Groups > comp.lang.java.programmer > #39503

Java Jython RDKit, some progress, still confused

From	vjp2.at@at.BioStrategist.dot.dot.com
Newsgroups	comp.lang.java.programmer
Subject	Java Jython RDKit, some progress, still confused
Date	2020-06-16 15:54 +0000
Organization	Samani Marions Panyaught NYC-11357-3436-287-USA
Message-ID	<rcapvi$mnr$1@reader1.panix.com> (permalink)

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I found more CDs from 2015. It seems the .so and .dll files are redundant

I was able to get the thing to kinda start

But it seems the classpaths vs jars is confused

I couldn't >> pipe the error messages

I think I am so close but so far from the answer

I don't understand what the "jython ;" is about

PS, RDKit is suppsoed to be the chemistry what Macsyma is to math

Sorry for my bungling

@echo off
SET RD_HOME=.
SET JAVA_HOME=..\CommonFiles\JAVA\
SET JAVA_COMMAND=%JAVA_HOME%\bin\java.exe

SET LOCAL_CLASSPATH="%LOCAL_CLASSPATH%"; "%RD_HOME%"\rdkit-master\Code\JavaWrappers\gmwrapper\org.RDKit.jar; "%RD_HOME%"\rdkit-master\Code\JavaWrappers\gmwrapper\org.RDKitDoc.jar

"%JAVA_COMMAND%"  -classpath "%LOCAL_CLASSPATH%"  "%JAVA_HOME%"\bin\jython-standalone-2.5.jar  ;  jython -Djava.library.path="%RD_HOME%"\rdkit-master\Code\JavaWrappers\gmwrapper\  

rem unable to pipe error message but it says "could not find the main class"  in the RDKit jar
rem why are jars in the classpath and not .class?
rem putting -jar in front of jython .jar doesn't help, neither swapping cp and jar order
rem java.library.path points to dlls so what is lib..so?
rem I initially had the dlls then somewhere it said I needed the .so
rem -D is a java command so what is the jython statement about when jy..jar calls jython fine?
pause

rem error messgaes show forward slashes, even instead of dots   - why?

rem ?<? "%RD_HOME%"\rdkini.py  how pipe ini file - pipe or not, it terminates jython on end
 
:END

rem these are in rdkini.py
rem from org.RDKit import *
rem from java import lang
rem lang.System.loadLibrary('GraphMolWrap')
rem m = RWMol.MolFromSmiles('c1ccccc1')
rem m.getNumAtoms()



				    - = -
	 Vasos Panagiotopoulos, Columbia'81+, Reagan, Mozart, Pindus
  blog: panix.com/~vjp2/ruminatn.htm - = - web:  panix.com/~vjp2/vasos.htm
   facebook.com/vasjpan2 - linkedin.com/in/vasjpan02 -  biostrategist.com
  ---{Nothing herein constitutes advice.  Everything fully disclaimed.}---

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Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-06-16 15:54 +0000
  Re: Java Jython RDKit, some progress, still confused Martin Gregorie <martin@mydomain.invalid> - 2020-06-16 19:54 +0000
    Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-07-07 12:40 +0000
      Re: Java Jython RDKit, some progress, still confused Martin Gregorie <martin@mydomain.invalid> - 2020-07-07 13:09 +0000
        Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-07-07 18:06 +0000
          Re: Java Jython RDKit, some progress, still confused Martin Gregorie <martin@mydomain.invalid> - 2020-07-07 19:23 +0000
            Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-07-07 20:11 +0000
              Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-07-08 11:32 +0000
                Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-07-08 13:40 +0000
                Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-07-08 15:30 +0000
                Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-07-08 17:04 +0000
                Re: Java Jython RDKit, some progress, still confused "C.D. Altenburg, Ph.D," <cdalten@gmail.com> - 2020-07-08 11:13 -0700
                Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-07-08 18:33 +0000
                Re: Java Jython RDKit, some progress, still confused Daniele Futtorovic <da.futt.news@laposte-dot-net.invalid> - 2020-07-08 22:19 +0200
                Re: Java Jython RDKit, some progress, still confused Daniele Futtorovic <da.futt.news@laposte-dot-net.invalid> - 2020-07-08 22:23 +0200
                Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-07-11 19:12 +0000
                Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-07-12 17:24 +0000
                Re: Java Jython RDKit, some progress, still confused Daniele Futtorovic <da.futt.news@laposte-dot-net.invalid> - 2020-07-21 01:46 +0200
  Re: Java Jython RDKit, some progress, still confused Daniele Futtorovic <da.futt.news@laposte-dot-net.invalid> - 2020-06-16 22:32 +0200
    Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-06-16 20:40 +0000
      Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-06-17 15:58 +0000
        Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-06-17 20:43 +0000
        Re: Java Jython RDKit, some progress, still confused Daniele Futtorovic <da.futt.news@laposte-dot-net.invalid> - 2020-06-18 16:15 +0200
          Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-06-18 18:40 +0000
  Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-07-12 17:42 +0000
  Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-07-12 18:12 +0000
    Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-07-13 13:31 +0000
      Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-07-13 18:34 +0000
        Re: Java Jython RDKit, some progress, still confused Eric Sosman <esosman@comcast-dot-net.invalid> - 2020-07-13 16:13 -0400
          Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-07-16 16:29 +0000
          Re: Java Jython RDKit, some progress, still confused vjp2.at@at.BioStrategist.dot.dot.com - 2020-07-16 16:32 +0000
            Re: Java Jython RDKit, some progress, still confused "C.D. Altenburg, Ph.D," <cdalten@gmail.com> - 2020-07-17 08:42 -0700
            Re: Java Jython RDKit, some progress, still confused Daniele Futtorovic <da.futt.news@laposte-dot-net.invalid> - 2020-07-21 01:53 +0200
              Re: Java Jython RDKit, some progress, still confused Daniele Futtorovic <da.futt.news@laposte-dot-net.invalid> - 2020-07-21 01:55 +0200
  Re: Java Jython RDKit, some progress, still confused rahul kumar <lingmaaki@gmail.com> - 2020-09-15 22:41 -0700

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