Add Unit Test for AutotunePrep
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Philoul
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3 changed files with 536 additions and 0 deletions
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package info.nightscout.androidaps.plugins.general.autotune
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import dagger.android.HasAndroidInjector
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import info.nightscout.androidaps.R
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import info.nightscout.androidaps.TestBaseWithProfile
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import info.nightscout.androidaps.data.IobTotal
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import info.nightscout.androidaps.data.LocalInsulin
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import info.nightscout.androidaps.data.ProfileSealed
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import info.nightscout.androidaps.data.PureProfile
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import info.nightscout.androidaps.database.AppRepository
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import info.nightscout.androidaps.database.data.Block
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import info.nightscout.androidaps.database.data.TargetBlock
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import info.nightscout.androidaps.database.entities.Bolus
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import info.nightscout.androidaps.database.entities.Carbs
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import info.nightscout.androidaps.database.entities.GlucoseValue
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import info.nightscout.androidaps.interfaces.*
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import info.nightscout.androidaps.plugins.general.autotune.data.*
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import info.nightscout.androidaps.utils.DateUtil
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import info.nightscout.androidaps.utils.JsonHelper
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import info.nightscout.androidaps.utils.T
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import info.nightscout.shared.logging.AAPSLogger
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import info.nightscout.shared.sharedPreferences.SP
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import org.json.JSONArray
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import org.json.JSONObject
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import org.junit.Assert
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import org.junit.Before
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import org.junit.Test
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import org.mockito.Mock
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import org.mockito.Mockito.`when`
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import java.io.File
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import java.util.*
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import kotlin.collections.ArrayList
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class AutotunePrepTest : TestBaseWithProfile() {
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@Mock lateinit var sp: SP
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@Mock lateinit var autotuneFS: AutotuneFS
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@Mock lateinit var injector: HasAndroidInjector
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@Mock lateinit var activePlugin: ActivePlugin
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@Mock lateinit var repository: AppRepository
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lateinit var autotunePrep: AutotunePrep
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lateinit var autotuneIob: TestAutotuneIob
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lateinit var inputProfile: ATProfile
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var min5mCarbImpact = 0.0
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var autotuneMin = 0.0
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var autotuneMax = 0.0
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var startDayTime = 0L
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@Before
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fun initData() {
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TimeZone.setDefault(TimeZone.getTimeZone("GMT+2"))
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val inputProfileJson = File("src/test/res/autotune/test1/profile.pump.json").readText()
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inputProfile = atProfileFromOapsJson(JSONObject(inputProfileJson), dateUtil)!!
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val inputIobJson = File("src/test/res/autotune/test1/oaps-iobCalc.2022-05-21.json").readText() //json files build with iob/activity calculated by OAPS
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val iobOapsCalcul = buildIobOaps(JSONArray(inputIobJson))
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autotuneIob = TestAutotuneIob(aapsLogger, repository, profileFunction, sp, dateUtil, activePlugin, autotuneFS, iobOapsCalcul)
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autotunePrep = AutotunePrep(sp, dateUtil, autotuneFS, autotuneIob)
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}
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@Test
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fun autotunePrepTest() { // Test if load from file of OpenAPS categorisation is Ok
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val prepjson = File("src/test/res/autotune/test1/autotune.2022-05-21.json").readText()
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val oapsPreppedGlucose = PreppedGlucose(JSONObject(prepjson), dateUtil) //prep data calculated by OpenAPS autotune
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val oapsEntriesJson = File("src/test/res/autotune/test1/aaps-entries.2022-05-21.json").readText()
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autotuneIob.glucose = buildGlucose(JSONArray(oapsEntriesJson))
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val oapsTreatmentsJson = File("src/test/res/autotune/test1/aaps-treatments.2022-05-21.json").readText()
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autotuneIob.meals = buildMeals(JSONArray(oapsTreatmentsJson)) //Only meals is used in unit test, Insulin only used for iob calculation
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autotuneIob.boluses = buildBoluses(oapsPreppedGlucose) //Values from oapsPrepData because linked to iob calculation method for TBR
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`when`(sp.getDouble(R.string.key_openapsama_min_5m_carbimpact, 3.0)).thenReturn(min5mCarbImpact)
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val aapsPreppedGlucose = autotunePrep.categorizeBGDatums(inputProfile, inputProfile.localInsulin, false)
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try {
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aapsPreppedGlucose?.let { // compare all categorization calculated by aaps plugin (aapsPreppedGlucose) with categorization calculated by OpenAPS (oapsPreppedGlucose)
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for (i in aapsPreppedGlucose.crData.indices)
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Assert.assertTrue(oapsPreppedGlucose.crData[i].equals(aapsPreppedGlucose.crData[i]))
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for (i in aapsPreppedGlucose.csfGlucoseData.indices)
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Assert.assertTrue(oapsPreppedGlucose.csfGlucoseData[i].equals(aapsPreppedGlucose.csfGlucoseData[i]))
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for (i in aapsPreppedGlucose.isfGlucoseData.indices)
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Assert.assertTrue(oapsPreppedGlucose.isfGlucoseData[i].equals(aapsPreppedGlucose.isfGlucoseData[i]))
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for (i in aapsPreppedGlucose.basalGlucoseData.indices)
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Assert.assertTrue(oapsPreppedGlucose.basalGlucoseData[i].equals(aapsPreppedGlucose.basalGlucoseData[i]))
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}
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?: Assert.fail()
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} catch (e: Exception) {
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Assert.fail()
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}
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}
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/**
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* OpenAPS profile for Autotune only have one ISF value and one IC value
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*/
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fun atProfileFromOapsJson(jsonObject: JSONObject, dateUtil: DateUtil, defaultUnits: String? = null): ATProfile? {
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try {
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min5mCarbImpact = JsonHelper.safeGetDoubleAllowNull(jsonObject, "min_5m_carbimpact") ?: return null
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autotuneMin = JsonHelper.safeGetDoubleAllowNull(jsonObject, "autosens_min") ?: return null
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autotuneMax = JsonHelper.safeGetDoubleAllowNull(jsonObject, "autosens_max") ?: return null
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val txtUnits = JsonHelper.safeGetStringAllowNull(jsonObject, "units", defaultUnits) ?: return null
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val units = GlucoseUnit.fromText(txtUnits)
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val dia = JsonHelper.safeGetDoubleAllowNull(jsonObject, "dia") ?: return null
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val peak = JsonHelper.safeGetIntAllowNull(jsonObject, "insulinPeakTime") ?: return null
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val localInsulin = LocalInsulin("insulin", peak, dia)
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val timezone = TimeZone.getTimeZone(JsonHelper.safeGetString(jsonObject, "timezone", "UTC"))
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val isfJson = jsonObject.getJSONObject("isfProfile")
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val isfBlocks = ArrayList<Block>(1).also {
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val isfJsonArray = isfJson.getJSONArray("sensitivities")
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val value = isfJsonArray.getJSONObject(0).getDouble("sensitivity")
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it.add(0,Block((T.hours(24).secs()) * 1000L, value))
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}
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val icBlocks = ArrayList<Block>(1).also {
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val value = jsonObject.getDouble("carb_ratio")
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it.add(0,Block((T.hours(24).secs()) * 1000L, value))
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}
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val basalBlocks = blockFromJsonArray(jsonObject.getJSONArray("basalprofile"), dateUtil)
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?: return null
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val targetBlocks = ArrayList<TargetBlock>(1).also {
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it.add(0, TargetBlock((T.hours(24).secs()) * 1000L, 100.0, 100.0))
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}
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val pure = PureProfile(
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jsonObject = jsonObject,
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basalBlocks = basalBlocks,
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isfBlocks = isfBlocks,
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icBlocks = icBlocks,
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targetBlocks = targetBlocks,
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glucoseUnit = units,
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timeZone = timezone,
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dia = dia
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)
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return ATProfile(ProfileSealed.Pure(pure), localInsulin, profileInjector).also { it.dateUtil = dateUtil}
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} catch (ignored: Exception) {
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return null
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}
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}
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fun blockFromJsonArray(jsonArray: JSONArray?, dateUtil: DateUtil): List<Block>? {
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val size = jsonArray?.length() ?: return null
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val ret = ArrayList<Block>(size)
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try {
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for (index in 0 until jsonArray.length() - 1) {
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val o = jsonArray.getJSONObject(index)
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val tas = o.getInt("minutes") * 60
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val next = jsonArray.getJSONObject(index + 1)
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val nextTas = next.getInt("minutes") * 60
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val value = o.getDouble("rate")
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if (tas % 3600 != 0) return null
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if (nextTas % 3600 != 0) return null
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ret.add(index, Block((nextTas - tas) * 1000L, value))
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}
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val last: JSONObject = jsonArray.getJSONObject(jsonArray.length() - 1)
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val lastTas = last.getInt("minutes") * 60
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val value = last.getDouble("rate")
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ret.add(jsonArray.length() - 1, Block((T.hours(24).secs() - lastTas) * 1000L, value))
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} catch (e: Exception) {
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return null
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}
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return ret
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}
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fun buildBoluses(preppedGlucose: PreppedGlucose): ArrayList<Bolus> { //if categorization is correct then I return for dose function the crInsulin calculated in Oaps
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val boluses: ArrayList<Bolus> = ArrayList()
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try {
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for (i in preppedGlucose.crData.indices) {
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boluses.add(
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Bolus(
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timestamp = preppedGlucose.crData[i].crEndTime,
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amount = preppedGlucose.crData[i].crInsulin,
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type = Bolus.Type.NORMAL
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)
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)
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}
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} catch (e: Exception) { }
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return boluses
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}
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fun buildMeals(jsonArray: JSONArray): ArrayList<Carbs> {
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val list: ArrayList<Carbs> = ArrayList()
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try {
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for (index in 0 until jsonArray.length()) {
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val json = jsonArray.getJSONObject(index)
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val value = JsonHelper.safeGetDouble(json, "carbs", 0.0)
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val timestamp = JsonHelper.safeGetLong(json, "date")
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if (value > 0.0 && timestamp > startDayTime) {
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list.add(Carbs(timestamp=timestamp, amount = value, duration = 0))
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}
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}
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} catch (e: Exception) { }
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return list
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}
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fun buildGlucose(jsonArray: JSONArray): List<GlucoseValue> {
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val list: ArrayList<GlucoseValue> = ArrayList()
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try {
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for (index in 0 until jsonArray.length()) {
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val json = jsonArray.getJSONObject(index)
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val value = JsonHelper.safeGetDouble(json, "sgv")
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val timestamp = JsonHelper.safeGetLong(json, "date")
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list.add(GlucoseValue(raw = value, noise = 0.0, value = value, timestamp = timestamp, sourceSensor = GlucoseValue.SourceSensor.UNKNOWN, trendArrow = GlucoseValue.TrendArrow.FLAT))
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}
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} catch (e: Exception) { }
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if (list.size > 0)
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startDayTime = list[list.size-1].timestamp
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return list
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}
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fun buildIobOaps(jsonArray: JSONArray): ArrayList<IobTotal> { //if categorization is correct then I return for dose function the crInsulin calculated in Oaps
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val list: ArrayList<IobTotal> = ArrayList()
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for (index in 0 until jsonArray.length()) {
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val json = jsonArray.getJSONObject(index)
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val time = JsonHelper.safeGetLong(json,"date")
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val iob = JsonHelper.safeGetDouble(json, "iob")
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val activity = JsonHelper.safeGetDouble(json, "activity")
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val iobTotal = IobTotal(time)
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iobTotal.iob = iob
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iobTotal.activity = activity
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list.add(iobTotal)
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}
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return list
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}
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class TestAutotuneIob(
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val aapsLogger: AAPSLogger,
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repository: AppRepository,
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val profileFunction: ProfileFunction,
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val sp: SP,
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val dateUtil: DateUtil,
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val activePlugin: ActivePlugin,
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autotuneFS: AutotuneFS,
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val iobOapsCalcul: ArrayList<IobTotal>
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) : AutotuneIob(
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aapsLogger,
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repository,
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profileFunction,
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sp,
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dateUtil,
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activePlugin,
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autotuneFS
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) {
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override fun getIOB(time: Long, localInsulin: LocalInsulin): IobTotal {
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var bolusIob = IobTotal(time)
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iobOapsCalcul.forEach {
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if (it.time == time)
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return it
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}
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return bolusIob
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}
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}
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}
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BIN
app/src/test/res/autotune/test1/Convert_Log2JSON.xlsx
Normal file
BIN
app/src/test/res/autotune/test1/Convert_Log2JSON.xlsx
Normal file
Binary file not shown.
286
app/src/test/res/autotune/test1/oaps-iobCalc.2022-05-21.json
Normal file
286
app/src/test/res/autotune/test1/oaps-iobCalc.2022-05-21.json
Normal file
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@ -0,0 +1,286 @@
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[
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{ "iob": 5.249, "activity": 0.0391, "date": 1653099848000},
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{ "iob": 5.292, "activity": 0.0438, "date": 1653100148000},
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{ "iob": 4.964, "activity": 0.047, "date": 1653100449000},
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{ "iob": 4.674, "activity": 0.0489, "date": 1653100748000},
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{ "iob": 4.377, "activity": 0.0498, "date": 1653101048000},
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{ "iob": 4.077, "activity": 0.0498, "date": 1653101348000},
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{ "iob": 3.73, "activity": 0.0491, "date": 1653101648000},
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{ "iob": 3.389, "activity": 0.0476, "date": 1653101948000},
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{ "iob": 3.055, "activity": 0.0457, "date": 1653102249000},
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{ "iob": 2.782, "activity": 0.0436, "date": 1653102548000},
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{ "iob": 2.47, "activity": 0.0411, "date": 1653102848000},
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{ "iob": 2.22, "activity": 0.0386, "date": 1653103149000},
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{ "iob": 1.935, "activity": 0.0358, "date": 1653103448000},
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{ "iob": 1.711, "activity": 0.0332, "date": 1653103748000},
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{ "iob": 1.452, "activity": 0.0304, "date": 1653104049000},
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{ "iob": 1.927, "activity": 0.028, "date": 1653104349000},
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{ "iob": 1.84, "activity": 0.027, "date": 1653104648000},
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{ "iob": 1.658, "activity": 0.0258, "date": 1653104949000},
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{ "iob": 1.482, "activity": 0.0245, "date": 1653105248000},
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{ "iob": 1.264, "activity": 0.0229, "date": 1653105549000},
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{ "iob": 1.104, "activity": 0.0212, "date": 1653105848000},
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{ "iob": 0.952, "activity": 0.0194, "date": 1653106149000},
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{ "iob": 1.619, "activity": 0.0181, "date": 1653106449000},
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{ "iob": 1.678, "activity": 0.0184, "date": 1653106749000},
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{ "iob": 1.775, "activity": 0.0187, "date": 1653107048000},
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{ "iob": 1.581, "activity": 0.019, "date": 1653107348000},
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{ "iob": 1.437, "activity": 0.0188, "date": 1653107648000},
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{ "iob": 1.294, "activity": 0.0183, "date": 1653107948000},
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{ "iob": 1.153, "activity": 0.0176, "date": 1653108249000},
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{ "iob": 1.017, "activity": 0.0167, "date": 1653108548000},
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{ "iob": 0.887, "activity": 0.0156, "date": 1653108848000},
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{ "iob": 1.011, "activity": 0.0147, "date": 1653109148000},
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{ "iob": 0.889, "activity": 0.0141, "date": 1653109448000},
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{ "iob": 0.771, "activity": 0.0133, "date": 1653109748000},
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{ "iob": 0.656, "activity": 0.0124, "date": 1653110049000},
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{ "iob": 0.547, "activity": 0.0114, "date": 1653110348000},
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{ "iob": 0.392, "activity": 0.0103, "date": 1653110649000},
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{ "iob": 0.294, "activity": 0.0091, "date": 1653110949000},
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{ "iob": 0.2, "activity": 0.008, "date": 1653111249000},
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{ "iob": 0.065, "activity": 0.0066, "date": 1653111549000},
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{ "iob": 0.034, "activity": 0.0055, "date": 1653111849000},
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{ "iob": 0.549, "activity": 0.0048, "date": 1653112148000},
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||||
{ "iob": 0.674, "activity": 0.0053, "date": 1653112449000},
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{ "iob": 0.597, "activity": 0.0057, "date": 1653112749000},
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{ "iob": 0.468, "activity": 0.0058, "date": 1653113049000},
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||||
{ "iob": 0.389, "activity": 0.0057, "date": 1653113349000},
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||||
{ "iob": 0.262, "activity": 0.0053, "date": 1653113649000},
|
||||
{ "iob": 0.186, "activity": 0.0048, "date": 1653113949000},
|
||||
{ "iob": 0.064, "activity": 0.0041, "date": 1653114249000},
|
||||
{ "iob": -0.005, "activity": 0.0034, "date": 1653114549000},
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||||
{ "iob": -0.12, "activity": 0.0026, "date": 1653114849000},
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||||
{ "iob": -0.181, "activity": 0.0018, "date": 1653115149000},
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||||
{ "iob": -0.287, "activity": 0.0008, "date": 1653115449000},
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||||
{ "iob": -0.34, "activity": 0, "date": 1653115749000},
|
||||
{ "iob": -0.436, "activity": -0.001, "date": 1653116049000},
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||||
{ "iob": -0.48, "activity": -0.0018, "date": 1653116349000},
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{ "iob": -0.519, "activity": -0.0026, "date": 1653116649000},
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||||
{ "iob": -0.554, "activity": -0.0034, "date": 1653116949000},
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{ "iob": -0.585, "activity": -0.0041, "date": 1653117249000},
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{ "iob": -0.662, "activity": -0.0049, "date": 1653117549000},
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{ "iob": -0.687, "activity": -0.0055, "date": 1653117848000},
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{ "iob": -0.708, "activity": -0.0061, "date": 1653118149000},
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{ "iob": -0.726, "activity": -0.0066, "date": 1653118449000},
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{ "iob": -0.351, "activity": -0.0071, "date": 1653118748000},
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||||
{ "iob": -0.218, "activity": -0.0064, "date": 1653119049000},
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||||
{ "iob": -0.088, "activity": -0.0055, "date": 1653119349000},
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||||
{ "iob": 13.594, "activity": 0.0023, "date": 1653119649000},
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||||
{ "iob": 13.552, "activity": 0.0331, "date": 1653119949000},
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||||
{ "iob": 13.224, "activity": 0.0573, "date": 1653120249000},
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||||
{ "iob": 12.838, "activity": 0.076, "date": 1653120548000},
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{ "iob": 12.322, "activity": 0.09, "date": 1653120849000},
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{ "iob": 11.794, "activity": 0.1001, "date": 1653121149000},
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{ "iob": 11.177, "activity": 0.1068, "date": 1653121449000},
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{ "iob": 10.58, "activity": 0.111, "date": 1653121749000},
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{ "iob": 9.919, "activity": 0.1129, "date": 1653122049000},
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{ "iob": 9.254, "activity": 0.1129, "date": 1653122349000},
|
||||
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]
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||||
|
||||
Loading…
Reference in a new issue