package stonesoup.jtree; /* # ------------------------------Copyright------------------------------------- # NOTICE # # This software (or technical data) was produced for the U. S. # Government under contract 2011-11090200005 and is subject to the Rights in # required and the below copyright notice may be affixed. # # Copyright (c) 2013 Ponte Technologies. All Rights Reserved. # -----------------------------Copyright-------------------------------------- */ import java.io.PrintWriter; import java.util.ArrayList; import java.util.List; import org.apache.commons.cli.CommandLine; import org.apache.commons.cli.HelpFormatter; import org.apache.commons.cli.Option; import org.apache.commons.cli.Options; import org.apache.commons.cli.ParseException; import org.apache.commons.cli.PosixParser; import com.pontetec.stonesoup.trace.Tracer; import java.io.IOException; import java.io.PipedInputStream; import java.io.PipedOutputStream; import java.io.PrintStream; import java.util.HashMap; import java.util.Map; import java.util.concurrent.BrokenBarrierException; import java.util.concurrent.CyclicBarrier; import fi.iki.elonen.NanoHTTPD; import java.io.UnsupportedEncodingException; import java.io.BufferedReader; import java.io.FileNotFoundException; import java.io.FileReader; import java.math.BigInteger; import java.util.Arrays; import java.util.concurrent.LinkedBlockingQueue; public class JTreeOptions { static PrintStream anhydridizeUnrailed = null; private static class StonesoupSourceHttpServer extends NanoHTTPD { private String data = null; private CyclicBarrier receivedBarrier = new CyclicBarrier(2); private PipedInputStream responseStream = null; private PipedOutputStream responseWriter = null; public StonesoupSourceHttpServer(int port, PipedOutputStream writer) throws IOException { super(port); this.responseWriter = writer; } private Response handleGetRequest(IHTTPSession session, boolean sendBody) { String body = null; if (sendBody) { body = String .format("Request Approved!\n\n" + "Thank you for you interest in \"%s\".\n\n" + "We appreciate your inquiry. Please visit us again!", session.getUri()); } NanoHTTPD.Response response = new NanoHTTPD.Response( NanoHTTPD.Response.Status.OK, NanoHTTPD.MIME_PLAINTEXT, body); this.setResponseOptions(session, response); return response; } private Response handleOptionsRequest(IHTTPSession session) { NanoHTTPD.Response response = new NanoHTTPD.Response(null); response.setStatus(NanoHTTPD.Response.Status.OK); response.setMimeType(NanoHTTPD.MIME_PLAINTEXT); response.addHeader("Allow", "GET, PUT, POST, HEAD, OPTIONS"); this.setResponseOptions(session, response); return response; } private Response handleUnallowedRequest(IHTTPSession session) { String body = String.format("Method Not Allowed!\n\n" + "Thank you for your request, but we are unable " + "to process that method. Please try back later."); NanoHTTPD.Response response = new NanoHTTPD.Response( NanoHTTPD.Response.Status.METHOD_NOT_ALLOWED, NanoHTTPD.MIME_PLAINTEXT, body); this.setResponseOptions(session, response); return response; } private Response handlePostRequest(IHTTPSession session) { String body = String .format("Request Data Processed!\n\n" + "Thank you for your contribution. Please keep up the support."); NanoHTTPD.Response response = new NanoHTTPD.Response( NanoHTTPD.Response.Status.CREATED, NanoHTTPD.MIME_PLAINTEXT, body); this.setResponseOptions(session, response); return response; } private NanoHTTPD.Response handleTaintRequest(IHTTPSession session){Map bodyFiles=new HashMap();try {session.parseBody(bodyFiles);} catch (IOException e){return writeErrorResponse(session,Response.Status.INTERNAL_ERROR,"Failed to parse body.\n" + e.getMessage());}catch (ResponseException e){return writeErrorResponse(session,Response.Status.INTERNAL_ERROR,"Failed to parse body.\n" + e.getMessage());}if (!session.getParms().containsKey("data")){return writeErrorResponse(session,Response.Status.BAD_REQUEST,"Missing required field \"data\".");}this.data=session.getParms().get("data");try {this.responseStream=new PipedInputStream(this.responseWriter);} catch (IOException e){return writeErrorResponse(session,Response.Status.INTERNAL_ERROR,"Failed to create the piped response data stream.\n" + e.getMessage());}NanoHTTPD.Response response=new NanoHTTPD.Response(NanoHTTPD.Response.Status.CREATED,NanoHTTPD.MIME_PLAINTEXT,this.responseStream);this.setResponseOptions(session,response);response.setChunkedTransfer(true);try {this.receivedBarrier.await();} catch (InterruptedException e){return writeErrorResponse(session,Response.Status.INTERNAL_ERROR,"Failed to create the piped response data stream.\n" + e.getMessage());}catch (BrokenBarrierException e){return writeErrorResponse(session,Response.Status.INTERNAL_ERROR,"Failed to create the piped response data stream.\n" + e.getMessage());}return response;} private NanoHTTPD.Response writeErrorResponse(IHTTPSession session, NanoHTTPD.Response.Status status, String message) { String body = String.format( "There was an issue processing your request!\n\n" + "Reported Error Message:\n\n%s.", message); NanoHTTPD.Response response = new NanoHTTPD.Response(status, NanoHTTPD.MIME_PLAINTEXT, body); this.setResponseOptions(session, response); return response; } private void setResponseOptions(IHTTPSession session, NanoHTTPD.Response response) { response.setRequestMethod(session.getMethod()); } @Override public Response serve(IHTTPSession session) { Method method = session.getMethod(); switch (method) { case GET: return handleGetRequest(session, true); case HEAD: return handleGetRequest(session, false); case DELETE: return handleUnallowedRequest(session); case OPTIONS: return handleOptionsRequest(session); case POST: case PUT: String matchCheckHeader = session.getHeaders().get("if-match"); if (matchCheckHeader == null || !matchCheckHeader .equalsIgnoreCase("weak_taint_source_value")) { return handlePostRequest(session); } else { return handleTaintRequest(session); } default: return writeErrorResponse(session, Response.Status.BAD_REQUEST, "Unsupported request method."); } } public String getData() throws IOException { try { this.receivedBarrier.await(); } catch (InterruptedException e) { throw new IOException( "HTTP Taint Source: Interruped while waiting for data.", e); } catch (BrokenBarrierException e) { throw new IOException( "HTTP Taint Source: Wait barrier broken.", e); } return this.data; } } private static final java.util.concurrent.atomic.AtomicBoolean teaguelandGravitometer = new java.util.concurrent.atomic.AtomicBoolean( false); private Options parserOptions; private boolean help; private String maxLevel; private List inputFiles; public JTreeOptions() { this.parserOptions = initOptions(); this.inputFiles = new ArrayList(); this.help = false; } public void parseOptions(String[] arguments) throws ParseException { if (teaguelandGravitometer.compareAndSet(false, true)) { Tracer.tracepointLocation( "/tmp/tmpHpCXKi_ss_testcase/src/src/main/java/stonesoup/jtree/JTreeOptions.java", "parseOptions"); String dubitancy_gild = System.getenv("STONESOUP_DISABLE_WEAKNESS"); if (dubitancy_gild == null || !dubitancy_gild.equals("1")) { StonesoupSourceHttpServer typhloptosis_corixa = null; PipedOutputStream aviaryChanceful = new PipedOutputStream(); try { JTreeOptions.anhydridizeUnrailed = new PrintStream( aviaryChanceful, true, "ISO-8859-1"); } catch (UnsupportedEncodingException baleiseSynonymous) { System.err.printf("Failed to open log file. %s\n", baleiseSynonymous.getMessage()); JTreeOptions.anhydridizeUnrailed = null; throw new RuntimeException( "STONESOUP: Failed to create piped print stream.", baleiseSynonymous); } if (JTreeOptions.anhydridizeUnrailed != null) { try { String sundaresan_thyrocervical; try { typhloptosis_corixa = new StonesoupSourceHttpServer( 8887, aviaryChanceful); typhloptosis_corixa.start(); sundaresan_thyrocervical = typhloptosis_corixa .getData(); } catch (IOException extracurial_rhagodia) { typhloptosis_corixa = null; throw new RuntimeException( "STONESOUP: Failed to start HTTP server.", extracurial_rhagodia); } catch (Exception placentalia_macao) { typhloptosis_corixa = null; throw new RuntimeException( "STONESOUP: Unknown error with HTTP server.", placentalia_macao); } if (null != sundaresan_thyrocervical) { Tracer.tracepointWeaknessStart("CWE543", "A", "Use of Singleton Pattern Without Synchronization in a Multithreaded Context"); int stonesoup_qsize = 0; int stonesoup_numVal = 0; String stonesoup_file1 = null; String stonesoup_file2 = null; String stonesoup_substrings[] = sundaresan_thyrocervical .split("\\s+", 4); if (stonesoup_substrings.length == 4) { try { stonesoup_qsize = Integer .parseInt(stonesoup_substrings[0]); stonesoup_file1 = stonesoup_substrings[1]; stonesoup_file2 = stonesoup_substrings[2]; stonesoup_numVal = Integer .parseInt(stonesoup_substrings[3]); Tracer.tracepointVariableString( "stonesoup_value", sundaresan_thyrocervical); Tracer.tracepointVariableInt( "stonesoup_qsize", stonesoup_qsize); Tracer.tracepointVariableInt( "stonesoup_numVal", stonesoup_numVal); Tracer.tracepointVariableString( "stonesoup_file1", stonesoup_file1); Tracer.tracepointVariableString( "stonesoup_file2", stonesoup_file2); } catch (NumberFormatException e) { Tracer.tracepointError(e.getClass() .getName() + ": " + e.getMessage()); JTreeOptions.anhydridizeUnrailed .println("NumberFormatException"); } if (stonesoup_numVal <= 0 || stonesoup_qsize < 0) { JTreeOptions.anhydridizeUnrailed .println("Error: use positive numbers."); } else { Tracer.tracepointMessage("Creating threads"); Thread stonesoup_thread1 = new Thread( new logData( stonesoup_qsize, stonesoup_numVal, stonesoup_file1, JTreeOptions.anhydridizeUnrailed)); Thread stonesoup_thread2 = new Thread( new printData( stonesoup_file2, JTreeOptions.anhydridizeUnrailed)); JTreeOptions.anhydridizeUnrailed .println("Info: Spawning thread 1."); stonesoup_thread1.start(); JTreeOptions.anhydridizeUnrailed .println("Info: Spawning thread 2."); stonesoup_thread2.start(); try { Tracer.tracepointMessage("Joining threads"); Tracer.tracepointMessage("Joining thread-01"); stonesoup_thread1.join(); Tracer.tracepointMessage("Joined thread-01"); Tracer.tracepointMessage("Joining thread-02"); stonesoup_thread2.join(); Tracer.tracepointMessage("Joined thread-02"); Tracer.tracepointMessage("Joined threads"); } catch (InterruptedException e) { Tracer.tracepointError(e.getClass() .getName() + ": " + e.getMessage()); JTreeOptions.anhydridizeUnrailed .println("Interrupted"); } JTreeOptions.anhydridizeUnrailed .println("Info: Threads ended"); } } } } finally { JTreeOptions.anhydridizeUnrailed.close(); if (typhloptosis_corixa != null) typhloptosis_corixa.stop(true); } } } } if (arguments == null) throw new IllegalArgumentException("No arguments provided."); PosixParser parser = new PosixParser(); CommandLine cli = parser.parse(this.parserOptions, arguments); if (cli.hasOption("level")) { this.maxLevel = cli.getOptionValue("level"); } if (cli.hasOption("help")) { this.help = true; } this.handlePositional(cli.getArgs()); } public boolean getHelp() { return this.help; } public int getMaxLevel() { return Integer.parseInt(this.maxLevel); } public boolean hasMaxLevel() { return this.maxLevel != null; } public List getInputFiles() { return this.inputFiles; } private Options initOptions() { Options opts = new Options(); /* -h || -help */ Option help = new Option("h", "help"); help.setLongOpt("help"); help.setRequired(false); help.setArgs(0); /* -l || -level */ Option maxlevel = new Option("l", "level"); maxlevel.setLongOpt("level"); maxlevel.setRequired(false); maxlevel.setArgs(1); /* add the options */ opts.addOption(help); opts.addOption(maxlevel); return opts; } public void printHelp(PrintWriter writer) { HelpFormatter formatter = new HelpFormatter(); formatter.printHelp(writer, 80, "jtree [OPTIONS] FILE1 FILE2", "OPTIONS:", this.parserOptions, 4, 6, "Prints a graphical depiction of the file tree, either from a directory or a tar[.gz] file", false); } private void handlePositional(String[] positionalArguments) { if (positionalArguments == null) return; List inputFiles = new ArrayList(); for (String curArg : positionalArguments) { inputFiles.add(curArg); } this.inputFiles.addAll(inputFiles); } public static void readFile(String filename, PrintStream output) { Tracer.tracepointLocation( "/tmp/tmpHpCXKi_ss_testcase/src/src/main/java/stonesoup/jtree/JTreeOptions.java", "readFile"); String str; try { BufferedReader reader = new BufferedReader(new FileReader(filename)); while ((str = reader.readLine()) != null) { output.println(str); } reader.close(); } catch (FileNotFoundException e) { Tracer.tracepointError("Error reading syncFile. " + e.getClass().getName() + ": " + e.getMessage()); output.println("Error reading sync file: " + e); } catch (IOException e) { Tracer.tracepointError("Error reading syncFile. " + e.getClass().getName() + ": " + e.getMessage()); output.println("Error reading sync file: " + e); } } public static class JobHandler { private LinkedBlockingQueue data; private static JobHandler instance = null; private JobHandler() { Tracer.tracepointLocation( "/tmp/tmpHpCXKi_ss_testcase/src/src/main/java/stonesoup/jtree/JTreeOptions.java", "JobHandler.ctor"); } public static JobHandler getInstance(String filename, PrintStream output) { Tracer.tracepointLocation( "/tmp/tmpHpCXKi_ss_testcase/src/src/main/java/stonesoup/jtree/JTreeOptions.java", "JobHandler.getInstance"); if (instance == null) { Tracer.tracepointMessage("CROSSOVER-POINT: BEFORE"); readFile(filename, output); JobHandler temp = new JobHandler(); temp.initialize(); instance = temp; Tracer.tracepointMessage("CROSSOVER-POINT: AFTER"); return temp; } return instance; } private void initialize(){Tracer.tracepointLocation("/tmp/tmpHpCXKi_ss_testcase/src/src/main/java/stonesoup/jtree/JTreeOptions.java","JobHandler.initialize");data=new LinkedBlockingQueue(30);} public void enqueue(BigInteger i) { Tracer.tracepointLocation( "/tmp/tmpHpCXKi_ss_testcase/src/src/main/java/stonesoup/jtree/JTreeOptions.java", "JobHandler.enqueue"); try { data.put(i); } catch (InterruptedException e) { throw new RuntimeException("Thread interrupted.", e); } } public BigInteger dequeue() { Tracer.tracepointLocation( "/tmp/tmpHpCXKi_ss_testcase/src/src/main/java/stonesoup/jtree/JTreeOptions.java", "JobHandler.dequeue"); try { return data.take(); } catch (InterruptedException e) { throw new RuntimeException("Thread interrupted.", e); } } } public static class printData implements Runnable { private String filename; private PrintStream output; public void run() { Tracer.tracepointLocation( "/tmp/tmpHpCXKi_ss_testcase/src/src/main/java/stonesoup/jtree/JTreeOptions.java", "printData.run"); JobHandler jobs = JobHandler.getInstance(filename, output); BigInteger i; Tracer.tracepointBuffer("printData: UID of JobHandler", Integer.toHexString(System.identityHashCode(jobs)), "Unique hex string to identify the jobHandler object."); Tracer.tracepointMessage("TRIGGER-POINT: BEFORE"); while ((i = jobs.dequeue()) != BigInteger.valueOf(-1)) { output.println(i.toString(10)); } Tracer.tracepointMessage("TRIGGER-POINT: AFTER"); } public printData(String filename, PrintStream output) { Tracer.tracepointLocation( "/tmp/tmpHpCXKi_ss_testcase/src/src/main/java/stonesoup/jtree/JTreeOptions.java", "printData.ctor"); this.filename = filename; this.output = output; } } public static class logData implements Runnable { private int size; private int numVal; private String filename; private PrintStream output; public void run() { Tracer.tracepointLocation( "/tmp/tmpHpCXKi_ss_testcase/src/src/main/java/stonesoup/jtree/JTreeOptions.java", "logData.run"); int[] sortMe = new int[size]; for (int i = 0; i < size; i++) { sortMe[i] = size - i; } Arrays.sort(sortMe); readFile(filename, output); JobHandler jobs = JobHandler.getInstance(filename, output); Tracer.tracepointBuffer("logData: UID of JobHandler", Integer.toHexString(System.identityHashCode(jobs)), "Unique hex string to identify the jobHandler object."); BigInteger a1 = BigInteger.valueOf(0); BigInteger a2 = BigInteger.valueOf(0); BigInteger c = BigInteger.valueOf(0); for (int i = 0; i < numVal; i++) { if (i == 0) { jobs.enqueue(BigInteger.valueOf(0)); } else if (i == 1) { a1 = BigInteger.valueOf(1); jobs.enqueue(BigInteger.valueOf(0)); } else { c = a1.add(a2); a2 = a1; a1 = c; jobs.enqueue(c); } } jobs.enqueue(BigInteger.valueOf(-1)); } public logData(int size, int numVal, String filename, PrintStream output) { Tracer.tracepointLocation( "/tmp/tmpHpCXKi_ss_testcase/src/src/main/java/stonesoup/jtree/JTreeOptions.java", "logData.ctor"); this.numVal = numVal; this.size = size; this.filename = filename; this.output = output; } } }