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How to install PDFBox on Windows so it works with pax?

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I am trying to use pdfpages and maintain the internal bookmarks within the included PDF files. The pdfpages README suggests using the pax package for this purpose, so I have installed that from CTAN and refreshed my database (MiKTeX 2.9).

I am running Windows 7 (64-bit) and have installed JRE and JDK (in that order) and Strawberry Perl (to folder C:\StrawberryPerl\).

I downloaded PDFBox version 0.7.3 (which is supposed to be compatible with pax) from http://sourceforge.net/projects/pdfbox/files/ and installed it to C:\PDFBox.

Then I added C:\PDFBox\ and C:\MiKTeX\scripts\pax\ to my system Path variable and rebooted.

Then I installed pdfannotextractor.pl using the command line:

perl C:\MiKTeX\scripts\pax\pdfannotextractor.pl --install

with the following result:

C:\>perl C:\MiKTeX\scripts\pax\pdfannotextractor.pl --installPDFAnnotExtractor 0.1l, 2012/04/18 - Copyright (c) 2008, 2011, 2012 by Heiko Oberdiek.* Nothing to do, because PDFBox is already found:  C:\PDFBoxC:\>

So PDFBox seems to be installed satisfactorily. However, when I try to run the pax script using the following command:

java -jar C:\MiKTeX\scripts\pax\pax.jar FileWithBookmarks.pdf

I get this result:

Exception in thread "main" java.lang.NoClassDefFoundError: org/pdfbox/cos/ICOSVisitor    at java.lang.Class.getDeclaredMethods0(Native Method)    at java.lang.Class.privateGetDeclaredMethods(Unknown Source)    at java.lang.Class.getMethod0(Unknown Source)    at java.lang.Class.getMethod(Unknown Source)    at sun.launcher.LauncherHelper.getMainMethod(Unknown Source)    at sun.launcher.LauncherHelper.checkAndLoadMain(Unknown Source)Caused by: java.lang.ClassNotFoundException: org.pdfbox.cos.ICOSVisitor    at java.net.URLClassLoader$1.run(Unknown Source)    at java.net.URLClassLoader$1.run(Unknown Source)    at java.security.AccessController.doPrivileged(Native Method)    at java.net.URLClassLoader.findClass(Unknown Source)    at java.lang.ClassLoader.loadClass(Unknown Source)    at sun.misc.Launcher$AppClassLoader.loadClass(Unknown Source)    at java.lang.ClassLoader.loadClass(Unknown Source)    ... 6 more

If instead I use the following command:

perl C:\MiKTeX\scripts\pax\pdfannotextractor.pl FileWithBookmarks.pdf

I get the same java exception as above.

Can anyone help?

UPDATE: After adding C:\PDFBox\ to my CLASSPATH, here is my command and the debugging results:

C:\>perl C:\MiKTeX\scripts\pax\pdfannotextractor.pl --debug FileWithBookmarks.pdfPDFAnnotExtractor 0.1l, 2012/04/18 - Copyright (c) 2008, 2011, 2012 by Heiko Oberdiek.* CLASSPATH: [.;C:\Program Files (x86)\Java\jre6\lib\ext\QTJava.zip;C:\PDFBox\]* is_win: [1]* Which kpsewhich: [C:\MiKTeX\miktex\bin\kpsewhich.EXE]* Backticks: [kpsewhich --progname pdfannotextractor --format texmfscripts pax.jar]* Exit code: [0/success]* pax.jar: [C:/MiKTeX/scripts/pax/pax.jar]* PDFBox in CLASSPATH: [yes]* Which java: [C:\Windows\system32\java.EXE]* System: [java -cp C:/MiKTeX/scripts/pax/pax.jar;C:\PDFBox;.;C:\Program Files (x86)\Java\jre6\lib\ext\QTJava.zip;C:\PDFBox\ pax.PDFAnnotExtractor FileWithBookmarks.pdf]Usage: java [-options] class [args...]       (to execute a class)or  java [-options] -jar jarfile [args...]       (to execute a jar file)where options include:-d32          use a 32-bit data model if available-d64          use a 64-bit data model if available-server       to select the "server" VM-hotspot      is a synonym for the "server" VM  [deprecated]              The default VM is server.-cp -classpath               A ; separated list of directories, JAR archives,              and ZIP archives to search for class files.-D=              set a system property-verbose[:class|gc|jni]              enable verbose output-version      print product version and exit-version:              require the specified version to run-showversion  print product version and continue-jre-restrict-search | -no-jre-restrict-search              include/exclude user private JREs in the version search-? -help      print this help message-X            print help on non-standard options-ea[:...|:]-enableassertions[:...|:]              enable assertions with specified granularity-da[:...|:]-disableassertions[:...|:]              disable assertions with specified granularity-esa | -enablesystemassertions              enable system assertions-dsa | -disablesystemassertions              disable system assertions-agentlib:[=]              load native agent library , e.g. -agentlib:hprof              see also, -agentlib:jdwp=help and -agentlib:hprof=help-agentpath:[=]              load native agent library by full pathname-javaagent:[=]              load Java programming language agent, see java.lang.instrument-splash:              show splash screen with specified imageSee http://www.oracle.com/technetwork/java/javase/documentation/index.html for more details.* Exit code: [1]C:\>

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