[K2, MPP, JS] Fix a compiler crash on transitive common dependencies

^KT-57431 Fixed

compiler/testData/codegen/box/multiplatform/k2/annotations/optionalExpectation.kt

@@ -2,9 +2,8 @@
 // !OPT_IN: kotlin.ExperimentalMultiplatform
 // IGNORE_BACKEND: WASM
 // IGNORE_BACKEND_K1: JVM, JVM_IR, JS, JS_IR, JS_IR_ES6, NATIVE
-// IGNORE_BACKEND_K2: JS_IR
-// KT-57181
 // IGNORE_BACKEND_K2: NATIVE
+// KT-57181
 // WITH_STDLIB
 
 // MODULE: common

compiler/testData/codegen/box/multiplatform/k2/basic/independentCommonSourceModules.kt

@@ -1,7 +1,5 @@
 // IGNORE_BACKEND_K1: JS, JS_IR, JS_IR_ES6
-// IGNORE_BACKEND_K2: JS_IR
 // !LANGUAGE: +MultiPlatformProjects
-// TODO: K2 JS_IR Fail Reason: IrSimpleFunctionPublicSymbolImpl for kotlin/assertArrayEquals|-1961670457646030164[0] is already bound...
 
 // MODULE: common1
 // TARGET_PLATFORM: Common

compiler/tests-common-new/tests/org/jetbrains/kotlin/test/services/impl/ModuleStructureExtractorImpl.kt

@@ -355,10 +355,9 @@ class ModuleStructureExtractorImpl(
                 directives = moduleDirectives,
                 languageVersionSettings = currentModuleLanguageVersionSettingsBuilder.build()
             )
-            modules += testModule
             if (testModule.frontendKind != FrontendKinds.FIR ||
                 !testModule.languageVersionSettings.supportsFeature(LanguageFeature.MultiPlatformProjects) ||
-                testModule.dependsOnDependencies.isEmpty()
+                modules.isEmpty()
             ) {
                 additionalSourceProviders.flatMapTo(filesOfCurrentModule) { additionalSourceProvider ->
                     additionalSourceProvider.produceAdditionalFiles(
@@ -371,6 +370,7 @@ class ModuleStructureExtractorImpl(
                     }
                 }
             }
+            modules += testModule
             firstFileInModule = true
             resetModuleCaches()
         }