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Author SHA1 Message Date
Pritimay Sarkar
4fef75b937 add new thresholds with additonal method and unit tests 2024-02-06 13:44:00 +05:30
16 changed files with 52 additions and 274 deletions

View File

@@ -14,13 +14,13 @@ android {
compileSdk 34
namespace 'in.sminnovations.hpostesting'
// prod - production, preprod - preproduction, quality - qc, dev - development
// dev - development, quality - qc, uat - User Acceptance Test, preprod - preproduction, prod - production
defaultConfig {
applicationId "in.sminnovations.hpostesting.quality"
minSdk 21
targetSdk 34
versionCode 99
versionName "2.1.99"
versionCode 101
versionName "2.1.101"
testInstrumentationRunner "androidx.test.runner.AndroidJUnitRunner"
}
@@ -157,7 +157,7 @@ dependencies {
implementation("com.squareup.okhttp3:okhttp:4.9.3")
implementation "androidx.preference:preference-ktx:1.2.1"
implementation 'org.jetbrains.kotlinx:kotlinx-coroutines-android:1.7.1'
implementation 'io.nats:jnats:2.11.2'
implementation("androidx.work:work-runtime-ktx:2.9.0")
@@ -165,6 +165,4 @@ dependencies {
implementation 'com.google.android.play:core:1.10.3'
implementation fileTree(dir: 'libs', include: ['*.aar'])
implementation 'io.nats:jnats:2.11.4'
}

BIN
app/release/hpos-app.apk Normal file

Binary file not shown.

View File

@@ -4,15 +4,15 @@
"type": "APK",
"kind": "Directory"
},
"applicationId": "in.sminnovations.hpostesting.quality",
"applicationId": "com.example.hpos",
"variantName": "release",
"elements": [
{
"type": "SINGLE",
"filters": [],
"attributes": [],
"versionCode": 101,
"versionName": "2.1.101",
"versionCode": 1,
"versionName": "1.0",
"outputFile": "app-release.apk"
}
],

View File

@@ -119,8 +119,7 @@
android:theme="@style/AppTheme.NoActionBar">
<intent-filter>
<action android:name="android.intent.action.MAIN" />
<category android:name="android.intent.category.HOME" />
<category android:name="android.intent.category.DEFAULT" />
<category android:name="android.intent.category.LAUNCHER" />
</intent-filter>
</activity>

View File

@@ -7,11 +7,8 @@ import com.example.hpostesting.data.model.updates.CheckUpdateRequest
import com.example.hpostesting.data.model.updates.CheckUpdateResponse
import com.example.hpostesting.data.model.updates.DeviceUpdateRequest
import okhttp3.MultipartBody
import okhttp3.Response
import okhttp3.ResponseBody
import retrofit2.http.Body
import retrofit2.http.GET
import retrofit2.http.Header
import retrofit2.http.Multipart
import retrofit2.http.POST
import retrofit2.http.PUT
@@ -34,10 +31,6 @@ interface MolbioResultApi {
@Body deviceUpdateRequest: DeviceUpdateRequest
): ResponseBody
@GET("deviceService/device/getClientCertificate")
suspend fun downloadClientCertificate(
): ResponseBody
@Multipart
@POST("deviceService/device/uploadLogs")
suspend fun uploadLogs(

View File

@@ -8,7 +8,7 @@ object Constants {
const val ABHA_APP_PACKAGE = "in.ndhm.phr"
const val MOLBIO_INTERGATION = false
const val MOLBIO_INTEGRATION = false
const val deviceProvisionEmail = "HPOS_provisioner@bigtec.co.in"
const val deviceProvisionPassword = "f2ab0e7f9d69"
const val DEVICE_ID_API = "deviceIDAPI"

View File

@@ -77,9 +77,6 @@ class DatabaseRepository @Inject constructor(
return safeApiCall { molbioResultApi.deviceUpdate(deviceUpdateRequest) }
}
override suspend fun downloadClientCertificate(): Result<ResponseBody> {
return safeApiCall { molbioResultApi.downloadClientCertificate() }
}
override suspend fun uploadLogs(logFile: MultipartBody.Part): Result<UploadLogsResponse> {
return safeApiCall { molbioResultApi.uploadLogs(logFile) }
}

View File

@@ -45,6 +45,5 @@ interface Repository {
suspend fun deviceUpdate(deviceUpdateRequest: DeviceUpdateRequest): Result<ResponseBody>
suspend fun downloadClientCertificate(): Result<ResponseBody>
suspend fun uploadLogs(logFile: MultipartBody.Part): Result<UploadLogsResponse>
}

View File

@@ -1,9 +1,6 @@
package com.example.hpostesting.presentation
import android.os.Build
import android.util.Log
import androidx.annotation.RequiresApi
import com.example.hpostesting.presentation.assurance.AssuranceControlsActivity
import com.example.hpostesting.presentation.dashboard.DashboardActivity
import io.nats.client.AuthHandler
import io.nats.client.Connection
@@ -11,21 +8,9 @@ import io.nats.client.Message
import io.nats.client.NKey
import io.nats.client.Nats
import io.nats.client.Options
import java.io.BufferedInputStream
import java.io.File
import java.io.FileInputStream
import java.io.IOException
import java.nio.charset.StandardCharsets
import java.nio.file.Paths
import java.security.GeneralSecurityException
import java.security.KeyStore
import java.security.SecureRandom
import java.security.cert.CertificateFactory
import javax.net.ssl.KeyManager
import javax.net.ssl.KeyManagerFactory
import javax.net.ssl.SSLContext
import javax.net.ssl.TrustManager
import javax.net.ssl.TrustManagerFactory
class NatsManager(datacollector: DashboardActivity) {
@@ -35,57 +20,17 @@ class NatsManager(datacollector: DashboardActivity) {
val datacollector = datacollector
var connect = false
private fun createSSLContext(): SSLContext {
val keyStorePassword = "prime24".toCharArray() // Change as necessary
val clientCertPath = "/storage/sdcard0/Download/client.p12"
// Load client certificate and key
val keyStore = KeyStore.getInstance("PKCS12")
FileInputStream(clientCertPath).use { keyStoreInputStream ->
keyStore.load(keyStoreInputStream, keyStorePassword)
}
val caCertPath = "/storage/sdcard0/Android/data/in.sminnovations.hpostesting.quality/files/NATS/clientCertificate/client-cert.pem"
val caCert = FileInputStream(caCertPath).use { inputStream ->
val certificateFactory = CertificateFactory.getInstance("X.509")
certificateFactory.generateCertificate(inputStream)
}
val trustStore = KeyStore.getInstance(KeyStore.getDefaultType()).apply {
load(null, null) // Initialize the keystore
setCertificateEntry("caCert", caCert) // Add the CA certificate
}
// Initialize key manager factory
val kmf = KeyManagerFactory.getInstance(KeyManagerFactory.getDefaultAlgorithm())
kmf.init(keyStore, keyStorePassword)
// Initialize trust manager factory
val tmf = TrustManagerFactory.getInstance(TrustManagerFactory.getDefaultAlgorithm())
tmf.init(trustStore)
// Initialize SSLContext
val sslContext = SSLContext.getInstance("TLS")
sslContext.init(kmf.keyManagers, tmf.trustManagers, SecureRandom())
return sslContext
}
@RequiresApi(Build.VERSION_CODES.O)
fun connect() {
Log.d(TAG, "TRY TO CONNECT")
Thread {
val seedString = "SUAJH5VMO6GDRQA6QTXCLIJMS74IWIUTU3NJVYIOTZF2LBWUPD77DA2ZEA"
Log.e("seedString",seedString)
val seedString = "SUAEB5PUWNS6C2HUV3MFI6HUDEAPGPFPBHMI73NHIQATCDD2BWALVEZXZ4"
val seedBytes = seedString.toCharArray()
val theNKey = NKey.fromSeed(seedBytes) // really should load from somewhere
val options = Options.Builder()
.server("nats://nanodgx.in:4222")
.sslContext(createSSLContext())
.server("nats://192.168.10.117:4222")
.authHandler(object : AuthHandler {
override fun getID(): CharArray? {
return try {
@@ -123,11 +68,6 @@ class NatsManager(datacollector: DashboardActivity) {
connect = true
datacollector.setConnect(true)
if (nc?.status == Connection.Status.CONNECTED) {
Log.e("NATSCONNECTION", "NATS is successfully connected.")
} else {
Log.e("NATSCONNECTION", "NATS is not connected. Current status: ${nc?.status}")
}
nc?.publish(
"server.hpos.HCV-000-3001.ping",
@@ -142,7 +82,6 @@ class NatsManager(datacollector: DashboardActivity) {
println("PRITIMOI SARKAR $msg")
}
d?.subscribe("device.hpos.HCV-000-3001.update") { msg ->
val response = String(msg.data, StandardCharsets.UTF_8)
datacollector. setResponse(response)
@@ -176,7 +115,7 @@ class NatsManager(datacollector: DashboardActivity) {
} catch (exp: Exception) {
println(exp.printStackTrace())
connect = false
datacollector.setConnect(false)
datacollector.setConnect(true)
}
}.start()

View File

@@ -3,19 +3,14 @@ package com.example.hpostesting.presentation.assurance
import android.content.Context
import android.content.SharedPreferences
import android.os.Bundle
import android.util.Log
import androidx.appcompat.app.AppCompatActivity
import com.example.hpostesting.presentation.NatsManager
import com.example.hpostesting.presentation.dashboard.IDataCollector
import dagger.hilt.android.AndroidEntryPoint
import `in`.sminnovations.hpostesting.databinding.ActivityAssuranceControlsBinding
@AndroidEntryPoint
class AssuranceControlsActivity: AppCompatActivity(), IDataCollector {
class AssuranceControlsActivity: AppCompatActivity() {
lateinit var binding: ActivityAssuranceControlsBinding
lateinit var sharedPreference: SharedPreferences
lateinit var nats: NatsManager
var responses: String = ""
override fun onCreate(savedInstanceState: Bundle?) {
super.onCreate(savedInstanceState)
@@ -29,21 +24,5 @@ class AssuranceControlsActivity: AppCompatActivity(), IDataCollector {
.replace(binding.fgAssuranceControls.id, AssuranceControlsFragment())
.commit()
}
// nats = NatsManager(this)
// nats.connect()
// nats.pub("server.hpos.HCV-000-3001.ping", "THIS IS A TEST MSG")
}
override fun setConnect(connect: Boolean) {
if(connect){
Log.i("NATS Connection", connect.toString())
}
}
override fun setResponse(response: String) {
responses = responses+response+"\n"
println(responses)
}
}

View File

@@ -43,19 +43,11 @@ import com.google.firebase.perf.ktx.performance
import dagger.hilt.android.AndroidEntryPoint
import `in`.sminnovations.hpostesting.R
import `in`.sminnovations.hpostesting.databinding.FragmentHomeBinding
import okhttp3.ResponseBody
import org.json.JSONObject
import java.io.BufferedOutputStream
import java.io.File
import java.io.FileInputStream
import java.io.FileOutputStream
import java.net.URL
import java.text.SimpleDateFormat
import java.util.Calendar
import java.util.Date
import java.util.Locale
import java.util.zip.ZipEntry
import java.util.zip.ZipInputStream
@AndroidEntryPoint
class HomeFragment : Fragment() {
@@ -70,6 +62,7 @@ class HomeFragment : Fragment() {
private val homeViewModel: HemoCubeViewModel by activityViewModels()
private var isTokenAvailable = false
private lateinit var sharedPreference: SharedPreferences
override fun onCreateView(
inflater: LayoutInflater, container: ViewGroup?, savedInstanceState: Bundle?,
@@ -210,7 +203,6 @@ class HomeFragment : Fragment() {
hemoCubeViewModel.deviceUpdate(createDeviceUpdateRequestData())
hemoCubeViewModel.uploadLogs()
hemoCubeViewModel.startPeriodicCheckUpdate()
hemoCubeViewModel.downloadClientCertificate()
}
}
} else {
@@ -220,11 +212,6 @@ class HomeFragment : Fragment() {
Toast.LENGTH_SHORT
).show()
}
hemoCubeViewModel.loginResponse.observe(viewLifecycleOwner) { response ->
when (response) {
is Result.Success -> {
@@ -279,41 +266,6 @@ class HomeFragment : Fragment() {
}
}
hemoCubeViewModel.downloadcertificate.observe(viewLifecycleOwner) { response ->
when (response) {
is Result.Success -> {
val url = response.data
val fileName = "nats_certificate.zip"
val downloadDirectory = "NATS"
val file = downloadFile(url, requireContext(), fileName, downloadDirectory)
Toast.makeText(requireContext(), "NATS certificate Downloaded", Toast.LENGTH_SHORT).show()
val unzipDirectoryPath = requireContext().getExternalFilesDir(null)?.absolutePath + "/$downloadDirectory"
unzip(file.absolutePath, unzipDirectoryPath)
Toast.makeText(requireContext(), "NATS certificate Extracted", Toast.LENGTH_SHORT).show()
}
is Result.Error -> {
response.exception.let { message ->
Toast.makeText(
activity,
"An error occurred in nats download: $message",
Toast.LENGTH_LONG
)
.show()
}
}
is Result.Loading -> {
}
else -> {}
}
}
hemoCubeViewModel.resultUpload.observe(viewLifecycleOwner) {
when (it) {
is Result.Success -> {
@@ -338,11 +290,8 @@ class HomeFragment : Fragment() {
else -> {}
}
}
}
private fun isTokenExpired(token: String): Boolean {
val parts = token.split("\\.".toRegex()).dropLastWhile { it.isEmpty() }.toTypedArray()
val decodedPayload = String(Base64.decode(parts[1], Base64.DEFAULT))
@@ -392,60 +341,6 @@ class HomeFragment : Fragment() {
)
}
private fun downloadFile(responseBody: ResponseBody, context: Context, fileName: String, downloadDirectory: String): File {
// Ensure the download directory exists
val fileDir = File(context.getExternalFilesDir(null), downloadDirectory)
if (!fileDir.exists()) {
fileDir.mkdirs()
}
val file = File(fileDir, fileName)
Log.d("Download", "Starting download to $file")
responseBody.byteStream().use { inputStream ->
FileOutputStream(file).use { outputStream ->
inputStream.copyTo(outputStream)
}
}
// After download
Log.d("Download", "Download completed to ${file.absolutePath}")
return file
}
private fun unzip(zipFilePath: String, destDirectory: String) {
val destDir = File(destDirectory)
if (!destDir.exists()) {
destDir.mkdir()
}
ZipInputStream(FileInputStream(zipFilePath)).use { zipIn ->
var entry: ZipEntry? = zipIn.nextEntry
while (entry != null) {
val filePath = destDirectory + File.separator + entry.name
if (!entry.isDirectory) {
extractFile(zipIn, filePath)
} else {
val dir = File(filePath)
dir.mkdir()
}
zipIn.closeEntry()
entry = zipIn.nextEntry
}
}
}
private fun extractFile(zipIn: ZipInputStream, filePath: String) {
BufferedOutputStream(FileOutputStream(filePath)).use { bos ->
val bytesIn = ByteArray(4096)
var read: Int
while (zipIn.read(bytesIn).also { read = it } != -1) {
bos.write(bytesIn, 0, read)
}
}
}
private fun setUserId() {
binding.btnSubmit.setOnClickListener {
val userId = binding.userId.text.toString()

View File

@@ -4,7 +4,6 @@ import android.content.Context
import android.content.Intent
import android.content.SharedPreferences
import android.os.Bundle
import android.util.Log
import android.view.LayoutInflater
import android.view.View
import android.view.ViewGroup
@@ -75,11 +74,6 @@ class DeviceProvisionFragment : Fragment() {
Constants.NATS_TOKEN,
response.data.data?.device?.deviceUser?.natsToken
)
response.data.data?.device?.deviceUser?.natsToken?.let {
Log.e("natstoken",
it
)
}
putString(
Constants.NATS_TOKEN_EXPIRE_DATE,
response.data.data?.device?.deviceUser?.natsTokenExpiry

View File

@@ -153,7 +153,7 @@ class HemoCubeFragment : Fragment() {
when (it) {
is Result.Success -> {
uploadedToMolbio = true
if (Constants.MOLBIO_INTERGATION) {
if (Constants.MOLBIO_INTEGRATION) {
it.data.data?.get(0)?.rawData?.let { it1 ->
hemoCubeViewModel.updateMolbioFlag(
it1._id
@@ -805,8 +805,8 @@ class HemoCubeFragment : Fragment() {
calculatedPredictedDenovixRatio = fittedAbs3.div(fittedAbs1)
val slope = (led1Average - led2Average) / (435 - 415)
val calculatedSlopeRatio = abs(led3Average / slope)
val slope = (led4Average - led1Average) / (431-411)
val calculatedSlopeRatio = abs(led2Average / slope)
val slopeClass = slopeRatioClassification(calculatedSlopeRatio)
if (fittedAbs1 <= fittedAbs2) {
@@ -874,8 +874,8 @@ class HemoCubeFragment : Fragment() {
this.prdClassification = absorbanceBasedClassification(predictedDenovixRatio)
this.deviceRatioClass = deviceRatioClassification(deviceRatio)
this.slopeRatioClass = slopeClass
this.classificationResult = deviceRatioClass //findResult(calculatedRatio)
hemoCubeViewModel.messages.postValue("${this.deviceRatioClass} ${if (led4Average < 0.17) " - Low Hb" else ""}\n")
this.classificationResult = findResultWithAdditionalMethods(deviceRatio, deviceRatioClass, slopeRatio)
hemoCubeViewModel.messages.postValue("${this.classificationResult} ")
if (DataHolder.hemoCubeTestData?.testType == "HB")
hemoCubeViewModel.messages.postValue("Hb: $calculatedHb4")
this.errorMessages = testState.allErrorMessages
@@ -909,50 +909,36 @@ class HemoCubeFragment : Fragment() {
}
}
fun findResult(calculatedRatio: Double?): String {
fun findResultWithAdditionalMethods(deviceRatio: Double?, deviceRatioClass: String?, slopeRatio: Double?): String {
try {
hemoCubeViewModel.messages.postValue("result classification")
if (calculatedRatio != null) {
if (calculatedRatio < 0.05)
return getString(R.string.error_repeat_test_higher_volume)
if (calculatedRatio in 0.05..0.155) {
return getString(R.string.normal)
// hemoCubeViewModel.messages.postValue("post classification checks")
if (deviceRatio != null) {
if (slopeRatio != null) {
if (deviceRatioClass == "Normal" && slopeRatio > 60.0)
return "Negative Borderline, Repeat Test"
}
if (calculatedRatio in 0.155..0.175)
return getString(R.string.negative_borderline)
if (calculatedRatio in 0.175..0.22)
return getString(R.string.sickle_cell_trait)
if (calculatedRatio in 0.22..0.25)
return getString(R.string.positive_for_sickle_cell)
if (calculatedRatio in 0.25..0.35)
return getString(R.string.sickle_cell_disease)
if (calculatedRatio > 0.35)
return getString(R.string.error_repeat_test_lower_volume)
} else {
return getString(R.string.invalid)
}
} catch (e: Exception) {
showToast(R.string.error_classification)
Firebase.crashlytics.recordException(e)
return getString(R.string.error)
handleException(e)
return "Error"
}
return getString(R.string.invalid)
return deviceRatioClass.toString()
}
fun deviceRatioClassification(ratio: Double?): String {
try {
if (ratio != null) {
if (ratio in 0.1..0.29) {
if (ratio in 0.001..0.23) {
// setSubtitleTextColor(R.color.green_2)
return "Normal"
}
if (ratio in 0.29..0.32)
if (ratio in 0.23..0.24)
return "Negative Borderline, Repeat Test"
if (ratio in 0.32..0.35)
if (ratio in 0.24..0.29)
return "Sickle Cell Trait"
if (ratio in 0.35..0.38)
if (ratio in 0.29..0.32)
return "Positive for Sickle Cell. HPLC for Confirmation"
if (ratio in 0.38..0.5)
if (ratio in 0.32..Double.POSITIVE_INFINITY)
return "Sickle Cell Disease"
} else {
return "Invalid"

View File

@@ -79,7 +79,6 @@ class HemoCubeViewModel @Inject constructor(
val checkUpdate = MutableLiveData<Result<CheckUpdateResponse>>()
val deviceUpdate = MutableLiveData<Result<ResponseBody>>()
val downloadcertificate = MutableLiveData<Result<ResponseBody>>()
val uploadLogs = MutableLiveData<Result<UploadLogsResponse>?>()
@@ -142,9 +141,6 @@ class HemoCubeViewModel @Inject constructor(
}
}
fun checkUpdate(checkUpdateRequest: CheckUpdateRequest) = viewModelScope.launch {
checkUpdate.postValue(Result.Loading())
repository.checkUpdate(checkUpdateRequest).let {
@@ -159,17 +155,6 @@ class HemoCubeViewModel @Inject constructor(
}
}
fun downloadClientCertificate() = viewModelScope.launch {
downloadcertificate.postValue(Result.Loading())
repository.downloadClientCertificate().let {
downloadcertificate.postValue(it)
}
}
fun startPeriodicCheckUpdate() {
val periodicRequest = PeriodicWorkRequestBuilder<CheckUpdateWorker>(
repeatInterval = 1, repeatIntervalTimeUnit = TimeUnit.MINUTES

View File

@@ -156,7 +156,7 @@ class TrueHemeFragment : Fragment() {
when (it) {
is Result.Success -> {
uploadedToMolbio = true
if (Constants.MOLBIO_INTERGATION) {
if (Constants.MOLBIO_INTEGRATION) {
it.data.data?.get(0)?.rawData?.let { it1 ->
hemoCubeViewModel.updateMolbioFlag(
it1._id

View File

@@ -318,28 +318,28 @@ class HemoCubeFragmentTest {
@Test
fun testDeviceRatioClassificationNormal() {
val ratio = 0.25
val ratio = 0.22
val result = hemoCubeFragment.deviceRatioClassification(ratio)
assertEquals("Normal", result)
}
@Test
fun testDeviceRatioClassificationNegativeBorderline() {
val ratio = 0.31
val ratio = 0.235
val result = hemoCubeFragment.deviceRatioClassification(ratio)
assertEquals("Negative Borderline, Repeat Test", result)
}
@Test
fun testDeviceRatioClassificationSickleCellTrait() {
val ratio = 0.34
val ratio = 0.25
val result = hemoCubeFragment.deviceRatioClassification(ratio)
assertEquals("Sickle Cell Trait", result)
}
@Test
fun testDeviceRatioClassificationPositiveForSickleCell() {
val ratio = 0.37
val ratio = 0.31
val result = hemoCubeFragment.deviceRatioClassification(ratio)
assertEquals("Positive for Sickle Cell. HPLC for Confirmation", result)
}
@@ -357,4 +357,18 @@ class HemoCubeFragmentTest {
val result = hemoCubeFragment.deviceRatioClassification(ratio)
assertEquals("Invalid", result)
}
@Test
fun findResultWithAdditionalMethods_ValidInput_ReturnsNegativeBorderlineRepeatTest() {
// `when`(hemoCubeFragment.findResultWithAdditionalMethods(0.5, "Normal", 70.0)).thenReturn("Negative Borderline, Repeat Test")
val result = hemoCubeFragment.findResultWithAdditionalMethods(0.5, "Normal", 70.0)
assertEquals("Negative Borderline, Repeat Test", result)
}
@Test
fun findResultWithAdditionalMethods_ValidInput_ReturnsDeviceRatioClassToString() {
// `when`(hemoCubeFragment.findResultWithAdditionalMethods(0.5, "Abnormal", 70.0)).thenReturn("Invalid")
val result = hemoCubeFragment.findResultWithAdditionalMethods(0.5, "Abnormal", 70.0)
assertEquals("Abnormal", result)
}
}