/**
 * Scaffolding file used to store all the setups needed to run 
 * tests automatically generated by EvoSuite
 * Thu Sep 20 11:51:53 GMT 2018
 */

package uk.ac.sanger.artemis.components.variant;

import org.evosuite.runtime.annotation.EvoSuiteClassExclude;
import org.junit.BeforeClass;
import org.junit.Before;
import org.junit.After;
import org.junit.AfterClass;
import org.evosuite.runtime.sandbox.Sandbox;
import org.evosuite.runtime.sandbox.Sandbox.SandboxMode;

@EvoSuiteClassExclude
public class BCFReader_ESTest_scaffolding {

  @org.junit.Rule 
  public org.evosuite.runtime.vnet.NonFunctionalRequirementRule nfr = new org.evosuite.runtime.vnet.NonFunctionalRequirementRule();

  private static final java.util.Properties defaultProperties = (java.util.Properties) java.lang.System.getProperties().clone(); 

  private org.evosuite.runtime.thread.ThreadStopper threadStopper =  new org.evosuite.runtime.thread.ThreadStopper (org.evosuite.runtime.thread.KillSwitchHandler.getInstance(), 3000);


  @BeforeClass 
  public static void initEvoSuiteFramework() { 
    org.evosuite.runtime.RuntimeSettings.className = "uk.ac.sanger.artemis.components.variant.BCFReader"; 
    org.evosuite.runtime.GuiSupport.initialize(); 
    org.evosuite.runtime.RuntimeSettings.maxNumberOfThreads = 100; 
    org.evosuite.runtime.RuntimeSettings.maxNumberOfIterationsPerLoop = 10000; 
    org.evosuite.runtime.RuntimeSettings.mockSystemIn = true; 
    org.evosuite.runtime.RuntimeSettings.sandboxMode = org.evosuite.runtime.sandbox.Sandbox.SandboxMode.RECOMMENDED; 
    org.evosuite.runtime.sandbox.Sandbox.initializeSecurityManagerForSUT(); 
    org.evosuite.runtime.classhandling.JDKClassResetter.init();
    setSystemProperties();
    initializeClasses();
    org.evosuite.runtime.Runtime.getInstance().resetRuntime(); 
  } 

  @AfterClass 
  public static void clearEvoSuiteFramework(){ 
    Sandbox.resetDefaultSecurityManager(); 
    java.lang.System.setProperties((java.util.Properties) defaultProperties.clone()); 
  } 

  @Before 
  public void initTestCase(){ 
    threadStopper.storeCurrentThreads();
    threadStopper.startRecordingTime();
    org.evosuite.runtime.jvm.ShutdownHookHandler.getInstance().initHandler(); 
    org.evosuite.runtime.sandbox.Sandbox.goingToExecuteSUTCode(); 
    setSystemProperties(); 
    org.evosuite.runtime.GuiSupport.setHeadless(); 
    org.evosuite.runtime.Runtime.getInstance().resetRuntime(); 
    org.evosuite.runtime.agent.InstrumentingAgent.activate(); 
  } 

  @After 
  public void doneWithTestCase(){ 
    threadStopper.killAndJoinClientThreads();
    org.evosuite.runtime.jvm.ShutdownHookHandler.getInstance().safeExecuteAddedHooks(); 
    org.evosuite.runtime.classhandling.JDKClassResetter.reset(); 
    resetClasses(); 
    org.evosuite.runtime.sandbox.Sandbox.doneWithExecutingSUTCode(); 
    org.evosuite.runtime.agent.InstrumentingAgent.deactivate(); 
    org.evosuite.runtime.GuiSupport.restoreHeadlessMode(); 
  } 

  public static void setSystemProperties() {
 
    java.lang.System.setProperties((java.util.Properties) defaultProperties.clone()); 
    java.lang.System.setProperty("file.encoding", "UTF-8"); 
    java.lang.System.setProperty("java.awt.headless", "true"); 
    java.lang.System.setProperty("java.io.tmpdir", "/var/folders/r3/l648tx8s7hn8ppds6z2bk5cc000h2n/T/"); 
    java.lang.System.setProperty("user.country", "GB"); 
    java.lang.System.setProperty("user.dir", "/Users/kp11/workspace/applications/Artemis-build-ci/Artemis"); 
    java.lang.System.setProperty("user.home", "/Users/kp11"); 
    java.lang.System.setProperty("user.language", "en"); 
    java.lang.System.setProperty("user.name", "kp11"); 
    java.lang.System.setProperty("user.timezone", ""); 
    java.lang.System.setProperty("log4j.configuration", "SUT.log4j.properties"); 
  }

  private static void initializeClasses() {
    org.evosuite.runtime.classhandling.ClassStateSupport.initializeClasses(BCFReader_ESTest_scaffolding.class.getClassLoader() ,
      "uk.ac.sanger.artemis.OptionChangeEvent",
      "com.sshtools.j2ssh.connection.SshMsgRequestFailure",
      "uk.ac.sanger.artemis.components.EntryEdit$CommitButton",
      "uk.ac.sanger.artemis.components.variant.VCFview$27",
      "uk.ac.sanger.artemis.io.SimpleDocumentFeature",
      "uk.ac.sanger.artemis.sequence.BasePatternFormatException",
      "uk.ac.sanger.artemis.components.BasePlotGroup",
      "com.sshtools.j2ssh.sftp.SshFxpRmdir",
      "com.sshtools.j2ssh.authentication.PasswordAuthenticationClient",
      "com.sshtools.j2ssh.sftp.SshFxpOpenDir",
      "com.sshtools.j2ssh.authentication.PasswordChangePrompt",
      "uk.ac.sanger.artemis.components.variant.VCFview",
      "com.sshtools.j2ssh.SshClient",
      "uk.ac.sanger.artemis.EntryChangeListener",
      "uk.ac.sanger.artemis.sequence.AminoAcidSequence",
      "uk.ac.sanger.artemis.Selectable",
      "com.sshtools.j2ssh.transport.ServiceState",
      "org.apache.log4j.spi.Filter",
      "uk.ac.sanger.artemis.io.RangeVector",
      "uk.ac.sanger.artemis.io.FeatureTable",
      "htsjdk.samtools.util.HttpUtils",
      "org.apache.commons.net.ftp.Configurable",
      "uk.ac.sanger.artemis.io.PublicDBDocumentEntry",
      "uk.ac.sanger.artemis.util.StringVector",
      "com.sshtools.j2ssh.transport.publickey.InvalidSshKeySignatureException",
      "com.sshtools.j2ssh.transport.AsyncService",
      "htsjdk.samtools.seekablestream.ByteArraySeekableStream",
      "org.apache.log4j.Hierarchy",
      "htsjdk.samtools.seekablestream.SeekableFileStream",
      "uk.ac.sanger.artemis.sequence.MarkerRange",
      "uk.ac.sanger.artemis.components.variant.VariantBase",
      "org.biojava.utils.Changeable",
      "uk.ac.sanger.artemis.components.variant.CDSFeature",
      "htsjdk.samtools.util.CustomGzipOutputStream",
      "uk.ac.sanger.artemis.io.QualifierInfoHash",
      "com.sshtools.j2ssh.connection.Channel",
      "org.apache.log4j.spi.OptionHandler",
      "uk.ac.sanger.artemis.components.variant.VCFRecord",
      "com.sshtools.j2ssh.sftp.SftpMessageStore",
      "htsjdk.samtools.util.ftp.FTPReply",
      "com.sshtools.j2ssh.connection.SshMsgChannelRequest",
      "htsjdk.samtools.seekablestream.SeekableStream",
      "uk.ac.sanger.artemis.sequence.MarkerInternal",
      "com.sshtools.j2ssh.connection.ChannelEventListener",
      "org.apache.log4j.helpers.OptionConverter",
      "com.sshtools.j2ssh.session.SignalListener",
      "uk.ac.sanger.artemis.io.MiscLineGroup",
      "org.apache.commons.net.ftp.FTP",
      "uk.ac.sanger.artemis.circular.TextFieldInt",
      "uk.ac.sanger.artemis.io.LazyQualifierValue",
      "uk.ac.sanger.artemis.components.variant.VCFFilter",
      "org.gmod.schema.cv.CvTerm",
      "org.apache.commons.net.ftp.FTPCmd",
      "uk.ac.sanger.artemis.sequence.SequenceChangeListener",
      "com.sshtools.j2ssh.subsystem.SubsystemMessage",
      "uk.ac.sanger.artemis.io.InvalidRelationException",
      "com.sshtools.j2ssh.transport.InvalidMessageException",
      "com.sshtools.j2ssh.authentication.AuthenticationProtocolClient",
      "org.apache.log4j.Category",
      "uk.ac.sanger.artemis.io.LocationParseException",
      "htsjdk.samtools.SAMException",
      "org.apache.commons.net.io.SocketOutputStream",
      "uk.ac.sanger.artemis.components.IndexReferenceEvent",
      "uk.ac.sanger.artemis.util.FastVector",
      "htsjdk.samtools.seekablestream.SeekableFTPStream",
      "com.sshtools.j2ssh.sftp.SftpFileOutputStream",
      "com.sshtools.j2ssh.transport.TransportProtocolEventHandler",
      "uk.ac.sanger.artemis.components.variant.AbstractVCFReader",
      "uk.ac.sanger.artemis.util.URLDocument",
      "uk.ac.sanger.artemis.Action",
      "uk.ac.sanger.artemis.io.ChadoCanonicalGene",
      "com.sshtools.j2ssh.transport.TransportProtocolState",
      "uk.ac.sanger.artemis.io.GenbankStreamSequence",
      "com.sshtools.j2ssh.forwarding.ForwardingListener",
      "com.sshtools.j2ssh.connection.ChannelInputStream",
      "htsjdk.samtools.util.BlockCompressedInputStream$DecompressedBlock",
      "com.sshtools.j2ssh.io.UnsignedInteger32",
      "com.sshtools.j2ssh.sftp.SshFxpFStat",
      "htsjdk.samtools.util.RuntimeIOException",
      "com.sshtools.j2ssh.forwarding.ForwardingClient",
      "uk.ac.sanger.artemis.components.DisplayAdjustmentEvent",
      "org.gmod.schema.utils.propinterface.PropertyI",
      "org.apache.log4j.spi.AppenderAttachable",
      "com.sshtools.j2ssh.SshException",
      "htsjdk.samtools.util.zip.InflaterFactory",
      "uk.ac.sanger.artemis.j2ssh.FTProgress",
      "uk.ac.sanger.artemis.io.GFF3AttributeAggregator",
      "uk.ac.sanger.artemis.util.InputStreamProgressListenerVector",
      "com.sshtools.j2ssh.sftp.SshFxpRename",
      "uk.ac.sanger.artemis.util.PushBackException",
      "com.sshtools.j2ssh.connection.IOChannel",
      "com.sshtools.j2ssh.DirectoryOperation",
      "org.biojava.bio.BioException",
      "com.sshtools.j2ssh.sftp.SftpFileInputStream",
      "com.sshtools.j2ssh.connection.SshMsgChannelData",
      "uk.ac.sanger.artemis.io.LocationParseNode",
      "org.apache.commons.net.ftp.FTPFileEntryParser",
      "uk.ac.sanger.artemis.util.WorkingGZIPInputStream",
      "com.sshtools.j2ssh.connection.SshMsgRequestSuccess",
      "uk.ac.sanger.artemis.components.EditMenu",
      "uk.ac.sanger.artemis.io.ComparableFeature",
      "uk.ac.sanger.artemis.SelectionChangeEvent",
      "com.sshtools.j2ssh.session.PseudoTerminal",
      "htsjdk.samtools.util.ftp.FTPClient",
      "uk.ac.sanger.artemis.io.Key",
      "org.apache.commons.net.io.ToNetASCIIOutputStream",
      "uk.ac.sanger.artemis.io.SimpleDocumentEntry",
      "org.apache.commons.net.io.CopyStreamEvent",
      "com.sshtools.j2ssh.connection.ChannelFactory",
      "uk.ac.sanger.artemis.io.FeatureHeader",
      "htsjdk.samtools.util.IOUtil$2",
      "uk.ac.sanger.artemis.components.filetree.FileList",
      "com.sshtools.j2ssh.connection.ConnectionProtocol",
      "uk.ac.sanger.artemis.components.variant.BCFIndex",
      "com.sshtools.j2ssh.connection.SshMsgChannelOpenConfirmation",
      "uk.ac.sanger.artemis.ChangeListener",
      "org.apache.log4j.helpers.Loader",
      "uk.ac.sanger.artemis.sequence.MarkerChangeEvent",
      "com.sshtools.j2ssh.sftp.SshFxpInit",
      "uk.ac.sanger.artemis.components.SelectionMenu",
      "uk.ac.sanger.artemis.components.variant.FilteredPanel",
      "uk.ac.sanger.artemis.io.RawStreamSequence",
      "uk.ac.sanger.artemis.io.QualifierInfoException",
      "uk.ac.sanger.artemis.sequence.SequenceChangeEvent",
      "com.sshtools.j2ssh.sftp.MessageRequestId",
      "com.sshtools.j2ssh.sftp.SshFxpReadDir",
      "com.sshtools.j2ssh.forwarding.ForwardingClient$ClientForwardingListener",
      "com.sshtools.j2ssh.transport.HostKeyVerification",
      "org.biojava.bio.symbol.Symbol",
      "com.sshtools.j2ssh.io.UnsignedInteger64",
      "com.sshtools.j2ssh.ScpClient",
      "org.apache.commons.net.io.CopyStreamListener",
      "htsjdk.samtools.seekablestream.SeekableBufferedStream$ExtBufferedInputStream",
      "uk.ac.sanger.artemis.io.DatabaseStreamFeature",
      "com.sshtools.j2ssh.io.ByteArrayWriter",
      "com.sshtools.j2ssh.forwarding.ForwardingSocketChannel",
      "uk.ac.sanger.artemis.io.ReadListener",
      "uk.ac.sanger.artemis.util.FTPSeekableStream",
      "uk.ac.sanger.artemis.io.InvalidKeyException",
      "com.sshtools.j2ssh.forwarding.XDisplay",
      "uk.ac.sanger.artemis.circular.TextFieldSink",
      "uk.ac.sanger.artemis.util.ZipFileDocument",
      "uk.ac.sanger.artemis.util.ByteBuffer",
      "com.sshtools.j2ssh.connection.InvalidChannelException",
      "uk.ac.sanger.artemis.components.DisplayAdjustmentListener",
      "com.sshtools.j2ssh.subsystem.SubsystemClient",
      "com.sshtools.j2ssh.transport.MessageNotAvailableException",
      "uk.ac.sanger.artemis.io.StreamSequence",
      "uk.ac.sanger.artemis.io.GFF3AttributeBuilder",
      "uk.ac.sanger.artemis.io.Range",
      "uk.ac.sanger.artemis.sequence.Bases",
      "uk.ac.sanger.artemis.components.variant.IOUtils",
      "uk.ac.sanger.artemis.EntryGroupChangeListener",
      "com.sshtools.j2ssh.forwarding.ForwardingConfiguration",
      "uk.ac.sanger.artemis.ActionController",
      "uk.ac.sanger.artemis.io.BetweenRange",
      "com.sshtools.j2ssh.transport.SshMessage",
      "org.apache.commons.net.ftp.FTPFile",
      "com.sshtools.j2ssh.util.State",
      "uk.ac.sanger.artemis.j2ssh.SshLogin",
      "org.apache.log4j.PropertyConfigurator",
      "uk.ac.sanger.artemis.circular.TextFieldFloat",
      "uk.ac.sanger.artemis.util.Document",
      "org.apache.log4j.spi.ThrowableRenderer",
      "uk.ac.sanger.artemis.components.variant.TabixReader",
      "org.apache.commons.net.SocketClient",
      "uk.ac.sanger.artemis.Selection",
      "com.sshtools.j2ssh.sftp.SshFxpWrite",
      "uk.ac.sanger.artemis.sequence.NoSequenceException",
      "uk.ac.sanger.artemis.components.SelectionInfoDisplay",
      "com.sshtools.j2ssh.connection.SshMsgGlobalRequest",
      "org.apache.log4j.spi.LoggerRepository",
      "com.sshtools.j2ssh.transport.TransportProtocolException",
      "org.apache.commons.net.ProtocolCommandEvent",
      "uk.ac.sanger.artemis.io.EntryInformationException",
      "com.sshtools.j2ssh.authentication.SshMsgUserAuthRequest",
      "com.sshtools.j2ssh.connection.SshMsgChannelSuccess",
      "uk.ac.sanger.artemis.io.GFFMisc",
      "uk.ac.sanger.artemis.FeatureSegmentVector",
      "uk.ac.sanger.artemis.components.AddMenu",
      "htsjdk.samtools.FileTruncatedException",
      "htsjdk.samtools.util.Log$LogLevel",
      "htsjdk.samtools.util.IterableOnceIterator",
      "com.sshtools.j2ssh.sftp.SshFxpStat",
      "com.sshtools.j2ssh.sftp.SshFxpMkdir",
      "org.apache.log4j.Level",
      "org.apache.commons.net.ftp.parser.ParserInitializationException",
      "uk.ac.sanger.artemis.components.RunMenu",
      "org.apache.commons.net.ftp.FTPClientConfig",
      "com.sshtools.j2ssh.sftp.SshFxpOpen",
      "com.sshtools.j2ssh.authentication.TerminatedStateException",
      "org.apache.commons.net.ftp.parser.FTPFileEntryParserFactory",
      "uk.ac.sanger.artemis.components.FeatureDisplay",
      "uk.ac.sanger.artemis.io.EntryInformation",
      "htsjdk.samtools.util.BlockCompressedInputStream",
      "uk.ac.sanger.artemis.components.variant.TabixReader$TIntv",
      "uk.ac.sanger.artemis.sequence.MarkerChangeListener",
      "uk.ac.sanger.artemis.io.ReadFormatException",
      "com.sshtools.j2ssh.sftp.SftpSubsystemClient",
      "com.sshtools.j2ssh.util.InvalidStateException",
      "com.sshtools.j2ssh.connection.SshMsgChannelEOF",
      "uk.ac.sanger.artemis.util.TextDocument",
      "com.sshtools.j2ssh.sftp.SshFxpSetStat",
      "com.sshtools.j2ssh.io.ByteArrayReader",
      "org.apache.log4j.Layout",
      "com.sshtools.j2ssh.forwarding.ForwardingConfigurationException",
      "htsjdk.samtools.SamFlagField",
      "uk.ac.sanger.artemis.components.variant.BCFReader$BCFReaderIterator",
      "com.sshtools.j2ssh.sftp.SshFxpReadlink",
      "uk.ac.sanger.artemis.components.ViewMenu",
      "htsjdk.samtools.util.ftp.FTPClient$SocketInputStream",
      "uk.ac.sanger.artemis.LastSegmentException",
      "uk.ac.sanger.artemis.ChangeEvent",
      "org.gmod.schema.sequence.FeatureRelationship",
      "uk.ac.sanger.artemis.util.OutOfRangeException",
      "uk.ac.sanger.artemis.io.GenbankStreamFeature",
      "com.sshtools.j2ssh.connection.GlobalRequestHandler",
      "htsjdk.samtools.util.Md5CalculatingOutputStream",
      "uk.ac.sanger.artemis.io.EMBLObject",
      "uk.ac.sanger.artemis.ActionVector",
      "uk.ac.sanger.artemis.sequence.Strand",
      "org.apache.commons.net.ftp.FTPFileFilter",
      "uk.ac.sanger.artemis.components.GotoMenu",
      "org.apache.log4j.spi.DefaultRepositorySelector",
      "uk.ac.sanger.artemis.OptionChangeListener",
      "com.sshtools.j2ssh.connection.ChannelOutputStream",
      "com.sshtools.j2ssh.sftp.SshFxpSymlink",
      "uk.ac.sanger.artemis.io.Sequence",
      "uk.ac.sanger.artemis.components.variant.BCFReader",
      "com.sshtools.j2ssh.sftp.SftpFile",
      "htsjdk.samtools.util.ftp.FTPUtils",
      "uk.ac.sanger.artemis.io.GenbankMisc",
      "uk.ac.sanger.artemis.io.Location",
      "uk.ac.sanger.artemis.components.EntryGroupDisplay",
      "uk.ac.sanger.artemis.components.SwingWorker",
      "uk.ac.sanger.artemis.io.PublicDBStreamFeature",
      "htsjdk.samtools.Defaults",
      "org.apache.log4j.or.ObjectRenderer",
      "uk.ac.sanger.artemis.io.FastaStreamSequence",
      "uk.ac.sanger.artemis.io.FeatureEnumeration",
      "uk.ac.sanger.artemis.components.CanvasPanel",
      "uk.ac.sanger.artemis.io.StreamFeature",
      "uk.ac.sanger.artemis.util.ReadOnlyException",
      "uk.ac.sanger.artemis.components.GraphMenu",
      "com.sshtools.j2ssh.transport.publickey.SshPublicKey",
      "uk.ac.sanger.artemis.EntryChangeEvent",
      "com.sshtools.j2ssh.SshEventAdapter",
      "com.sshtools.j2ssh.sftp.SshFxpClose",
      "uk.ac.sanger.artemis.Feature",
      "uk.ac.sanger.artemis.io.EmblDocumentEntry",
      "com.sshtools.j2ssh.subsystem.SubsystemChannel",
      "uk.ac.sanger.artemis.components.SelectMenu",
      "uk.ac.sanger.artemis.io.DocumentFeature",
      "com.sshtools.j2ssh.FileTransferProgress",
      "org.apache.log4j.spi.LoggerFactory",
      "org.apache.log4j.spi.Configurator",
      "uk.ac.sanger.artemis.io.MSPcrunchStreamFeature",
      "htsjdk.samtools.util.BlockGunzipper",
      "org.apache.log4j.spi.LocationInfo",
      "org.gmod.schema.sequence.Feature",
      "uk.ac.sanger.artemis.io.KeyVector",
      "org.gmod.schema.sequence.FeatureProp",
      "org.apache.commons.net.MalformedServerReplyException",
      "org.biojava.bio.Annotatable",
      "uk.ac.sanger.artemis.components.EntryGroupMenu",
      "htsjdk.samtools.seekablestream.SeekablePathStream",
      "com.sshtools.j2ssh.sftp.SshFxpRead",
      "uk.ac.sanger.artemis.FeatureVector",
      "uk.ac.sanger.artemis.io.EmblStreamSequence",
      "htsjdk.samtools.util.BlockCompressedInputStream$FileTermination",
      "com.sshtools.j2ssh.connection.ChannelState",
      "com.sshtools.j2ssh.session.SessionChannelClient",
      "com.sshtools.j2ssh.SftpClient",
      "com.sshtools.j2ssh.connection.SshMsgChannelWindowAdjust",
      "htsjdk.samtools.util.LocationAware",
      "uk.ac.sanger.artemis.io.QualifierInfo",
      "org.apache.log4j.Priority",
      "uk.ac.sanger.artemis.components.WriteMenu",
      "com.sshtools.j2ssh.connection.SocketChannel",
      "uk.ac.sanger.artemis.components.IndexReferenceListener",
      "org.apache.log4j.LogManager",
      "org.gmod.schema.sequence.FeatureLoc",
      "org.apache.commons.net.io.CRLFLineReader",
      "com.sshtools.j2ssh.connection.SshMsgChannelFailure",
      "uk.ac.sanger.artemis.j2ssh.SshFileManager",
      "uk.ac.sanger.artemis.io.DocumentEntry",
      "org.apache.log4j.DefaultCategoryFactory",
      "uk.ac.sanger.artemis.io.BlastStreamFeature",
      "org.apache.commons.net.io.SocketInputStream",
      "com.sshtools.j2ssh.subsystem.SubsystemMessageStore",
      "org.apache.log4j.or.RendererMap",
      "uk.ac.sanger.artemis.io.OutOfDateException",
      "com.sshtools.j2ssh.transport.Service",
      "uk.ac.sanger.artemis.io.EmblMisc",
      "org.gmod.schema.general.DbXRef",
      "uk.ac.sanger.artemis.EntryGroupChangeEvent",
      "uk.ac.sanger.artemis.Entry",
      "uk.ac.sanger.artemis.io.EmblStreamFeature",
      "uk.ac.sanger.artemis.io.QualifierParseException",
      "org.biojava.bio.symbol.IllegalSymbolException",
      "com.sshtools.j2ssh.forwarding.ForwardingChannel",
      "org.apache.log4j.CategoryKey",
      "uk.ac.sanger.artemis.io.Qualifier",
      "uk.ac.sanger.artemis.util.InputStreamProgressListener",
      "com.sshtools.j2ssh.sftp.SshFxpFSetStat",
      "com.sshtools.j2ssh.sftp.SshFxpRemove",
      "uk.ac.sanger.artemis.io.LocationLexer$TokenEnumeration",
      "com.sshtools.j2ssh.connection.SshMsgChannelExtendedData",
      "org.apache.commons.net.io.FromNetASCIIInputStream",
      "htsjdk.samtools.seekablestream.SeekableBufferedStream",
      "htsjdk.samtools.seekablestream.SeekableHTTPStream",
      "uk.ac.sanger.artemis.io.DocumentEntryAutosaveThread",
      "uk.ac.sanger.artemis.components.EntryGroupPanel",
      "org.apache.commons.net.ftp.FTPListParseEngine",
      "com.sshtools.j2ssh.connection.ChannelDataWindow",
      "com.sshtools.j2ssh.sftp.FileAttributes",
      "uk.ac.sanger.artemis.sequence.Marker",
      "org.apache.log4j.ProvisionNode",
      "com.sshtools.j2ssh.TransferCancelledException",
      "com.sshtools.j2ssh.authentication.SshAuthenticationClient",
      "com.sshtools.j2ssh.connection.SshMsgChannelOpenFailure",
      "uk.ac.sanger.artemis.io.GFFDocumentEntry",
      "uk.ac.sanger.artemis.io.GFFStreamFeature",
      "com.sshtools.j2ssh.transport.MessageStoreEOFException",
      "org.apache.log4j.spi.RootLogger",
      "uk.ac.sanger.artemis.EntryVector",
      "org.apache.log4j.spi.ErrorHandler",
      "uk.ac.sanger.artemis.io.QualifierVector",
      "org.apache.log4j.spi.RendererSupport",
      "uk.ac.sanger.artemis.components.variant.TabixReader$Iterator",
      "uk.ac.sanger.artemis.FeatureChangeListener",
      "uk.ac.sanger.artemis.util.FileDocument",
      "uk.ac.sanger.artemis.FeatureChangeEvent",
      "htsjdk.samtools.util.Log",
      "uk.ac.sanger.artemis.io.LineGroup",
      "com.sshtools.j2ssh.connection.SshMsgChannelClose",
      "com.sshtools.j2ssh.ScpClient$ScpChannel",
      "uk.ac.sanger.artemis.util.InputStreamProgressEvent",
      "uk.ac.sanger.artemis.GotoEventSource",
      "org.apache.commons.net.ftp.FTPConnectionClosedException",
      "htsjdk.samtools.util.IOUtil",
      "org.apache.commons.net.ftp.FTPClient$HostnameResolver",
      "org.apache.commons.net.ProtocolCommandSupport",
      "uk.ac.sanger.artemis.components.SequenceComboBox",
      "org.apache.log4j.Logger",
      "uk.ac.sanger.artemis.FeatureSegment",
      "uk.ac.sanger.artemis.EntryGroup",
      "org.apache.commons.net.ftp.FTPClient",
      "uk.ac.sanger.artemis.io.Feature",
      "com.sshtools.j2ssh.authentication.AuthenticationProtocolListener",
      "org.apache.commons.net.DefaultSocketFactory",
      "org.apache.log4j.helpers.LogLog",
      "htsjdk.samtools.seekablestream.SeekableFTPStreamHelper",
      "uk.ac.sanger.artemis.components.DisplayComponent",
      "com.sshtools.j2ssh.connection.SshMsgChannelOpen",
      "com.sshtools.j2ssh.transport.TransportProtocol",
      "org.apache.log4j.spi.RepositorySelector",
      "uk.ac.sanger.artemis.io.GFF3AttributeBuilder$1",
      "uk.ac.sanger.artemis.components.EntryEdit$8",
      "uk.ac.sanger.artemis.components.EntryEdit$7",
      "uk.ac.sanger.artemis.components.alignment.LookSeqPanel",
      "uk.ac.sanger.artemis.components.variant.GraphPanel",
      "uk.ac.sanger.artemis.io.ReadEvent",
      "htsjdk.samtools.SamFlagField$3",
      "htsjdk.samtools.SamFlagField$4",
      "htsjdk.samtools.SamFlagField$5",
      "uk.ac.sanger.artemis.io.Entry",
      "org.apache.commons.net.ProtocolCommandListener",
      "uk.ac.sanger.artemis.util.LinePushBackReader",
      "org.apache.log4j.or.DefaultRenderer",
      "uk.ac.sanger.artemis.util.ProgressInputStream",
      "htsjdk.samtools.SamFlagField$1",
      "htsjdk.samtools.SamFlagField$2",
      "uk.ac.sanger.artemis.io.FeatureVector",
      "htsjdk.samtools.SAMFormatException",
      "org.apache.log4j.spi.ThrowableRendererSupport",
      "org.apache.commons.logging.impl.Log4JLogger",
      "com.sshtools.j2ssh.authentication.SshAuthenticationPrompt",
      "org.gmod.schema.organism.Organism",
      "org.apache.log4j.Appender",
      "com.sshtools.j2ssh.transport.SshMsgServiceAccept",
      "uk.ac.sanger.artemis.FeaturePredicate",
      "com.sshtools.j2ssh.authentication.AuthenticationProtocolException",
      "org.apache.log4j.spi.HierarchyEventListener",
      "com.sshtools.j2ssh.configuration.SshConnectionProperties",
      "org.apache.log4j.spi.LoggingEvent",
      "htsjdk.samtools.seekablestream.UserPasswordInput",
      "uk.ac.sanger.artemis.io.QualifierLazyLoading",
      "uk.ac.sanger.artemis.util.DatabaseDocument",
      "uk.ac.sanger.artemis.components.alignment.LineAttributes",
      "uk.ac.sanger.artemis.components.EntryEdit",
      "org.apache.log4j.spi.ThrowableInformation",
      "com.sshtools.j2ssh.sftp.SshFxpRealPath",
      "uk.ac.sanger.artemis.FeatureEnumeration",
      "uk.ac.sanger.artemis.components.FeatureList",
      "uk.ac.sanger.artemis.io.StreamFeatureTable",
      "uk.ac.sanger.artemis.SelectionChangeListener",
      "uk.ac.sanger.artemis.GotoListener"
    );
  } 

  private static void resetClasses() {
    org.evosuite.runtime.classhandling.ClassResetter.getInstance().setClassLoader(BCFReader_ESTest_scaffolding.class.getClassLoader()); 

    org.evosuite.runtime.classhandling.ClassStateSupport.resetClasses(
      "uk.ac.sanger.artemis.components.variant.AbstractVCFReader",
      "org.apache.log4j.Category",
      "org.apache.log4j.Logger",
      "org.apache.log4j.Hierarchy",
      "org.apache.log4j.spi.RootLogger",
      "org.apache.log4j.Priority",
      "org.apache.log4j.Level",
      "org.apache.log4j.or.DefaultRenderer",
      "org.apache.log4j.or.RendererMap",
      "org.apache.log4j.DefaultCategoryFactory",
      "org.apache.log4j.spi.DefaultRepositorySelector",
      "org.apache.log4j.helpers.OptionConverter",
      "org.apache.log4j.helpers.Loader",
      "org.apache.log4j.helpers.LogLog",
      "org.apache.log4j.PropertyConfigurator",
      "org.apache.log4j.LogManager",
      "org.apache.log4j.CategoryKey",
      "org.apache.log4j.ProvisionNode",
      "uk.ac.sanger.artemis.components.variant.BCFReader",
      "uk.ac.sanger.artemis.components.variant.BCFReader$BCFReaderIterator",
      "htsjdk.samtools.util.BlockCompressedInputStream",
      "htsjdk.samtools.util.zip.InflaterFactory",
      "htsjdk.samtools.util.BlockGunzipper",
      "htsjdk.samtools.seekablestream.SeekableStream",
      "htsjdk.samtools.seekablestream.SeekableFileStream",
      "uk.ac.sanger.artemis.util.Document",
      "uk.ac.sanger.artemis.util.TextDocument",
      "uk.ac.sanger.artemis.util.InputStreamProgressListenerVector",
      "htsjdk.samtools.seekablestream.ByteArraySeekableStream",
      "uk.ac.sanger.artemis.components.filetree.FileList",
      "uk.ac.sanger.artemis.j2ssh.SshFileManager",
      "uk.ac.sanger.artemis.j2ssh.SshLogin",
      "uk.ac.sanger.artemis.util.URLDocument",
      "htsjdk.samtools.seekablestream.SeekableFTPStream",
      "htsjdk.samtools.seekablestream.SeekableFTPStreamHelper",
      "htsjdk.samtools.util.ftp.FTPUtils",
      "htsjdk.samtools.util.ftp.FTPClient",
      "htsjdk.samtools.util.Log$LogLevel",
      "htsjdk.samtools.util.Log",
      "htsjdk.samtools.seekablestream.SeekablePathStream",
      "uk.ac.sanger.artemis.FeatureVector",
      "uk.ac.sanger.artemis.util.FastVector",
      "uk.ac.sanger.artemis.components.variant.IOUtils",
      "uk.ac.sanger.artemis.util.ByteBuffer",
      "com.sshtools.j2ssh.io.ByteArrayReader",
      "uk.ac.sanger.artemis.util.FileDocument",
      "uk.ac.sanger.artemis.util.ZipFileDocument",
      "uk.ac.sanger.artemis.util.ProgressInputStream",
      "uk.ac.sanger.artemis.io.EMBLObject",
      "uk.ac.sanger.artemis.io.LineGroup",
      "uk.ac.sanger.artemis.io.StreamSequence",
      "uk.ac.sanger.artemis.io.RawStreamSequence",
      "uk.ac.sanger.artemis.io.FastaStreamSequence",
      "htsjdk.samtools.SamFlagField",
      "htsjdk.samtools.Defaults",
      "htsjdk.samtools.util.IOUtil",
      "htsjdk.samtools.util.BlockCompressedInputStream$DecompressedBlock",
      "htsjdk.samtools.seekablestream.SeekableBufferedStream",
      "htsjdk.samtools.seekablestream.SeekableHTTPStream",
      "htsjdk.samtools.util.HttpUtils",
      "htsjdk.samtools.seekablestream.SeekableBufferedStream$ExtBufferedInputStream",
      "htsjdk.samtools.SAMException",
      "htsjdk.samtools.FileTruncatedException",
      "uk.ac.sanger.artemis.components.variant.BCFIndex"
    );
  }
}
