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package bloom;
import java.io.PrintStream;
import fileIO.ByteFile;
import fileIO.ByteFile1;
import fileIO.ByteFile2;
import fileIO.ByteStreamWriter;
import fileIO.FileFormat;
import fileIO.ReadWrite;
import shared.Parse;
import shared.Parser;
import shared.PreParser;
import shared.Shared;
import shared.Timer;
import shared.Tools;
import structures.ByteBuilder;
/**
* Reads a text file.
* Prints it to another text file.
* Filters out invalid lines and prints them to an optional third file.
* @author Brian Bushnell
* @date May 9, 2016
*
*/
public class ParseBloomFilter {
/*--------------------------------------------------------------*/
/*---------------- Initialization ----------------*/
/*--------------------------------------------------------------*/
/**
* Code entrance from the command line.
* @param args Command line arguments
*/
public static void main(String[] args){
//Start a timer immediately upon code entrance.
Timer t=new Timer();
//Create an instance of this class
ParseBloomFilter x=new ParseBloomFilter(args);
//Run the object
x.process(t);
//Close the print stream if it was redirected
Shared.closeStream(x.outstream);
}
/**
* Constructor.
* @param args Command line arguments
*/
public ParseBloomFilter(String[] args){
{//Preparse block for help, config files, and outstream
PreParser pp=new PreParser(args, /*getClass()*/null, false);
args=pp.args;
outstream=pp.outstream;
}
//Set shared static variables prior to parsing
ReadWrite.USE_PIGZ=ReadWrite.USE_UNPIGZ=true;
ReadWrite.setZipThreads(Shared.threads());
{//Parse the arguments
final Parser parser=parse(args);
overwrite=parser.overwrite;
append=parser.append;
in1=parser.in1;
out1=(parser.out1==null ? "stdout.txt" : parser.out1);
}
fixExtensions(); //Add or remove .gz or .bz2 as needed
checkFileExistence(); //Ensure files can be read and written
checkStatics(); //Adjust file-related static fields as needed for this program
ffout1=FileFormat.testOutput(out1, FileFormat.TXT, null, true, overwrite, append, false);
ffoutInvalid=FileFormat.testOutput(outInvalid, FileFormat.TXT, null, true, overwrite, append, false);
ffin1=FileFormat.testInput(in1, FileFormat.TXT, null, true, true);
}
/*--------------------------------------------------------------*/
/*---------------- Initialization Helpers ----------------*/
/*--------------------------------------------------------------*/
/** Parse arguments from the command line */
private Parser parse(String[] args){
Parser parser=new Parser();
for(int i=0; i<args.length; i++){
String arg=args[i];
String[] split=arg.split("=");
String a=split[0].toLowerCase();
String b=split.length>1 ? split[1] : null;
if(b!=null && b.equalsIgnoreCase("null")){b=null;}
if(a.equals("invalid")){
outInvalid=b;
}else if(a.equals("lines")){
maxLines=Long.parseLong(b);
if(maxLines<0){maxLines=Long.MAX_VALUE;}
}else if(a.equals("verbose")){
verbose=Parse.parseBoolean(b);
ByteFile1.verbose=verbose;
ByteFile2.verbose=verbose;
ReadWrite.verbose=verbose;
}else if(parser.parse(arg, a, b)){
//do nothing
}else{
outstream.println("Unknown parameter "+args[i]);
assert(false) : "Unknown parameter "+args[i];
// throw new RuntimeException("Unknown parameter "+args[i]);
}
}
return parser;
}
/** Add or remove .gz or .bz2 as needed */
private void fixExtensions(){
in1=Tools.fixExtension(in1);
if(in1==null){throw new RuntimeException("Error - at least one input file is required.");}
}
/** Ensure files can be read and written */
private void checkFileExistence(){
//Ensure output files can be written
if(!Tools.testOutputFiles(overwrite, append, false, out1)){
outstream.println((out1==null)+", "+out1);
throw new RuntimeException("\n\noverwrite="+overwrite+"; Can't write to output file "+out1+"\n");
}
//Ensure input files can be read
if(!Tools.testInputFiles(false, true, in1)){
throw new RuntimeException("\nCan't read some input files.\n");
}
//Ensure that no file was specified multiple times
if(!Tools.testForDuplicateFiles(true, in1, out1)){
throw new RuntimeException("\nSome file names were specified multiple times.\n");
}
}
/** Adjust file-related static fields as needed for this program */
private static void checkStatics(){
//Adjust the number of threads for input file reading
if(!ByteFile.FORCE_MODE_BF1 && !ByteFile.FORCE_MODE_BF2 && Shared.threads()>2){
ByteFile.FORCE_MODE_BF2=true;
}
// if(!ByteFile.FORCE_MODE_BF2){
// ByteFile.FORCE_MODE_BF2=false;
// ByteFile.FORCE_MODE_BF1=true;
// }
}
/*--------------------------------------------------------------*/
/*---------------- Outer Methods ----------------*/
/*--------------------------------------------------------------*/
void process(Timer t){
ByteFile bf=ByteFile.makeByteFile(ffin1);
ByteStreamWriter bsw=makeBSW(ffout1);
ByteStreamWriter bswInvalid=makeBSW(ffoutInvalid);
// assert(false) : "Header goes here.";
if(bsw!=null){
// assert(false) : "Header goes here.";
}
processInner(bf, bsw, bswInvalid);
errorState|=bf.close();
if(bsw!=null){errorState|=bsw.poisonAndWait();}
if(bswInvalid!=null){errorState|=bswInvalid.poisonAndWait();}
t.stop();
outstream.println(Tools.timeLinesBytesProcessed(t, linesProcessed, bytesProcessed, 8));
outstream.println();
outstream.println("Valid Lines: \t"+linesOut);
outstream.println("Invalid Lines: \t"+(linesProcessed-linesOut));
if(errorState){
throw new RuntimeException(getClass().getName()+" terminated in an error state; the output may be corrupt.");
}
}
/*--------------------------------------------------------------*/
/*---------------- Inner Methods ----------------*/
/*--------------------------------------------------------------*/
private void processInner(ByteFile bf, ByteStreamWriter bsw, ByteStreamWriter bswInvalid){
byte[] line=bf.nextLine();
ByteBuilder bb=new ByteBuilder();
while(line!=null){
if(line.length>0){
if(maxLines>0 && linesProcessed>=maxLines){break;}
linesProcessed++;
bytesProcessed+=(line.length+1);
final boolean header=(line[0]=='#');
String s=new String(line);
if(header){
bb.nl();
bb.append(line);
}else if(s.startsWith("Executing bloom.BloomFilterWrapper")){
//parse threads
bb.nl();
String[] split=s.replace(' ', '\t').replace(',', '\t').split("\t");
for(String sub : split){
if(sub.startsWith("t=")){
bb.append(sub.substring(2)).tab();
break;
}
}
}else if(s.startsWith("Keys Counted:") || s.startsWith("Increments:")){
String[] split=Tools.whitespacePlus.split(s);
bb.append(split[split.length-1]).tab();
}else if(s.startsWith("Filter creation:")){
String[] split=Tools.whitespacePlus.split(s);
bb.append(split[split.length-2]).tab();
}else{
if(bswInvalid!=null){
bswInvalid.println(line);
}
}
}
line=bf.nextLine();
}
bb.nl();
bytesOut+=bb.length;
bsw.print(bb.toBytes());
bb.clear();
}
private static ByteStreamWriter makeBSW(FileFormat ff){
if(ff==null){return null;}
ByteStreamWriter bsw=new ByteStreamWriter(ff);
bsw.start();
return bsw;
}
/*--------------------------------------------------------------*/
/*---------------- Fields ----------------*/
/*--------------------------------------------------------------*/
private String in1=null;
private String out1=null;
private String outInvalid=null;
/*--------------------------------------------------------------*/
private long linesProcessed=0;
private long linesOut=0;
private long bytesProcessed=0;
private long bytesOut=0;
private long maxLines=Long.MAX_VALUE;
/*--------------------------------------------------------------*/
/*---------------- Final Fields ----------------*/
/*--------------------------------------------------------------*/
private final FileFormat ffin1;
private final FileFormat ffout1;
private final FileFormat ffoutInvalid;
/*--------------------------------------------------------------*/
/*---------------- Common Fields ----------------*/
/*--------------------------------------------------------------*/
private PrintStream outstream=System.err;
public static boolean verbose=false;
public boolean errorState=false;
private boolean overwrite=true;
private boolean append=false;
}
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