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test for split by VJ #1487

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test for split by VJ #1487

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cb6066d
test for split by VJ
gnefedev Dec 20, 2023
408201d
add possible exceptions
gnefedev Dec 20, 2023
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16 changes: 13 additions & 3 deletions src/test/kotlin/com/milaboratory/mixcr/PresetsTest.kt
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Original file line number Diff line number Diff line change
Expand Up @@ -9,7 +9,6 @@ import com.milaboratory.mixcr.basictypes.tag.TagValueType
import com.milaboratory.mixcr.basictypes.tag.TagsInfo
import com.milaboratory.mixcr.cli.presetFlagsMessages
import com.milaboratory.mixcr.export.CloneFieldsExtractorsFactory
import com.milaboratory.mixcr.export.CloneGroupFieldsExtractorsFactory
import com.milaboratory.mixcr.export.MetaForExport
import com.milaboratory.mixcr.export.VDJCAlignmentsFieldsExtractorsFactory
import com.milaboratory.mixcr.presets.MiXCRCommandDescriptor
Expand All @@ -24,11 +23,10 @@ import io.kotest.assertions.assertSoftly
import io.kotest.assertions.throwables.shouldNotThrowAny
import io.kotest.assertions.withClue
import io.kotest.inspectors.forAll
import io.kotest.matchers.collections.shouldContainAll
import io.kotest.matchers.collections.shouldContainAnyOf
import io.kotest.matchers.collections.shouldNotBeIn
import io.kotest.matchers.nulls.shouldNotBeNull
import io.kotest.matchers.shouldBe
import io.repseq.core.GeneFeature
import org.junit.Assert
import org.junit.Test
import java.nio.file.Paths
Expand Down Expand Up @@ -217,4 +215,16 @@ class PresetsTest {
}
}
}

@Test
fun `should be no split by VJ if VDJRegion set as assemble feature`() {
val exceptions = setOf<String>()
Presets.visiblePresets.filter { presetName ->
val bundle = Presets.MiXCRBundleResolver.resolvePreset(presetName)
val assemble = bundle.assemble ?: return@filter false
if (assemble.cloneAssemblerParameters.assemblingFeatures.toList() != listOf(GeneFeature.VDJRegion))
return@filter false
assemble.cloneAssemblerParameters.separateByV || assemble.cloneAssemblerParameters.separateByJ
}.minus(exceptions).also { println(it) } shouldBe emptyList()
}
}
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