Drop JvmMetadataVersion.skipCheck, support this correctly

Pass the value of this flag via DeserializationConfiguration

compiler/tests/org/jetbrains/kotlin/codegen/JvmPackageTableTest.kt

@@ -20,6 +20,7 @@ import org.jetbrains.kotlin.cli.AbstractCliTest
 import org.jetbrains.kotlin.cli.common.ExitCode
 import org.jetbrains.kotlin.cli.jvm.K2JVMCompiler
 import org.jetbrains.kotlin.load.kotlin.ModuleMapping
+import org.jetbrains.kotlin.serialization.deserialization.DeserializationConfiguration
 import org.jetbrains.kotlin.test.KotlinTestUtils
 import org.jetbrains.kotlin.test.testFramework.KtUsefulTestCase
 import java.io.File
@@ -38,7 +39,10 @@ class JvmPackageTableTest : KtUsefulTestCase() {
         System.err.println(output) // normally output is empty
         assertEquals("Compilation should complete successfully", ExitCode.OK, exitCode)
 
-        val mapping = ModuleMapping.create(File(tmpdir, "META-INF/$moduleName.${ModuleMapping.MAPPING_FILE_EXT}").readBytes(), "test")
+        val mapping = ModuleMapping.create(
+                File(tmpdir, "META-INF/$moduleName.${ModuleMapping.MAPPING_FILE_EXT}").readBytes(), "test",
+                DeserializationConfiguration.Default
+        )
         val result = buildString {
             for ((fqName, packageParts) in mapping.packageFqName2Parts) {
                 appendln(fqName)

compiler/tests/org/jetbrains/kotlin/jvm/compiler/CompileKotlinAgainstCustomBinariesTest.java

@@ -417,14 +417,9 @@ public class CompileKotlinAgainstCustomBinariesTest extends TestCaseWithTmpdir {
         doTestPreReleaseKotlinLibrary("library");
     }
 
-    /*
-    // This test should pass but is commented out because the compiler flag is implemented via mutation of the public field,
-    // which may cause subsequent tests to behave unexpectedly
-    // TODO: refactor and uncomment
     public void testReleaseCompilerAgainstPreReleaseLibrarySkipVersionCheck() throws Exception {
         doTestPreReleaseKotlinLibrary("library", "-Xskip-metadata-version-check");
     }
-    */
 
     public void testWrongMetadataVersion() throws Exception {
         doTestKotlinLibraryWithWrongMetadataVersion("library", null);
@@ -466,12 +461,9 @@ public class CompileKotlinAgainstCustomBinariesTest extends TestCaseWithTmpdir {
         );
     }
 
-    /*
-    // TODO: refactor and uncomment
     public void testWrongMetadataVersionSkipVersionCheck() throws Exception {
         doTestKotlinLibraryWithWrongMetadataVersion("library", null, "-Xskip-metadata-version-check");
     }
-    */
 
     /*test source mapping generation when source info is absent*/
     public void testInlineFunWithoutDebugInfo() throws Exception {