Am Wednesday 31 January 2007 18:19 schrieb Luke Yen:
> Hi Stefan,
>
> I tried the dist-all target but it still gives me the same errors.
>
> How/where should I run the javac command?
there should be an ant target javacc
>
> Thanks,
> Luke
>
> On Wed, 31 Jan 2007, Stefan Kuhn wrote:
> > Hi Luke,
> > you should either use dist-all or run javacc before compilation.
> > Stefan
> >
> > Am Wednesday 31 January 2007 18:07 schrieb Luke Yen:
> > > Hi,
> > >
> > > I am trying to build the CDK from source, and I tried both Sun's 1.4
> > > and 1.5 versions without success.
> > >
> > > Here's the Ant output from compiling with 1.4:
> > >
> > > compile-module:
> > > [echo] Compiling classes for CDK's extra module.
> > > [echo] Datafiles defined: true
> > > [echo] Extra files defined: true
> > > [echo] CDK dependencies defined: true
> > > [echo] Library dependencies defined: true
> > > [echo] Developer Library dependencies defined:
> > > ${module.devellibdepends.present}
> > > [delete] Deleting directory /scratch/luke/cdk-source-20060718/build
> > > [mkdir] Created dir: /scratch/luke/cdk-source-20060718/build
> > > [mkdir] Created dir: /scratch/luke/cdk-source-20060718/build/src
> > > [copy] Copying 165 files to
> > > /scratch/luke/cdk-source-20060718/build/src
> > > [javac] Compiling 165 source files to
> > > /scratch/luke/cdk-source-20060718/build
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/iupac/p
> > >arse r/NomParser.java:25: cannot resolve symbol
> > > [javac] symbol : class MoleculeBuilder
> > > [javac] location: package parser
> > > [javac] import org.openscience.cdk.iupac.parser.MoleculeBuilder;
> > > [javac] ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/applica
> > >tion s/undoredo/AddAtomsAndBondsEdit.java:70: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.IChemModel) in
> > > org.openscience.cdk.tools.manipulator.ChemModelManipulator has been
> > > deprecated
> > > [javac] IAtomContainer container =
> > > ChemModelManipulator.getAllInOneContainer(chemModel);
> > > [javac]
> > > ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/applica
> > >tion s/undoredo/AddAtomsAndBondsEdit.java:91: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.IChemModel) in
> > > org.openscience.cdk.tools.manipulator.ChemModelManipulator has been
> > > deprecated
> > > [javac] IAtomContainer container =
> > > ChemModelManipulator.getAllInOneContainer(chemModel);
> > > [javac]
> > > ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/applica
> > >tion s/undoredo/AddHydrogenEdit.java:146: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.IChemModel) in
> > > org.openscience.cdk.tools.manipulator.ChemModelManipulator has been
> > > deprecated
> > > [javac]
> > > .getAllInOneContainer(model);
> > > [javac] ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/applica
> > >tion s/undoredo/BondChangeEdit.java:67: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.IChemModel) in
> > > org.openscience.cdk.tools.manipulator.ChemModelManipulator has been
> > > deprecated
> > > [javac] IAtomContainer container =
> > > ChemModelManipulator.getAllInOneContainer(chemModel);
> > > [javac]
> > > ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/applica
> > >tion s/undoredo/BondChangeEdit.java:83: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.IChemModel) in
> > > org.openscience.cdk.tools.manipulator.ChemModelManipulator has been
> > > deprecated
> > > [javac] IAtomContainer container =
> > > ChemModelManipulator.getAllInOneContainer(chemModel);
> > > [javac]
> > > ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/applica
> > >tion s/undoredo/MergeMoleculesEdit.java:37: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.IChemModel) in
> > > org.openscience.cdk.tools.manipulator.ChemModelManipulator has been
> > > deprecated
> > > [javac] IAtomContainer container =
> > > ChemModelManipulator.getAllInOneContainer(chemModel);
> > > [javac]
> > > ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/applica
> > >tion s/undoredo/MergeMoleculesEdit.java:67: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.IChemModel) in
> > > org.openscience.cdk.tools.manipulator.ChemModelManipulator has been
> > > deprecated
> > > [javac] IAtomContainer container =
> > > ChemModelManipulator.getAllInOneContainer(chemModel);
> > > [javac]
> > > ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/applica
> > >tion s/undoredo/RemoveAtomsAndBondsEdit.java:55: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.IChemModel) in
> > > org.openscience.cdk.tools.manipulator.ChemModelManipulator has been
> > > deprecated
> > > [javac] this.container =
> > > ChemModelManipulator.getAllInOneContainer(chemModel);
> > > [javac] ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/control
> > >ler/ AbstractController2D.java:946: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.IChemModel) in
> > > org.openscience.cdk.tools.manipulator.ChemModelManipulator has been
> > > deprecated
> > > [javac] IAtomContainer container =
> > > ChemModelManipulator.getAllInOneContainer(chemModel);
> > > [javac]
> > > ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/control
> > >ler/ AbstractController2D.java:960: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.IChemModel) in
> > > org.openscience.cdk.tools.manipulator.ChemModelManipulator has been
> > > deprecated
> > > [javac] container =
> > > ChemModelManipulator.getAllInOneContainer(chemModel);
> > > [javac] ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/control
> > >ler/ AbstractController2D.java:996: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.IChemModel) in
> > > org.openscience.cdk.tools.manipulator.ChemModelManipulator has been
> > > deprecated
> > > [javac] IAtomContainer container =
> > > ChemModelManipulator.getAllInOneContainer(chemModel);
> > > [javac]
> > > ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/control
> > >ler/ AbstractController2D.java:1139: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.IChemModel) in
> > > org.openscience.cdk.tools.manipulator.ChemModelManipulator has been
> > > deprecated
> > > [javac] IAtomContainer atomCon
> > > = ChemModelManipulator.getAllInOneContainer(chemModel);
> > > [javac]
> > > ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/control
> > >ler/ AbstractController2D.java:1709: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.IChemModel) in
> > > org.openscience.cdk.tools.manipulator.ChemModelManipulator has been
> > > deprecated
> > > [javac] IAtomContainer atomCon =
> > > ChemModelManipulator.getAllInOneContainer(chemModel);
> > > [javac]
> > > ^ [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/control
> > >ler/ AbstractController2D.java:1807: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.IChemModel) in
> > > org.openscience.cdk.tools.manipulator.ChemModelManipulator has been
> > > deprecated
> > > [javac] IAtomContainer atomCon =
> > > ChemModelManipulator.getAllInOneContainer(chemModel);
> > > [javac]
> > > ^ [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/control
> > >ler/ AbstractController2D.java:1834: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.IChemModel) in
> > > org.openscience.cdk.tools.manipulator.ChemModelManipulator has been
> > > deprecated
> > > [javac] IAtomContainer atomCon =
> > > ChemModelManipulator.getAllInOneContainer(chemModel);
> > > [javac]
> > > ^ [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/control
> > >ler/ AbstractController2D.java:2060: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.IChemModel) in
> > > org.openscience.cdk.tools.manipulator.ChemModelManipulator has been
> > > deprecated
> > > [javac] IAtomContainer atomCon =
> > > ChemModelManipulator.getAllInOneContainer(chemModel);
> > > [javac]
> > > ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/control
> > >ler/ AbstractController2D.java:2126: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.ISetOfMolecules) in
> > > org.openscience.cdk.tools.manipulator.SetOfMoleculesManipulator has
> > > been deprecated
> > > [javac] IAtomContainer
> > > allinone=SetOfMoleculesManipulator.getAllInOneContainer(chemModel.getSe
> > >tOfM olecules()); [javac]
> > > ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/control
> > >ler/ Controller2D.java:97: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.IChemModel) in
> > > org.openscience.cdk.tools.manipulator.ChemModelManipulator has been
> > > deprecated
> > > [javac] return
> > > ChemModelManipulator.getAllInOneContainer(chemModel);
> > > [javac] ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/control
> > >ler/ Controller2D.java:115: warning:
> > > getAllInOneContainer(org.openscience.cdk.interfaces.IReaction) in
> > > org.openscience.cdk.tools.manipulator.ReactionManipulator has been
> > > deprecated
> > > [javac] IAtomContainer atomContainer =
> > > ReactionManipulator.getAllInOneContainer(reactions[i]);
> > > [javac]
> > > ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/iupac/p
> > >arse r/NomParser.java:87: cannot resolve symbol
> > > [javac] symbol : class MoleculeBuilder
> > > [javac] location: class org.openscience.cdk.iupac.parser.NomParser
> > > [javac] MoleculeBuilder moleculeBuilder = new
> > > MoleculeBuilder();
> > > [javac] ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/iupac/p
> > >arse r/NomParser.java:87: cannot resolve symbol
> > > [javac] symbol : class MoleculeBuilder
> > > [javac] location: class org.openscience.cdk.iupac.parser.NomParser
> > > [javac] MoleculeBuilder moleculeBuilder = new
> > > MoleculeBuilder();
> > > [javac] ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/iupac/p
> > >arse r/NomParser.java:105: cannot resolve symbol
> > > [javac] symbol : class AttachedGroup
> > > [javac] location: class org.openscience.cdk.iupac.parser.NomParser
> > > [javac] AttachedGroup ag = (AttachedGroup)
> > > vectorIterator.next();
> > > [javac] ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/iupac/p
> > >arse r/NomParser.java:105: cannot resolve symbol
> > > [javac] symbol : class AttachedGroup
> > > [javac] location: class org.openscience.cdk.iupac.parser.NomParser
> > > [javac] AttachedGroup ag = (AttachedGroup)
> > > vectorIterator.next();
> > >
> > > And 1.5's output (it fails in the same spot in compilation):
> > >
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/iupac/p
> > >arse r/NomParser.java:87: cannot find symbol
> > > [javac] symbol : class MoleculeBuilder
> > > [javac] location: class org.openscience.cdk.iupac.parser.NomParser
> > > [javac] MoleculeBuilder moleculeBuilder = new
> > > MoleculeBuilder();
> > > [javac] ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/iupac/p
> > >arse r/NomParser.java:87: cannot find symbol
> > > [javac] symbol : class MoleculeBuilder
> > > [javac] location: class org.openscience.cdk.iupac.parser.NomParser
> > > [javac] MoleculeBuilder moleculeBuilder = new
> > > MoleculeBuilder();
> > > [javac] ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/iupac/p
> > >arse r/NomParser.java:105: cannot find symbol
> > > [javac] symbol : class AttachedGroup
> > > [javac] location: class org.openscience.cdk.iupac.parser.NomParser
> > > [javac] AttachedGroup ag = (AttachedGroup)
> > > vectorIterator.next();
> > > [javac] ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/iupac/p
> > >arse r/NomParser.java:105: cannot find symbol
> > > [javac] symbol : class AttachedGroup
> > > [javac] location: class org.openscience.cdk.iupac.parser.NomParser
> > > [javac] AttachedGroup ag = (AttachedGroup)
> > > vectorIterator.next();
> > > [javac] ^
> > > [javac]
> > > /scratch/luke/cdk-source-20060718/build/src/org/openscience/cdk/iupac/p
> > >arse r/NomParser.java:143: cannot find symbol
> > > [javac] symbol : class AttachedGroup
> > > [javac] location: class org.openscience.cdk.iupac.parser.NomParser
> > > [javac] attachedSubstituents.add (new AttachedGroup
> > > (tempLocation, currentNumber) );
> > >
> > > Any suggestions on how to fix this problem would be greatly
> > > appreciated.
> > >
> > > Luke
> > >
> > > -----------------------------------------------------------------------
> > >-- Take Surveys. Earn Cash. Influence the Future of IT
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> > >EV _______________________________________________
> > > Cdk-user mailing list
> > > [email protected]
> > > https://lists.sourceforge.net/lists/listinfo/cdk-user
> >
> > --
> > Stefan Kuhn B. Sc. M. A.
> > Cologne University BioInformatics Center (http://www.cubic.uni-koeln.de)
> > Zülpicher Str. 47, 50674 Cologne
> > Tel: +49(0)221-470-7428 Fax: +49 (0) 221-470-7786
> > My public PGP key is available at http://pgp.mit.edu
>
> -------------------------------------------------------------------------
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> Join SourceForge.net's Techsay panel and you'll get the chance to share
> your opinions on IT & business topics through brief surveys - and earn cash
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> _______________________________________________
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--
Stefan Kuhn B. Sc. M. A.
Cologne University BioInformatics Center (http://www.cubic.uni-koeln.de)
Zülpicher Str. 47, 50674 Cologne
Tel: +49(0)221-470-7428 Fax: +49 (0) 221-470-7786
My public PGP key is available at http://pgp.mit.edu
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