[OpenBabel-scripting] Open Babel for Java

[richard a. <ric...@ya...>]

I know Java is technically not a scripting language,
but I was wondering if anyone was interested in trying
to get a Java interface to OB working.

I'm in the process of trying to do this. I've managed
to get somewhere interesting, but I'm now stuck. I'm
hoping that someone that knows more about this stuff
than me can give a pointer or two. I know next to
nothing about SWIG, C++, make, etc., so any
information would be helpful.

I'm using OB svn trunk rev 1587, amd64 Linux Mandriva
2007, SWIG 1.3.29.

Here's what I've done so far:

(1) cd scripts

(2) mkdir java

(3) cd java

(4) swig -java -c++ -I../../src -o openbabel_java.cpp
../openbabel.i

[This generates a bunch of *.java files and
openbabel_java.cpp]

(5) g++ -fpic -c openbabel_java.cpp
-I/usr/java/jdk1.5.0_09/include
-I/usr/java/jdk1.5.0_09/include/linux
-I/usr/local/include/openbabel-2.0
-I/usr/local/include/openbabel-2.0/openbabel

[this produces errors about sqrt, so I add a #include]

(6) on line 1 of openbabel_java.cpp, add #include
<math.h>

(7) repeat step (5) - no errors this time

(8) ld -G openbabel_java.o -o openbabel_java.so

(9) javac *.java

[produces 32 errors about missing classes such as
OBChainsParser, OBBitVec, matrix3x3, OBAromaticTyper,
and so on.]

In looking at the java directory, I can see that none
of the corresponding *.java files were created so.
However, there are files such as OBMol.java. In the 32
errors I got after javac, none of them related to
OBMol, or any of the other classes for which the
*.java file is defined - as far as I can tell.

So I conclude that for some reason SWIG is not
generating the needed *.java files
OBChainsParser.java, OBBitVec.java, etc, and their
corresponding classes.

I've tried adding #include and %import, %include, and
%import for 'bitvec.h', but this still does not
produce the OBBitVec.java file that seems to be
needed.

It looks like this is really close to working - it's
just a matter of getting SWIG to generate these few
java classes.

Any ideas?

cheers,
Rich 

____________________________
Richard Apodaca
Blog: http://depth-first.com


 
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