Cannot make CB on Ubuntu 14.04

[dandaman]

Hi,
I'd like to use CB as a reasoner within Protege.

When trying to make all in the src I got an error about missing jni_md.h. Which I fixed by setting the env var:
export JNI_INCLUDE="/usr/lib/jvm/java-8-oracle/include/linux;/usr/lib/jvm/java-8-oracle/include"

But now I receive the following error:
make all
ocamlbuild -build-dir _build main/cb.native jni cwrap/libcb.a
Finished, 1 target (0 cached) in 00:00:00.
Building for host: linux, target: linux, arch: amd64

• /usr/lib/jvm/java-8-oracle/bin/javac -source 5 -d java/. java/org/semanticweb/cb/reasoner/CbObjectInverseOf.java java/org/semanticweb/cb/reasoner/CbClassExpressionVisitor.java java/org/semanticweb/cb/reasoner/Loader.java java/org/semanticweb/cb/reasoner/CbAxiom.java java/org/semanticweb/cb/reasoner/CbException.java java/org/semanticweb/cb/reasoner/CbSubClassOfAxiom.java java/org/semanticweb/cb/reasoner/CbClassAxiomIterator.java java/org/semanticweb/cb/reasoner/CbSubObjectPropertyOfAxiom.java java/org/semanticweb/cb/reasoner/CbObjectPropertyDeclarationAxiom.java java/org/semanticweb/cb/reasoner/CbDeclarationAxiom.java java/org/semanticweb/cb/reasoner/CObject.java java/org/semanticweb/cb/reasoner/CbClassAxiom.java java/org/semanticweb/cb/reasoner/CbInverseObjectPropertiesAxiom.java java/org/semanticweb/cb/reasoner/CbDeclarationAxiomVisitor.java java/org/semanticweb/cb/reasoner/CbInverseFunctionalObjectPropertyAxiom.java java/org/semanticweb/cb/reasoner/CbObjectPropertyAxiom.java java/org/semanticweb/cb/reasoner/CbClassExpression.java java/org/semanticweb/cb/reasoner/CbAxiomVisitor.java java/org/semanticweb/cb/reasoner/CbObjectSomeValuesFrom.java java/org/semanticweb/cb/reasoner/CbClassTaxonomyNode.java java/org/semanticweb/cb/reasoner/CbEquivalentClassesAxiom.java java/org/semanticweb/cb/reasoner/CbObjectProperty.java java/org/semanticweb/cb/reasoner/CbObjectPropertyAxiomVisitor.java java/org/semanticweb/cb/reasoner/ProgressMonitor.java java/org/semanticweb/cb/reasoner/CbObjectPropertyExpression.java java/org/semanticweb/cb/reasoner/CbClassNode.java java/org/semanticweb/cb/reasoner/CbObjectPropertyExpressionVisitor.java java/org/semanticweb/cb/reasoner/CbObjectVisitor.java java/org/semanticweb/cb/reasoner/DummyProgressMonitor.java java/org/semanticweb/cb/reasoner/CbObjectIntersectionOf.java java/org/semanticweb/cb/reasoner/CbClassDeclarationAxiom.java java/org/semanticweb/cb/reasoner/CbProgressMonitorStdErr.java java/org/semanticweb/cb/reasoner/CbFunctionalObjectPropertyAxiom.java java/org/semanticweb/cb/reasoner/CbProgressMonitor.java java/org/semanticweb/cb/reasoner/CbClassAxiomVisitor.java java/org/semanticweb/cb/reasoner/CbTransitiveObjectPropertyAxiom.java java/org/semanticweb/cb/reasoner/CbObject.java java/org/semanticweb/cb/reasoner/CbClassAxiomIteratable.java java/org/semanticweb/cb/reasoner/CbOntology.java java/org/semanticweb/cb/reasoner/CbClass.java
  warning: [options] bootstrap class path not set in conjunction with -source 1.5
  warning: [options] source value 1.5 is obsolete and will be removed in a future release
  warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
  3 warnings
• /usr/bin/ocamlopt unix.cmxa -ccopt -shared cwrap/cb.o java/jni/cbce.o java/jni/cbdax.o java/jni/cbont.o java/jni/cbcax.o java/jni/cbcn.o java/jni/cbopax.o java/jni/cbcaxi.o java/jni/cbope.o java/jni/config.o java/jni/cbpm.o libs/consed.cmx libs/chashsetlp.cmx libs/chashtbllp.cmx libs/cset.cmx libs/cmap.cmx libs/hashsetlp.cmx libs/hashtbllp.cmx libs/intset.cmx main/chashset.cmx main/chashmap.cmx main/owl.cmx main/brole.cmx main/polarity.cmx main/ontology.cmx main/index_op.cmx main/saturation_op.cmx main/index.cmx main/progress_monitor.cmx main/progress_tracker.cmx main/saturation.cmx main/class_taxonomy.cmx main/owl_fs_parser.cmx main/owl_fs_lexer.cmx main/owl_io.cmx cwrap/cbclib.cmx -o java/nativelib/linux/amd64/libjcb.so
  /usr/bin/ld: cwrap/cb.o: relocation R_X86_64_32 against `.rodata.str1.1' can not be used when making a shared object; recompile with -fPIC
  cwrap/cb.o: error adding symbols: Bad value
  collect2: error: ld returned 1 exit status
  File "caml_startup", line 1:
  Error: Error during linking
  Command exited with code 2.
  Compilation unsuccessful after building 153 targets (0 cached) in 00:00:19.
  make: *** [all] Error 10

As I do not necessarily require a binary -in principle I would only need a working jar I can copy into my plugin folder... How can I generate that?

Any help would be greatly appreciated.

Thanks,
Daniel