Initial commit
This commit is contained in:
40
.gitignore
vendored
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40
.gitignore
vendored
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# ---> C++
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||||||
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# Prerequisites
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||||||
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*.d
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||||||
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||||||
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# Compiled Object files
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||||||
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*.slo
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||||||
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*.lo
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||||||
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*.o
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||||||
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*.obj
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||||||
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||||||
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# Precompiled Headers
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||||||
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*.gch
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||||||
|
*.pch
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||||||
|
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||||||
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# Compiled Dynamic libraries
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||||||
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*.so
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||||||
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*.dylib
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||||||
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*.dll
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||||||
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||||||
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# Fortran module files
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||||||
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*.mod
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||||||
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*.smod
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||||||
|
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||||||
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# Compiled Static libraries
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||||||
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*.lai
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||||||
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*.la
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*.a
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*.lib
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||||||
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||||||
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# Executables
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||||||
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*.exe
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*.out
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*.app
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||||||
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build/**
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||||||
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build_*/**
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||||||
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*.dSYM/**
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cmake-build*/**
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.idea
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||||||
|
puml/**
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||||||
|
.vscode/settings.json
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||||||
6
.gitmodules
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6
.gitmodules
vendored
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@@ -0,0 +1,6 @@
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[submodule "lib/catch2"]
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path = lib/catch2
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url = https://github.com/catchorg/Catch2.git
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[submodule "lib/mdlp"]
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path = lib/mdlp
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|
url = https://github.com/rmontanana/mdlp
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18
.vscode/c_cpp_properties.json
vendored
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18
.vscode/c_cpp_properties.json
vendored
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{
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"configurations": [
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|
{
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"name": "Mac",
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"includePath": [
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"${workspaceFolder}/**"
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],
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"defines": [],
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|
"macFrameworkPath": [
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"/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/System/Library/Frameworks"
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],
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"cStandard": "c17",
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"cppStandard": "c++17",
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"compileCommands": "${workspaceFolder}/cmake-build-release/compile_commands.json"
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}
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|
],
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"version": 4
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|
}
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130
.vscode/launch.json
vendored
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130
.vscode/launch.json
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{
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"version": "0.2.0",
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"configurations": [
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|
{
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"type": "lldb",
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"request": "launch",
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"name": "sample",
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"program": "${workspaceFolder}/build_debug/sample/BayesNetSample",
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"args": [
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"-d",
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"iris",
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"-m",
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"TANLd",
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"-s",
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"271",
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"-p",
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"/Users/rmontanana/Code/discretizbench/datasets/",
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],
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//"cwd": "${workspaceFolder}/build/sample/",
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|
},
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{
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|
"type": "lldb",
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|
"request": "launch",
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"name": "experimentPy",
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"program": "${workspaceFolder}/build_debug/src/Platform/b_main",
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"args": [
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|
"-m",
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"STree",
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"--stratified",
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"-d",
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"iris",
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//"--discretize"
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// "--hyperparameters",
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// "{\"repeatSparent\": true, \"maxModels\": 12}"
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|
],
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|
"cwd": "${workspaceFolder}/../discretizbench",
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|
},
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|
{
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|
"type": "lldb",
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|
"request": "launch",
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|
"name": "gridsearch",
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||||||
|
"program": "${workspaceFolder}/build_debug/src/Platform/b_grid",
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"args": [
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|
"-m",
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||||||
|
"KDB",
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|
"--discretize",
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|
"--continue",
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"glass",
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|
"--only",
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"--compute"
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|
],
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|
"cwd": "${workspaceFolder}/../discretizbench",
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|
},
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||||||
|
{
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||||||
|
"type": "lldb",
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|
"request": "launch",
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"name": "experimentBayes",
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"program": "${workspaceFolder}/build_debug/src/Platform/b_main",
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"args": [
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|
"-m",
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|
"TAN",
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|
"--stratified",
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|
"--discretize",
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|
"-d",
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"iris",
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|
"--hyperparameters",
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"{\"repeatSparent\": true, \"maxModels\": 12}"
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|
],
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|
"cwd": "/home/rmontanana/Code/discretizbench",
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|
},
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||||||
|
{
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||||||
|
"type": "lldb",
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|
"request": "launch",
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|
"name": "best",
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|
"program": "${workspaceFolder}/build_debug/src/Platform/b_best",
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"args": [
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"-m",
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|
"BoostAODE",
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|
"-s",
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|
"accuracy",
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|
"--build",
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||||||
|
],
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||||||
|
"cwd": "${workspaceFolder}/../discretizbench",
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|
},
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|
{
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|
"type": "lldb",
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|
"request": "launch",
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|
"name": "manage",
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|
"program": "${workspaceFolder}/build_debug/src/Platform/b_manage",
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|
"args": [
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"-n",
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|
"20"
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|
],
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"cwd": "${workspaceFolder}/../discretizbench",
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||||||
|
},
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|
{
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||||||
|
"type": "lldb",
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|
"request": "launch",
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"name": "list",
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|
"program": "${workspaceFolder}/build_debug/src/Platform/b_list",
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"args": [],
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//"cwd": "/Users/rmontanana/Code/discretizbench",
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|
"cwd": "${workspaceFolder}/../discretizbench",
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||||||
|
},
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||||||
|
{
|
||||||
|
"type": "lldb",
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||||||
|
"request": "launch",
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||||||
|
"name": "test",
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||||||
|
"program": "${workspaceFolder}/build_debug/tests/unit_tests",
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"args": [
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"-c=\"Metrics Test\"",
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// "-s",
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],
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"cwd": "${workspaceFolder}/build/tests",
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},
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||||||
|
{
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||||||
|
"name": "Build & debug active file",
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||||||
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"type": "cppdbg",
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||||||
|
"request": "launch",
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||||||
|
"program": "${workspaceFolder}/build_debug/bayesnet",
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"args": [],
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"stopAtEntry": false,
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"cwd": "${workspaceFolder}",
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|
"environment": [],
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||||||
|
"externalConsole": false,
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||||||
|
"MIMode": "lldb",
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||||||
|
"preLaunchTask": "CMake: build"
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||||||
|
}
|
||||||
|
]
|
||||||
|
}
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||||||
60
.vscode/tasks.json
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60
.vscode/tasks.json
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|||||||
|
{
|
||||||
|
"version": "2.0.0",
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||||||
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"tasks": [
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||||||
|
{
|
||||||
|
"type": "cmake",
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||||||
|
"label": "CMake: build",
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||||||
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"command": "build",
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"targets": [
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"all"
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||||||
|
],
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||||||
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"group": "build",
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||||||
|
"problemMatcher": [],
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||||||
|
"detail": "CMake template build task"
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||||||
|
},
|
||||||
|
{
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||||||
|
"type": "cppbuild",
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||||||
|
"label": "C/C++: clang build active file",
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||||||
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"command": "/usr/bin/clang",
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||||||
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"args": [
|
||||||
|
"-fcolor-diagnostics",
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"-fansi-escape-codes",
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|
"-g",
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||||||
|
"${file}",
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||||||
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"-o",
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||||||
|
"${fileDirname}/${fileBasenameNoExtension}"
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||||||
|
],
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||||||
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"options": {
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||||||
|
"cwd": "${fileDirname}"
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||||||
|
},
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||||||
|
"problemMatcher": [
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||||||
|
"$gcc"
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||||||
|
],
|
||||||
|
"group": "build",
|
||||||
|
"detail": "Task generated by Debugger."
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"type": "cppbuild",
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||||||
|
"label": "C/C++: g++ build active file",
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||||||
|
"command": "/usr/bin/g++",
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||||||
|
"args": [
|
||||||
|
"-fdiagnostics-color=always",
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||||||
|
"-g",
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||||||
|
"${file}",
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||||||
|
"-o",
|
||||||
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"${fileDirname}/${fileBasenameNoExtension}"
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||||||
|
],
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||||||
|
"options": {
|
||||||
|
"cwd": "${fileDirname}"
|
||||||
|
},
|
||||||
|
"problemMatcher": [
|
||||||
|
"$gcc"
|
||||||
|
],
|
||||||
|
"group": {
|
||||||
|
"kind": "build",
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||||||
|
"isDefault": true
|
||||||
|
},
|
||||||
|
"detail": "Task generated by Debugger."
|
||||||
|
}
|
||||||
|
]
|
||||||
|
}
|
||||||
53
CMakeLists.txt
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53
CMakeLists.txt
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cmake_minimum_required(VERSION 3.20)
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||||||
|
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||||||
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project(Folding
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||||||
|
VERSION 1.0.0
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||||||
|
DESCRIPTION "Folding utility for BayesNet library"
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||||||
|
HOMEPAGE_URL "https://github.com/rmontanana/folding"
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||||||
|
LANGUAGES CXX
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||||||
|
)
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||||||
|
|
||||||
|
if (CODE_COVERAGE AND NOT ENABLE_TESTING)
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||||||
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MESSAGE(FATAL_ERROR "Code coverage requires testing enabled")
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||||||
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endif (CODE_COVERAGE AND NOT ENABLE_TESTING)
|
||||||
|
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||||||
|
find_package(Torch REQUIRED)
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||||||
|
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||||||
|
if (POLICY CMP0135)
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||||||
|
cmake_policy(SET CMP0135 NEW)
|
||||||
|
endif ()
|
||||||
|
|
||||||
|
# Global CMake variables
|
||||||
|
# ----------------------
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||||||
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set(CMAKE_CXX_STANDARD 17)
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||||||
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set(CMAKE_CXX_STANDARD_REQUIRED ON)
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||||||
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set(CMAKE_CXX_EXTENSIONS OFF)
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||||||
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set(CMAKE_EXPORT_COMPILE_COMMANDS ON)
|
||||||
|
set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} ${TORCH_CXX_FLAGS}")
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||||||
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SET(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -pthread")
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||||||
|
# Options
|
||||||
|
# -------
|
||||||
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option(ENABLE_TESTING "Unit testing build" OFF)
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||||||
|
|
||||||
|
# CMakes modules
|
||||||
|
# --------------
|
||||||
|
set(CMAKE_MODULE_PATH ${CMAKE_CURRENT_SOURCE_DIR}/cmake/modules ${CMAKE_MODULE_PATH})
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||||||
|
include(AddGitSubmodule)
|
||||||
|
|
||||||
|
# Subdirectories
|
||||||
|
# --------------
|
||||||
|
add_subdirectory(config)
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||||||
|
|
||||||
|
# Testing
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||||||
|
# -------
|
||||||
|
|
||||||
|
if (ENABLE_TESTING)
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||||||
|
MESSAGE("Testing enabled")
|
||||||
|
add_git_submodule("lib/catch2")
|
||||||
|
add_git_submodule("lib/Files")
|
||||||
|
add_git_submodule("lib/mdlp")
|
||||||
|
include(CTest)
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||||||
|
add_subdirectory(tests)
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||||||
|
endif (ENABLE_TESTING)
|
||||||
|
|
||||||
|
add_library(folding INTERFACE folding.hpp)
|
||||||
62
Makefile
Normal file
62
Makefile
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|
|||||||
|
SHELL := /bin/bash
|
||||||
|
.DEFAULT_GOAL := help
|
||||||
|
.PHONY: help build test clean
|
||||||
|
|
||||||
|
f_debug = build_debug
|
||||||
|
test_targets = unit_tests_folding
|
||||||
|
n_procs = -j 16
|
||||||
|
|
||||||
|
define ClearTests
|
||||||
|
@for t in $(test_targets); do \
|
||||||
|
if [ -f $(f_debug)/tests/$$t ]; then \
|
||||||
|
echo ">>> Cleaning $$t..." ; \
|
||||||
|
rm -f $(f_debug)/tests/$$t ; \
|
||||||
|
fi ; \
|
||||||
|
done
|
||||||
|
@nfiles="$(find . -name "*.gcda" -print0)" ; \
|
||||||
|
if test "${nfiles}" != "" ; then \
|
||||||
|
find . -name "*.gcda" -print0 | xargs -0 rm 2>/dev/null ;\
|
||||||
|
fi ;
|
||||||
|
endef
|
||||||
|
|
||||||
|
clean: ## Clean the tests info
|
||||||
|
@echo ">>> Cleaning Debug Folding tests...";
|
||||||
|
$(call ClearTests)
|
||||||
|
@echo ">>> Done";
|
||||||
|
|
||||||
|
build: ## Build a debug version of the project
|
||||||
|
@echo ">>> Building Debug Folding...";
|
||||||
|
@if [ -d ./$(f_debug) ]; then rm -rf ./$(f_debug); fi
|
||||||
|
@mkdir $(f_debug);
|
||||||
|
@cmake -S . -B $(f_debug) -D CMAKE_BUILD_TYPE=Debug -D ENABLE_TESTING=ON -D CODE_COVERAGE=ON
|
||||||
|
@echo ">>> Done";
|
||||||
|
|
||||||
|
opt = ""
|
||||||
|
test: ## Run tests (opt="-s") to verbose output the tests
|
||||||
|
@echo ">>> Running Folding tests...";
|
||||||
|
@$(MAKE) clean
|
||||||
|
@cmake --build $(f_debug) -t $(test_targets) $(n_procs)
|
||||||
|
@for t in $(test_targets); do \
|
||||||
|
if [ -f $(f_debug)/tests/$$t ]; then \
|
||||||
|
cd $(f_debug)/tests ; \
|
||||||
|
./$$t $(opt) ; \
|
||||||
|
fi ; \
|
||||||
|
done
|
||||||
|
@echo ">>> Done";
|
||||||
|
|
||||||
|
help: ## Show help message
|
||||||
|
@IFS=$$'\n' ; \
|
||||||
|
help_lines=(`fgrep -h "##" $(MAKEFILE_LIST) | fgrep -v fgrep | sed -e 's/\\$$//' | sed -e 's/##/:/'`); \
|
||||||
|
printf "%s\n\n" "Usage: make [task]"; \
|
||||||
|
printf "%-20s %s\n" "task" "help" ; \
|
||||||
|
printf "%-20s %s\n" "------" "----" ; \
|
||||||
|
for help_line in $${help_lines[@]}; do \
|
||||||
|
IFS=$$':' ; \
|
||||||
|
help_split=($$help_line) ; \
|
||||||
|
help_command=`echo $${help_split[0]} | sed -e 's/^ *//' -e 's/ *$$//'` ; \
|
||||||
|
help_info=`echo $${help_split[2]} | sed -e 's/^ *//' -e 's/ *$$//'` ; \
|
||||||
|
printf '\033[36m'; \
|
||||||
|
printf "%-20s %s" $$help_command ; \
|
||||||
|
printf '\033[0m'; \
|
||||||
|
printf "%s\n" $$help_info; \
|
||||||
|
done
|
||||||
91
README2.md
Normal file
91
README2.md
Normal file
@@ -0,0 +1,91 @@
|
|||||||
|
# BayesNet
|
||||||
|
|
||||||
|
[](https://opensource.org/licenses/MIT)
|
||||||
|
|
||||||
|
Bayesian Network Classifier with libtorch from scratch
|
||||||
|
|
||||||
|
## 0. Setup
|
||||||
|
|
||||||
|
Before compiling BayesNet.
|
||||||
|
|
||||||
|
### Miniconda
|
||||||
|
|
||||||
|
To be able to run Python Classifiers such as STree, ODTE, SVC, etc. it is needed to install Miniconda. To do so, download the installer from [Miniconda](https://docs.conda.io/en/latest/miniconda.html) and run it. It is recommended to install it in the home folder.
|
||||||
|
|
||||||
|
In Linux sometimes the library libstdc++ is mistaken from the miniconda installation and produces the next message when running the b_xxxx executables:
|
||||||
|
|
||||||
|
```bash
|
||||||
|
libstdc++.so.6: version `GLIBCXX_3.4.32' not found (required by b_xxxx)
|
||||||
|
```
|
||||||
|
|
||||||
|
The solution is to erase the libstdc++ library from the miniconda installation:
|
||||||
|
|
||||||
|
### MPI
|
||||||
|
|
||||||
|
In Linux just install openmpi & openmpi-devel packages. Only if cmake can't find openmpi installation (like in Oracle Linux) set the following variable:
|
||||||
|
|
||||||
|
```bash
|
||||||
|
export MPI_HOME="/usr/lib64/openmpi"
|
||||||
|
```
|
||||||
|
|
||||||
|
In Mac OS X, install mpich with brew and if cmake doesn't find it, edit mpicxx wrapper to remove the ",-commons,use_dylibs" from final_ldflags
|
||||||
|
|
||||||
|
```bash
|
||||||
|
vi /opt/homebrew/bin/mpicx
|
||||||
|
```
|
||||||
|
|
||||||
|
### boost library
|
||||||
|
|
||||||
|
[Getting Started](<https://www.boost.org/doc/libs/1_83_0/more/getting_started/index.html>)
|
||||||
|
|
||||||
|
The best option is install the packages that the Linux distribution have in its repository. If this is the case:
|
||||||
|
|
||||||
|
```bash
|
||||||
|
sudo dnf install boost-devel
|
||||||
|
```
|
||||||
|
|
||||||
|
If this is not possible and the compressed packaged is installed, the following environment variable has to be set pointing to the folder where it was unzipped to:
|
||||||
|
|
||||||
|
```bash
|
||||||
|
export BOOST_ROOT=/path/to/library/
|
||||||
|
```
|
||||||
|
|
||||||
|
In some cases, it is needed to build the library, to do so:
|
||||||
|
|
||||||
|
```bash
|
||||||
|
cd /path/to/library
|
||||||
|
mkdir own
|
||||||
|
./bootstrap.sh --prefix=/path/to/library/own
|
||||||
|
./b2 install
|
||||||
|
export BOOST_ROOT=/path/to/library/own/
|
||||||
|
```
|
||||||
|
|
||||||
|
Don't forget to add the export BOOST_ROOT statement to .bashrc or wherever it is meant to be.
|
||||||
|
|
||||||
|
### libxlswriter
|
||||||
|
|
||||||
|
```bash
|
||||||
|
cd lib/libxlsxwriter
|
||||||
|
make
|
||||||
|
make install DESTDIR=/home/rmontanana/Code PREFIX=
|
||||||
|
```
|
||||||
|
|
||||||
|
Environment variable has to be set:
|
||||||
|
|
||||||
|
```bash
|
||||||
|
export LD_LIBRARY_PATH=/usr/local/lib
|
||||||
|
```
|
||||||
|
|
||||||
|
### Release
|
||||||
|
|
||||||
|
```bash
|
||||||
|
make release
|
||||||
|
```
|
||||||
|
|
||||||
|
### Debug & Tests
|
||||||
|
|
||||||
|
```bash
|
||||||
|
make debug
|
||||||
|
```
|
||||||
|
|
||||||
|
## 1. Introduction
|
||||||
12
cmake/modules/AddGitSubmodule.cmake
Normal file
12
cmake/modules/AddGitSubmodule.cmake
Normal file
@@ -0,0 +1,12 @@
|
|||||||
|
|
||||||
|
function(add_git_submodule dir)
|
||||||
|
find_package(Git REQUIRED)
|
||||||
|
|
||||||
|
if(NOT EXISTS ${dir}/CMakeLists.txt)
|
||||||
|
message(STATUS "🚨 Adding git submodule => ${dir}")
|
||||||
|
execute_process(COMMAND ${GIT_EXECUTABLE}
|
||||||
|
submodule update --init --recursive -- ${dir}
|
||||||
|
WORKING_DIRECTORY ${PROJECT_SOURCE_DIR})
|
||||||
|
endif()
|
||||||
|
add_subdirectory(${dir})
|
||||||
|
endfunction(add_git_submodule)
|
||||||
742
cmake/modules/CodeCoverage.cmake
Normal file
742
cmake/modules/CodeCoverage.cmake
Normal file
@@ -0,0 +1,742 @@
|
|||||||
|
# Copyright (c) 2012 - 2017, Lars Bilke
|
||||||
|
# All rights reserved.
|
||||||
|
#
|
||||||
|
# Redistribution and use in source and binary forms, with or without modification,
|
||||||
|
# are permitted provided that the following conditions are met:
|
||||||
|
#
|
||||||
|
# 1. Redistributions of source code must retain the above copyright notice, this
|
||||||
|
# list of conditions and the following disclaimer.
|
||||||
|
#
|
||||||
|
# 2. Redistributions in binary form must reproduce the above copyright notice,
|
||||||
|
# this list of conditions and the following disclaimer in the documentation
|
||||||
|
# and/or other materials provided with the distribution.
|
||||||
|
#
|
||||||
|
# 3. Neither the name of the copyright holder nor the names of its contributors
|
||||||
|
# may be used to endorse or promote products derived from this software without
|
||||||
|
# specific prior written permission.
|
||||||
|
#
|
||||||
|
# THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
|
||||||
|
# ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
|
||||||
|
# WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
|
||||||
|
# DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR
|
||||||
|
# ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
|
||||||
|
# (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
|
||||||
|
# LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON
|
||||||
|
# ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
|
||||||
|
# (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
|
||||||
|
# SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
|
||||||
|
#
|
||||||
|
# CHANGES:
|
||||||
|
#
|
||||||
|
# 2012-01-31, Lars Bilke
|
||||||
|
# - Enable Code Coverage
|
||||||
|
#
|
||||||
|
# 2013-09-17, Joakim Söderberg
|
||||||
|
# - Added support for Clang.
|
||||||
|
# - Some additional usage instructions.
|
||||||
|
#
|
||||||
|
# 2016-02-03, Lars Bilke
|
||||||
|
# - Refactored functions to use named parameters
|
||||||
|
#
|
||||||
|
# 2017-06-02, Lars Bilke
|
||||||
|
# - Merged with modified version from github.com/ufz/ogs
|
||||||
|
#
|
||||||
|
# 2019-05-06, Anatolii Kurotych
|
||||||
|
# - Remove unnecessary --coverage flag
|
||||||
|
#
|
||||||
|
# 2019-12-13, FeRD (Frank Dana)
|
||||||
|
# - Deprecate COVERAGE_LCOVR_EXCLUDES and COVERAGE_GCOVR_EXCLUDES lists in favor
|
||||||
|
# of tool-agnostic COVERAGE_EXCLUDES variable, or EXCLUDE setup arguments.
|
||||||
|
# - CMake 3.4+: All excludes can be specified relative to BASE_DIRECTORY
|
||||||
|
# - All setup functions: accept BASE_DIRECTORY, EXCLUDE list
|
||||||
|
# - Set lcov basedir with -b argument
|
||||||
|
# - Add automatic --demangle-cpp in lcovr, if 'c++filt' is available (can be
|
||||||
|
# overridden with NO_DEMANGLE option in setup_target_for_coverage_lcovr().)
|
||||||
|
# - Delete output dir, .info file on 'make clean'
|
||||||
|
# - Remove Python detection, since version mismatches will break gcovr
|
||||||
|
# - Minor cleanup (lowercase function names, update examples...)
|
||||||
|
#
|
||||||
|
# 2019-12-19, FeRD (Frank Dana)
|
||||||
|
# - Rename Lcov outputs, make filtered file canonical, fix cleanup for targets
|
||||||
|
#
|
||||||
|
# 2020-01-19, Bob Apthorpe
|
||||||
|
# - Added gfortran support
|
||||||
|
#
|
||||||
|
# 2020-02-17, FeRD (Frank Dana)
|
||||||
|
# - Make all add_custom_target()s VERBATIM to auto-escape wildcard characters
|
||||||
|
# in EXCLUDEs, and remove manual escaping from gcovr targets
|
||||||
|
#
|
||||||
|
# 2021-01-19, Robin Mueller
|
||||||
|
# - Add CODE_COVERAGE_VERBOSE option which will allow to print out commands which are run
|
||||||
|
# - Added the option for users to set the GCOVR_ADDITIONAL_ARGS variable to supply additional
|
||||||
|
# flags to the gcovr command
|
||||||
|
#
|
||||||
|
# 2020-05-04, Mihchael Davis
|
||||||
|
# - Add -fprofile-abs-path to make gcno files contain absolute paths
|
||||||
|
# - Fix BASE_DIRECTORY not working when defined
|
||||||
|
# - Change BYPRODUCT from folder to index.html to stop ninja from complaining about double defines
|
||||||
|
#
|
||||||
|
# 2021-05-10, Martin Stump
|
||||||
|
# - Check if the generator is multi-config before warning about non-Debug builds
|
||||||
|
#
|
||||||
|
# 2022-02-22, Marko Wehle
|
||||||
|
# - Change gcovr output from -o <filename> for --xml <filename> and --html <filename> output respectively.
|
||||||
|
# This will allow for Multiple Output Formats at the same time by making use of GCOVR_ADDITIONAL_ARGS, e.g. GCOVR_ADDITIONAL_ARGS "--txt".
|
||||||
|
#
|
||||||
|
# 2022-09-28, Sebastian Mueller
|
||||||
|
# - fix append_coverage_compiler_flags_to_target to correctly add flags
|
||||||
|
# - replace "-fprofile-arcs -ftest-coverage" with "--coverage" (equivalent)
|
||||||
|
#
|
||||||
|
# USAGE:
|
||||||
|
#
|
||||||
|
# 1. Copy this file into your cmake modules path.
|
||||||
|
#
|
||||||
|
# 2. Add the following line to your CMakeLists.txt (best inside an if-condition
|
||||||
|
# using a CMake option() to enable it just optionally):
|
||||||
|
# include(CodeCoverage)
|
||||||
|
#
|
||||||
|
# 3. Append necessary compiler flags for all supported source files:
|
||||||
|
# append_coverage_compiler_flags()
|
||||||
|
# Or for specific target:
|
||||||
|
# append_coverage_compiler_flags_to_target(YOUR_TARGET_NAME)
|
||||||
|
#
|
||||||
|
# 3.a (OPTIONAL) Set appropriate optimization flags, e.g. -O0, -O1 or -Og
|
||||||
|
#
|
||||||
|
# 4. If you need to exclude additional directories from the report, specify them
|
||||||
|
# using full paths in the COVERAGE_EXCLUDES variable before calling
|
||||||
|
# setup_target_for_coverage_*().
|
||||||
|
# Example:
|
||||||
|
# set(COVERAGE_EXCLUDES
|
||||||
|
# '${PROJECT_SOURCE_DIR}/src/dir1/*'
|
||||||
|
# '/path/to/my/src/dir2/*')
|
||||||
|
# Or, use the EXCLUDE argument to setup_target_for_coverage_*().
|
||||||
|
# Example:
|
||||||
|
# setup_target_for_coverage_lcov(
|
||||||
|
# NAME coverage
|
||||||
|
# EXECUTABLE testrunner
|
||||||
|
# EXCLUDE "${PROJECT_SOURCE_DIR}/src/dir1/*" "/path/to/my/src/dir2/*")
|
||||||
|
#
|
||||||
|
# 4.a NOTE: With CMake 3.4+, COVERAGE_EXCLUDES or EXCLUDE can also be set
|
||||||
|
# relative to the BASE_DIRECTORY (default: PROJECT_SOURCE_DIR)
|
||||||
|
# Example:
|
||||||
|
# set(COVERAGE_EXCLUDES "dir1/*")
|
||||||
|
# setup_target_for_coverage_gcovr_html(
|
||||||
|
# NAME coverage
|
||||||
|
# EXECUTABLE testrunner
|
||||||
|
# BASE_DIRECTORY "${PROJECT_SOURCE_DIR}/src"
|
||||||
|
# EXCLUDE "dir2/*")
|
||||||
|
#
|
||||||
|
# 5. Use the functions described below to create a custom make target which
|
||||||
|
# runs your test executable and produces a code coverage report.
|
||||||
|
#
|
||||||
|
# 6. Build a Debug build:
|
||||||
|
# cmake -DCMAKE_BUILD_TYPE=Debug ..
|
||||||
|
# make
|
||||||
|
# make my_coverage_target
|
||||||
|
#
|
||||||
|
|
||||||
|
include(CMakeParseArguments)
|
||||||
|
|
||||||
|
option(CODE_COVERAGE_VERBOSE "Verbose information" FALSE)
|
||||||
|
|
||||||
|
# Check prereqs
|
||||||
|
find_program( GCOV_PATH gcov )
|
||||||
|
find_program( LCOV_PATH NAMES lcov lcov.bat lcov.exe lcov.perl)
|
||||||
|
find_program( FASTCOV_PATH NAMES fastcov fastcov.py )
|
||||||
|
find_program( GENHTML_PATH NAMES genhtml genhtml.perl genhtml.bat )
|
||||||
|
find_program( GCOVR_PATH gcovr PATHS ${CMAKE_SOURCE_DIR}/scripts/test)
|
||||||
|
find_program( CPPFILT_PATH NAMES c++filt )
|
||||||
|
|
||||||
|
if(NOT GCOV_PATH)
|
||||||
|
message(FATAL_ERROR "gcov not found! Aborting...")
|
||||||
|
endif() # NOT GCOV_PATH
|
||||||
|
|
||||||
|
# Check supported compiler (Clang, GNU and Flang)
|
||||||
|
get_property(LANGUAGES GLOBAL PROPERTY ENABLED_LANGUAGES)
|
||||||
|
foreach(LANG ${LANGUAGES})
|
||||||
|
if("${CMAKE_${LANG}_COMPILER_ID}" MATCHES "(Apple)?[Cc]lang")
|
||||||
|
if("${CMAKE_${LANG}_COMPILER_VERSION}" VERSION_LESS 3)
|
||||||
|
message(FATAL_ERROR "Clang version must be 3.0.0 or greater! Aborting...")
|
||||||
|
endif()
|
||||||
|
elseif(NOT "${CMAKE_${LANG}_COMPILER_ID}" MATCHES "GNU"
|
||||||
|
AND NOT "${CMAKE_${LANG}_COMPILER_ID}" MATCHES "(LLVM)?[Ff]lang")
|
||||||
|
message(FATAL_ERROR "Compiler is not GNU or Flang! Aborting...")
|
||||||
|
endif()
|
||||||
|
endforeach()
|
||||||
|
|
||||||
|
set(COVERAGE_COMPILER_FLAGS "-g --coverage"
|
||||||
|
CACHE INTERNAL "")
|
||||||
|
if(CMAKE_CXX_COMPILER_ID MATCHES "(GNU|Clang)")
|
||||||
|
include(CheckCXXCompilerFlag)
|
||||||
|
check_cxx_compiler_flag(-fprofile-abs-path HAVE_fprofile_abs_path)
|
||||||
|
if(HAVE_fprofile_abs_path)
|
||||||
|
set(COVERAGE_COMPILER_FLAGS "${COVERAGE_COMPILER_FLAGS} -fprofile-abs-path")
|
||||||
|
endif()
|
||||||
|
endif()
|
||||||
|
|
||||||
|
set(CMAKE_Fortran_FLAGS_COVERAGE
|
||||||
|
${COVERAGE_COMPILER_FLAGS}
|
||||||
|
CACHE STRING "Flags used by the Fortran compiler during coverage builds."
|
||||||
|
FORCE )
|
||||||
|
set(CMAKE_CXX_FLAGS_COVERAGE
|
||||||
|
${COVERAGE_COMPILER_FLAGS}
|
||||||
|
CACHE STRING "Flags used by the C++ compiler during coverage builds."
|
||||||
|
FORCE )
|
||||||
|
set(CMAKE_C_FLAGS_COVERAGE
|
||||||
|
${COVERAGE_COMPILER_FLAGS}
|
||||||
|
CACHE STRING "Flags used by the C compiler during coverage builds."
|
||||||
|
FORCE )
|
||||||
|
set(CMAKE_EXE_LINKER_FLAGS_COVERAGE
|
||||||
|
""
|
||||||
|
CACHE STRING "Flags used for linking binaries during coverage builds."
|
||||||
|
FORCE )
|
||||||
|
set(CMAKE_SHARED_LINKER_FLAGS_COVERAGE
|
||||||
|
""
|
||||||
|
CACHE STRING "Flags used by the shared libraries linker during coverage builds."
|
||||||
|
FORCE )
|
||||||
|
mark_as_advanced(
|
||||||
|
CMAKE_Fortran_FLAGS_COVERAGE
|
||||||
|
CMAKE_CXX_FLAGS_COVERAGE
|
||||||
|
CMAKE_C_FLAGS_COVERAGE
|
||||||
|
CMAKE_EXE_LINKER_FLAGS_COVERAGE
|
||||||
|
CMAKE_SHARED_LINKER_FLAGS_COVERAGE )
|
||||||
|
|
||||||
|
get_property(GENERATOR_IS_MULTI_CONFIG GLOBAL PROPERTY GENERATOR_IS_MULTI_CONFIG)
|
||||||
|
if(NOT (CMAKE_BUILD_TYPE STREQUAL "Debug" OR GENERATOR_IS_MULTI_CONFIG))
|
||||||
|
message(WARNING "Code coverage results with an optimised (non-Debug) build may be misleading")
|
||||||
|
endif() # NOT (CMAKE_BUILD_TYPE STREQUAL "Debug" OR GENERATOR_IS_MULTI_CONFIG)
|
||||||
|
|
||||||
|
if(CMAKE_C_COMPILER_ID STREQUAL "GNU" OR CMAKE_Fortran_COMPILER_ID STREQUAL "GNU")
|
||||||
|
link_libraries(gcov)
|
||||||
|
endif()
|
||||||
|
|
||||||
|
# Defines a target for running and collection code coverage information
|
||||||
|
# Builds dependencies, runs the given executable and outputs reports.
|
||||||
|
# NOTE! The executable should always have a ZERO as exit code otherwise
|
||||||
|
# the coverage generation will not complete.
|
||||||
|
#
|
||||||
|
# setup_target_for_coverage_lcov(
|
||||||
|
# NAME testrunner_coverage # New target name
|
||||||
|
# EXECUTABLE testrunner -j ${PROCESSOR_COUNT} # Executable in PROJECT_BINARY_DIR
|
||||||
|
# DEPENDENCIES testrunner # Dependencies to build first
|
||||||
|
# BASE_DIRECTORY "../" # Base directory for report
|
||||||
|
# # (defaults to PROJECT_SOURCE_DIR)
|
||||||
|
# EXCLUDE "src/dir1/*" "src/dir2/*" # Patterns to exclude (can be relative
|
||||||
|
# # to BASE_DIRECTORY, with CMake 3.4+)
|
||||||
|
# NO_DEMANGLE # Don't demangle C++ symbols
|
||||||
|
# # even if c++filt is found
|
||||||
|
# )
|
||||||
|
function(setup_target_for_coverage_lcov)
|
||||||
|
|
||||||
|
set(options NO_DEMANGLE SONARQUBE)
|
||||||
|
set(oneValueArgs BASE_DIRECTORY NAME)
|
||||||
|
set(multiValueArgs EXCLUDE EXECUTABLE EXECUTABLE_ARGS DEPENDENCIES LCOV_ARGS GENHTML_ARGS)
|
||||||
|
cmake_parse_arguments(Coverage "${options}" "${oneValueArgs}" "${multiValueArgs}" ${ARGN})
|
||||||
|
|
||||||
|
if(NOT LCOV_PATH)
|
||||||
|
message(FATAL_ERROR "lcov not found! Aborting...")
|
||||||
|
endif() # NOT LCOV_PATH
|
||||||
|
|
||||||
|
if(NOT GENHTML_PATH)
|
||||||
|
message(FATAL_ERROR "genhtml not found! Aborting...")
|
||||||
|
endif() # NOT GENHTML_PATH
|
||||||
|
|
||||||
|
# Set base directory (as absolute path), or default to PROJECT_SOURCE_DIR
|
||||||
|
if(DEFINED Coverage_BASE_DIRECTORY)
|
||||||
|
get_filename_component(BASEDIR ${Coverage_BASE_DIRECTORY} ABSOLUTE)
|
||||||
|
else()
|
||||||
|
set(BASEDIR ${PROJECT_SOURCE_DIR})
|
||||||
|
endif()
|
||||||
|
|
||||||
|
# Collect excludes (CMake 3.4+: Also compute absolute paths)
|
||||||
|
set(LCOV_EXCLUDES "")
|
||||||
|
foreach(EXCLUDE ${Coverage_EXCLUDE} ${COVERAGE_EXCLUDES} ${COVERAGE_LCOV_EXCLUDES})
|
||||||
|
if(CMAKE_VERSION VERSION_GREATER 3.4)
|
||||||
|
get_filename_component(EXCLUDE ${EXCLUDE} ABSOLUTE BASE_DIR ${BASEDIR})
|
||||||
|
endif()
|
||||||
|
list(APPEND LCOV_EXCLUDES "${EXCLUDE}")
|
||||||
|
endforeach()
|
||||||
|
list(REMOVE_DUPLICATES LCOV_EXCLUDES)
|
||||||
|
|
||||||
|
# Conditional arguments
|
||||||
|
if(CPPFILT_PATH AND NOT ${Coverage_NO_DEMANGLE})
|
||||||
|
set(GENHTML_EXTRA_ARGS "--demangle-cpp")
|
||||||
|
endif()
|
||||||
|
|
||||||
|
# Setting up commands which will be run to generate coverage data.
|
||||||
|
# Cleanup lcov
|
||||||
|
set(LCOV_CLEAN_CMD
|
||||||
|
${LCOV_PATH} ${Coverage_LCOV_ARGS} --gcov-tool ${GCOV_PATH} -directory .
|
||||||
|
-b ${BASEDIR} --zerocounters
|
||||||
|
)
|
||||||
|
# Create baseline to make sure untouched files show up in the report
|
||||||
|
set(LCOV_BASELINE_CMD
|
||||||
|
${LCOV_PATH} ${Coverage_LCOV_ARGS} --gcov-tool ${GCOV_PATH} -c -i -d . -b
|
||||||
|
${BASEDIR} -o ${Coverage_NAME}.base
|
||||||
|
)
|
||||||
|
# Run tests
|
||||||
|
set(LCOV_EXEC_TESTS_CMD
|
||||||
|
${Coverage_EXECUTABLE} ${Coverage_EXECUTABLE_ARGS}
|
||||||
|
)
|
||||||
|
# Capturing lcov counters and generating report
|
||||||
|
set(LCOV_CAPTURE_CMD
|
||||||
|
${LCOV_PATH} ${Coverage_LCOV_ARGS} --gcov-tool ${GCOV_PATH} --directory . -b
|
||||||
|
${BASEDIR} --capture --output-file ${Coverage_NAME}.capture
|
||||||
|
)
|
||||||
|
# add baseline counters
|
||||||
|
set(LCOV_BASELINE_COUNT_CMD
|
||||||
|
${LCOV_PATH} ${Coverage_LCOV_ARGS} --gcov-tool ${GCOV_PATH} -a ${Coverage_NAME}.base
|
||||||
|
-a ${Coverage_NAME}.capture --output-file ${Coverage_NAME}.total
|
||||||
|
)
|
||||||
|
# filter collected data to final coverage report
|
||||||
|
set(LCOV_FILTER_CMD
|
||||||
|
${LCOV_PATH} ${Coverage_LCOV_ARGS} --gcov-tool ${GCOV_PATH} --remove
|
||||||
|
${Coverage_NAME}.total ${LCOV_EXCLUDES} --output-file ${Coverage_NAME}.info
|
||||||
|
)
|
||||||
|
# Generate HTML output
|
||||||
|
set(LCOV_GEN_HTML_CMD
|
||||||
|
${GENHTML_PATH} ${GENHTML_EXTRA_ARGS} ${Coverage_GENHTML_ARGS} -o
|
||||||
|
${Coverage_NAME} ${Coverage_NAME}.info
|
||||||
|
)
|
||||||
|
if(${Coverage_SONARQUBE})
|
||||||
|
# Generate SonarQube output
|
||||||
|
set(GCOVR_XML_CMD
|
||||||
|
${GCOVR_PATH} --sonarqube ${Coverage_NAME}_sonarqube.xml -r ${BASEDIR} ${GCOVR_ADDITIONAL_ARGS}
|
||||||
|
${GCOVR_EXCLUDE_ARGS} --object-directory=${PROJECT_BINARY_DIR}
|
||||||
|
)
|
||||||
|
set(GCOVR_XML_CMD_COMMAND
|
||||||
|
COMMAND ${GCOVR_XML_CMD}
|
||||||
|
)
|
||||||
|
set(GCOVR_XML_CMD_BYPRODUCTS ${Coverage_NAME}_sonarqube.xml)
|
||||||
|
set(GCOVR_XML_CMD_COMMENT COMMENT "SonarQube code coverage info report saved in ${Coverage_NAME}_sonarqube.xml.")
|
||||||
|
endif()
|
||||||
|
|
||||||
|
|
||||||
|
if(CODE_COVERAGE_VERBOSE)
|
||||||
|
message(STATUS "Executed command report")
|
||||||
|
message(STATUS "Command to clean up lcov: ")
|
||||||
|
string(REPLACE ";" " " LCOV_CLEAN_CMD_SPACED "${LCOV_CLEAN_CMD}")
|
||||||
|
message(STATUS "${LCOV_CLEAN_CMD_SPACED}")
|
||||||
|
|
||||||
|
message(STATUS "Command to create baseline: ")
|
||||||
|
string(REPLACE ";" " " LCOV_BASELINE_CMD_SPACED "${LCOV_BASELINE_CMD}")
|
||||||
|
message(STATUS "${LCOV_BASELINE_CMD_SPACED}")
|
||||||
|
|
||||||
|
message(STATUS "Command to run the tests: ")
|
||||||
|
string(REPLACE ";" " " LCOV_EXEC_TESTS_CMD_SPACED "${LCOV_EXEC_TESTS_CMD}")
|
||||||
|
message(STATUS "${LCOV_EXEC_TESTS_CMD_SPACED}")
|
||||||
|
|
||||||
|
message(STATUS "Command to capture counters and generate report: ")
|
||||||
|
string(REPLACE ";" " " LCOV_CAPTURE_CMD_SPACED "${LCOV_CAPTURE_CMD}")
|
||||||
|
message(STATUS "${LCOV_CAPTURE_CMD_SPACED}")
|
||||||
|
|
||||||
|
message(STATUS "Command to add baseline counters: ")
|
||||||
|
string(REPLACE ";" " " LCOV_BASELINE_COUNT_CMD_SPACED "${LCOV_BASELINE_COUNT_CMD}")
|
||||||
|
message(STATUS "${LCOV_BASELINE_COUNT_CMD_SPACED}")
|
||||||
|
|
||||||
|
message(STATUS "Command to filter collected data: ")
|
||||||
|
string(REPLACE ";" " " LCOV_FILTER_CMD_SPACED "${LCOV_FILTER_CMD}")
|
||||||
|
message(STATUS "${LCOV_FILTER_CMD_SPACED}")
|
||||||
|
|
||||||
|
message(STATUS "Command to generate lcov HTML output: ")
|
||||||
|
string(REPLACE ";" " " LCOV_GEN_HTML_CMD_SPACED "${LCOV_GEN_HTML_CMD}")
|
||||||
|
message(STATUS "${LCOV_GEN_HTML_CMD_SPACED}")
|
||||||
|
|
||||||
|
if(${Coverage_SONARQUBE})
|
||||||
|
message(STATUS "Command to generate SonarQube XML output: ")
|
||||||
|
string(REPLACE ";" " " GCOVR_XML_CMD_SPACED "${GCOVR_XML_CMD}")
|
||||||
|
message(STATUS "${GCOVR_XML_CMD_SPACED}")
|
||||||
|
endif()
|
||||||
|
endif()
|
||||||
|
|
||||||
|
# Setup target
|
||||||
|
add_custom_target(${Coverage_NAME}
|
||||||
|
COMMAND ${LCOV_CLEAN_CMD}
|
||||||
|
COMMAND ${LCOV_BASELINE_CMD}
|
||||||
|
COMMAND ${LCOV_EXEC_TESTS_CMD}
|
||||||
|
COMMAND ${LCOV_CAPTURE_CMD}
|
||||||
|
COMMAND ${LCOV_BASELINE_COUNT_CMD}
|
||||||
|
COMMAND ${LCOV_FILTER_CMD}
|
||||||
|
COMMAND ${LCOV_GEN_HTML_CMD}
|
||||||
|
${GCOVR_XML_CMD_COMMAND}
|
||||||
|
|
||||||
|
# Set output files as GENERATED (will be removed on 'make clean')
|
||||||
|
BYPRODUCTS
|
||||||
|
${Coverage_NAME}.base
|
||||||
|
${Coverage_NAME}.capture
|
||||||
|
${Coverage_NAME}.total
|
||||||
|
${Coverage_NAME}.info
|
||||||
|
${GCOVR_XML_CMD_BYPRODUCTS}
|
||||||
|
${Coverage_NAME}/index.html
|
||||||
|
WORKING_DIRECTORY ${PROJECT_BINARY_DIR}
|
||||||
|
DEPENDS ${Coverage_DEPENDENCIES}
|
||||||
|
VERBATIM # Protect arguments to commands
|
||||||
|
COMMENT "Resetting code coverage counters to zero.\nProcessing code coverage counters and generating report."
|
||||||
|
)
|
||||||
|
|
||||||
|
# Show where to find the lcov info report
|
||||||
|
add_custom_command(TARGET ${Coverage_NAME} POST_BUILD
|
||||||
|
COMMAND ;
|
||||||
|
COMMENT "Lcov code coverage info report saved in ${Coverage_NAME}.info."
|
||||||
|
${GCOVR_XML_CMD_COMMENT}
|
||||||
|
)
|
||||||
|
|
||||||
|
# Show info where to find the report
|
||||||
|
add_custom_command(TARGET ${Coverage_NAME} POST_BUILD
|
||||||
|
COMMAND ;
|
||||||
|
COMMENT "Open ./${Coverage_NAME}/index.html in your browser to view the coverage report."
|
||||||
|
)
|
||||||
|
|
||||||
|
endfunction() # setup_target_for_coverage_lcov
|
||||||
|
|
||||||
|
# Defines a target for running and collection code coverage information
|
||||||
|
# Builds dependencies, runs the given executable and outputs reports.
|
||||||
|
# NOTE! The executable should always have a ZERO as exit code otherwise
|
||||||
|
# the coverage generation will not complete.
|
||||||
|
#
|
||||||
|
# setup_target_for_coverage_gcovr_xml(
|
||||||
|
# NAME ctest_coverage # New target name
|
||||||
|
# EXECUTABLE ctest -j ${PROCESSOR_COUNT} # Executable in PROJECT_BINARY_DIR
|
||||||
|
# DEPENDENCIES executable_target # Dependencies to build first
|
||||||
|
# BASE_DIRECTORY "../" # Base directory for report
|
||||||
|
# # (defaults to PROJECT_SOURCE_DIR)
|
||||||
|
# EXCLUDE "src/dir1/*" "src/dir2/*" # Patterns to exclude (can be relative
|
||||||
|
# # to BASE_DIRECTORY, with CMake 3.4+)
|
||||||
|
# )
|
||||||
|
# The user can set the variable GCOVR_ADDITIONAL_ARGS to supply additional flags to the
|
||||||
|
# GCVOR command.
|
||||||
|
function(setup_target_for_coverage_gcovr_xml)
|
||||||
|
|
||||||
|
set(options NONE)
|
||||||
|
set(oneValueArgs BASE_DIRECTORY NAME)
|
||||||
|
set(multiValueArgs EXCLUDE EXECUTABLE EXECUTABLE_ARGS DEPENDENCIES)
|
||||||
|
cmake_parse_arguments(Coverage "${options}" "${oneValueArgs}" "${multiValueArgs}" ${ARGN})
|
||||||
|
|
||||||
|
if(NOT GCOVR_PATH)
|
||||||
|
message(FATAL_ERROR "gcovr not found! Aborting...")
|
||||||
|
endif() # NOT GCOVR_PATH
|
||||||
|
|
||||||
|
# Set base directory (as absolute path), or default to PROJECT_SOURCE_DIR
|
||||||
|
if(DEFINED Coverage_BASE_DIRECTORY)
|
||||||
|
get_filename_component(BASEDIR ${Coverage_BASE_DIRECTORY} ABSOLUTE)
|
||||||
|
else()
|
||||||
|
set(BASEDIR ${PROJECT_SOURCE_DIR})
|
||||||
|
endif()
|
||||||
|
|
||||||
|
# Collect excludes (CMake 3.4+: Also compute absolute paths)
|
||||||
|
set(GCOVR_EXCLUDES "")
|
||||||
|
foreach(EXCLUDE ${Coverage_EXCLUDE} ${COVERAGE_EXCLUDES} ${COVERAGE_GCOVR_EXCLUDES})
|
||||||
|
if(CMAKE_VERSION VERSION_GREATER 3.4)
|
||||||
|
get_filename_component(EXCLUDE ${EXCLUDE} ABSOLUTE BASE_DIR ${BASEDIR})
|
||||||
|
endif()
|
||||||
|
list(APPEND GCOVR_EXCLUDES "${EXCLUDE}")
|
||||||
|
endforeach()
|
||||||
|
list(REMOVE_DUPLICATES GCOVR_EXCLUDES)
|
||||||
|
|
||||||
|
# Combine excludes to several -e arguments
|
||||||
|
set(GCOVR_EXCLUDE_ARGS "")
|
||||||
|
foreach(EXCLUDE ${GCOVR_EXCLUDES})
|
||||||
|
list(APPEND GCOVR_EXCLUDE_ARGS "-e")
|
||||||
|
list(APPEND GCOVR_EXCLUDE_ARGS "${EXCLUDE}")
|
||||||
|
endforeach()
|
||||||
|
|
||||||
|
# Set up commands which will be run to generate coverage data
|
||||||
|
# Run tests
|
||||||
|
set(GCOVR_XML_EXEC_TESTS_CMD
|
||||||
|
${Coverage_EXECUTABLE} ${Coverage_EXECUTABLE_ARGS}
|
||||||
|
)
|
||||||
|
# Running gcovr
|
||||||
|
set(GCOVR_XML_CMD
|
||||||
|
${GCOVR_PATH} --xml ${Coverage_NAME}.xml -r ${BASEDIR} ${GCOVR_ADDITIONAL_ARGS}
|
||||||
|
${GCOVR_EXCLUDE_ARGS} --object-directory=${PROJECT_BINARY_DIR}
|
||||||
|
)
|
||||||
|
|
||||||
|
if(CODE_COVERAGE_VERBOSE)
|
||||||
|
message(STATUS "Executed command report")
|
||||||
|
|
||||||
|
message(STATUS "Command to run tests: ")
|
||||||
|
string(REPLACE ";" " " GCOVR_XML_EXEC_TESTS_CMD_SPACED "${GCOVR_XML_EXEC_TESTS_CMD}")
|
||||||
|
message(STATUS "${GCOVR_XML_EXEC_TESTS_CMD_SPACED}")
|
||||||
|
|
||||||
|
message(STATUS "Command to generate gcovr XML coverage data: ")
|
||||||
|
string(REPLACE ";" " " GCOVR_XML_CMD_SPACED "${GCOVR_XML_CMD}")
|
||||||
|
message(STATUS "${GCOVR_XML_CMD_SPACED}")
|
||||||
|
endif()
|
||||||
|
|
||||||
|
add_custom_target(${Coverage_NAME}
|
||||||
|
COMMAND ${GCOVR_XML_EXEC_TESTS_CMD}
|
||||||
|
COMMAND ${GCOVR_XML_CMD}
|
||||||
|
|
||||||
|
BYPRODUCTS ${Coverage_NAME}.xml
|
||||||
|
WORKING_DIRECTORY ${PROJECT_BINARY_DIR}
|
||||||
|
DEPENDS ${Coverage_DEPENDENCIES}
|
||||||
|
VERBATIM # Protect arguments to commands
|
||||||
|
COMMENT "Running gcovr to produce Cobertura code coverage report."
|
||||||
|
)
|
||||||
|
|
||||||
|
# Show info where to find the report
|
||||||
|
add_custom_command(TARGET ${Coverage_NAME} POST_BUILD
|
||||||
|
COMMAND ;
|
||||||
|
COMMENT "Cobertura code coverage report saved in ${Coverage_NAME}.xml."
|
||||||
|
)
|
||||||
|
endfunction() # setup_target_for_coverage_gcovr_xml
|
||||||
|
|
||||||
|
# Defines a target for running and collection code coverage information
|
||||||
|
# Builds dependencies, runs the given executable and outputs reports.
|
||||||
|
# NOTE! The executable should always have a ZERO as exit code otherwise
|
||||||
|
# the coverage generation will not complete.
|
||||||
|
#
|
||||||
|
# setup_target_for_coverage_gcovr_html(
|
||||||
|
# NAME ctest_coverage # New target name
|
||||||
|
# EXECUTABLE ctest -j ${PROCESSOR_COUNT} # Executable in PROJECT_BINARY_DIR
|
||||||
|
# DEPENDENCIES executable_target # Dependencies to build first
|
||||||
|
# BASE_DIRECTORY "../" # Base directory for report
|
||||||
|
# # (defaults to PROJECT_SOURCE_DIR)
|
||||||
|
# EXCLUDE "src/dir1/*" "src/dir2/*" # Patterns to exclude (can be relative
|
||||||
|
# # to BASE_DIRECTORY, with CMake 3.4+)
|
||||||
|
# )
|
||||||
|
# The user can set the variable GCOVR_ADDITIONAL_ARGS to supply additional flags to the
|
||||||
|
# GCVOR command.
|
||||||
|
function(setup_target_for_coverage_gcovr_html)
|
||||||
|
|
||||||
|
set(options NONE)
|
||||||
|
set(oneValueArgs BASE_DIRECTORY NAME)
|
||||||
|
set(multiValueArgs EXCLUDE EXECUTABLE EXECUTABLE_ARGS DEPENDENCIES)
|
||||||
|
cmake_parse_arguments(Coverage "${options}" "${oneValueArgs}" "${multiValueArgs}" ${ARGN})
|
||||||
|
|
||||||
|
if(NOT GCOVR_PATH)
|
||||||
|
message(FATAL_ERROR "gcovr not found! Aborting...")
|
||||||
|
endif() # NOT GCOVR_PATH
|
||||||
|
|
||||||
|
# Set base directory (as absolute path), or default to PROJECT_SOURCE_DIR
|
||||||
|
if(DEFINED Coverage_BASE_DIRECTORY)
|
||||||
|
get_filename_component(BASEDIR ${Coverage_BASE_DIRECTORY} ABSOLUTE)
|
||||||
|
else()
|
||||||
|
set(BASEDIR ${PROJECT_SOURCE_DIR})
|
||||||
|
endif()
|
||||||
|
|
||||||
|
# Collect excludes (CMake 3.4+: Also compute absolute paths)
|
||||||
|
set(GCOVR_EXCLUDES "")
|
||||||
|
foreach(EXCLUDE ${Coverage_EXCLUDE} ${COVERAGE_EXCLUDES} ${COVERAGE_GCOVR_EXCLUDES})
|
||||||
|
if(CMAKE_VERSION VERSION_GREATER 3.4)
|
||||||
|
get_filename_component(EXCLUDE ${EXCLUDE} ABSOLUTE BASE_DIR ${BASEDIR})
|
||||||
|
endif()
|
||||||
|
list(APPEND GCOVR_EXCLUDES "${EXCLUDE}")
|
||||||
|
endforeach()
|
||||||
|
list(REMOVE_DUPLICATES GCOVR_EXCLUDES)
|
||||||
|
|
||||||
|
# Combine excludes to several -e arguments
|
||||||
|
set(GCOVR_EXCLUDE_ARGS "")
|
||||||
|
foreach(EXCLUDE ${GCOVR_EXCLUDES})
|
||||||
|
list(APPEND GCOVR_EXCLUDE_ARGS "-e")
|
||||||
|
list(APPEND GCOVR_EXCLUDE_ARGS "${EXCLUDE}")
|
||||||
|
endforeach()
|
||||||
|
|
||||||
|
# Set up commands which will be run to generate coverage data
|
||||||
|
# Run tests
|
||||||
|
set(GCOVR_HTML_EXEC_TESTS_CMD
|
||||||
|
${Coverage_EXECUTABLE} ${Coverage_EXECUTABLE_ARGS}
|
||||||
|
)
|
||||||
|
# Create folder
|
||||||
|
set(GCOVR_HTML_FOLDER_CMD
|
||||||
|
${CMAKE_COMMAND} -E make_directory ${PROJECT_BINARY_DIR}/${Coverage_NAME}
|
||||||
|
)
|
||||||
|
# Running gcovr
|
||||||
|
set(GCOVR_HTML_CMD
|
||||||
|
${GCOVR_PATH} --html ${Coverage_NAME}/index.html --html-details -r ${BASEDIR} ${GCOVR_ADDITIONAL_ARGS}
|
||||||
|
${GCOVR_EXCLUDE_ARGS} --object-directory=${PROJECT_BINARY_DIR}
|
||||||
|
)
|
||||||
|
|
||||||
|
if(CODE_COVERAGE_VERBOSE)
|
||||||
|
message(STATUS "Executed command report")
|
||||||
|
|
||||||
|
message(STATUS "Command to run tests: ")
|
||||||
|
string(REPLACE ";" " " GCOVR_HTML_EXEC_TESTS_CMD_SPACED "${GCOVR_HTML_EXEC_TESTS_CMD}")
|
||||||
|
message(STATUS "${GCOVR_HTML_EXEC_TESTS_CMD_SPACED}")
|
||||||
|
|
||||||
|
message(STATUS "Command to create a folder: ")
|
||||||
|
string(REPLACE ";" " " GCOVR_HTML_FOLDER_CMD_SPACED "${GCOVR_HTML_FOLDER_CMD}")
|
||||||
|
message(STATUS "${GCOVR_HTML_FOLDER_CMD_SPACED}")
|
||||||
|
|
||||||
|
message(STATUS "Command to generate gcovr HTML coverage data: ")
|
||||||
|
string(REPLACE ";" " " GCOVR_HTML_CMD_SPACED "${GCOVR_HTML_CMD}")
|
||||||
|
message(STATUS "${GCOVR_HTML_CMD_SPACED}")
|
||||||
|
endif()
|
||||||
|
|
||||||
|
add_custom_target(${Coverage_NAME}
|
||||||
|
COMMAND ${GCOVR_HTML_EXEC_TESTS_CMD}
|
||||||
|
COMMAND ${GCOVR_HTML_FOLDER_CMD}
|
||||||
|
COMMAND ${GCOVR_HTML_CMD}
|
||||||
|
|
||||||
|
BYPRODUCTS ${PROJECT_BINARY_DIR}/${Coverage_NAME}/index.html # report directory
|
||||||
|
WORKING_DIRECTORY ${PROJECT_BINARY_DIR}
|
||||||
|
DEPENDS ${Coverage_DEPENDENCIES}
|
||||||
|
VERBATIM # Protect arguments to commands
|
||||||
|
COMMENT "Running gcovr to produce HTML code coverage report."
|
||||||
|
)
|
||||||
|
|
||||||
|
# Show info where to find the report
|
||||||
|
add_custom_command(TARGET ${Coverage_NAME} POST_BUILD
|
||||||
|
COMMAND ;
|
||||||
|
COMMENT "Open ./${Coverage_NAME}/index.html in your browser to view the coverage report."
|
||||||
|
)
|
||||||
|
|
||||||
|
endfunction() # setup_target_for_coverage_gcovr_html
|
||||||
|
|
||||||
|
# Defines a target for running and collection code coverage information
|
||||||
|
# Builds dependencies, runs the given executable and outputs reports.
|
||||||
|
# NOTE! The executable should always have a ZERO as exit code otherwise
|
||||||
|
# the coverage generation will not complete.
|
||||||
|
#
|
||||||
|
# setup_target_for_coverage_fastcov(
|
||||||
|
# NAME testrunner_coverage # New target name
|
||||||
|
# EXECUTABLE testrunner -j ${PROCESSOR_COUNT} # Executable in PROJECT_BINARY_DIR
|
||||||
|
# DEPENDENCIES testrunner # Dependencies to build first
|
||||||
|
# BASE_DIRECTORY "../" # Base directory for report
|
||||||
|
# # (defaults to PROJECT_SOURCE_DIR)
|
||||||
|
# EXCLUDE "src/dir1/" "src/dir2/" # Patterns to exclude.
|
||||||
|
# NO_DEMANGLE # Don't demangle C++ symbols
|
||||||
|
# # even if c++filt is found
|
||||||
|
# SKIP_HTML # Don't create html report
|
||||||
|
# POST_CMD perl -i -pe s!${PROJECT_SOURCE_DIR}/!!g ctest_coverage.json # E.g. for stripping source dir from file paths
|
||||||
|
# )
|
||||||
|
function(setup_target_for_coverage_fastcov)
|
||||||
|
|
||||||
|
set(options NO_DEMANGLE SKIP_HTML)
|
||||||
|
set(oneValueArgs BASE_DIRECTORY NAME)
|
||||||
|
set(multiValueArgs EXCLUDE EXECUTABLE EXECUTABLE_ARGS DEPENDENCIES FASTCOV_ARGS GENHTML_ARGS POST_CMD)
|
||||||
|
cmake_parse_arguments(Coverage "${options}" "${oneValueArgs}" "${multiValueArgs}" ${ARGN})
|
||||||
|
|
||||||
|
if(NOT FASTCOV_PATH)
|
||||||
|
message(FATAL_ERROR "fastcov not found! Aborting...")
|
||||||
|
endif()
|
||||||
|
|
||||||
|
if(NOT Coverage_SKIP_HTML AND NOT GENHTML_PATH)
|
||||||
|
message(FATAL_ERROR "genhtml not found! Aborting...")
|
||||||
|
endif()
|
||||||
|
|
||||||
|
# Set base directory (as absolute path), or default to PROJECT_SOURCE_DIR
|
||||||
|
if(Coverage_BASE_DIRECTORY)
|
||||||
|
get_filename_component(BASEDIR ${Coverage_BASE_DIRECTORY} ABSOLUTE)
|
||||||
|
else()
|
||||||
|
set(BASEDIR ${PROJECT_SOURCE_DIR})
|
||||||
|
endif()
|
||||||
|
|
||||||
|
# Collect excludes (Patterns, not paths, for fastcov)
|
||||||
|
set(FASTCOV_EXCLUDES "")
|
||||||
|
foreach(EXCLUDE ${Coverage_EXCLUDE} ${COVERAGE_EXCLUDES} ${COVERAGE_FASTCOV_EXCLUDES})
|
||||||
|
list(APPEND FASTCOV_EXCLUDES "${EXCLUDE}")
|
||||||
|
endforeach()
|
||||||
|
list(REMOVE_DUPLICATES FASTCOV_EXCLUDES)
|
||||||
|
|
||||||
|
# Conditional arguments
|
||||||
|
if(CPPFILT_PATH AND NOT ${Coverage_NO_DEMANGLE})
|
||||||
|
set(GENHTML_EXTRA_ARGS "--demangle-cpp")
|
||||||
|
endif()
|
||||||
|
|
||||||
|
# Set up commands which will be run to generate coverage data
|
||||||
|
set(FASTCOV_EXEC_TESTS_CMD ${Coverage_EXECUTABLE} ${Coverage_EXECUTABLE_ARGS})
|
||||||
|
|
||||||
|
set(FASTCOV_CAPTURE_CMD ${FASTCOV_PATH} ${Coverage_FASTCOV_ARGS} --gcov ${GCOV_PATH}
|
||||||
|
--search-directory ${BASEDIR}
|
||||||
|
--process-gcno
|
||||||
|
--output ${Coverage_NAME}.json
|
||||||
|
--exclude ${FASTCOV_EXCLUDES}
|
||||||
|
)
|
||||||
|
|
||||||
|
set(FASTCOV_CONVERT_CMD ${FASTCOV_PATH}
|
||||||
|
-C ${Coverage_NAME}.json --lcov --output ${Coverage_NAME}.info
|
||||||
|
)
|
||||||
|
|
||||||
|
if(Coverage_SKIP_HTML)
|
||||||
|
set(FASTCOV_HTML_CMD ";")
|
||||||
|
else()
|
||||||
|
set(FASTCOV_HTML_CMD ${GENHTML_PATH} ${GENHTML_EXTRA_ARGS} ${Coverage_GENHTML_ARGS}
|
||||||
|
-o ${Coverage_NAME} ${Coverage_NAME}.info
|
||||||
|
)
|
||||||
|
endif()
|
||||||
|
|
||||||
|
set(FASTCOV_POST_CMD ";")
|
||||||
|
if(Coverage_POST_CMD)
|
||||||
|
set(FASTCOV_POST_CMD ${Coverage_POST_CMD})
|
||||||
|
endif()
|
||||||
|
|
||||||
|
if(CODE_COVERAGE_VERBOSE)
|
||||||
|
message(STATUS "Code coverage commands for target ${Coverage_NAME} (fastcov):")
|
||||||
|
|
||||||
|
message(" Running tests:")
|
||||||
|
string(REPLACE ";" " " FASTCOV_EXEC_TESTS_CMD_SPACED "${FASTCOV_EXEC_TESTS_CMD}")
|
||||||
|
message(" ${FASTCOV_EXEC_TESTS_CMD_SPACED}")
|
||||||
|
|
||||||
|
message(" Capturing fastcov counters and generating report:")
|
||||||
|
string(REPLACE ";" " " FASTCOV_CAPTURE_CMD_SPACED "${FASTCOV_CAPTURE_CMD}")
|
||||||
|
message(" ${FASTCOV_CAPTURE_CMD_SPACED}")
|
||||||
|
|
||||||
|
message(" Converting fastcov .json to lcov .info:")
|
||||||
|
string(REPLACE ";" " " FASTCOV_CONVERT_CMD_SPACED "${FASTCOV_CONVERT_CMD}")
|
||||||
|
message(" ${FASTCOV_CONVERT_CMD_SPACED}")
|
||||||
|
|
||||||
|
if(NOT Coverage_SKIP_HTML)
|
||||||
|
message(" Generating HTML report: ")
|
||||||
|
string(REPLACE ";" " " FASTCOV_HTML_CMD_SPACED "${FASTCOV_HTML_CMD}")
|
||||||
|
message(" ${FASTCOV_HTML_CMD_SPACED}")
|
||||||
|
endif()
|
||||||
|
if(Coverage_POST_CMD)
|
||||||
|
message(" Running post command: ")
|
||||||
|
string(REPLACE ";" " " FASTCOV_POST_CMD_SPACED "${FASTCOV_POST_CMD}")
|
||||||
|
message(" ${FASTCOV_POST_CMD_SPACED}")
|
||||||
|
endif()
|
||||||
|
endif()
|
||||||
|
|
||||||
|
# Setup target
|
||||||
|
add_custom_target(${Coverage_NAME}
|
||||||
|
|
||||||
|
# Cleanup fastcov
|
||||||
|
COMMAND ${FASTCOV_PATH} ${Coverage_FASTCOV_ARGS} --gcov ${GCOV_PATH}
|
||||||
|
--search-directory ${BASEDIR}
|
||||||
|
--zerocounters
|
||||||
|
|
||||||
|
COMMAND ${FASTCOV_EXEC_TESTS_CMD}
|
||||||
|
COMMAND ${FASTCOV_CAPTURE_CMD}
|
||||||
|
COMMAND ${FASTCOV_CONVERT_CMD}
|
||||||
|
COMMAND ${FASTCOV_HTML_CMD}
|
||||||
|
COMMAND ${FASTCOV_POST_CMD}
|
||||||
|
|
||||||
|
# Set output files as GENERATED (will be removed on 'make clean')
|
||||||
|
BYPRODUCTS
|
||||||
|
${Coverage_NAME}.info
|
||||||
|
${Coverage_NAME}.json
|
||||||
|
${Coverage_NAME}/index.html # report directory
|
||||||
|
|
||||||
|
WORKING_DIRECTORY ${PROJECT_BINARY_DIR}
|
||||||
|
DEPENDS ${Coverage_DEPENDENCIES}
|
||||||
|
VERBATIM # Protect arguments to commands
|
||||||
|
COMMENT "Resetting code coverage counters to zero. Processing code coverage counters and generating report."
|
||||||
|
)
|
||||||
|
|
||||||
|
set(INFO_MSG "fastcov code coverage info report saved in ${Coverage_NAME}.info and ${Coverage_NAME}.json.")
|
||||||
|
if(NOT Coverage_SKIP_HTML)
|
||||||
|
string(APPEND INFO_MSG " Open ${PROJECT_BINARY_DIR}/${Coverage_NAME}/index.html in your browser to view the coverage report.")
|
||||||
|
endif()
|
||||||
|
# Show where to find the fastcov info report
|
||||||
|
add_custom_command(TARGET ${Coverage_NAME} POST_BUILD
|
||||||
|
COMMAND ${CMAKE_COMMAND} -E echo ${INFO_MSG}
|
||||||
|
)
|
||||||
|
|
||||||
|
endfunction() # setup_target_for_coverage_fastcov
|
||||||
|
|
||||||
|
function(append_coverage_compiler_flags)
|
||||||
|
set(CMAKE_C_FLAGS "${CMAKE_C_FLAGS} ${COVERAGE_COMPILER_FLAGS}" PARENT_SCOPE)
|
||||||
|
set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} ${COVERAGE_COMPILER_FLAGS}" PARENT_SCOPE)
|
||||||
|
set(CMAKE_Fortran_FLAGS "${CMAKE_Fortran_FLAGS} ${COVERAGE_COMPILER_FLAGS}" PARENT_SCOPE)
|
||||||
|
message(STATUS "Appending code coverage compiler flags: ${COVERAGE_COMPILER_FLAGS}")
|
||||||
|
endfunction() # append_coverage_compiler_flags
|
||||||
|
|
||||||
|
# Setup coverage for specific library
|
||||||
|
function(append_coverage_compiler_flags_to_target name)
|
||||||
|
separate_arguments(_flag_list NATIVE_COMMAND "${COVERAGE_COMPILER_FLAGS}")
|
||||||
|
target_compile_options(${name} PRIVATE ${_flag_list})
|
||||||
|
if(CMAKE_C_COMPILER_ID STREQUAL "GNU" OR CMAKE_Fortran_COMPILER_ID STREQUAL "GNU")
|
||||||
|
target_link_libraries(${name} PRIVATE gcov)
|
||||||
|
endif()
|
||||||
|
endfunction()
|
||||||
22
cmake/modules/StaticAnalyzers.cmake
Normal file
22
cmake/modules/StaticAnalyzers.cmake
Normal file
@@ -0,0 +1,22 @@
|
|||||||
|
if(ENABLE_CLANG_TIDY)
|
||||||
|
find_program(CLANG_TIDY_COMMAND NAMES clang-tidy)
|
||||||
|
|
||||||
|
if(NOT CLANG_TIDY_COMMAND)
|
||||||
|
message(WARNING "🔴 CMake_RUN_CLANG_TIDY is ON but clang-tidy is not found!")
|
||||||
|
set(CMAKE_CXX_CLANG_TIDY "" CACHE STRING "" FORCE)
|
||||||
|
else()
|
||||||
|
|
||||||
|
message(STATUS "🟢 CMake_RUN_CLANG_TIDY is ON")
|
||||||
|
set(CLANGTIDY_EXTRA_ARGS
|
||||||
|
"-extra-arg=-Wno-unknown-warning-option"
|
||||||
|
)
|
||||||
|
set(CMAKE_CXX_CLANG_TIDY "${CLANG_TIDY_COMMAND};-p=${CMAKE_BINARY_DIR};${CLANGTIDY_EXTRA_ARGS}" CACHE STRING "" FORCE)
|
||||||
|
|
||||||
|
add_custom_target(clang-tidy
|
||||||
|
COMMAND ${CMAKE_COMMAND} --build ${CMAKE_BINARY_DIR} --target ${CMAKE_PROJECT_NAME}
|
||||||
|
COMMAND ${CMAKE_COMMAND} --build ${CMAKE_BINARY_DIR} --target clang-tidy
|
||||||
|
COMMENT "Running clang-tidy..."
|
||||||
|
)
|
||||||
|
set(CMAKE_EXPORT_COMPILE_COMMANDS ON)
|
||||||
|
endif()
|
||||||
|
endif(ENABLE_CLANG_TIDY)
|
||||||
4
config/CMakeLists.txt
Normal file
4
config/CMakeLists.txt
Normal file
@@ -0,0 +1,4 @@
|
|||||||
|
configure_file(
|
||||||
|
"config.h.in"
|
||||||
|
"${CMAKE_BINARY_DIR}/configured_files/include/config.h" ESCAPE_QUOTES
|
||||||
|
)
|
||||||
14
config/config.h.in
Normal file
14
config/config.h.in
Normal file
@@ -0,0 +1,14 @@
|
|||||||
|
#pragma once
|
||||||
|
|
||||||
|
#include <string>
|
||||||
|
#include <string_view>
|
||||||
|
|
||||||
|
#define PROJECT_VERSION_MAJOR @PROJECT_VERSION_MAJOR @
|
||||||
|
#define PROJECT_VERSION_MINOR @PROJECT_VERSION_MINOR @
|
||||||
|
#define PROJECT_VERSION_PATCH @PROJECT_VERSION_PATCH @
|
||||||
|
|
||||||
|
static constexpr std::string_view project_name = "@PROJECT_NAME@";
|
||||||
|
static constexpr std::string_view project_version = "@PROJECT_VERSION@";
|
||||||
|
static constexpr std::string_view project_description = "@PROJECT_DESCRIPTION@";
|
||||||
|
static constexpr std::string_view git_sha = "@GIT_SHA@";
|
||||||
|
static constexpr std::string_view data_path = "@Folding_SOURCE_DIR@/tests/data/";
|
||||||
138
folding.hpp
Normal file
138
folding.hpp
Normal file
@@ -0,0 +1,138 @@
|
|||||||
|
#pragma once
|
||||||
|
#include <torch/torch.h>
|
||||||
|
#include <algorithm>
|
||||||
|
#include <map>
|
||||||
|
#include <random>
|
||||||
|
#include <vector>
|
||||||
|
namespace folding {
|
||||||
|
class Fold {
|
||||||
|
protected:
|
||||||
|
int k;
|
||||||
|
int n;
|
||||||
|
int seed;
|
||||||
|
std::default_random_engine random_seed;
|
||||||
|
public:
|
||||||
|
Fold(int k, int n, int seed = -1);
|
||||||
|
virtual std::pair<std::vector<int>, std::vector<int>> getFold(int nFold) = 0;
|
||||||
|
virtual ~Fold() = default;
|
||||||
|
int getNumberOfFolds() { return k; }
|
||||||
|
};
|
||||||
|
class KFold : public Fold {
|
||||||
|
private:
|
||||||
|
std::vector<int> indices;
|
||||||
|
public:
|
||||||
|
KFold(int k, int n, int seed = -1);
|
||||||
|
std::pair<std::vector<int>, std::vector<int>> getFold(int nFold) override;
|
||||||
|
};
|
||||||
|
class StratifiedKFold : public Fold {
|
||||||
|
private:
|
||||||
|
std::vector<int> y;
|
||||||
|
std::vector<std::vector<int>> stratified_indices;
|
||||||
|
void build();
|
||||||
|
bool faulty = false; // Only true if the number of samples of any class is less than the number of folds.
|
||||||
|
public:
|
||||||
|
StratifiedKFold(int k, const std::vector<int>& y, int seed = -1);
|
||||||
|
StratifiedKFold(int k, torch::Tensor& y, int seed = -1);
|
||||||
|
std::pair<std::vector<int>, std::vector<int>> getFold(int nFold) override;
|
||||||
|
bool isFaulty() { return faulty; }
|
||||||
|
};
|
||||||
|
Fold::Fold(int k, int n, int seed) : k(k), n(n), seed(seed)
|
||||||
|
{
|
||||||
|
std::random_device rd;
|
||||||
|
random_seed = std::default_random_engine(seed == -1 ? rd() : seed);
|
||||||
|
std::srand(seed == -1 ? time(0) : seed);
|
||||||
|
}
|
||||||
|
KFold::KFold(int k, int n, int seed) : Fold(k, n, seed), indices(std::vector<int>(n))
|
||||||
|
{
|
||||||
|
std::iota(begin(indices), end(indices), 0); // fill with 0, 1, ..., n - 1
|
||||||
|
shuffle(indices.begin(), indices.end(), random_seed);
|
||||||
|
}
|
||||||
|
std::pair<std::vector<int>, std::vector<int>> KFold::getFold(int nFold)
|
||||||
|
{
|
||||||
|
if (nFold >= k || nFold < 0) {
|
||||||
|
throw std::out_of_range("nFold (" + std::to_string(nFold) + ") must be less than k (" + std::to_string(k) + ")");
|
||||||
|
}
|
||||||
|
int nTest = n / k;
|
||||||
|
auto train = std::vector<int>();
|
||||||
|
auto test = std::vector<int>();
|
||||||
|
for (int i = 0; i < n; i++) {
|
||||||
|
if (i >= nTest * nFold && i < nTest * (nFold + 1)) {
|
||||||
|
test.push_back(indices[i]);
|
||||||
|
} else {
|
||||||
|
train.push_back(indices[i]);
|
||||||
|
}
|
||||||
|
}
|
||||||
|
return { train, test };
|
||||||
|
}
|
||||||
|
StratifiedKFold::StratifiedKFold(int k, torch::Tensor& y, int seed) : Fold(k, y.numel(), seed)
|
||||||
|
{
|
||||||
|
n = y.numel();
|
||||||
|
this->y = std::vector<int>(y.data_ptr<int>(), y.data_ptr<int>() + n);
|
||||||
|
build();
|
||||||
|
}
|
||||||
|
StratifiedKFold::StratifiedKFold(int k, const std::vector<int>& y, int seed)
|
||||||
|
: Fold(k, y.size(), seed)
|
||||||
|
{
|
||||||
|
this->y = y;
|
||||||
|
n = y.size();
|
||||||
|
build();
|
||||||
|
}
|
||||||
|
void StratifiedKFold::build()
|
||||||
|
{
|
||||||
|
stratified_indices = std::vector<std::vector<int>>(k);
|
||||||
|
int fold_size = n / k;
|
||||||
|
|
||||||
|
// Compute class counts and indices
|
||||||
|
auto class_indices = std::map<int, std::vector<int>>();
|
||||||
|
std::vector<int> class_counts(*max_element(y.begin(), y.end()) + 1, 0);
|
||||||
|
for (auto i = 0; i < n; ++i) {
|
||||||
|
class_counts[y[i]]++;
|
||||||
|
class_indices[y[i]].push_back(i);
|
||||||
|
}
|
||||||
|
// Shuffle class indices
|
||||||
|
for (auto& [cls, indices] : class_indices) {
|
||||||
|
shuffle(indices.begin(), indices.end(), random_seed);
|
||||||
|
}
|
||||||
|
// Assign indices to folds
|
||||||
|
for (auto label = 0; label < class_counts.size(); ++label) {
|
||||||
|
auto num_samples_to_take = class_counts.at(label) / k;
|
||||||
|
if (num_samples_to_take == 0) {
|
||||||
|
std::cerr << "Warning! The number of samples in class " << label << " (" << class_counts.at(label)
|
||||||
|
<< ") is less than the number of folds (" << k << ")." << std::endl;
|
||||||
|
faulty = true;
|
||||||
|
continue;
|
||||||
|
}
|
||||||
|
auto remainder_samples_to_take = class_counts[label] % k;
|
||||||
|
for (auto fold = 0; fold < k; ++fold) {
|
||||||
|
auto it = next(class_indices[label].begin(), num_samples_to_take);
|
||||||
|
move(class_indices[label].begin(), it, back_inserter(stratified_indices[fold])); // ##
|
||||||
|
class_indices[label].erase(class_indices[label].begin(), it);
|
||||||
|
}
|
||||||
|
auto chosen = std::vector<bool>(k, false);
|
||||||
|
while (remainder_samples_to_take > 0) {
|
||||||
|
int fold = (rand() % static_cast<int>(k));
|
||||||
|
if (chosen.at(fold)) {
|
||||||
|
continue;
|
||||||
|
}
|
||||||
|
chosen[fold] = true;
|
||||||
|
auto it = next(class_indices[label].begin(), 1);
|
||||||
|
stratified_indices[fold].push_back(*class_indices[label].begin());
|
||||||
|
class_indices[label].erase(class_indices[label].begin(), it);
|
||||||
|
remainder_samples_to_take--;
|
||||||
|
}
|
||||||
|
}
|
||||||
|
}
|
||||||
|
std::pair<std::vector<int>, std::vector<int>> StratifiedKFold::getFold(int nFold)
|
||||||
|
{
|
||||||
|
if (nFold >= k || nFold < 0) {
|
||||||
|
throw std::out_of_range("nFold (" + std::to_string(nFold) + ") must be less than k (" + std::to_string(k) + ")");
|
||||||
|
}
|
||||||
|
std::vector<int> test_indices = stratified_indices[nFold];
|
||||||
|
std::vector<int> train_indices;
|
||||||
|
for (int i = 0; i < k; ++i) {
|
||||||
|
if (i == nFold) continue;
|
||||||
|
train_indices.insert(train_indices.end(), stratified_indices[i].begin(), stratified_indices[i].end());
|
||||||
|
}
|
||||||
|
return { train_indices, test_indices };
|
||||||
|
}
|
||||||
|
}
|
||||||
4
gcovr.cfg
Normal file
4
gcovr.cfg
Normal file
@@ -0,0 +1,4 @@
|
|||||||
|
filter = src/
|
||||||
|
exclude-directories = build_debug/lib/
|
||||||
|
print-summary = yes
|
||||||
|
sort-percentage = yes
|
||||||
168
lib/Files/ArffFiles.cc
Normal file
168
lib/Files/ArffFiles.cc
Normal file
@@ -0,0 +1,168 @@
|
|||||||
|
#include "ArffFiles.h"
|
||||||
|
#include <fstream>
|
||||||
|
#include <sstream>
|
||||||
|
#include <map>
|
||||||
|
#include <iostream>
|
||||||
|
|
||||||
|
ArffFiles::ArffFiles() = default;
|
||||||
|
|
||||||
|
std::vector<std::string> ArffFiles::getLines() const
|
||||||
|
{
|
||||||
|
return lines;
|
||||||
|
}
|
||||||
|
|
||||||
|
unsigned long int ArffFiles::getSize() const
|
||||||
|
{
|
||||||
|
return lines.size();
|
||||||
|
}
|
||||||
|
|
||||||
|
std::vector<std::pair<std::string, std::string>> ArffFiles::getAttributes() const
|
||||||
|
{
|
||||||
|
return attributes;
|
||||||
|
}
|
||||||
|
|
||||||
|
std::string ArffFiles::getClassName() const
|
||||||
|
{
|
||||||
|
return className;
|
||||||
|
}
|
||||||
|
|
||||||
|
std::string ArffFiles::getClassType() const
|
||||||
|
{
|
||||||
|
return classType;
|
||||||
|
}
|
||||||
|
|
||||||
|
std::vector<std::vector<float>>& ArffFiles::getX()
|
||||||
|
{
|
||||||
|
return X;
|
||||||
|
}
|
||||||
|
|
||||||
|
std::vector<int>& ArffFiles::getY()
|
||||||
|
{
|
||||||
|
return y;
|
||||||
|
}
|
||||||
|
|
||||||
|
void ArffFiles::loadCommon(std::string fileName)
|
||||||
|
{
|
||||||
|
std::ifstream file(fileName);
|
||||||
|
if (!file.is_open()) {
|
||||||
|
throw std::invalid_argument("Unable to open file");
|
||||||
|
}
|
||||||
|
std::string line;
|
||||||
|
std::string keyword;
|
||||||
|
std::string attribute;
|
||||||
|
std::string type;
|
||||||
|
std::string type_w;
|
||||||
|
while (getline(file, line)) {
|
||||||
|
if (line.empty() || line[0] == '%' || line == "\r" || line == " ") {
|
||||||
|
continue;
|
||||||
|
}
|
||||||
|
if (line.find("@attribute") != std::string::npos || line.find("@ATTRIBUTE") != std::string::npos) {
|
||||||
|
std::stringstream ss(line);
|
||||||
|
ss >> keyword >> attribute;
|
||||||
|
type = "";
|
||||||
|
while (ss >> type_w)
|
||||||
|
type += type_w + " ";
|
||||||
|
attributes.emplace_back(trim(attribute), trim(type));
|
||||||
|
continue;
|
||||||
|
}
|
||||||
|
if (line[0] == '@') {
|
||||||
|
continue;
|
||||||
|
}
|
||||||
|
lines.push_back(line);
|
||||||
|
}
|
||||||
|
file.close();
|
||||||
|
if (attributes.empty())
|
||||||
|
throw std::invalid_argument("No attributes found");
|
||||||
|
}
|
||||||
|
|
||||||
|
void ArffFiles::load(const std::string& fileName, bool classLast)
|
||||||
|
{
|
||||||
|
int labelIndex;
|
||||||
|
loadCommon(fileName);
|
||||||
|
if (classLast) {
|
||||||
|
className = std::get<0>(attributes.back());
|
||||||
|
classType = std::get<1>(attributes.back());
|
||||||
|
attributes.pop_back();
|
||||||
|
labelIndex = static_cast<int>(attributes.size());
|
||||||
|
} else {
|
||||||
|
className = std::get<0>(attributes.front());
|
||||||
|
classType = std::get<1>(attributes.front());
|
||||||
|
attributes.erase(attributes.begin());
|
||||||
|
labelIndex = 0;
|
||||||
|
}
|
||||||
|
generateDataset(labelIndex);
|
||||||
|
}
|
||||||
|
void ArffFiles::load(const std::string& fileName, const std::string& name)
|
||||||
|
{
|
||||||
|
int labelIndex;
|
||||||
|
loadCommon(fileName);
|
||||||
|
bool found = false;
|
||||||
|
for (int i = 0; i < attributes.size(); ++i) {
|
||||||
|
if (attributes[i].first == name) {
|
||||||
|
className = std::get<0>(attributes[i]);
|
||||||
|
classType = std::get<1>(attributes[i]);
|
||||||
|
attributes.erase(attributes.begin() + i);
|
||||||
|
labelIndex = i;
|
||||||
|
found = true;
|
||||||
|
break;
|
||||||
|
}
|
||||||
|
}
|
||||||
|
if (!found) {
|
||||||
|
throw std::invalid_argument("Class name not found");
|
||||||
|
}
|
||||||
|
generateDataset(labelIndex);
|
||||||
|
}
|
||||||
|
|
||||||
|
void ArffFiles::generateDataset(int labelIndex)
|
||||||
|
{
|
||||||
|
X = std::vector<std::vector<float>>(attributes.size(), std::vector<float>(lines.size()));
|
||||||
|
auto yy = std::vector<std::string>(lines.size(), "");
|
||||||
|
auto removeLines = std::vector<int>(); // Lines with missing values
|
||||||
|
for (size_t i = 0; i < lines.size(); i++) {
|
||||||
|
std::stringstream ss(lines[i]);
|
||||||
|
std::string value;
|
||||||
|
int pos = 0;
|
||||||
|
int xIndex = 0;
|
||||||
|
while (getline(ss, value, ',')) {
|
||||||
|
if (pos++ == labelIndex) {
|
||||||
|
yy[i] = value;
|
||||||
|
} else {
|
||||||
|
if (value == "?") {
|
||||||
|
X[xIndex++][i] = -1;
|
||||||
|
removeLines.push_back(i);
|
||||||
|
} else
|
||||||
|
X[xIndex++][i] = stof(value);
|
||||||
|
}
|
||||||
|
}
|
||||||
|
}
|
||||||
|
for (auto i : removeLines) {
|
||||||
|
yy.erase(yy.begin() + i);
|
||||||
|
for (auto& x : X) {
|
||||||
|
x.erase(x.begin() + i);
|
||||||
|
}
|
||||||
|
}
|
||||||
|
y = factorize(yy);
|
||||||
|
}
|
||||||
|
|
||||||
|
std::string ArffFiles::trim(const std::string& source)
|
||||||
|
{
|
||||||
|
std::string s(source);
|
||||||
|
s.erase(0, s.find_first_not_of(" '\n\r\t"));
|
||||||
|
s.erase(s.find_last_not_of(" '\n\r\t") + 1);
|
||||||
|
return s;
|
||||||
|
}
|
||||||
|
|
||||||
|
std::vector<int> ArffFiles::factorize(const std::vector<std::string>& labels_t)
|
||||||
|
{
|
||||||
|
std::vector<int> yy;
|
||||||
|
yy.reserve(labels_t.size());
|
||||||
|
std::map<std::string, int> labelMap;
|
||||||
|
int i = 0;
|
||||||
|
for (const std::string& label : labels_t) {
|
||||||
|
if (labelMap.find(label) == labelMap.end()) {
|
||||||
|
labelMap[label] = i++;
|
||||||
|
}
|
||||||
|
yy.push_back(labelMap[label]);
|
||||||
|
}
|
||||||
|
return yy;
|
||||||
|
}
|
||||||
32
lib/Files/ArffFiles.h
Normal file
32
lib/Files/ArffFiles.h
Normal file
@@ -0,0 +1,32 @@
|
|||||||
|
#ifndef ARFFFILES_H
|
||||||
|
#define ARFFFILES_H
|
||||||
|
|
||||||
|
#include <string>
|
||||||
|
#include <vector>
|
||||||
|
|
||||||
|
class ArffFiles {
|
||||||
|
private:
|
||||||
|
std::vector<std::string> lines;
|
||||||
|
std::vector<std::pair<std::string, std::string>> attributes;
|
||||||
|
std::string className;
|
||||||
|
std::string classType;
|
||||||
|
std::vector<std::vector<float>> X;
|
||||||
|
std::vector<int> y;
|
||||||
|
void generateDataset(int);
|
||||||
|
void loadCommon(std::string);
|
||||||
|
public:
|
||||||
|
ArffFiles();
|
||||||
|
void load(const std::string&, bool = true);
|
||||||
|
void load(const std::string&, const std::string&);
|
||||||
|
std::vector<std::string> getLines() const;
|
||||||
|
unsigned long int getSize() const;
|
||||||
|
std::string getClassName() const;
|
||||||
|
std::string getClassType() const;
|
||||||
|
static std::string trim(const std::string&);
|
||||||
|
std::vector<std::vector<float>>& getX();
|
||||||
|
std::vector<int>& getY();
|
||||||
|
std::vector<std::pair<std::string, std::string>> getAttributes() const;
|
||||||
|
static std::vector<int> factorize(const std::vector<std::string>& labels_t);
|
||||||
|
};
|
||||||
|
|
||||||
|
#endif
|
||||||
1
lib/Files/CMakeLists.txt
Normal file
1
lib/Files/CMakeLists.txt
Normal file
@@ -0,0 +1 @@
|
|||||||
|
add_library(ArffFiles ArffFiles.cc)
|
||||||
1
lib/catch2
Submodule
1
lib/catch2
Submodule
Submodule lib/catch2 added at 863c662c0e
1
lib/mdlp
Submodule
1
lib/mdlp
Submodule
Submodule lib/mdlp added at 5708dc3de9
12
tests/CMakeLists.txt
Normal file
12
tests/CMakeLists.txt
Normal file
@@ -0,0 +1,12 @@
|
|||||||
|
if(ENABLE_TESTING)
|
||||||
|
include_directories(
|
||||||
|
${Folding_SOURCE_DIR}
|
||||||
|
${Folding_SOURCE_DIR}/lib/Files
|
||||||
|
${Folding_SOURCE_DIR}/lib/mdlp
|
||||||
|
${CMAKE_BINARY_DIR}/configured_files/include
|
||||||
|
)
|
||||||
|
set(TEST_FOLDING "unit_tests_folding")
|
||||||
|
add_executable(${TEST_FOLDING} TestFolding.cc TestUtils.cc)
|
||||||
|
target_link_libraries(${TEST_FOLDING} PUBLIC "${TORCH_LIBRARIES}" ArffFiles mdlp Catch2::Catch2WithMain)
|
||||||
|
add_test(NAME ${TEST_FOLDING} COMMAND ${TEST_FOLDING})
|
||||||
|
endif(ENABLE_TESTING)
|
||||||
95
tests/TestFolding.cc
Normal file
95
tests/TestFolding.cc
Normal file
@@ -0,0 +1,95 @@
|
|||||||
|
#include <catch2/catch_test_macros.hpp>
|
||||||
|
#include <catch2/catch_approx.hpp>
|
||||||
|
#include <catch2/generators/catch_generators.hpp>
|
||||||
|
#include "TestUtils.h"
|
||||||
|
#include "folding.hpp"
|
||||||
|
|
||||||
|
TEST_CASE("KFold Test", "[Platform][KFold]")
|
||||||
|
{
|
||||||
|
// Initialize a KFold object with k=5 and a seed of 19.
|
||||||
|
std::string file_name = GENERATE("iris", "diabetes");
|
||||||
|
auto raw = RawDatasets(file_name, true);
|
||||||
|
int nFolds = 5;
|
||||||
|
folding::KFold kfold(nFolds, raw.nSamples, 19);
|
||||||
|
int number = raw.nSamples * (kfold.getNumberOfFolds() - 1) / kfold.getNumberOfFolds();
|
||||||
|
|
||||||
|
SECTION("Number of Folds")
|
||||||
|
{
|
||||||
|
REQUIRE(kfold.getNumberOfFolds() == nFolds);
|
||||||
|
}
|
||||||
|
SECTION("Fold Test")
|
||||||
|
{
|
||||||
|
// Test each fold's size and contents.
|
||||||
|
for (int i = 0; i < nFolds; ++i) {
|
||||||
|
auto [train_indices, test_indices] = kfold.getFold(i);
|
||||||
|
bool result = train_indices.size() == number || train_indices.size() == number + 1;
|
||||||
|
REQUIRE(result);
|
||||||
|
REQUIRE(train_indices.size() + test_indices.size() == raw.nSamples);
|
||||||
|
}
|
||||||
|
}
|
||||||
|
}
|
||||||
|
|
||||||
|
map<int, int> counts(std::vector<int> y, std::vector<int> indices)
|
||||||
|
{
|
||||||
|
map<int, int> result;
|
||||||
|
for (auto i = 0; i < indices.size(); ++i) {
|
||||||
|
result[y[indices[i]]]++;
|
||||||
|
}
|
||||||
|
return result;
|
||||||
|
}
|
||||||
|
|
||||||
|
TEST_CASE("StratifiedKFold Test", "[Platform][StratifiedKFold]")
|
||||||
|
{
|
||||||
|
// Initialize a StratifiedKFold object with k=3, using the y std::vector, and a seed of 17.
|
||||||
|
std::string file_name = GENERATE("iris", "diabetes");
|
||||||
|
int nFolds = GENERATE(3, 5, 10);
|
||||||
|
auto raw = RawDatasets(file_name, true);
|
||||||
|
folding::StratifiedKFold stratified_kfoldt(nFolds, raw.yt, 17);
|
||||||
|
folding::StratifiedKFold stratified_kfoldv(nFolds, raw.yv, 17);
|
||||||
|
int number = raw.nSamples * (stratified_kfoldt.getNumberOfFolds() - 1) / stratified_kfoldt.getNumberOfFolds();
|
||||||
|
|
||||||
|
SECTION("Stratified Number of Folds")
|
||||||
|
{
|
||||||
|
REQUIRE(stratified_kfoldt.getNumberOfFolds() == nFolds);
|
||||||
|
}
|
||||||
|
SECTION("Stratified Fold Test")
|
||||||
|
{
|
||||||
|
// Test each fold's size and contents.
|
||||||
|
auto counts = map<int, std::vector<int>>();
|
||||||
|
// Initialize the counts per Fold
|
||||||
|
for (int i = 0; i < nFolds; ++i) {
|
||||||
|
counts[i] = std::vector<int>(raw.classNumStates, 0);
|
||||||
|
}
|
||||||
|
// Check fold and compute counts of each fold
|
||||||
|
for (int fold = 0; fold < nFolds; ++fold) {
|
||||||
|
auto [train_indicest, test_indicest] = stratified_kfoldt.getFold(fold);
|
||||||
|
auto [train_indicesv, test_indicesv] = stratified_kfoldv.getFold(fold);
|
||||||
|
REQUIRE(train_indicest == train_indicesv);
|
||||||
|
REQUIRE(test_indicest == test_indicesv);
|
||||||
|
// In the worst case scenario, the number of samples in the training set is number + raw.classNumStates
|
||||||
|
// because in that fold can come one remainder sample from each class.
|
||||||
|
REQUIRE(train_indicest.size() <= number + raw.classNumStates);
|
||||||
|
// If the number of samples in any class is less than the number of folds, then the fold is faulty.
|
||||||
|
// and the number of samples in the training set + test set will be less than nSamples
|
||||||
|
if (!stratified_kfoldt.isFaulty()) {
|
||||||
|
REQUIRE(train_indicest.size() + test_indicest.size() == raw.nSamples);
|
||||||
|
} else {
|
||||||
|
REQUIRE(train_indicest.size() + test_indicest.size() <= raw.nSamples);
|
||||||
|
}
|
||||||
|
auto train_t = torch::tensor(train_indicest);
|
||||||
|
auto ytrain = raw.yt.index({ train_t });
|
||||||
|
// Check that the class labels have been equally assign to each fold
|
||||||
|
for (const auto& idx : train_indicest) {
|
||||||
|
counts[fold][raw.yt[idx].item<int>()]++;
|
||||||
|
}
|
||||||
|
}
|
||||||
|
// Test the fold counting of every class
|
||||||
|
for (int fold = 0; fold < nFolds; ++fold) {
|
||||||
|
for (int j = 1; j < nFolds - 1; ++j) {
|
||||||
|
for (int k = 0; k < raw.classNumStates; ++k) {
|
||||||
|
REQUIRE(abs(counts.at(fold).at(k) - counts.at(j).at(k)) <= 1);
|
||||||
|
}
|
||||||
|
}
|
||||||
|
}
|
||||||
|
}
|
||||||
|
}
|
||||||
105
tests/TestUtils.cc
Normal file
105
tests/TestUtils.cc
Normal file
@@ -0,0 +1,105 @@
|
|||||||
|
#include "TestUtils.h"
|
||||||
|
#include "config.h"
|
||||||
|
|
||||||
|
class Paths {
|
||||||
|
public:
|
||||||
|
static std::string datasets()
|
||||||
|
{
|
||||||
|
return { data_path.begin(), data_path.end() };
|
||||||
|
}
|
||||||
|
};
|
||||||
|
|
||||||
|
pair<std::vector<mdlp::labels_t>, map<std::string, int>> discretize(std::vector<mdlp::samples_t>& X, mdlp::labels_t& y, std::vector<std::string> features)
|
||||||
|
{
|
||||||
|
std::vector<mdlp::labels_t> Xd;
|
||||||
|
map<std::string, int> maxes;
|
||||||
|
auto fimdlp = mdlp::CPPFImdlp();
|
||||||
|
for (int i = 0; i < X.size(); i++) {
|
||||||
|
fimdlp.fit(X[i], y);
|
||||||
|
mdlp::labels_t& xd = fimdlp.transform(X[i]);
|
||||||
|
maxes[features[i]] = *max_element(xd.begin(), xd.end()) + 1;
|
||||||
|
Xd.push_back(xd);
|
||||||
|
}
|
||||||
|
return { Xd, maxes };
|
||||||
|
}
|
||||||
|
|
||||||
|
std::vector<mdlp::labels_t> discretizeDataset(std::vector<mdlp::samples_t>& X, mdlp::labels_t& y)
|
||||||
|
{
|
||||||
|
std::vector<mdlp::labels_t> Xd;
|
||||||
|
auto fimdlp = mdlp::CPPFImdlp();
|
||||||
|
for (int i = 0; i < X.size(); i++) {
|
||||||
|
fimdlp.fit(X[i], y);
|
||||||
|
mdlp::labels_t& xd = fimdlp.transform(X[i]);
|
||||||
|
Xd.push_back(xd);
|
||||||
|
}
|
||||||
|
return Xd;
|
||||||
|
}
|
||||||
|
|
||||||
|
bool file_exists(const std::string& name)
|
||||||
|
{
|
||||||
|
if (FILE* file = fopen(name.c_str(), "r")) {
|
||||||
|
fclose(file);
|
||||||
|
return true;
|
||||||
|
} else {
|
||||||
|
return false;
|
||||||
|
}
|
||||||
|
}
|
||||||
|
|
||||||
|
tuple<torch::Tensor, torch::Tensor, std::vector<std::string>, std::string, map<std::string, std::vector<int>>> loadDataset(const std::string& name, bool class_last, bool discretize_dataset)
|
||||||
|
{
|
||||||
|
auto handler = ArffFiles();
|
||||||
|
handler.load(Paths::datasets() + static_cast<std::string>(name) + ".arff", class_last);
|
||||||
|
// Get Dataset X, y
|
||||||
|
std::vector<mdlp::samples_t>& X = handler.getX();
|
||||||
|
mdlp::labels_t& y = handler.getY();
|
||||||
|
// Get className & Features
|
||||||
|
auto className = handler.getClassName();
|
||||||
|
std::vector<std::string> features;
|
||||||
|
auto attributes = handler.getAttributes();
|
||||||
|
transform(attributes.begin(), attributes.end(), back_inserter(features), [](const auto& pair) { return pair.first; });
|
||||||
|
torch::Tensor Xd;
|
||||||
|
auto states = map<std::string, std::vector<int>>();
|
||||||
|
if (discretize_dataset) {
|
||||||
|
auto Xr = discretizeDataset(X, y);
|
||||||
|
Xd = torch::zeros({ static_cast<int>(Xr.size()), static_cast<int>(Xr[0].size()) }, torch::kInt32);
|
||||||
|
for (int i = 0; i < features.size(); ++i) {
|
||||||
|
states[features[i]] = std::vector<int>(*max_element(Xr[i].begin(), Xr[i].end()) + 1);
|
||||||
|
auto item = states.at(features[i]);
|
||||||
|
iota(begin(item), end(item), 0);
|
||||||
|
Xd.index_put_({ i, "..." }, torch::tensor(Xr[i], torch::kInt32));
|
||||||
|
}
|
||||||
|
states[className] = std::vector<int>(*max_element(y.begin(), y.end()) + 1);
|
||||||
|
iota(begin(states.at(className)), end(states.at(className)), 0);
|
||||||
|
} else {
|
||||||
|
Xd = torch::zeros({ static_cast<int>(X.size()), static_cast<int>(X[0].size()) }, torch::kFloat32);
|
||||||
|
for (int i = 0; i < features.size(); ++i) {
|
||||||
|
Xd.index_put_({ i, "..." }, torch::tensor(X[i]));
|
||||||
|
}
|
||||||
|
}
|
||||||
|
return { Xd, torch::tensor(y, torch::kInt32), features, className, states };
|
||||||
|
}
|
||||||
|
|
||||||
|
tuple<std::vector<std::vector<int>>, std::vector<int>, std::vector<std::string>, std::string, map<std::string, std::vector<int>>> loadFile(const std::string& name)
|
||||||
|
{
|
||||||
|
auto handler = ArffFiles();
|
||||||
|
handler.load(Paths::datasets() + static_cast<std::string>(name) + ".arff");
|
||||||
|
// Get Dataset X, y
|
||||||
|
std::vector<mdlp::samples_t>& X = handler.getX();
|
||||||
|
mdlp::labels_t& y = handler.getY();
|
||||||
|
// Get className & Features
|
||||||
|
auto className = handler.getClassName();
|
||||||
|
std::vector<std::string> features;
|
||||||
|
auto attributes = handler.getAttributes();
|
||||||
|
transform(attributes.begin(), attributes.end(), back_inserter(features), [](const auto& pair) { return pair.first; });
|
||||||
|
// Discretize Dataset
|
||||||
|
std::vector<mdlp::labels_t> Xd;
|
||||||
|
map<std::string, int> maxes;
|
||||||
|
tie(Xd, maxes) = discretize(X, y, features);
|
||||||
|
maxes[className] = *max_element(y.begin(), y.end()) + 1;
|
||||||
|
map<std::string, std::vector<int>> states;
|
||||||
|
for (auto feature : features) {
|
||||||
|
states[feature] = std::vector<int>(maxes[feature]);
|
||||||
|
}
|
||||||
|
states[className] = std::vector<int>(maxes[className]);
|
||||||
|
return { Xd, y, features, className, states };
|
||||||
|
}
|
||||||
43
tests/TestUtils.h
Normal file
43
tests/TestUtils.h
Normal file
@@ -0,0 +1,43 @@
|
|||||||
|
#ifndef TEST_UTILS_H
|
||||||
|
#define TEST_UTILS_H
|
||||||
|
#include <torch/torch.h>
|
||||||
|
#include <string>
|
||||||
|
#include <vector>
|
||||||
|
#include <map>
|
||||||
|
#include <tuple>
|
||||||
|
#include "ArffFiles.h"
|
||||||
|
#include "CPPFImdlp.h"
|
||||||
|
|
||||||
|
bool file_exists(const std::string& name);
|
||||||
|
std::pair<vector<mdlp::labels_t>, map<std::string, int>> discretize(std::vector<mdlp::samples_t>& X, mdlp::labels_t& y, std::vector<string> features);
|
||||||
|
std::vector<mdlp::labels_t> discretizeDataset(std::vector<mdlp::samples_t>& X, mdlp::labels_t& y);
|
||||||
|
std::tuple<vector<vector<int>>, std::vector<int>, std::vector<string>, std::string, map<std::string, std::vector<int>>> loadFile(const std::string& name);
|
||||||
|
std::tuple<torch::Tensor, torch::Tensor, std::vector<string>, std::string, map<std::string, std::vector<int>>> loadDataset(const std::string& name, bool class_last, bool discretize_dataset);
|
||||||
|
|
||||||
|
class RawDatasets {
|
||||||
|
public:
|
||||||
|
RawDatasets(const std::string& file_name, bool discretize)
|
||||||
|
{
|
||||||
|
// Xt can be either discretized or not
|
||||||
|
tie(Xt, yt, featurest, classNamet, statest) = loadDataset(file_name, true, discretize);
|
||||||
|
// Xv is always discretized
|
||||||
|
tie(Xv, yv, featuresv, classNamev, statesv) = loadFile(file_name);
|
||||||
|
auto yresized = torch::transpose(yt.view({ yt.size(0), 1 }), 0, 1);
|
||||||
|
dataset = torch::cat({ Xt, yresized }, 0);
|
||||||
|
nSamples = dataset.size(1);
|
||||||
|
weights = torch::full({ nSamples }, 1.0 / nSamples, torch::kDouble);
|
||||||
|
weightsv = std::vector<double>(nSamples, 1.0 / nSamples);
|
||||||
|
classNumStates = discretize ? statest.at(classNamet).size() : 0;
|
||||||
|
}
|
||||||
|
torch::Tensor Xt, yt, dataset, weights;
|
||||||
|
std::vector<vector<int>> Xv;
|
||||||
|
std::vector<double> weightsv;
|
||||||
|
std::vector<int> yv;
|
||||||
|
std::vector<string> featurest, featuresv;
|
||||||
|
map<std::string, std::vector<int>> statest, statesv;
|
||||||
|
std::string classNamet, classNamev;
|
||||||
|
int nSamples, classNumStates;
|
||||||
|
double epsilon = 1e-5;
|
||||||
|
};
|
||||||
|
|
||||||
|
#endif //TEST_UTILS_H
|
||||||
863
tests/data/diabetes.arff
Executable file
863
tests/data/diabetes.arff
Executable file
@@ -0,0 +1,863 @@
|
|||||||
|
% 1. Title: Pima Indians Diabetes Database
|
||||||
|
%
|
||||||
|
% 2. Sources:
|
||||||
|
% (a) Original owners: National Institute of Diabetes and Digestive and
|
||||||
|
% Kidney Diseases
|
||||||
|
% (b) Donor of database: Vincent Sigillito (vgs@aplcen.apl.jhu.edu)
|
||||||
|
% Research Center, RMI Group Leader
|
||||||
|
% Applied Physics Laboratory
|
||||||
|
% The Johns Hopkins University
|
||||||
|
% Johns Hopkins Road
|
||||||
|
% Laurel, MD 20707
|
||||||
|
% (301) 953-6231
|
||||||
|
% (c) Date received: 9 May 1990
|
||||||
|
%
|
||||||
|
% 3. Past Usage:
|
||||||
|
% 1. Smith,~J.~W., Everhart,~J.~E., Dickson,~W.~C., Knowler,~W.~C., \&
|
||||||
|
% Johannes,~R.~S. (1988). Using the ADAP learning algorithm to forecast
|
||||||
|
% the onset of diabetes mellitus. In {\it Proceedings of the Symposium
|
||||||
|
% on Computer Applications and Medical Care} (pp. 261--265). IEEE
|
||||||
|
% Computer Society Press.
|
||||||
|
%
|
||||||
|
% The diagnostic, binary-valued variable investigated is whether the
|
||||||
|
% patient shows signs of diabetes according to World Health Organization
|
||||||
|
% criteria (i.e., if the 2 hour post-load plasma glucose was at least
|
||||||
|
% 200 mg/dl at any survey examination or if found during routine medical
|
||||||
|
% care). The population lives near Phoenix, Arizona, USA.
|
||||||
|
%
|
||||||
|
% Results: Their ADAP algorithm makes a real-valued prediction between
|
||||||
|
% 0 and 1. This was transformed into a binary decision using a cutoff of
|
||||||
|
% 0.448. Using 576 training instances, the sensitivity and specificity
|
||||||
|
% of their algorithm was 76% on the remaining 192 instances.
|
||||||
|
%
|
||||||
|
% 4. Relevant Information:
|
||||||
|
% Several constraints were placed on the selection of these instances from
|
||||||
|
% a larger database. In particular, all patients here are females at
|
||||||
|
% least 21 years old of Pima Indian heritage. ADAP is an adaptive learning
|
||||||
|
% routine that generates and executes digital analogs of perceptron-like
|
||||||
|
% devices. It is a unique algorithm; see the paper for details.
|
||||||
|
%
|
||||||
|
% 5. Number of Instances: 768
|
||||||
|
%
|
||||||
|
% 6. Number of Attributes: 8 plus class
|
||||||
|
%
|
||||||
|
% 7. For Each Attribute: (all numeric-valued)
|
||||||
|
% 1. Number of times pregnant
|
||||||
|
% 2. Plasma glucose concentration a 2 hours in an oral glucose tolerance test
|
||||||
|
% 3. Diastolic blood pressure (mm Hg)
|
||||||
|
% 4. Triceps skin fold thickness (mm)
|
||||||
|
% 5. 2-Hour serum insulin (mu U/ml)
|
||||||
|
% 6. Body mass index (weight in kg/(height in m)^2)
|
||||||
|
% 7. Diabetes pedigree function
|
||||||
|
% 8. Age (years)
|
||||||
|
% 9. Class variable (0 or 1)
|
||||||
|
%
|
||||||
|
% 8. Missing Attribute Values: None
|
||||||
|
%
|
||||||
|
% 9. Class Distribution: (class value 1 is interpreted as "tested positive for
|
||||||
|
% diabetes")
|
||||||
|
%
|
||||||
|
% Class Value Number of instances
|
||||||
|
% 0 500
|
||||||
|
% 1 268
|
||||||
|
%
|
||||||
|
% 10. Brief statistical analysis:
|
||||||
|
%
|
||||||
|
% Attribute number: Mean: Standard Deviation:
|
||||||
|
% 1. 3.8 3.4
|
||||||
|
% 2. 120.9 32.0
|
||||||
|
% 3. 69.1 19.4
|
||||||
|
% 4. 20.5 16.0
|
||||||
|
% 5. 79.8 115.2
|
||||||
|
% 6. 32.0 7.9
|
||||||
|
% 7. 0.5 0.3
|
||||||
|
% 8. 33.2 11.8
|
||||||
|
%
|
||||||
|
%
|
||||||
|
%
|
||||||
|
%
|
||||||
|
%
|
||||||
|
%
|
||||||
|
% Relabeled values in attribute 'class'
|
||||||
|
% From: 0 To: tested_negative
|
||||||
|
% From: 1 To: tested_positive
|
||||||
|
%
|
||||||
|
@relation pima_diabetes
|
||||||
|
@attribute 'preg' real
|
||||||
|
@attribute 'plas' real
|
||||||
|
@attribute 'pres' real
|
||||||
|
@attribute 'skin' real
|
||||||
|
@attribute 'insu' real
|
||||||
|
@attribute 'mass' real
|
||||||
|
@attribute 'pedi' real
|
||||||
|
@attribute 'age' real
|
||||||
|
@attribute 'class' { tested_negative, tested_positive}
|
||||||
|
@data
|
||||||
|
6,148,72,35,0,33.6,0.627,50,tested_positive
|
||||||
|
1,85,66,29,0,26.6,0.351,31,tested_negative
|
||||||
|
8,183,64,0,0,23.3,0.672,32,tested_positive
|
||||||
|
1,89,66,23,94,28.1,0.167,21,tested_negative
|
||||||
|
0,137,40,35,168,43.1,2.288,33,tested_positive
|
||||||
|
5,116,74,0,0,25.6,0.201,30,tested_negative
|
||||||
|
3,78,50,32,88,31,0.248,26,tested_positive
|
||||||
|
10,115,0,0,0,35.3,0.134,29,tested_negative
|
||||||
|
2,197,70,45,543,30.5,0.158,53,tested_positive
|
||||||
|
8,125,96,0,0,0,0.232,54,tested_positive
|
||||||
|
4,110,92,0,0,37.6,0.191,30,tested_negative
|
||||||
|
10,168,74,0,0,38,0.537,34,tested_positive
|
||||||
|
10,139,80,0,0,27.1,1.441,57,tested_negative
|
||||||
|
1,189,60,23,846,30.1,0.398,59,tested_positive
|
||||||
|
5,166,72,19,175,25.8,0.587,51,tested_positive
|
||||||
|
7,100,0,0,0,30,0.484,32,tested_positive
|
||||||
|
0,118,84,47,230,45.8,0.551,31,tested_positive
|
||||||
|
7,107,74,0,0,29.6,0.254,31,tested_positive
|
||||||
|
1,103,30,38,83,43.3,0.183,33,tested_negative
|
||||||
|
1,115,70,30,96,34.6,0.529,32,tested_positive
|
||||||
|
3,126,88,41,235,39.3,0.704,27,tested_negative
|
||||||
|
8,99,84,0,0,35.4,0.388,50,tested_negative
|
||||||
|
7,196,90,0,0,39.8,0.451,41,tested_positive
|
||||||
|
9,119,80,35,0,29,0.263,29,tested_positive
|
||||||
|
11,143,94,33,146,36.6,0.254,51,tested_positive
|
||||||
|
10,125,70,26,115,31.1,0.205,41,tested_positive
|
||||||
|
7,147,76,0,0,39.4,0.257,43,tested_positive
|
||||||
|
1,97,66,15,140,23.2,0.487,22,tested_negative
|
||||||
|
13,145,82,19,110,22.2,0.245,57,tested_negative
|
||||||
|
5,117,92,0,0,34.1,0.337,38,tested_negative
|
||||||
|
5,109,75,26,0,36,0.546,60,tested_negative
|
||||||
|
3,158,76,36,245,31.6,0.851,28,tested_positive
|
||||||
|
3,88,58,11,54,24.8,0.267,22,tested_negative
|
||||||
|
6,92,92,0,0,19.9,0.188,28,tested_negative
|
||||||
|
10,122,78,31,0,27.6,0.512,45,tested_negative
|
||||||
|
4,103,60,33,192,24,0.966,33,tested_negative
|
||||||
|
11,138,76,0,0,33.2,0.42,35,tested_negative
|
||||||
|
9,102,76,37,0,32.9,0.665,46,tested_positive
|
||||||
|
2,90,68,42,0,38.2,0.503,27,tested_positive
|
||||||
|
4,111,72,47,207,37.1,1.39,56,tested_positive
|
||||||
|
3,180,64,25,70,34,0.271,26,tested_negative
|
||||||
|
7,133,84,0,0,40.2,0.696,37,tested_negative
|
||||||
|
7,106,92,18,0,22.7,0.235,48,tested_negative
|
||||||
|
9,171,110,24,240,45.4,0.721,54,tested_positive
|
||||||
|
7,159,64,0,0,27.4,0.294,40,tested_negative
|
||||||
|
0,180,66,39,0,42,1.893,25,tested_positive
|
||||||
|
1,146,56,0,0,29.7,0.564,29,tested_negative
|
||||||
|
2,71,70,27,0,28,0.586,22,tested_negative
|
||||||
|
7,103,66,32,0,39.1,0.344,31,tested_positive
|
||||||
|
7,105,0,0,0,0,0.305,24,tested_negative
|
||||||
|
1,103,80,11,82,19.4,0.491,22,tested_negative
|
||||||
|
1,101,50,15,36,24.2,0.526,26,tested_negative
|
||||||
|
5,88,66,21,23,24.4,0.342,30,tested_negative
|
||||||
|
8,176,90,34,300,33.7,0.467,58,tested_positive
|
||||||
|
7,150,66,42,342,34.7,0.718,42,tested_negative
|
||||||
|
1,73,50,10,0,23,0.248,21,tested_negative
|
||||||
|
7,187,68,39,304,37.7,0.254,41,tested_positive
|
||||||
|
0,100,88,60,110,46.8,0.962,31,tested_negative
|
||||||
|
0,146,82,0,0,40.5,1.781,44,tested_negative
|
||||||
|
0,105,64,41,142,41.5,0.173,22,tested_negative
|
||||||
|
2,84,0,0,0,0,0.304,21,tested_negative
|
||||||
|
8,133,72,0,0,32.9,0.27,39,tested_positive
|
||||||
|
5,44,62,0,0,25,0.587,36,tested_negative
|
||||||
|
2,141,58,34,128,25.4,0.699,24,tested_negative
|
||||||
|
7,114,66,0,0,32.8,0.258,42,tested_positive
|
||||||
|
5,99,74,27,0,29,0.203,32,tested_negative
|
||||||
|
0,109,88,30,0,32.5,0.855,38,tested_positive
|
||||||
|
2,109,92,0,0,42.7,0.845,54,tested_negative
|
||||||
|
1,95,66,13,38,19.6,0.334,25,tested_negative
|
||||||
|
4,146,85,27,100,28.9,0.189,27,tested_negative
|
||||||
|
2,100,66,20,90,32.9,0.867,28,tested_positive
|
||||||
|
5,139,64,35,140,28.6,0.411,26,tested_negative
|
||||||
|
13,126,90,0,0,43.4,0.583,42,tested_positive
|
||||||
|
4,129,86,20,270,35.1,0.231,23,tested_negative
|
||||||
|
1,79,75,30,0,32,0.396,22,tested_negative
|
||||||
|
1,0,48,20,0,24.7,0.14,22,tested_negative
|
||||||
|
7,62,78,0,0,32.6,0.391,41,tested_negative
|
||||||
|
5,95,72,33,0,37.7,0.37,27,tested_negative
|
||||||
|
0,131,0,0,0,43.2,0.27,26,tested_positive
|
||||||
|
2,112,66,22,0,25,0.307,24,tested_negative
|
||||||
|
3,113,44,13,0,22.4,0.14,22,tested_negative
|
||||||
|
2,74,0,0,0,0,0.102,22,tested_negative
|
||||||
|
7,83,78,26,71,29.3,0.767,36,tested_negative
|
||||||
|
0,101,65,28,0,24.6,0.237,22,tested_negative
|
||||||
|
5,137,108,0,0,48.8,0.227,37,tested_positive
|
||||||
|
2,110,74,29,125,32.4,0.698,27,tested_negative
|
||||||
|
13,106,72,54,0,36.6,0.178,45,tested_negative
|
||||||
|
2,100,68,25,71,38.5,0.324,26,tested_negative
|
||||||
|
15,136,70,32,110,37.1,0.153,43,tested_positive
|
||||||
|
1,107,68,19,0,26.5,0.165,24,tested_negative
|
||||||
|
1,80,55,0,0,19.1,0.258,21,tested_negative
|
||||||
|
4,123,80,15,176,32,0.443,34,tested_negative
|
||||||
|
7,81,78,40,48,46.7,0.261,42,tested_negative
|
||||||
|
4,134,72,0,0,23.8,0.277,60,tested_positive
|
||||||
|
2,142,82,18,64,24.7,0.761,21,tested_negative
|
||||||
|
6,144,72,27,228,33.9,0.255,40,tested_negative
|
||||||
|
2,92,62,28,0,31.6,0.13,24,tested_negative
|
||||||
|
1,71,48,18,76,20.4,0.323,22,tested_negative
|
||||||
|
6,93,50,30,64,28.7,0.356,23,tested_negative
|
||||||
|
1,122,90,51,220,49.7,0.325,31,tested_positive
|
||||||
|
1,163,72,0,0,39,1.222,33,tested_positive
|
||||||
|
1,151,60,0,0,26.1,0.179,22,tested_negative
|
||||||
|
0,125,96,0,0,22.5,0.262,21,tested_negative
|
||||||
|
1,81,72,18,40,26.6,0.283,24,tested_negative
|
||||||
|
2,85,65,0,0,39.6,0.93,27,tested_negative
|
||||||
|
1,126,56,29,152,28.7,0.801,21,tested_negative
|
||||||
|
1,96,122,0,0,22.4,0.207,27,tested_negative
|
||||||
|
4,144,58,28,140,29.5,0.287,37,tested_negative
|
||||||
|
3,83,58,31,18,34.3,0.336,25,tested_negative
|
||||||
|
0,95,85,25,36,37.4,0.247,24,tested_positive
|
||||||
|
3,171,72,33,135,33.3,0.199,24,tested_positive
|
||||||
|
8,155,62,26,495,34,0.543,46,tested_positive
|
||||||
|
1,89,76,34,37,31.2,0.192,23,tested_negative
|
||||||
|
4,76,62,0,0,34,0.391,25,tested_negative
|
||||||
|
7,160,54,32,175,30.5,0.588,39,tested_positive
|
||||||
|
4,146,92,0,0,31.2,0.539,61,tested_positive
|
||||||
|
5,124,74,0,0,34,0.22,38,tested_positive
|
||||||
|
5,78,48,0,0,33.7,0.654,25,tested_negative
|
||||||
|
4,97,60,23,0,28.2,0.443,22,tested_negative
|
||||||
|
4,99,76,15,51,23.2,0.223,21,tested_negative
|
||||||
|
0,162,76,56,100,53.2,0.759,25,tested_positive
|
||||||
|
6,111,64,39,0,34.2,0.26,24,tested_negative
|
||||||
|
2,107,74,30,100,33.6,0.404,23,tested_negative
|
||||||
|
5,132,80,0,0,26.8,0.186,69,tested_negative
|
||||||
|
0,113,76,0,0,33.3,0.278,23,tested_positive
|
||||||
|
1,88,30,42,99,55,0.496,26,tested_positive
|
||||||
|
3,120,70,30,135,42.9,0.452,30,tested_negative
|
||||||
|
1,118,58,36,94,33.3,0.261,23,tested_negative
|
||||||
|
1,117,88,24,145,34.5,0.403,40,tested_positive
|
||||||
|
0,105,84,0,0,27.9,0.741,62,tested_positive
|
||||||
|
4,173,70,14,168,29.7,0.361,33,tested_positive
|
||||||
|
9,122,56,0,0,33.3,1.114,33,tested_positive
|
||||||
|
3,170,64,37,225,34.5,0.356,30,tested_positive
|
||||||
|
8,84,74,31,0,38.3,0.457,39,tested_negative
|
||||||
|
2,96,68,13,49,21.1,0.647,26,tested_negative
|
||||||
|
2,125,60,20,140,33.8,0.088,31,tested_negative
|
||||||
|
0,100,70,26,50,30.8,0.597,21,tested_negative
|
||||||
|
0,93,60,25,92,28.7,0.532,22,tested_negative
|
||||||
|
0,129,80,0,0,31.2,0.703,29,tested_negative
|
||||||
|
5,105,72,29,325,36.9,0.159,28,tested_negative
|
||||||
|
3,128,78,0,0,21.1,0.268,55,tested_negative
|
||||||
|
5,106,82,30,0,39.5,0.286,38,tested_negative
|
||||||
|
2,108,52,26,63,32.5,0.318,22,tested_negative
|
||||||
|
10,108,66,0,0,32.4,0.272,42,tested_positive
|
||||||
|
4,154,62,31,284,32.8,0.237,23,tested_negative
|
||||||
|
0,102,75,23,0,0,0.572,21,tested_negative
|
||||||
|
9,57,80,37,0,32.8,0.096,41,tested_negative
|
||||||
|
2,106,64,35,119,30.5,1.4,34,tested_negative
|
||||||
|
5,147,78,0,0,33.7,0.218,65,tested_negative
|
||||||
|
2,90,70,17,0,27.3,0.085,22,tested_negative
|
||||||
|
1,136,74,50,204,37.4,0.399,24,tested_negative
|
||||||
|
4,114,65,0,0,21.9,0.432,37,tested_negative
|
||||||
|
9,156,86,28,155,34.3,1.189,42,tested_positive
|
||||||
|
1,153,82,42,485,40.6,0.687,23,tested_negative
|
||||||
|
8,188,78,0,0,47.9,0.137,43,tested_positive
|
||||||
|
7,152,88,44,0,50,0.337,36,tested_positive
|
||||||
|
2,99,52,15,94,24.6,0.637,21,tested_negative
|
||||||
|
1,109,56,21,135,25.2,0.833,23,tested_negative
|
||||||
|
2,88,74,19,53,29,0.229,22,tested_negative
|
||||||
|
17,163,72,41,114,40.9,0.817,47,tested_positive
|
||||||
|
4,151,90,38,0,29.7,0.294,36,tested_negative
|
||||||
|
7,102,74,40,105,37.2,0.204,45,tested_negative
|
||||||
|
0,114,80,34,285,44.2,0.167,27,tested_negative
|
||||||
|
2,100,64,23,0,29.7,0.368,21,tested_negative
|
||||||
|
0,131,88,0,0,31.6,0.743,32,tested_positive
|
||||||
|
6,104,74,18,156,29.9,0.722,41,tested_positive
|
||||||
|
3,148,66,25,0,32.5,0.256,22,tested_negative
|
||||||
|
4,120,68,0,0,29.6,0.709,34,tested_negative
|
||||||
|
4,110,66,0,0,31.9,0.471,29,tested_negative
|
||||||
|
3,111,90,12,78,28.4,0.495,29,tested_negative
|
||||||
|
6,102,82,0,0,30.8,0.18,36,tested_positive
|
||||||
|
6,134,70,23,130,35.4,0.542,29,tested_positive
|
||||||
|
2,87,0,23,0,28.9,0.773,25,tested_negative
|
||||||
|
1,79,60,42,48,43.5,0.678,23,tested_negative
|
||||||
|
2,75,64,24,55,29.7,0.37,33,tested_negative
|
||||||
|
8,179,72,42,130,32.7,0.719,36,tested_positive
|
||||||
|
6,85,78,0,0,31.2,0.382,42,tested_negative
|
||||||
|
0,129,110,46,130,67.1,0.319,26,tested_positive
|
||||||
|
5,143,78,0,0,45,0.19,47,tested_negative
|
||||||
|
5,130,82,0,0,39.1,0.956,37,tested_positive
|
||||||
|
6,87,80,0,0,23.2,0.084,32,tested_negative
|
||||||
|
0,119,64,18,92,34.9,0.725,23,tested_negative
|
||||||
|
1,0,74,20,23,27.7,0.299,21,tested_negative
|
||||||
|
5,73,60,0,0,26.8,0.268,27,tested_negative
|
||||||
|
4,141,74,0,0,27.6,0.244,40,tested_negative
|
||||||
|
7,194,68,28,0,35.9,0.745,41,tested_positive
|
||||||
|
8,181,68,36,495,30.1,0.615,60,tested_positive
|
||||||
|
1,128,98,41,58,32,1.321,33,tested_positive
|
||||||
|
8,109,76,39,114,27.9,0.64,31,tested_positive
|
||||||
|
5,139,80,35,160,31.6,0.361,25,tested_positive
|
||||||
|
3,111,62,0,0,22.6,0.142,21,tested_negative
|
||||||
|
9,123,70,44,94,33.1,0.374,40,tested_negative
|
||||||
|
7,159,66,0,0,30.4,0.383,36,tested_positive
|
||||||
|
11,135,0,0,0,52.3,0.578,40,tested_positive
|
||||||
|
8,85,55,20,0,24.4,0.136,42,tested_negative
|
||||||
|
5,158,84,41,210,39.4,0.395,29,tested_positive
|
||||||
|
1,105,58,0,0,24.3,0.187,21,tested_negative
|
||||||
|
3,107,62,13,48,22.9,0.678,23,tested_positive
|
||||||
|
4,109,64,44,99,34.8,0.905,26,tested_positive
|
||||||
|
4,148,60,27,318,30.9,0.15,29,tested_positive
|
||||||
|
0,113,80,16,0,31,0.874,21,tested_negative
|
||||||
|
1,138,82,0,0,40.1,0.236,28,tested_negative
|
||||||
|
0,108,68,20,0,27.3,0.787,32,tested_negative
|
||||||
|
2,99,70,16,44,20.4,0.235,27,tested_negative
|
||||||
|
6,103,72,32,190,37.7,0.324,55,tested_negative
|
||||||
|
5,111,72,28,0,23.9,0.407,27,tested_negative
|
||||||
|
8,196,76,29,280,37.5,0.605,57,tested_positive
|
||||||
|
5,162,104,0,0,37.7,0.151,52,tested_positive
|
||||||
|
1,96,64,27,87,33.2,0.289,21,tested_negative
|
||||||
|
7,184,84,33,0,35.5,0.355,41,tested_positive
|
||||||
|
2,81,60,22,0,27.7,0.29,25,tested_negative
|
||||||
|
0,147,85,54,0,42.8,0.375,24,tested_negative
|
||||||
|
7,179,95,31,0,34.2,0.164,60,tested_negative
|
||||||
|
0,140,65,26,130,42.6,0.431,24,tested_positive
|
||||||
|
9,112,82,32,175,34.2,0.26,36,tested_positive
|
||||||
|
12,151,70,40,271,41.8,0.742,38,tested_positive
|
||||||
|
5,109,62,41,129,35.8,0.514,25,tested_positive
|
||||||
|
6,125,68,30,120,30,0.464,32,tested_negative
|
||||||
|
5,85,74,22,0,29,1.224,32,tested_positive
|
||||||
|
5,112,66,0,0,37.8,0.261,41,tested_positive
|
||||||
|
0,177,60,29,478,34.6,1.072,21,tested_positive
|
||||||
|
2,158,90,0,0,31.6,0.805,66,tested_positive
|
||||||
|
7,119,0,0,0,25.2,0.209,37,tested_negative
|
||||||
|
7,142,60,33,190,28.8,0.687,61,tested_negative
|
||||||
|
1,100,66,15,56,23.6,0.666,26,tested_negative
|
||||||
|
1,87,78,27,32,34.6,0.101,22,tested_negative
|
||||||
|
0,101,76,0,0,35.7,0.198,26,tested_negative
|
||||||
|
3,162,52,38,0,37.2,0.652,24,tested_positive
|
||||||
|
4,197,70,39,744,36.7,2.329,31,tested_negative
|
||||||
|
0,117,80,31,53,45.2,0.089,24,tested_negative
|
||||||
|
4,142,86,0,0,44,0.645,22,tested_positive
|
||||||
|
6,134,80,37,370,46.2,0.238,46,tested_positive
|
||||||
|
1,79,80,25,37,25.4,0.583,22,tested_negative
|
||||||
|
4,122,68,0,0,35,0.394,29,tested_negative
|
||||||
|
3,74,68,28,45,29.7,0.293,23,tested_negative
|
||||||
|
4,171,72,0,0,43.6,0.479,26,tested_positive
|
||||||
|
7,181,84,21,192,35.9,0.586,51,tested_positive
|
||||||
|
0,179,90,27,0,44.1,0.686,23,tested_positive
|
||||||
|
9,164,84,21,0,30.8,0.831,32,tested_positive
|
||||||
|
0,104,76,0,0,18.4,0.582,27,tested_negative
|
||||||
|
1,91,64,24,0,29.2,0.192,21,tested_negative
|
||||||
|
4,91,70,32,88,33.1,0.446,22,tested_negative
|
||||||
|
3,139,54,0,0,25.6,0.402,22,tested_positive
|
||||||
|
6,119,50,22,176,27.1,1.318,33,tested_positive
|
||||||
|
2,146,76,35,194,38.2,0.329,29,tested_negative
|
||||||
|
9,184,85,15,0,30,1.213,49,tested_positive
|
||||||
|
10,122,68,0,0,31.2,0.258,41,tested_negative
|
||||||
|
0,165,90,33,680,52.3,0.427,23,tested_negative
|
||||||
|
9,124,70,33,402,35.4,0.282,34,tested_negative
|
||||||
|
1,111,86,19,0,30.1,0.143,23,tested_negative
|
||||||
|
9,106,52,0,0,31.2,0.38,42,tested_negative
|
||||||
|
2,129,84,0,0,28,0.284,27,tested_negative
|
||||||
|
2,90,80,14,55,24.4,0.249,24,tested_negative
|
||||||
|
0,86,68,32,0,35.8,0.238,25,tested_negative
|
||||||
|
12,92,62,7,258,27.6,0.926,44,tested_positive
|
||||||
|
1,113,64,35,0,33.6,0.543,21,tested_positive
|
||||||
|
3,111,56,39,0,30.1,0.557,30,tested_negative
|
||||||
|
2,114,68,22,0,28.7,0.092,25,tested_negative
|
||||||
|
1,193,50,16,375,25.9,0.655,24,tested_negative
|
||||||
|
11,155,76,28,150,33.3,1.353,51,tested_positive
|
||||||
|
3,191,68,15,130,30.9,0.299,34,tested_negative
|
||||||
|
3,141,0,0,0,30,0.761,27,tested_positive
|
||||||
|
4,95,70,32,0,32.1,0.612,24,tested_negative
|
||||||
|
3,142,80,15,0,32.4,0.2,63,tested_negative
|
||||||
|
4,123,62,0,0,32,0.226,35,tested_positive
|
||||||
|
5,96,74,18,67,33.6,0.997,43,tested_negative
|
||||||
|
0,138,0,0,0,36.3,0.933,25,tested_positive
|
||||||
|
2,128,64,42,0,40,1.101,24,tested_negative
|
||||||
|
0,102,52,0,0,25.1,0.078,21,tested_negative
|
||||||
|
2,146,0,0,0,27.5,0.24,28,tested_positive
|
||||||
|
10,101,86,37,0,45.6,1.136,38,tested_positive
|
||||||
|
2,108,62,32,56,25.2,0.128,21,tested_negative
|
||||||
|
3,122,78,0,0,23,0.254,40,tested_negative
|
||||||
|
1,71,78,50,45,33.2,0.422,21,tested_negative
|
||||||
|
13,106,70,0,0,34.2,0.251,52,tested_negative
|
||||||
|
2,100,70,52,57,40.5,0.677,25,tested_negative
|
||||||
|
7,106,60,24,0,26.5,0.296,29,tested_positive
|
||||||
|
0,104,64,23,116,27.8,0.454,23,tested_negative
|
||||||
|
5,114,74,0,0,24.9,0.744,57,tested_negative
|
||||||
|
2,108,62,10,278,25.3,0.881,22,tested_negative
|
||||||
|
0,146,70,0,0,37.9,0.334,28,tested_positive
|
||||||
|
10,129,76,28,122,35.9,0.28,39,tested_negative
|
||||||
|
7,133,88,15,155,32.4,0.262,37,tested_negative
|
||||||
|
7,161,86,0,0,30.4,0.165,47,tested_positive
|
||||||
|
2,108,80,0,0,27,0.259,52,tested_positive
|
||||||
|
7,136,74,26,135,26,0.647,51,tested_negative
|
||||||
|
5,155,84,44,545,38.7,0.619,34,tested_negative
|
||||||
|
1,119,86,39,220,45.6,0.808,29,tested_positive
|
||||||
|
4,96,56,17,49,20.8,0.34,26,tested_negative
|
||||||
|
5,108,72,43,75,36.1,0.263,33,tested_negative
|
||||||
|
0,78,88,29,40,36.9,0.434,21,tested_negative
|
||||||
|
0,107,62,30,74,36.6,0.757,25,tested_positive
|
||||||
|
2,128,78,37,182,43.3,1.224,31,tested_positive
|
||||||
|
1,128,48,45,194,40.5,0.613,24,tested_positive
|
||||||
|
0,161,50,0,0,21.9,0.254,65,tested_negative
|
||||||
|
6,151,62,31,120,35.5,0.692,28,tested_negative
|
||||||
|
2,146,70,38,360,28,0.337,29,tested_positive
|
||||||
|
0,126,84,29,215,30.7,0.52,24,tested_negative
|
||||||
|
14,100,78,25,184,36.6,0.412,46,tested_positive
|
||||||
|
8,112,72,0,0,23.6,0.84,58,tested_negative
|
||||||
|
0,167,0,0,0,32.3,0.839,30,tested_positive
|
||||||
|
2,144,58,33,135,31.6,0.422,25,tested_positive
|
||||||
|
5,77,82,41,42,35.8,0.156,35,tested_negative
|
||||||
|
5,115,98,0,0,52.9,0.209,28,tested_positive
|
||||||
|
3,150,76,0,0,21,0.207,37,tested_negative
|
||||||
|
2,120,76,37,105,39.7,0.215,29,tested_negative
|
||||||
|
10,161,68,23,132,25.5,0.326,47,tested_positive
|
||||||
|
0,137,68,14,148,24.8,0.143,21,tested_negative
|
||||||
|
0,128,68,19,180,30.5,1.391,25,tested_positive
|
||||||
|
2,124,68,28,205,32.9,0.875,30,tested_positive
|
||||||
|
6,80,66,30,0,26.2,0.313,41,tested_negative
|
||||||
|
0,106,70,37,148,39.4,0.605,22,tested_negative
|
||||||
|
2,155,74,17,96,26.6,0.433,27,tested_positive
|
||||||
|
3,113,50,10,85,29.5,0.626,25,tested_negative
|
||||||
|
7,109,80,31,0,35.9,1.127,43,tested_positive
|
||||||
|
2,112,68,22,94,34.1,0.315,26,tested_negative
|
||||||
|
3,99,80,11,64,19.3,0.284,30,tested_negative
|
||||||
|
3,182,74,0,0,30.5,0.345,29,tested_positive
|
||||||
|
3,115,66,39,140,38.1,0.15,28,tested_negative
|
||||||
|
6,194,78,0,0,23.5,0.129,59,tested_positive
|
||||||
|
4,129,60,12,231,27.5,0.527,31,tested_negative
|
||||||
|
3,112,74,30,0,31.6,0.197,25,tested_positive
|
||||||
|
0,124,70,20,0,27.4,0.254,36,tested_positive
|
||||||
|
13,152,90,33,29,26.8,0.731,43,tested_positive
|
||||||
|
2,112,75,32,0,35.7,0.148,21,tested_negative
|
||||||
|
1,157,72,21,168,25.6,0.123,24,tested_negative
|
||||||
|
1,122,64,32,156,35.1,0.692,30,tested_positive
|
||||||
|
10,179,70,0,0,35.1,0.2,37,tested_negative
|
||||||
|
2,102,86,36,120,45.5,0.127,23,tested_positive
|
||||||
|
6,105,70,32,68,30.8,0.122,37,tested_negative
|
||||||
|
8,118,72,19,0,23.1,1.476,46,tested_negative
|
||||||
|
2,87,58,16,52,32.7,0.166,25,tested_negative
|
||||||
|
1,180,0,0,0,43.3,0.282,41,tested_positive
|
||||||
|
12,106,80,0,0,23.6,0.137,44,tested_negative
|
||||||
|
1,95,60,18,58,23.9,0.26,22,tested_negative
|
||||||
|
0,165,76,43,255,47.9,0.259,26,tested_negative
|
||||||
|
0,117,0,0,0,33.8,0.932,44,tested_negative
|
||||||
|
5,115,76,0,0,31.2,0.343,44,tested_positive
|
||||||
|
9,152,78,34,171,34.2,0.893,33,tested_positive
|
||||||
|
7,178,84,0,0,39.9,0.331,41,tested_positive
|
||||||
|
1,130,70,13,105,25.9,0.472,22,tested_negative
|
||||||
|
1,95,74,21,73,25.9,0.673,36,tested_negative
|
||||||
|
1,0,68,35,0,32,0.389,22,tested_negative
|
||||||
|
5,122,86,0,0,34.7,0.29,33,tested_negative
|
||||||
|
8,95,72,0,0,36.8,0.485,57,tested_negative
|
||||||
|
8,126,88,36,108,38.5,0.349,49,tested_negative
|
||||||
|
1,139,46,19,83,28.7,0.654,22,tested_negative
|
||||||
|
3,116,0,0,0,23.5,0.187,23,tested_negative
|
||||||
|
3,99,62,19,74,21.8,0.279,26,tested_negative
|
||||||
|
5,0,80,32,0,41,0.346,37,tested_positive
|
||||||
|
4,92,80,0,0,42.2,0.237,29,tested_negative
|
||||||
|
4,137,84,0,0,31.2,0.252,30,tested_negative
|
||||||
|
3,61,82,28,0,34.4,0.243,46,tested_negative
|
||||||
|
1,90,62,12,43,27.2,0.58,24,tested_negative
|
||||||
|
3,90,78,0,0,42.7,0.559,21,tested_negative
|
||||||
|
9,165,88,0,0,30.4,0.302,49,tested_positive
|
||||||
|
1,125,50,40,167,33.3,0.962,28,tested_positive
|
||||||
|
13,129,0,30,0,39.9,0.569,44,tested_positive
|
||||||
|
12,88,74,40,54,35.3,0.378,48,tested_negative
|
||||||
|
1,196,76,36,249,36.5,0.875,29,tested_positive
|
||||||
|
5,189,64,33,325,31.2,0.583,29,tested_positive
|
||||||
|
5,158,70,0,0,29.8,0.207,63,tested_negative
|
||||||
|
5,103,108,37,0,39.2,0.305,65,tested_negative
|
||||||
|
4,146,78,0,0,38.5,0.52,67,tested_positive
|
||||||
|
4,147,74,25,293,34.9,0.385,30,tested_negative
|
||||||
|
5,99,54,28,83,34,0.499,30,tested_negative
|
||||||
|
6,124,72,0,0,27.6,0.368,29,tested_positive
|
||||||
|
0,101,64,17,0,21,0.252,21,tested_negative
|
||||||
|
3,81,86,16,66,27.5,0.306,22,tested_negative
|
||||||
|
1,133,102,28,140,32.8,0.234,45,tested_positive
|
||||||
|
3,173,82,48,465,38.4,2.137,25,tested_positive
|
||||||
|
0,118,64,23,89,0,1.731,21,tested_negative
|
||||||
|
0,84,64,22,66,35.8,0.545,21,tested_negative
|
||||||
|
2,105,58,40,94,34.9,0.225,25,tested_negative
|
||||||
|
2,122,52,43,158,36.2,0.816,28,tested_negative
|
||||||
|
12,140,82,43,325,39.2,0.528,58,tested_positive
|
||||||
|
0,98,82,15,84,25.2,0.299,22,tested_negative
|
||||||
|
1,87,60,37,75,37.2,0.509,22,tested_negative
|
||||||
|
4,156,75,0,0,48.3,0.238,32,tested_positive
|
||||||
|
0,93,100,39,72,43.4,1.021,35,tested_negative
|
||||||
|
1,107,72,30,82,30.8,0.821,24,tested_negative
|
||||||
|
0,105,68,22,0,20,0.236,22,tested_negative
|
||||||
|
1,109,60,8,182,25.4,0.947,21,tested_negative
|
||||||
|
1,90,62,18,59,25.1,1.268,25,tested_negative
|
||||||
|
1,125,70,24,110,24.3,0.221,25,tested_negative
|
||||||
|
1,119,54,13,50,22.3,0.205,24,tested_negative
|
||||||
|
5,116,74,29,0,32.3,0.66,35,tested_positive
|
||||||
|
8,105,100,36,0,43.3,0.239,45,tested_positive
|
||||||
|
5,144,82,26,285,32,0.452,58,tested_positive
|
||||||
|
3,100,68,23,81,31.6,0.949,28,tested_negative
|
||||||
|
1,100,66,29,196,32,0.444,42,tested_negative
|
||||||
|
5,166,76,0,0,45.7,0.34,27,tested_positive
|
||||||
|
1,131,64,14,415,23.7,0.389,21,tested_negative
|
||||||
|
4,116,72,12,87,22.1,0.463,37,tested_negative
|
||||||
|
4,158,78,0,0,32.9,0.803,31,tested_positive
|
||||||
|
2,127,58,24,275,27.7,1.6,25,tested_negative
|
||||||
|
3,96,56,34,115,24.7,0.944,39,tested_negative
|
||||||
|
0,131,66,40,0,34.3,0.196,22,tested_positive
|
||||||
|
3,82,70,0,0,21.1,0.389,25,tested_negative
|
||||||
|
3,193,70,31,0,34.9,0.241,25,tested_positive
|
||||||
|
4,95,64,0,0,32,0.161,31,tested_positive
|
||||||
|
6,137,61,0,0,24.2,0.151,55,tested_negative
|
||||||
|
5,136,84,41,88,35,0.286,35,tested_positive
|
||||||
|
9,72,78,25,0,31.6,0.28,38,tested_negative
|
||||||
|
5,168,64,0,0,32.9,0.135,41,tested_positive
|
||||||
|
2,123,48,32,165,42.1,0.52,26,tested_negative
|
||||||
|
4,115,72,0,0,28.9,0.376,46,tested_positive
|
||||||
|
0,101,62,0,0,21.9,0.336,25,tested_negative
|
||||||
|
8,197,74,0,0,25.9,1.191,39,tested_positive
|
||||||
|
1,172,68,49,579,42.4,0.702,28,tested_positive
|
||||||
|
6,102,90,39,0,35.7,0.674,28,tested_negative
|
||||||
|
1,112,72,30,176,34.4,0.528,25,tested_negative
|
||||||
|
1,143,84,23,310,42.4,1.076,22,tested_negative
|
||||||
|
1,143,74,22,61,26.2,0.256,21,tested_negative
|
||||||
|
0,138,60,35,167,34.6,0.534,21,tested_positive
|
||||||
|
3,173,84,33,474,35.7,0.258,22,tested_positive
|
||||||
|
1,97,68,21,0,27.2,1.095,22,tested_negative
|
||||||
|
4,144,82,32,0,38.5,0.554,37,tested_positive
|
||||||
|
1,83,68,0,0,18.2,0.624,27,tested_negative
|
||||||
|
3,129,64,29,115,26.4,0.219,28,tested_positive
|
||||||
|
1,119,88,41,170,45.3,0.507,26,tested_negative
|
||||||
|
2,94,68,18,76,26,0.561,21,tested_negative
|
||||||
|
0,102,64,46,78,40.6,0.496,21,tested_negative
|
||||||
|
2,115,64,22,0,30.8,0.421,21,tested_negative
|
||||||
|
8,151,78,32,210,42.9,0.516,36,tested_positive
|
||||||
|
4,184,78,39,277,37,0.264,31,tested_positive
|
||||||
|
0,94,0,0,0,0,0.256,25,tested_negative
|
||||||
|
1,181,64,30,180,34.1,0.328,38,tested_positive
|
||||||
|
0,135,94,46,145,40.6,0.284,26,tested_negative
|
||||||
|
1,95,82,25,180,35,0.233,43,tested_positive
|
||||||
|
2,99,0,0,0,22.2,0.108,23,tested_negative
|
||||||
|
3,89,74,16,85,30.4,0.551,38,tested_negative
|
||||||
|
1,80,74,11,60,30,0.527,22,tested_negative
|
||||||
|
2,139,75,0,0,25.6,0.167,29,tested_negative
|
||||||
|
1,90,68,8,0,24.5,1.138,36,tested_negative
|
||||||
|
0,141,0,0,0,42.4,0.205,29,tested_positive
|
||||||
|
12,140,85,33,0,37.4,0.244,41,tested_negative
|
||||||
|
5,147,75,0,0,29.9,0.434,28,tested_negative
|
||||||
|
1,97,70,15,0,18.2,0.147,21,tested_negative
|
||||||
|
6,107,88,0,0,36.8,0.727,31,tested_negative
|
||||||
|
0,189,104,25,0,34.3,0.435,41,tested_positive
|
||||||
|
2,83,66,23,50,32.2,0.497,22,tested_negative
|
||||||
|
4,117,64,27,120,33.2,0.23,24,tested_negative
|
||||||
|
8,108,70,0,0,30.5,0.955,33,tested_positive
|
||||||
|
4,117,62,12,0,29.7,0.38,30,tested_positive
|
||||||
|
0,180,78,63,14,59.4,2.42,25,tested_positive
|
||||||
|
1,100,72,12,70,25.3,0.658,28,tested_negative
|
||||||
|
0,95,80,45,92,36.5,0.33,26,tested_negative
|
||||||
|
0,104,64,37,64,33.6,0.51,22,tested_positive
|
||||||
|
0,120,74,18,63,30.5,0.285,26,tested_negative
|
||||||
|
1,82,64,13,95,21.2,0.415,23,tested_negative
|
||||||
|
2,134,70,0,0,28.9,0.542,23,tested_positive
|
||||||
|
0,91,68,32,210,39.9,0.381,25,tested_negative
|
||||||
|
2,119,0,0,0,19.6,0.832,72,tested_negative
|
||||||
|
2,100,54,28,105,37.8,0.498,24,tested_negative
|
||||||
|
14,175,62,30,0,33.6,0.212,38,tested_positive
|
||||||
|
1,135,54,0,0,26.7,0.687,62,tested_negative
|
||||||
|
5,86,68,28,71,30.2,0.364,24,tested_negative
|
||||||
|
10,148,84,48,237,37.6,1.001,51,tested_positive
|
||||||
|
9,134,74,33,60,25.9,0.46,81,tested_negative
|
||||||
|
9,120,72,22,56,20.8,0.733,48,tested_negative
|
||||||
|
1,71,62,0,0,21.8,0.416,26,tested_negative
|
||||||
|
8,74,70,40,49,35.3,0.705,39,tested_negative
|
||||||
|
5,88,78,30,0,27.6,0.258,37,tested_negative
|
||||||
|
10,115,98,0,0,24,1.022,34,tested_negative
|
||||||
|
0,124,56,13,105,21.8,0.452,21,tested_negative
|
||||||
|
0,74,52,10,36,27.8,0.269,22,tested_negative
|
||||||
|
0,97,64,36,100,36.8,0.6,25,tested_negative
|
||||||
|
8,120,0,0,0,30,0.183,38,tested_positive
|
||||||
|
6,154,78,41,140,46.1,0.571,27,tested_negative
|
||||||
|
1,144,82,40,0,41.3,0.607,28,tested_negative
|
||||||
|
0,137,70,38,0,33.2,0.17,22,tested_negative
|
||||||
|
0,119,66,27,0,38.8,0.259,22,tested_negative
|
||||||
|
7,136,90,0,0,29.9,0.21,50,tested_negative
|
||||||
|
4,114,64,0,0,28.9,0.126,24,tested_negative
|
||||||
|
0,137,84,27,0,27.3,0.231,59,tested_negative
|
||||||
|
2,105,80,45,191,33.7,0.711,29,tested_positive
|
||||||
|
7,114,76,17,110,23.8,0.466,31,tested_negative
|
||||||
|
8,126,74,38,75,25.9,0.162,39,tested_negative
|
||||||
|
4,132,86,31,0,28,0.419,63,tested_negative
|
||||||
|
3,158,70,30,328,35.5,0.344,35,tested_positive
|
||||||
|
0,123,88,37,0,35.2,0.197,29,tested_negative
|
||||||
|
4,85,58,22,49,27.8,0.306,28,tested_negative
|
||||||
|
0,84,82,31,125,38.2,0.233,23,tested_negative
|
||||||
|
0,145,0,0,0,44.2,0.63,31,tested_positive
|
||||||
|
0,135,68,42,250,42.3,0.365,24,tested_positive
|
||||||
|
1,139,62,41,480,40.7,0.536,21,tested_negative
|
||||||
|
0,173,78,32,265,46.5,1.159,58,tested_negative
|
||||||
|
4,99,72,17,0,25.6,0.294,28,tested_negative
|
||||||
|
8,194,80,0,0,26.1,0.551,67,tested_negative
|
||||||
|
2,83,65,28,66,36.8,0.629,24,tested_negative
|
||||||
|
2,89,90,30,0,33.5,0.292,42,tested_negative
|
||||||
|
4,99,68,38,0,32.8,0.145,33,tested_negative
|
||||||
|
4,125,70,18,122,28.9,1.144,45,tested_positive
|
||||||
|
3,80,0,0,0,0,0.174,22,tested_negative
|
||||||
|
6,166,74,0,0,26.6,0.304,66,tested_negative
|
||||||
|
5,110,68,0,0,26,0.292,30,tested_negative
|
||||||
|
2,81,72,15,76,30.1,0.547,25,tested_negative
|
||||||
|
7,195,70,33,145,25.1,0.163,55,tested_positive
|
||||||
|
6,154,74,32,193,29.3,0.839,39,tested_negative
|
||||||
|
2,117,90,19,71,25.2,0.313,21,tested_negative
|
||||||
|
3,84,72,32,0,37.2,0.267,28,tested_negative
|
||||||
|
6,0,68,41,0,39,0.727,41,tested_positive
|
||||||
|
7,94,64,25,79,33.3,0.738,41,tested_negative
|
||||||
|
3,96,78,39,0,37.3,0.238,40,tested_negative
|
||||||
|
10,75,82,0,0,33.3,0.263,38,tested_negative
|
||||||
|
0,180,90,26,90,36.5,0.314,35,tested_positive
|
||||||
|
1,130,60,23,170,28.6,0.692,21,tested_negative
|
||||||
|
2,84,50,23,76,30.4,0.968,21,tested_negative
|
||||||
|
8,120,78,0,0,25,0.409,64,tested_negative
|
||||||
|
12,84,72,31,0,29.7,0.297,46,tested_positive
|
||||||
|
0,139,62,17,210,22.1,0.207,21,tested_negative
|
||||||
|
9,91,68,0,0,24.2,0.2,58,tested_negative
|
||||||
|
2,91,62,0,0,27.3,0.525,22,tested_negative
|
||||||
|
3,99,54,19,86,25.6,0.154,24,tested_negative
|
||||||
|
3,163,70,18,105,31.6,0.268,28,tested_positive
|
||||||
|
9,145,88,34,165,30.3,0.771,53,tested_positive
|
||||||
|
7,125,86,0,0,37.6,0.304,51,tested_negative
|
||||||
|
13,76,60,0,0,32.8,0.18,41,tested_negative
|
||||||
|
6,129,90,7,326,19.6,0.582,60,tested_negative
|
||||||
|
2,68,70,32,66,25,0.187,25,tested_negative
|
||||||
|
3,124,80,33,130,33.2,0.305,26,tested_negative
|
||||||
|
6,114,0,0,0,0,0.189,26,tested_negative
|
||||||
|
9,130,70,0,0,34.2,0.652,45,tested_positive
|
||||||
|
3,125,58,0,0,31.6,0.151,24,tested_negative
|
||||||
|
3,87,60,18,0,21.8,0.444,21,tested_negative
|
||||||
|
1,97,64,19,82,18.2,0.299,21,tested_negative
|
||||||
|
3,116,74,15,105,26.3,0.107,24,tested_negative
|
||||||
|
0,117,66,31,188,30.8,0.493,22,tested_negative
|
||||||
|
0,111,65,0,0,24.6,0.66,31,tested_negative
|
||||||
|
2,122,60,18,106,29.8,0.717,22,tested_negative
|
||||||
|
0,107,76,0,0,45.3,0.686,24,tested_negative
|
||||||
|
1,86,66,52,65,41.3,0.917,29,tested_negative
|
||||||
|
6,91,0,0,0,29.8,0.501,31,tested_negative
|
||||||
|
1,77,56,30,56,33.3,1.251,24,tested_negative
|
||||||
|
4,132,0,0,0,32.9,0.302,23,tested_positive
|
||||||
|
0,105,90,0,0,29.6,0.197,46,tested_negative
|
||||||
|
0,57,60,0,0,21.7,0.735,67,tested_negative
|
||||||
|
0,127,80,37,210,36.3,0.804,23,tested_negative
|
||||||
|
3,129,92,49,155,36.4,0.968,32,tested_positive
|
||||||
|
8,100,74,40,215,39.4,0.661,43,tested_positive
|
||||||
|
3,128,72,25,190,32.4,0.549,27,tested_positive
|
||||||
|
10,90,85,32,0,34.9,0.825,56,tested_positive
|
||||||
|
4,84,90,23,56,39.5,0.159,25,tested_negative
|
||||||
|
1,88,78,29,76,32,0.365,29,tested_negative
|
||||||
|
8,186,90,35,225,34.5,0.423,37,tested_positive
|
||||||
|
5,187,76,27,207,43.6,1.034,53,tested_positive
|
||||||
|
4,131,68,21,166,33.1,0.16,28,tested_negative
|
||||||
|
1,164,82,43,67,32.8,0.341,50,tested_negative
|
||||||
|
4,189,110,31,0,28.5,0.68,37,tested_negative
|
||||||
|
1,116,70,28,0,27.4,0.204,21,tested_negative
|
||||||
|
3,84,68,30,106,31.9,0.591,25,tested_negative
|
||||||
|
6,114,88,0,0,27.8,0.247,66,tested_negative
|
||||||
|
1,88,62,24,44,29.9,0.422,23,tested_negative
|
||||||
|
1,84,64,23,115,36.9,0.471,28,tested_negative
|
||||||
|
7,124,70,33,215,25.5,0.161,37,tested_negative
|
||||||
|
1,97,70,40,0,38.1,0.218,30,tested_negative
|
||||||
|
8,110,76,0,0,27.8,0.237,58,tested_negative
|
||||||
|
11,103,68,40,0,46.2,0.126,42,tested_negative
|
||||||
|
11,85,74,0,0,30.1,0.3,35,tested_negative
|
||||||
|
6,125,76,0,0,33.8,0.121,54,tested_positive
|
||||||
|
0,198,66,32,274,41.3,0.502,28,tested_positive
|
||||||
|
1,87,68,34,77,37.6,0.401,24,tested_negative
|
||||||
|
6,99,60,19,54,26.9,0.497,32,tested_negative
|
||||||
|
0,91,80,0,0,32.4,0.601,27,tested_negative
|
||||||
|
2,95,54,14,88,26.1,0.748,22,tested_negative
|
||||||
|
1,99,72,30,18,38.6,0.412,21,tested_negative
|
||||||
|
6,92,62,32,126,32,0.085,46,tested_negative
|
||||||
|
4,154,72,29,126,31.3,0.338,37,tested_negative
|
||||||
|
0,121,66,30,165,34.3,0.203,33,tested_positive
|
||||||
|
3,78,70,0,0,32.5,0.27,39,tested_negative
|
||||||
|
2,130,96,0,0,22.6,0.268,21,tested_negative
|
||||||
|
3,111,58,31,44,29.5,0.43,22,tested_negative
|
||||||
|
2,98,60,17,120,34.7,0.198,22,tested_negative
|
||||||
|
1,143,86,30,330,30.1,0.892,23,tested_negative
|
||||||
|
1,119,44,47,63,35.5,0.28,25,tested_negative
|
||||||
|
6,108,44,20,130,24,0.813,35,tested_negative
|
||||||
|
2,118,80,0,0,42.9,0.693,21,tested_positive
|
||||||
|
10,133,68,0,0,27,0.245,36,tested_negative
|
||||||
|
2,197,70,99,0,34.7,0.575,62,tested_positive
|
||||||
|
0,151,90,46,0,42.1,0.371,21,tested_positive
|
||||||
|
6,109,60,27,0,25,0.206,27,tested_negative
|
||||||
|
12,121,78,17,0,26.5,0.259,62,tested_negative
|
||||||
|
8,100,76,0,0,38.7,0.19,42,tested_negative
|
||||||
|
8,124,76,24,600,28.7,0.687,52,tested_positive
|
||||||
|
1,93,56,11,0,22.5,0.417,22,tested_negative
|
||||||
|
8,143,66,0,0,34.9,0.129,41,tested_positive
|
||||||
|
6,103,66,0,0,24.3,0.249,29,tested_negative
|
||||||
|
3,176,86,27,156,33.3,1.154,52,tested_positive
|
||||||
|
0,73,0,0,0,21.1,0.342,25,tested_negative
|
||||||
|
11,111,84,40,0,46.8,0.925,45,tested_positive
|
||||||
|
2,112,78,50,140,39.4,0.175,24,tested_negative
|
||||||
|
3,132,80,0,0,34.4,0.402,44,tested_positive
|
||||||
|
2,82,52,22,115,28.5,1.699,25,tested_negative
|
||||||
|
6,123,72,45,230,33.6,0.733,34,tested_negative
|
||||||
|
0,188,82,14,185,32,0.682,22,tested_positive
|
||||||
|
0,67,76,0,0,45.3,0.194,46,tested_negative
|
||||||
|
1,89,24,19,25,27.8,0.559,21,tested_negative
|
||||||
|
1,173,74,0,0,36.8,0.088,38,tested_positive
|
||||||
|
1,109,38,18,120,23.1,0.407,26,tested_negative
|
||||||
|
1,108,88,19,0,27.1,0.4,24,tested_negative
|
||||||
|
6,96,0,0,0,23.7,0.19,28,tested_negative
|
||||||
|
1,124,74,36,0,27.8,0.1,30,tested_negative
|
||||||
|
7,150,78,29,126,35.2,0.692,54,tested_positive
|
||||||
|
4,183,0,0,0,28.4,0.212,36,tested_positive
|
||||||
|
1,124,60,32,0,35.8,0.514,21,tested_negative
|
||||||
|
1,181,78,42,293,40,1.258,22,tested_positive
|
||||||
|
1,92,62,25,41,19.5,0.482,25,tested_negative
|
||||||
|
0,152,82,39,272,41.5,0.27,27,tested_negative
|
||||||
|
1,111,62,13,182,24,0.138,23,tested_negative
|
||||||
|
3,106,54,21,158,30.9,0.292,24,tested_negative
|
||||||
|
3,174,58,22,194,32.9,0.593,36,tested_positive
|
||||||
|
7,168,88,42,321,38.2,0.787,40,tested_positive
|
||||||
|
6,105,80,28,0,32.5,0.878,26,tested_negative
|
||||||
|
11,138,74,26,144,36.1,0.557,50,tested_positive
|
||||||
|
3,106,72,0,0,25.8,0.207,27,tested_negative
|
||||||
|
6,117,96,0,0,28.7,0.157,30,tested_negative
|
||||||
|
2,68,62,13,15,20.1,0.257,23,tested_negative
|
||||||
|
9,112,82,24,0,28.2,1.282,50,tested_positive
|
||||||
|
0,119,0,0,0,32.4,0.141,24,tested_positive
|
||||||
|
2,112,86,42,160,38.4,0.246,28,tested_negative
|
||||||
|
2,92,76,20,0,24.2,1.698,28,tested_negative
|
||||||
|
6,183,94,0,0,40.8,1.461,45,tested_negative
|
||||||
|
0,94,70,27,115,43.5,0.347,21,tested_negative
|
||||||
|
2,108,64,0,0,30.8,0.158,21,tested_negative
|
||||||
|
4,90,88,47,54,37.7,0.362,29,tested_negative
|
||||||
|
0,125,68,0,0,24.7,0.206,21,tested_negative
|
||||||
|
0,132,78,0,0,32.4,0.393,21,tested_negative
|
||||||
|
5,128,80,0,0,34.6,0.144,45,tested_negative
|
||||||
|
4,94,65,22,0,24.7,0.148,21,tested_negative
|
||||||
|
7,114,64,0,0,27.4,0.732,34,tested_positive
|
||||||
|
0,102,78,40,90,34.5,0.238,24,tested_negative
|
||||||
|
2,111,60,0,0,26.2,0.343,23,tested_negative
|
||||||
|
1,128,82,17,183,27.5,0.115,22,tested_negative
|
||||||
|
10,92,62,0,0,25.9,0.167,31,tested_negative
|
||||||
|
13,104,72,0,0,31.2,0.465,38,tested_positive
|
||||||
|
5,104,74,0,0,28.8,0.153,48,tested_negative
|
||||||
|
2,94,76,18,66,31.6,0.649,23,tested_negative
|
||||||
|
7,97,76,32,91,40.9,0.871,32,tested_positive
|
||||||
|
1,100,74,12,46,19.5,0.149,28,tested_negative
|
||||||
|
0,102,86,17,105,29.3,0.695,27,tested_negative
|
||||||
|
4,128,70,0,0,34.3,0.303,24,tested_negative
|
||||||
|
6,147,80,0,0,29.5,0.178,50,tested_positive
|
||||||
|
4,90,0,0,0,28,0.61,31,tested_negative
|
||||||
|
3,103,72,30,152,27.6,0.73,27,tested_negative
|
||||||
|
2,157,74,35,440,39.4,0.134,30,tested_negative
|
||||||
|
1,167,74,17,144,23.4,0.447,33,tested_positive
|
||||||
|
0,179,50,36,159,37.8,0.455,22,tested_positive
|
||||||
|
11,136,84,35,130,28.3,0.26,42,tested_positive
|
||||||
|
0,107,60,25,0,26.4,0.133,23,tested_negative
|
||||||
|
1,91,54,25,100,25.2,0.234,23,tested_negative
|
||||||
|
1,117,60,23,106,33.8,0.466,27,tested_negative
|
||||||
|
5,123,74,40,77,34.1,0.269,28,tested_negative
|
||||||
|
2,120,54,0,0,26.8,0.455,27,tested_negative
|
||||||
|
1,106,70,28,135,34.2,0.142,22,tested_negative
|
||||||
|
2,155,52,27,540,38.7,0.24,25,tested_positive
|
||||||
|
2,101,58,35,90,21.8,0.155,22,tested_negative
|
||||||
|
1,120,80,48,200,38.9,1.162,41,tested_negative
|
||||||
|
11,127,106,0,0,39,0.19,51,tested_negative
|
||||||
|
3,80,82,31,70,34.2,1.292,27,tested_positive
|
||||||
|
10,162,84,0,0,27.7,0.182,54,tested_negative
|
||||||
|
1,199,76,43,0,42.9,1.394,22,tested_positive
|
||||||
|
8,167,106,46,231,37.6,0.165,43,tested_positive
|
||||||
|
9,145,80,46,130,37.9,0.637,40,tested_positive
|
||||||
|
6,115,60,39,0,33.7,0.245,40,tested_positive
|
||||||
|
1,112,80,45,132,34.8,0.217,24,tested_negative
|
||||||
|
4,145,82,18,0,32.5,0.235,70,tested_positive
|
||||||
|
10,111,70,27,0,27.5,0.141,40,tested_positive
|
||||||
|
6,98,58,33,190,34,0.43,43,tested_negative
|
||||||
|
9,154,78,30,100,30.9,0.164,45,tested_negative
|
||||||
|
6,165,68,26,168,33.6,0.631,49,tested_negative
|
||||||
|
1,99,58,10,0,25.4,0.551,21,tested_negative
|
||||||
|
10,68,106,23,49,35.5,0.285,47,tested_negative
|
||||||
|
3,123,100,35,240,57.3,0.88,22,tested_negative
|
||||||
|
8,91,82,0,0,35.6,0.587,68,tested_negative
|
||||||
|
6,195,70,0,0,30.9,0.328,31,tested_positive
|
||||||
|
9,156,86,0,0,24.8,0.23,53,tested_positive
|
||||||
|
0,93,60,0,0,35.3,0.263,25,tested_negative
|
||||||
|
3,121,52,0,0,36,0.127,25,tested_positive
|
||||||
|
2,101,58,17,265,24.2,0.614,23,tested_negative
|
||||||
|
2,56,56,28,45,24.2,0.332,22,tested_negative
|
||||||
|
0,162,76,36,0,49.6,0.364,26,tested_positive
|
||||||
|
0,95,64,39,105,44.6,0.366,22,tested_negative
|
||||||
|
4,125,80,0,0,32.3,0.536,27,tested_positive
|
||||||
|
5,136,82,0,0,0,0.64,69,tested_negative
|
||||||
|
2,129,74,26,205,33.2,0.591,25,tested_negative
|
||||||
|
3,130,64,0,0,23.1,0.314,22,tested_negative
|
||||||
|
1,107,50,19,0,28.3,0.181,29,tested_negative
|
||||||
|
1,140,74,26,180,24.1,0.828,23,tested_negative
|
||||||
|
1,144,82,46,180,46.1,0.335,46,tested_positive
|
||||||
|
8,107,80,0,0,24.6,0.856,34,tested_negative
|
||||||
|
13,158,114,0,0,42.3,0.257,44,tested_positive
|
||||||
|
2,121,70,32,95,39.1,0.886,23,tested_negative
|
||||||
|
7,129,68,49,125,38.5,0.439,43,tested_positive
|
||||||
|
2,90,60,0,0,23.5,0.191,25,tested_negative
|
||||||
|
7,142,90,24,480,30.4,0.128,43,tested_positive
|
||||||
|
3,169,74,19,125,29.9,0.268,31,tested_positive
|
||||||
|
0,99,0,0,0,25,0.253,22,tested_negative
|
||||||
|
4,127,88,11,155,34.5,0.598,28,tested_negative
|
||||||
|
4,118,70,0,0,44.5,0.904,26,tested_negative
|
||||||
|
2,122,76,27,200,35.9,0.483,26,tested_negative
|
||||||
|
6,125,78,31,0,27.6,0.565,49,tested_positive
|
||||||
|
1,168,88,29,0,35,0.905,52,tested_positive
|
||||||
|
2,129,0,0,0,38.5,0.304,41,tested_negative
|
||||||
|
4,110,76,20,100,28.4,0.118,27,tested_negative
|
||||||
|
6,80,80,36,0,39.8,0.177,28,tested_negative
|
||||||
|
10,115,0,0,0,0,0.261,30,tested_positive
|
||||||
|
2,127,46,21,335,34.4,0.176,22,tested_negative
|
||||||
|
9,164,78,0,0,32.8,0.148,45,tested_positive
|
||||||
|
2,93,64,32,160,38,0.674,23,tested_positive
|
||||||
|
3,158,64,13,387,31.2,0.295,24,tested_negative
|
||||||
|
5,126,78,27,22,29.6,0.439,40,tested_negative
|
||||||
|
10,129,62,36,0,41.2,0.441,38,tested_positive
|
||||||
|
0,134,58,20,291,26.4,0.352,21,tested_negative
|
||||||
|
3,102,74,0,0,29.5,0.121,32,tested_negative
|
||||||
|
7,187,50,33,392,33.9,0.826,34,tested_positive
|
||||||
|
3,173,78,39,185,33.8,0.97,31,tested_positive
|
||||||
|
10,94,72,18,0,23.1,0.595,56,tested_negative
|
||||||
|
1,108,60,46,178,35.5,0.415,24,tested_negative
|
||||||
|
5,97,76,27,0,35.6,0.378,52,tested_positive
|
||||||
|
4,83,86,19,0,29.3,0.317,34,tested_negative
|
||||||
|
1,114,66,36,200,38.1,0.289,21,tested_negative
|
||||||
|
1,149,68,29,127,29.3,0.349,42,tested_positive
|
||||||
|
5,117,86,30,105,39.1,0.251,42,tested_negative
|
||||||
|
1,111,94,0,0,32.8,0.265,45,tested_negative
|
||||||
|
4,112,78,40,0,39.4,0.236,38,tested_negative
|
||||||
|
1,116,78,29,180,36.1,0.496,25,tested_negative
|
||||||
|
0,141,84,26,0,32.4,0.433,22,tested_negative
|
||||||
|
2,175,88,0,0,22.9,0.326,22,tested_negative
|
||||||
|
2,92,52,0,0,30.1,0.141,22,tested_negative
|
||||||
|
3,130,78,23,79,28.4,0.323,34,tested_positive
|
||||||
|
8,120,86,0,0,28.4,0.259,22,tested_positive
|
||||||
|
2,174,88,37,120,44.5,0.646,24,tested_positive
|
||||||
|
2,106,56,27,165,29,0.426,22,tested_negative
|
||||||
|
2,105,75,0,0,23.3,0.56,53,tested_negative
|
||||||
|
4,95,60,32,0,35.4,0.284,28,tested_negative
|
||||||
|
0,126,86,27,120,27.4,0.515,21,tested_negative
|
||||||
|
8,65,72,23,0,32,0.6,42,tested_negative
|
||||||
|
2,99,60,17,160,36.6,0.453,21,tested_negative
|
||||||
|
1,102,74,0,0,39.5,0.293,42,tested_positive
|
||||||
|
11,120,80,37,150,42.3,0.785,48,tested_positive
|
||||||
|
3,102,44,20,94,30.8,0.4,26,tested_negative
|
||||||
|
1,109,58,18,116,28.5,0.219,22,tested_negative
|
||||||
|
9,140,94,0,0,32.7,0.734,45,tested_positive
|
||||||
|
13,153,88,37,140,40.6,1.174,39,tested_negative
|
||||||
|
12,100,84,33,105,30,0.488,46,tested_negative
|
||||||
|
1,147,94,41,0,49.3,0.358,27,tested_positive
|
||||||
|
1,81,74,41,57,46.3,1.096,32,tested_negative
|
||||||
|
3,187,70,22,200,36.4,0.408,36,tested_positive
|
||||||
|
6,162,62,0,0,24.3,0.178,50,tested_positive
|
||||||
|
4,136,70,0,0,31.2,1.182,22,tested_positive
|
||||||
|
1,121,78,39,74,39,0.261,28,tested_negative
|
||||||
|
3,108,62,24,0,26,0.223,25,tested_negative
|
||||||
|
0,181,88,44,510,43.3,0.222,26,tested_positive
|
||||||
|
8,154,78,32,0,32.4,0.443,45,tested_positive
|
||||||
|
1,128,88,39,110,36.5,1.057,37,tested_positive
|
||||||
|
7,137,90,41,0,32,0.391,39,tested_negative
|
||||||
|
0,123,72,0,0,36.3,0.258,52,tested_positive
|
||||||
|
1,106,76,0,0,37.5,0.197,26,tested_negative
|
||||||
|
6,190,92,0,0,35.5,0.278,66,tested_positive
|
||||||
|
2,88,58,26,16,28.4,0.766,22,tested_negative
|
||||||
|
9,170,74,31,0,44,0.403,43,tested_positive
|
||||||
|
9,89,62,0,0,22.5,0.142,33,tested_negative
|
||||||
|
10,101,76,48,180,32.9,0.171,63,tested_negative
|
||||||
|
2,122,70,27,0,36.8,0.34,27,tested_negative
|
||||||
|
5,121,72,23,112,26.2,0.245,30,tested_negative
|
||||||
|
1,126,60,0,0,30.1,0.349,47,tested_positive
|
||||||
|
1,93,70,31,0,30.4,0.315,23,tested_negative
|
||||||
225
tests/data/iris.arff
Executable file
225
tests/data/iris.arff
Executable file
@@ -0,0 +1,225 @@
|
|||||||
|
% 1. Title: Iris Plants Database
|
||||||
|
%
|
||||||
|
% 2. Sources:
|
||||||
|
% (a) Creator: R.A. Fisher
|
||||||
|
% (b) Donor: Michael Marshall (MARSHALL%PLU@io.arc.nasa.gov)
|
||||||
|
% (c) Date: July, 1988
|
||||||
|
%
|
||||||
|
% 3. Past Usage:
|
||||||
|
% - Publications: too many to mention!!! Here are a few.
|
||||||
|
% 1. Fisher,R.A. "The use of multiple measurements in taxonomic problems"
|
||||||
|
% Annual Eugenics, 7, Part II, 179-188 (1936); also in "Contributions
|
||||||
|
% to Mathematical Statistics" (John Wiley, NY, 1950).
|
||||||
|
% 2. Duda,R.O., & Hart,P.E. (1973) Pattern Classification and Scene Analysis.
|
||||||
|
% (Q327.D83) John Wiley & Sons. ISBN 0-471-22361-1. See page 218.
|
||||||
|
% 3. Dasarathy, B.V. (1980) "Nosing Around the Neighborhood: A New System
|
||||||
|
% Structure and Classification Rule for Recognition in Partially Exposed
|
||||||
|
% Environments". IEEE Transactions on Pattern Analysis and Machine
|
||||||
|
% Intelligence, Vol. PAMI-2, No. 1, 67-71.
|
||||||
|
% -- Results:
|
||||||
|
% -- very low misclassification rates (0% for the setosa class)
|
||||||
|
% 4. Gates, G.W. (1972) "The Reduced Nearest Neighbor Rule". IEEE
|
||||||
|
% Transactions on Information Theory, May 1972, 431-433.
|
||||||
|
% -- Results:
|
||||||
|
% -- very low misclassification rates again
|
||||||
|
% 5. See also: 1988 MLC Proceedings, 54-64. Cheeseman et al's AUTOCLASS II
|
||||||
|
% conceptual clustering system finds 3 classes in the data.
|
||||||
|
%
|
||||||
|
% 4. Relevant Information:
|
||||||
|
% --- This is perhaps the best known database to be found in the pattern
|
||||||
|
% recognition literature. Fisher's paper is a classic in the field
|
||||||
|
% and is referenced frequently to this day. (See Duda & Hart, for
|
||||||
|
% example.) The data set contains 3 classes of 50 instances each,
|
||||||
|
% where each class refers to a type of iris plant. One class is
|
||||||
|
% linearly separable from the other 2; the latter are NOT linearly
|
||||||
|
% separable from each other.
|
||||||
|
% --- Predicted attribute: class of iris plant.
|
||||||
|
% --- This is an exceedingly simple domain.
|
||||||
|
%
|
||||||
|
% 5. Number of Instances: 150 (50 in each of three classes)
|
||||||
|
%
|
||||||
|
% 6. Number of Attributes: 4 numeric, predictive attributes and the class
|
||||||
|
%
|
||||||
|
% 7. Attribute Information:
|
||||||
|
% 1. sepal length in cm
|
||||||
|
% 2. sepal width in cm
|
||||||
|
% 3. petal length in cm
|
||||||
|
% 4. petal width in cm
|
||||||
|
% 5. class:
|
||||||
|
% -- Iris Setosa
|
||||||
|
% -- Iris Versicolour
|
||||||
|
% -- Iris Virginica
|
||||||
|
%
|
||||||
|
% 8. Missing Attribute Values: None
|
||||||
|
%
|
||||||
|
% Summary Statistics:
|
||||||
|
% Min Max Mean SD Class Correlation
|
||||||
|
% sepal length: 4.3 7.9 5.84 0.83 0.7826
|
||||||
|
% sepal width: 2.0 4.4 3.05 0.43 -0.4194
|
||||||
|
% petal length: 1.0 6.9 3.76 1.76 0.9490 (high!)
|
||||||
|
% petal width: 0.1 2.5 1.20 0.76 0.9565 (high!)
|
||||||
|
%
|
||||||
|
% 9. Class Distribution: 33.3% for each of 3 classes.
|
||||||
|
|
||||||
|
@RELATION iris
|
||||||
|
|
||||||
|
@ATTRIBUTE sepallength REAL
|
||||||
|
@ATTRIBUTE sepalwidth REAL
|
||||||
|
@ATTRIBUTE petallength REAL
|
||||||
|
@ATTRIBUTE petalwidth REAL
|
||||||
|
@ATTRIBUTE class {Iris-setosa,Iris-versicolor,Iris-virginica}
|
||||||
|
|
||||||
|
@DATA
|
||||||
|
5.1,3.5,1.4,0.2,Iris-setosa
|
||||||
|
4.9,3.0,1.4,0.2,Iris-setosa
|
||||||
|
4.7,3.2,1.3,0.2,Iris-setosa
|
||||||
|
4.6,3.1,1.5,0.2,Iris-setosa
|
||||||
|
5.0,3.6,1.4,0.2,Iris-setosa
|
||||||
|
5.4,3.9,1.7,0.4,Iris-setosa
|
||||||
|
4.6,3.4,1.4,0.3,Iris-setosa
|
||||||
|
5.0,3.4,1.5,0.2,Iris-setosa
|
||||||
|
4.4,2.9,1.4,0.2,Iris-setosa
|
||||||
|
4.9,3.1,1.5,0.1,Iris-setosa
|
||||||
|
5.4,3.7,1.5,0.2,Iris-setosa
|
||||||
|
4.8,3.4,1.6,0.2,Iris-setosa
|
||||||
|
4.8,3.0,1.4,0.1,Iris-setosa
|
||||||
|
4.3,3.0,1.1,0.1,Iris-setosa
|
||||||
|
5.8,4.0,1.2,0.2,Iris-setosa
|
||||||
|
5.7,4.4,1.5,0.4,Iris-setosa
|
||||||
|
5.4,3.9,1.3,0.4,Iris-setosa
|
||||||
|
5.1,3.5,1.4,0.3,Iris-setosa
|
||||||
|
5.7,3.8,1.7,0.3,Iris-setosa
|
||||||
|
5.1,3.8,1.5,0.3,Iris-setosa
|
||||||
|
5.4,3.4,1.7,0.2,Iris-setosa
|
||||||
|
5.1,3.7,1.5,0.4,Iris-setosa
|
||||||
|
4.6,3.6,1.0,0.2,Iris-setosa
|
||||||
|
5.1,3.3,1.7,0.5,Iris-setosa
|
||||||
|
4.8,3.4,1.9,0.2,Iris-setosa
|
||||||
|
5.0,3.0,1.6,0.2,Iris-setosa
|
||||||
|
5.0,3.4,1.6,0.4,Iris-setosa
|
||||||
|
5.2,3.5,1.5,0.2,Iris-setosa
|
||||||
|
5.2,3.4,1.4,0.2,Iris-setosa
|
||||||
|
4.7,3.2,1.6,0.2,Iris-setosa
|
||||||
|
4.8,3.1,1.6,0.2,Iris-setosa
|
||||||
|
5.4,3.4,1.5,0.4,Iris-setosa
|
||||||
|
5.2,4.1,1.5,0.1,Iris-setosa
|
||||||
|
5.5,4.2,1.4,0.2,Iris-setosa
|
||||||
|
4.9,3.1,1.5,0.1,Iris-setosa
|
||||||
|
5.0,3.2,1.2,0.2,Iris-setosa
|
||||||
|
5.5,3.5,1.3,0.2,Iris-setosa
|
||||||
|
4.9,3.1,1.5,0.1,Iris-setosa
|
||||||
|
4.4,3.0,1.3,0.2,Iris-setosa
|
||||||
|
5.1,3.4,1.5,0.2,Iris-setosa
|
||||||
|
5.0,3.5,1.3,0.3,Iris-setosa
|
||||||
|
4.5,2.3,1.3,0.3,Iris-setosa
|
||||||
|
4.4,3.2,1.3,0.2,Iris-setosa
|
||||||
|
5.0,3.5,1.6,0.6,Iris-setosa
|
||||||
|
5.1,3.8,1.9,0.4,Iris-setosa
|
||||||
|
4.8,3.0,1.4,0.3,Iris-setosa
|
||||||
|
5.1,3.8,1.6,0.2,Iris-setosa
|
||||||
|
4.6,3.2,1.4,0.2,Iris-setosa
|
||||||
|
5.3,3.7,1.5,0.2,Iris-setosa
|
||||||
|
5.0,3.3,1.4,0.2,Iris-setosa
|
||||||
|
7.0,3.2,4.7,1.4,Iris-versicolor
|
||||||
|
6.4,3.2,4.5,1.5,Iris-versicolor
|
||||||
|
6.9,3.1,4.9,1.5,Iris-versicolor
|
||||||
|
5.5,2.3,4.0,1.3,Iris-versicolor
|
||||||
|
6.5,2.8,4.6,1.5,Iris-versicolor
|
||||||
|
5.7,2.8,4.5,1.3,Iris-versicolor
|
||||||
|
6.3,3.3,4.7,1.6,Iris-versicolor
|
||||||
|
4.9,2.4,3.3,1.0,Iris-versicolor
|
||||||
|
6.6,2.9,4.6,1.3,Iris-versicolor
|
||||||
|
5.2,2.7,3.9,1.4,Iris-versicolor
|
||||||
|
5.0,2.0,3.5,1.0,Iris-versicolor
|
||||||
|
5.9,3.0,4.2,1.5,Iris-versicolor
|
||||||
|
6.0,2.2,4.0,1.0,Iris-versicolor
|
||||||
|
6.1,2.9,4.7,1.4,Iris-versicolor
|
||||||
|
5.6,2.9,3.6,1.3,Iris-versicolor
|
||||||
|
6.7,3.1,4.4,1.4,Iris-versicolor
|
||||||
|
5.6,3.0,4.5,1.5,Iris-versicolor
|
||||||
|
5.8,2.7,4.1,1.0,Iris-versicolor
|
||||||
|
6.2,2.2,4.5,1.5,Iris-versicolor
|
||||||
|
5.6,2.5,3.9,1.1,Iris-versicolor
|
||||||
|
5.9,3.2,4.8,1.8,Iris-versicolor
|
||||||
|
6.1,2.8,4.0,1.3,Iris-versicolor
|
||||||
|
6.3,2.5,4.9,1.5,Iris-versicolor
|
||||||
|
6.1,2.8,4.7,1.2,Iris-versicolor
|
||||||
|
6.4,2.9,4.3,1.3,Iris-versicolor
|
||||||
|
6.6,3.0,4.4,1.4,Iris-versicolor
|
||||||
|
6.8,2.8,4.8,1.4,Iris-versicolor
|
||||||
|
6.7,3.0,5.0,1.7,Iris-versicolor
|
||||||
|
6.0,2.9,4.5,1.5,Iris-versicolor
|
||||||
|
5.7,2.6,3.5,1.0,Iris-versicolor
|
||||||
|
5.5,2.4,3.8,1.1,Iris-versicolor
|
||||||
|
5.5,2.4,3.7,1.0,Iris-versicolor
|
||||||
|
5.8,2.7,3.9,1.2,Iris-versicolor
|
||||||
|
6.0,2.7,5.1,1.6,Iris-versicolor
|
||||||
|
5.4,3.0,4.5,1.5,Iris-versicolor
|
||||||
|
6.0,3.4,4.5,1.6,Iris-versicolor
|
||||||
|
6.7,3.1,4.7,1.5,Iris-versicolor
|
||||||
|
6.3,2.3,4.4,1.3,Iris-versicolor
|
||||||
|
5.6,3.0,4.1,1.3,Iris-versicolor
|
||||||
|
5.5,2.5,4.0,1.3,Iris-versicolor
|
||||||
|
5.5,2.6,4.4,1.2,Iris-versicolor
|
||||||
|
6.1,3.0,4.6,1.4,Iris-versicolor
|
||||||
|
5.8,2.6,4.0,1.2,Iris-versicolor
|
||||||
|
5.0,2.3,3.3,1.0,Iris-versicolor
|
||||||
|
5.6,2.7,4.2,1.3,Iris-versicolor
|
||||||
|
5.7,3.0,4.2,1.2,Iris-versicolor
|
||||||
|
5.7,2.9,4.2,1.3,Iris-versicolor
|
||||||
|
6.2,2.9,4.3,1.3,Iris-versicolor
|
||||||
|
5.1,2.5,3.0,1.1,Iris-versicolor
|
||||||
|
5.7,2.8,4.1,1.3,Iris-versicolor
|
||||||
|
6.3,3.3,6.0,2.5,Iris-virginica
|
||||||
|
5.8,2.7,5.1,1.9,Iris-virginica
|
||||||
|
7.1,3.0,5.9,2.1,Iris-virginica
|
||||||
|
6.3,2.9,5.6,1.8,Iris-virginica
|
||||||
|
6.5,3.0,5.8,2.2,Iris-virginica
|
||||||
|
7.6,3.0,6.6,2.1,Iris-virginica
|
||||||
|
4.9,2.5,4.5,1.7,Iris-virginica
|
||||||
|
7.3,2.9,6.3,1.8,Iris-virginica
|
||||||
|
6.7,2.5,5.8,1.8,Iris-virginica
|
||||||
|
7.2,3.6,6.1,2.5,Iris-virginica
|
||||||
|
6.5,3.2,5.1,2.0,Iris-virginica
|
||||||
|
6.4,2.7,5.3,1.9,Iris-virginica
|
||||||
|
6.8,3.0,5.5,2.1,Iris-virginica
|
||||||
|
5.7,2.5,5.0,2.0,Iris-virginica
|
||||||
|
5.8,2.8,5.1,2.4,Iris-virginica
|
||||||
|
6.4,3.2,5.3,2.3,Iris-virginica
|
||||||
|
6.5,3.0,5.5,1.8,Iris-virginica
|
||||||
|
7.7,3.8,6.7,2.2,Iris-virginica
|
||||||
|
7.7,2.6,6.9,2.3,Iris-virginica
|
||||||
|
6.0,2.2,5.0,1.5,Iris-virginica
|
||||||
|
6.9,3.2,5.7,2.3,Iris-virginica
|
||||||
|
5.6,2.8,4.9,2.0,Iris-virginica
|
||||||
|
7.7,2.8,6.7,2.0,Iris-virginica
|
||||||
|
6.3,2.7,4.9,1.8,Iris-virginica
|
||||||
|
6.7,3.3,5.7,2.1,Iris-virginica
|
||||||
|
7.2,3.2,6.0,1.8,Iris-virginica
|
||||||
|
6.2,2.8,4.8,1.8,Iris-virginica
|
||||||
|
6.1,3.0,4.9,1.8,Iris-virginica
|
||||||
|
6.4,2.8,5.6,2.1,Iris-virginica
|
||||||
|
7.2,3.0,5.8,1.6,Iris-virginica
|
||||||
|
7.4,2.8,6.1,1.9,Iris-virginica
|
||||||
|
7.9,3.8,6.4,2.0,Iris-virginica
|
||||||
|
6.4,2.8,5.6,2.2,Iris-virginica
|
||||||
|
6.3,2.8,5.1,1.5,Iris-virginica
|
||||||
|
6.1,2.6,5.6,1.4,Iris-virginica
|
||||||
|
7.7,3.0,6.1,2.3,Iris-virginica
|
||||||
|
6.3,3.4,5.6,2.4,Iris-virginica
|
||||||
|
6.4,3.1,5.5,1.8,Iris-virginica
|
||||||
|
6.0,3.0,4.8,1.8,Iris-virginica
|
||||||
|
6.9,3.1,5.4,2.1,Iris-virginica
|
||||||
|
6.7,3.1,5.6,2.4,Iris-virginica
|
||||||
|
6.9,3.1,5.1,2.3,Iris-virginica
|
||||||
|
5.8,2.7,5.1,1.9,Iris-virginica
|
||||||
|
6.8,3.2,5.9,2.3,Iris-virginica
|
||||||
|
6.7,3.3,5.7,2.5,Iris-virginica
|
||||||
|
6.7,3.0,5.2,2.3,Iris-virginica
|
||||||
|
6.3,2.5,5.0,1.9,Iris-virginica
|
||||||
|
6.5,3.0,5.2,2.0,Iris-virginica
|
||||||
|
6.2,3.4,5.4,2.3,Iris-virginica
|
||||||
|
5.9,3.0,5.1,1.8,Iris-virginica
|
||||||
|
%
|
||||||
|
%
|
||||||
|
%
|
||||||
Reference in New Issue
Block a user