Add HV and plots for set
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package ru.inr.mass.data.proto
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import hep.dataforge.io.Envelope
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import hep.dataforge.meta.get
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import hep.dataforge.meta.string
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import kotlinx.datetime.Instant
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import kotlinx.datetime.toInstant
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import kotlinx.io.text.forEachUtf8Line
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public data class HVEntry(val timestamp: Instant, val value: Double, val channel: Int = 1) {
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public companion object {
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public fun readString(line: String): HVEntry {
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val (timeStr, channelStr, valueStr) = line.split(' ')
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return HVEntry(timeStr.toInstant(), valueStr.toDouble(), channelStr.toInt())
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}
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public fun readEnvelope(envelope: Envelope): List<HVEntry> {
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check(envelope.meta["type"].string == "voltage"){"Expecting voltage type envelope"}
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return buildList {
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envelope.data?.read {
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forEachUtf8Line { str -> add(readString(str)) }
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}
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}
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}
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}
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}
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@ -23,7 +23,7 @@ public class NumassDirectorySet internal constructor(
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override val meta: Meta by lazy {
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val metaFilePath = path / "meta"
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if (metaFilePath.exists()) {
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val envelope = context.io.readEnvelopeFile(metaFilePath) ?: error("Envelope could not be read from $metaFilePath")
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val envelope = context.io.readEnvelopeFile(metaFilePath)
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envelope.meta
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} else {
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context.logger.warn { "Meta file does not exist for Numass set $metaFilePath" }
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@ -31,7 +31,7 @@ public class NumassDirectorySet internal constructor(
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}
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}
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override val points: List<NumassPoint> by lazy<List<NumassPoint>> {
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override val points: List<NumassPoint> by lazy {
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Files.list(path).filter {
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it.fileName.name.startsWith("p")
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}.map { pointPath ->
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@ -43,11 +43,22 @@ public class NumassDirectorySet internal constructor(
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}
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}.toList().filterNotNull()
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}
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@OptIn(DFExperimental::class)
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public val hvData: List<HVEntry>? get(){
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val hvFile = path/"voltage"
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return if( hvFile.exists()){
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val envelope = context.io.readEnvelopeFile(hvFile)
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HVEntry.readEnvelope(envelope)
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} else {
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null
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}
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}
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}
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@OptIn(DFExperimental::class)
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public fun Context.readNumassPointFile(path: Path): NumassPoint? {
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val envelope = io.readEnvelopeFile(path) ?: error("Envelope could not be read from $path")
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val envelope = io.readEnvelopeFile(path)
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return ProtoNumassPoint.fromEnvelope(envelope)
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}
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34
numass-workspace/numass.json
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34
numass-workspace/numass.json
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{
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"imports": [
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"kscience.plotly.*",
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"kscience.plotly.models.*",
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"kscience.plotly.JupyterPlotly",
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"hep.dataforge.meta.*",
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"kotlinx.html.*",
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"ru.inr.mass.workspace.*"
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],
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"repositories": [
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"*mavenLocal",
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"https://dl.bintray.com/mipt-npm/dataforge",
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"https://dl.bintray.com/mipt-npm/kscience",
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"https://dl.bintray.com/mipt-npm/dev"
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],
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"properties": {
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"v": "0.1.0-SNAPSHOT"
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},
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"link": "https://mipt-npm.jetbrains.space/p/numass/code/numass",
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"dependencies": [
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"ru.inr.mass:numass-workspace:$v"
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],
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"init": [
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"DISPLAY(HTML(JupyterPlotly.loadJs().toString()))",
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"DISPLAY(HTML(\"<p>Plotly.kt jupyter integration is in the development phase. Expect glitches!</p>\"))"
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],
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"renderers": {
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"kscience.plotly.HtmlFragment": "HTML($it.toString())",
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"kscience.plotly.Plot": "HTML(JupyterPlotly.renderPlot($it))",
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"kscience.plotly.PlotlyFragment": "HTML(JupyterPlotly.renderFragment($it))",
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"kscience.plotly.PlotlyPage": "HTML(JupyterPlotly.renderPage($it), true)",
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"ru.inr.mass.data.proto.NumassDirectorySet": "HTML(JupyterPlotly.renderPage(${it.plotlyPage}), true)"
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}
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}
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@ -20,7 +20,7 @@ fun NumassPoint.spectrum(): UnivariateHistogram =
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fun Collection<NumassPoint>.spectrum(): UnivariateHistogram {
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if (distinctBy { it.voltage }.size != 1) {
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numass.logger.warn { "Spectrum is generated from points with different hv value: $this" }
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NUMASS.logger.warn { "Spectrum is generated from points with different hv value: $this" }
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}
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return UnivariateHistogram.uniform(1.0) {
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@ -31,3 +31,16 @@ fun Collection<NumassPoint>.spectrum(): UnivariateHistogram {
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}
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}
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}
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/**
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* Re-shape the spectrum with the increased bin size and range. Throws a error if new bin is smaller than before.
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*/
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fun UnivariateHistogram.reShape(
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binSize: Int,
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channelRange: IntRange,
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): UnivariateHistogram = UnivariateHistogram.uniform(binSize.toDouble()) {
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this@reShape.filter { it.position.toInt() in channelRange }.forEach { bin ->
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if(bin.size > binSize.toDouble()) error("Can't reShape the spectrum with increased binning")
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putMany(bin.position, bin.value.toLong())
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}
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}
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package ru.inr.mass.workspace
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import ru.inr.mass.data.proto.NumassDirectorySet
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import ru.inr.mass.data.proto.readNumassDirectory
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fun readNumassDirectory(path: String): NumassDirectorySet = NUMASS.context.readNumassDirectory(path)
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package ru.inr.mass.workspace
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import kotlinx.html.h1
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import kotlinx.html.h2
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import kscience.kmath.histogram.UnivariateHistogram
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import kscience.kmath.misc.UnstableKMathAPI
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import kscience.plotly.*
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import kscience.plotly.models.Bar
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import kscience.plotly.models.Scatter
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import kscience.plotly.models.Trace
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import ru.inr.mass.data.api.NumassPoint
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import ru.inr.mass.data.proto.HVEntry
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import ru.inr.mass.data.proto.NumassDirectorySet
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@OptIn(UnstableKMathAPI::class)
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fun Trace.fromSpectrum(histogram: UnivariateHistogram) {
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x.numbers = histogram.map { it.position }
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y.numbers = histogram.map { it.value }
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}
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/**
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*
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*/
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@OptIn(UnstableKMathAPI::class)
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fun Plot.spectrum(name: String, histogram: UnivariateHistogram): Bar = bar {
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this.name = name
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fromSpectrum(histogram)
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}
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fun Plot.amplitudeSpectrum(point: NumassPoint, binSize: Int = 20, range: IntRange = 0..4096, name: String = point.toString()): Bar = bar {
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spectrum(name, point.spectrum().reShape(binSize, range))
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}
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/**
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* Generate a plot from hv data
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*/
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fun Plot.hvData(data: List<HVEntry>): Scatter = scatter {
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x.strings = data.map { it.timestamp.toString() }
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y.numbers = data.map { it.value }
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}
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fun NumassDirectorySet.plotlyPage(binSize: Int = 20, range: IntRange = 0..4096): PlotlyPage = Plotly.page {
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h1 {
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+"Numass point set $path"
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}
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h2{
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+"Amplitude spectrum"
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}
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plot {
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points.forEach {
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amplitudeSpectrum(it,binSize, range)
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}
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}
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hvData?.let {entries->
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h2{
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+"HV"
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}
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plot {
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hvData(entries)
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}
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}
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}
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@ -3,8 +3,8 @@ package ru.inr.mass.workspace
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import hep.dataforge.workspace.Workspace
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import ru.inr.mass.data.proto.NumassProtoPlugin
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val numass = Workspace {
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context("numass") {
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val NUMASS = Workspace {
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context("NUMASS") {
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plugin(NumassProtoPlugin)
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}
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}
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