I've been encountering this error:
I ran the OpenIE 4.1 binary but got the following error:
Exception in thread "main" java.lang.NullPointerException at
com.googlecode.clearnlp.tokenization.EnglishTokenizer.protectEmoticons
(EnglishTokenizer.java:335) at
com.googlecode.clearnlp.tokenization.EnglishTokenizer.getTokenList(En
glishTokenizer.java:109) at
com.googlecode.clearnlp.tokenization.AbstractTokenizer.getTokens(AbstractTokenizer.java:58) at
edu.knowitall.tool.tokenize.ClearTokenizer.tokenize(ClearTokenizer.sc ala:22)
I've looked up a few sources and found a comment by Yangrui who also had this problem in the past. But there are no solutions. I've checked my openie.4.1.jar file and the com.googlecode.clearnlp.tokenization.EnglishTokenizer.protectEmoticon exists.
Hope someone can help shed some light on this. Thank you in advance.
I've managed to solve this error. The issue lies with the compilation of the OpenIE 4.0 JAR and OpenIE 4.1 JAR files I downloaded from the official website. (http://knowitall.github.io/openie/).
How to solve? Compile the classes yourself.
Go to https://github.com/knowitall/openie/releases
Choose a release. (I chose 4.1.3)
Download the zip file and unzip the file.
Use terminal and redirect to the folder directory.
Run 'sbt package' and it will start compiling.
Your final JAR file will be found in the target folder/scala-2.10/{openie-assembly-VERSION.jar}
Note: There could be some changes you need to make to your code if you are running OpenIE as a dependency. The code for test is as follows:
OpenIE openIE = new OpenIE(new ClearParser(new ClearPostagger(new ClearTokenizer())), new ClearSrl(), false, false);
Seq<Instance> extractions = openIE.extract("Obama is the president of the United States");
Iterator<Instance> iterator = extractions.iterator();
while (iterator.hasNext()) {
Instance inst = iterator.next();
StringBuilder sb = new StringBuilder();
sb.append(inst.confidence()).append("\t\t")
.append(inst.extr().arg1().text()).append("\t\t")
.append(inst.extr().rel().text()).append("\t\t");
Iterator<Argument> argIter = inst.extr().arg2s().iterator();
while (argIter.hasNext()) {
Part arg = argIter.next();
sb.append(arg.text()).append("; ");
}
System.out.println(sb.toString());
}
I hope this will help someone in the future.
Related
For a webservice client I'd like to use Implementation-Title and Implementation-Version from the jar file as user-agent string. The question is how to read the jar's manifest.
This question has been asked multiple times, however the answer seems not applicable for me. (e.g. Reading my own Jar's Manifest)
The problem is that simply reading /META-INF/MANIFEST.MF almost always gives wrong results. In my case, it would almost always refer to JBoss.
The solution proposed in https://stackoverflow.com/a/1273196/4222206
is problematic for me as you'd have to hardcode the library name to stop the iteration, and then still it may mean two versions of the same library are on the classpath and you just return the first - not necessarily the right - hit.
The solution in https://stackoverflow.com/a/1273432/4222206
seems to work with jar:// urls only which completely fails within JBoss where the application classloader produces vfs:// urls.
Is there a way for code in a class to find it's own manifest?
I tried the abovementioned items which seem to run well in small applications run from the java command line but then I'd like to have a portable solution as I cannot predict where my library would be used later.
public static Manifest getManifest() {
log.debug("getManifest()");
synchronized(Version.class) {
if(manifest==null) {
try {
// this works wrongly in JBoss
//ClassLoader cl = Version.class.getProtectionDomain().getClassLoader();
//log.debug("found classloader={}", cl);
//URL manifesturl = cl.getResource("/META-INF/MANIFEST.MF");
URL jar = Version.class.getProtectionDomain().getCodeSource().getLocation();
log.debug("Class loaded from {}", jar);
URL manifesturl = null;
switch(jar.getProtocol()) {
case "file":
manifesturl = new URL(jar.toString()+"META-INF/MANIFEST.MF");
break;
default:
manifesturl = new URL(jar.toString()+"!/META-INF/MANIFEST.MF");
}
log.debug("Expecting manifest at {}", manifesturl);
manifest = new Manifest(manifesturl.openStream());
}
catch(Exception e) {
log.info("Could not read version", e);
}
}
}
The code will detect the correct jar path. I assumed by modifying the url to point to the manifest would give the required result however I get this:
Class loaded from vfs:/C:/Users/user/Documents/JavaLibs/wildfly-18.0.0.Final/bin/content/webapp.war/WEB-INF/lib/library-1.0-18.jar
Expecting manifest at vfs:/C:/Users/user/Documents/JavaLibs/wildfly-18.0.0.Final/bin/content/webapp.war/WEB-INF/lib/library-1.0-18.jar!/META-INF/MANIFEST.MF
Could not read version: java.io.FileNotFoundException: C:\Users\hiran\Documents\JavaLibs\wildfly-18.0.0.Final\standalone\tmp\vfs\temp\tempfc75b13f07296e98\content-e4d5ca96cbe6b35e\WEB-INF\lib\library-1.0-18.jar!\META-INF\MANIFEST.MF (The system cannot find the path specified)
I checked that path and it seems even the first URL to the jar (obtained via Version.class.getProtectionDomain().getCodeSource().getLocation() ) was wrong already. It should have been C:\Users\user\Documents\JavaLibs\wildfly-18.0.0.Final\standalone\tmp\vfs\temp\tempfc75b13f07296e98\content-e4d5ca96cbe6b35e\WEB-INF\lib\library-1.0.18.jar.
So this could even point to a problem in Wildfly?
It seems I found some suitable solution here:
https://stackoverflow.com/a/37325538/4222206
So in the end this code can display the correct version of the jar (at least) in JBoss:
this.getClass().getPackage().getImplementationTitle();
this.getClass().getPackage().getImplementationVersion();
Hopefully I will find this answer when I search next time...
I just started trying to write a simple java code to do some simple OCR, using the code and advice found here.
I have installed libraries, and the project in the IDE (NetBeans) looks like the picture I have attached.
I'm getting these errors:
10:47:30.099 [main] WARN net.sourceforge.tess4j.util.LoadLibs - Source 'C:\Users\Simon%20Bothner\Documents\NetBeansProjects\OCRTest\build\classes\win32-x86-64' does not exist
java.io.FileNotFoundException: Source
'C:\Users\Simon%20Bothner\Documents\NetBeansProjects\OCRTest\build\classes\win32-x86-64' does not exist
at org.apache.commons.io.FileUtils.copyFile(FileUtils.java:1074)
at org.apache.commons.io.FileUtils.copyFile(FileUtils.java:1038)
at net.sourceforge.tess4j.util.LoadLibs.copyResources(LoadLibs.java:138)
at net.sourceforge.tess4j.util.LoadLibs.extractTessResources(LoadLibs.java:105)
at net.sourceforge.tess4j.util.LoadLibs.<clinit>(LoadLibs.java:59)
at net.sourceforge.tess4j.TessAPI.<clinit>(TessAPI.java:42)
at net.sourceforge.tess4j.Tesseract.init(Tesseract.java:367)
at net.sourceforge.tess4j.Tesseract.doOCR(Tesseract.java:280)
at net.sourceforge.tess4j.Tesseract.doOCR(Tesseract.java:212)
at net.sourceforge.tess4j.Tesseract.doOCR(Tesseract.java:196)
at Main.main(Main.java:15)
Exception in thread "main" java.lang.UnsatisfiedLinkError: The specified module could not be found.
at com.sun.jna.Native.open(Native Method)
at com.sun.jna.NativeLibrary.loadLibrary(NativeLibrary.java:263)
at com.sun.jna.NativeLibrary.getInstance(NativeLibrary.java:403)
at com.sun.jna.Library$Handler.<init>(Library.java:147)
at com.sun.jna.Native.loadLibrary(Native.java:502)
at com.sun.jna.Native.loadLibrary(Native.java:481)
at net.sourceforge.tess4j.util.LoadLibs.getTessAPIInstance(LoadLibs.java:77)
at net.sourceforge.tess4j.TessAPI.<clinit>(TessAPI.java:42)
at net.sourceforge.tess4j.Tesseract.init(Tesseract.java:367)
at net.sourceforge.tess4j.Tesseract.doOCR(Tesseract.java:280)
at net.sourceforge.tess4j.Tesseract.doOCR(Tesseract.java:212)
at net.sourceforge.tess4j.Tesseract.doOCR(Tesseract.java:196)
at Main.main(Main.java:15)
C:\Users\Simon Bothner\AppData\Local\NetBeans\Cache\8.1\executor-snippets\run.xml:53: Java returned: 1
BUILD FAILED (total time: 0 seconds)
I tried to use this tutorial, but I seemed to be missing a .dll, the liblept168.dll...
Can someone help me with this? I'm quite new at this and can't seem to get this to work...
Thanks a lot! :)
Step 1: http://tphangout.com/how-to-use-the-tesseract-api-to-perform-ocr-in-your-java-code/
Open the link above and see how to install Tesseract in Java properly.
Step 2: After reading it, if you still get the error like "library not open", download Microsoft Visual Studio >12.0, and also update your JDK version (I also get the same error).
Step 3:
public class tesserct
{
public static void main(String[] args)
{
//System.setProperty("jna.library.path", "64".equals(System.getProperty("sun.arch.data.model")) ? "lib/win32-x86" : "lib/win32-x86-64");
System.setProperty("jna.library.path", "32".equals(System.getProperty("sun.arch.data.model")) ? "lib/win32-x86" : "lib/win32-x86-64");
File imageFile = new File("F:\\Wallpaper & photo\\wallpaper\\holi wollpepar\\happy-holi-2013-hd-wallpaper1.jpg");
ITesseract instance = new Tesseract(); // JNA Interface Mapping
// ITesseract instance = new Tesseract1(); // JNA Direct Mapping
File tessDataFolder = LoadLibs.extractTessResources("tessdata"); // Maven build bundles English data
instance.setDatapath(tessDataFolder.getParent());
try {
String result = instance.doOCR(imageFile);
System.out.println(result);
} catch (TesseractException e) {
System.err.println(e.getMessage());
}
}
run the code above on your NetBeans, and try it.
A weird issue suddenly appeared. I cannot execute my current code. Eclipse executes older version of my code.
I have read some solutions about this, but none of them worked on my project.
I did Project > Clean and Project > Build Automatically
, change content of my project as System.out.println("hello"); and Eclipse still executes older version of my code.
This is the code that needs to be executed.
public static void main(String[] args) throws IOException {
Configuration config = HBaseConfiguration.create();
HTable hTable = new HTable(config, "users");
Put p = new Put(Bytes.toBytes("2"));
p.add(Bytes.toBytes("username"),
Bytes.toBytes("usr"),Bytes.toBytes("dino"));
p.add(Bytes.toBytes("password"),
Bytes.toBytes("pass"),Bytes.toBytes("123"));
hTable.put(p);
System.out.println("data inserted");
hTable.close();
}
And this is the older version of my code:
public static void main(String[] args) throws IOException {
Configuration config = HBaseConfiguration.create();
HTable table = new HTable(config, "myLittleHBaseTable");
Put p = new Put(Bytes.toBytes("myLittleRow"));
p.add(Bytes.toBytes("myLittleFamily"), Bytes.toBytes("someQualifier"),
Bytes.toBytes("Some Value"));
table.put(p);
Get g = new Get(Bytes.toBytes("myLittleRow"));
Result r = table.get(g);
byte[] value = r.getValue(Bytes.toBytes("myLittleFamily"), Bytes
.toBytes("someQualifier"));
}
I found a solution which says if there is a syntax error, eclipse runs old code. I removed all my codes, and wrote System.out.println("hello"); and it still keeps executing older version of my code.
Second solution did not help me either. I have only one workspace and I currently am using it.
If you are running your code on any server then there might be a jar or war file that is being used for deployment. But if it is a simple hello world program then try re importing your project then rebuild it.
Since I am using Play Framework, I just went to path of my project, and wrote "play eclipsify" and the current code works.
Since you're using Play Framework (as mentioned in your own answer), you should try:
activator clean, then
activator compile to rebuild.
Replace activator with play if you're not using TypeSafe Activator.
This may be a more direct approach than re-eclipsifying your project.
I am trying to build a java project which contains R codes. Main logic behind that is I want to automate the data structuring and data analysis with in a same project. Partially I am being able to do that. I connected R to Java and my R codes are running well. I did all my set up in the local machine and its giving me all output as I need. As data set is big I am trying to run this on amazon server. But when I am shifting it to server, my project is not working properly. Its not being able to execute library(XLConnect), library(rJava). When ever I am calling this two libraries in my java project it's crashing. Independently in R codes are running and giving me output. What I can I for that, and how to fix thus error. Please help me out from this.
My java codes is
import java.io.InputStreamReader;
import java.io.Reader;
public class TestRMain {
public static void main(String[] arg)throws Exception{
ProcessBuilder broker = new ProcessBuilder("R.exe","--file=E:\\New\\Modified_Best_Config.R");
Process runBroker = broker.start();
Reader reader = new InputStreamReader(runBroker.getInputStream());
int ch;
while((ch = reader.read())!= -1)
System.out.print((char)ch);
reader.close();
runBroker.waitFor();
System.out.println("Execution complete");
}
}
And in the Modified_Best_Config.R I have written these codes
library('ClustOfVar');
library("doBy");
library(XLConnect)
#library(rJava)
#library(xlsx)
path="E:/New/";
############Importing and reading the excel files into R##############
Automated_R <- loadWorkbook("E:/New/Option_Mix_Calculation1.xlsx")
sheet1 <- readWorksheet(Automated_R, sheet = "Current Output")
sheet2 <- readWorksheet(Automated_R, sheet = "Actual Sales monthly")
sheet3 <- readWorksheet(Automated_R, sheet = "Differences")
#####################Importing raw Data###############################
optionData<- read.csv(paste(path,"ModifiedStructureNewBestConfig1.csv",sep=""),head=TRUE,sep=",");
nrow(optionData)
optionDemand=sapply(split(optionData,optionData$Trim),trimSplit);
optionDemand1=t(optionDemand[c(-1,-2),]);
optionDemand1
################Calculating the equipment Demand####################
optionDemand2<-t(optionDemand2[c(-1,0)]);
Rownames <- as.data.frame(row.names(optionDemand2))
writeWorksheet(Automated_R,Rownames, sheet = "Current Output", startRow = 21, startCol = 1)
writeWorksheet(Automated_R,optionDemand2, sheet = "Current Output", startRow = 21, startCol = 2)
saveWorkbook(Automated_R)
But java is stopping its operation after these line.
library("doBy");
Whole set of codes are running on nicely on my local machine. But whenever I am trying to run this on amazon server it's not running. Individually in R this code is running on server. I have couple of more R codes which are running with out any error. What can I do for that, please help me out.
Thanks for updating your question with some example code. I cannot completely replicate your circumstances because I presently don't have immediate access to Amazon EC2, and I don't know the specific type of instance you are using. But here a couple of suggestions for de-bugging your issue, which I have a hunch is being caused by a missing package.
1. Try to install the offending packages via your R script
At the very beginning of your R script, before you try to load any packages, insert the following:
install.packages(c("XLConnect", "rJava"))
If your instance includes a specified CRAN mirror (essentially, the online repository where R will first look to download the package source code from), this should install the packages in the same repo where your other packages are kept on your server. Then, either library or require should load your packages.
(sidenote: rJava is actually a dependency of XLConnect, so it will automatically load anyway if you only specify library(XLConnect))
2. If the above does not work, try installing the packages via the command line
This is essentially what #Ben was suggesting with his comment. Alternatively, see perhaps this link, which deals with a similar problem with a different package. If you can, in terminal on the server, I would try entering the following three commands:
sudo add-apt-repository ppa:marutter/rrutter
sudo apt-get update
sudo apt-get install r-cran-XLConnect
In my experience this has been a good go-to repo when I can't seem to find a package I need to install. But you may or may not have permission to install packages on your server instance.
I'm currently using the Alloy Analyzer API to build a program, and getting some peculiar behavior. Specifically, if I open a file and parse it (using CompUtil.parseEverything), then make a new Command and call TranslateAlloyToKodkod.execute_command on the parsed file and newly created command using MiniSat with UNSAT core, it runs fine. However, later in execution, my program parses a second input file (also using CompUtil.parseEverything), gets another world, makes a new command, and then I try to call TranslateAlloyToKodkod.execute_command again, it throws the following error:
ERROR: class edu.mit.csail.sdg.alloy4.ErrorFatal: The required JNI library cannot be found:
java.lang.UnsatisfiedLinkError: no minisatproverx5 in java.library.path
edu.mit.csail.sdg.alloy4compiler.translator.TranslateAlloyToKodkod.execute_command(TranslateAlloyToKodkod.java:390)
Does anyone have any idea why this is thrown the second time, but not the first?
To summarize, I have something similar to the following:
Module someWorld = CompUtil.parseEverything_fromFile(rep, null, "someFile.als");
//For the following, "sig" is a sig in someWorld.getAllReachableSigs();
Command command = sig.not();
A4Options options = new A4Options();
options.solver = A4Options.SatSolver.MiniSatProverJNI;
A4Solution ans =
TranslateAlloyToKodkod.execute_command(rep, someWorld, command, options);
//No thrown error
Module someOtherWorld = CompUtil.parseEverything_fromFile(rep, null, "someOtherFile.als");
//For the following, "sig" is a sig in someOtherWorld.getAllReachableSigs();
Command commandTwo = sig.not();
A4Solution ansTwo =
TranslateAlloyToKodkod.execute_command(rep, someOtherWorld, commandTwo, options);
//Thrown error above. Why?
I tried to reproduce this behavior, but I couldn't. If I don't add MiniSat binaries to the LD_LIBRARY_PATH environment variable, I get the exception you mentioned the very first time I invoke execute_command. After configuring LD_LIBRARY_PATH, the exception doesn't happen.
To configure LD_LIBRARY_PATH:
(1) if using Eclipse, you can right-click on one of your source folders, choose Build Path -> Configure Build Path, then on the "Source" tab make sure that "Native library location" points to a folder in which MiniSat binaries reside.
(2) if running from the shell, just add the path to a folder with MiniSat binaries to LD_LIBRARY_PATH, e.g., something like export LD_LIBRARY_PATH=alloy/extra/x86-linux:$LD_LIBRARY_PATH.
Here is the exact code that I was running, and everything worked
public static void main(String[] args) throws Exception {
A4Reporter rep = new A4Reporter();
A4Options options = new A4Options();
options.solver = A4Options.SatSolver.MiniSatProverJNI;
Module someWorld = CompUtil.parseEverything_fromFile(rep, null, "someFile.als");
Command command = someWorld.getAllCommands().get(0);
A4Solution ans = TranslateAlloyToKodkod.execute_command(rep, someWorld.getAllReachableSigs(), command, options);
System.out.println(ans);
Module someOtherWorld = CompUtil.parseEverything_fromFile(rep, null, "someOtherFile.als");
Command commandTwo = someOtherWorld.getAllCommands().get(0);
A4Solution ansTwo = TranslateAlloyToKodkod.execute_command(rep, someOtherWorld.getAllReachableSigs(), commandTwo, options);
System.out.println(ansTwo);
}
with "someFile.als" being
sig A {}
run { some A } for 4
and "someOtherFile.als"
sig A {}
run { no A } for 4
I use alloy4.2.jar as a library in my eclipse plugin project.
A4Reporter rep = new A4Reporter();
Module world = CompUtil.parseEverything_fromFile(rep, null, "civi.als");
A4Options options = new A4Options();
options.solver = A4Options.SatSolver.SAT4J;
options.skolemDepth = 1;
When I use SAT4J, the default solver, the problem mentioned here will not show up. But another exception comes out. The reason is that my civi.als file need Integer model, which located in alloy4.2.jar under the folder /models/util/. But when I run the application, it tries to find the file util/Integer.als directly. That causes the exception. Is it possible to fix that problem?
Besides, I also tried to put the alloy4.2.jar in eclipse plugin project and run my application as an eclipse application (running my application as a plugin). With the default solver, the application has no problem at all. But when I switch to MiniSatProverJNI, the problem mentioned here comes out (I have set the alloy4.2.jar as classpath).