values of heat map in lin and log scale\n 66: \theat_type maxVal = 0; // maximum value in heat map\n 67: \theat_type minVal = 0; // minimum value in heat map\n 68: \theat_type maxValLog = 0; // maximum value in logarithmic heat map\n 69: \theat_type minValLog = 0; // minimum value in logarthmic heat map\n 70 \n 71 \t// min and max values of fluence map in lin and lof scale.\n 72: \theat_type maxFluence = 0; // maximum value of fluence\n 73: \theat_type minFluence = 0; // minimum value of fluence\n 74: \theat_type maxFluenceLog = 0; // maximum log value of fluence\n 75: \theat_type minFluenceLog = 0; // minimum log value of fluence\n 76 \n 77 \t// things for plotting of cross sections\n 78 \tuint32_t idxCross[3] = {0, 0, 0}; // current position of our crossection\n 79: \theat_type* slice[3]; // slice along each dimension (heat)\n 80: \theat_type* sliceLog[3]; // log slice along each dimension (heat)\n 81: \theat_type* sliceFluence[3]; // slice of fluence\n 82: \theat_type* sliceFluenceLog[3]; // log slice of fluence\n 83 \t// float* plot[3]; // 1d array in each dimension for plotting\n 84 \t// float* plotLog[3]; // 1d array in each dimension for plotting \n ..\n 94 \tuint32_t idxCrossPlots[3] = {0, 0, 0};\n 95 \tfloat* vecs[3]; // vectors along each dimension\n 96: \theat_type* plotHeat[3]; // plot vectors along each dimension for heat\n 97: \theat_type* plotHeatLog[3]; \n 98: \theat_type* plotFluence[3];\n 99: \theat_type* plotFluenceLog[3];\n 100 \n 101 \t// void calc_reflectance(const float nWater, const float nTissue); 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