Source: cdk
Version: 1:1.0.2-4
Severity: serious
Tags: squeeze sid
User: [email protected]
Usertags: qa-ftbfs-20100602 qa-ftbfs
Justification: FTBFS on amd64
Hi,
During a rebuild of all packages in sid, your package failed to build on
amd64.
Relevant part:
> make[1]: Entering directory `/build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2'
> make[1]: Nothing to be done for `update-config'.
> make[1]: Leaving directory `/build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2'
> cd . && /usr/lib/jvm/default-java/bin/java -classpath
> /usr/share/ant/lib/ant.jar:/usr/share/ant/lib/ant-launcher.jar:/usr/share/java/ant-nodeps.jar:/usr/share/java/javacc.jar:/usr/share/java/vecmath.jar:/usr/share/java/log4j-1.2.jar:/usr/share/java/commons-cli.jar:/usr/lib/jvm/default-java/lib/tools.jar
> -Dant.home=/usr/share/ant org.apache.tools.ant.Main -Dcompile.debug=true
> -Dcompile.optimize=true -propertyfile
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/debian/ant.properties info
> dist-all
> Buildfile: /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build.xml
>
> checkPlatforms:
>
> check:
>
> info:
> [echo] Platform:
> [echo] OS: Linux
> [echo] Architecture: amd64
> [echo] Version: 2.6.26-2-amd64
> [echo] Mac OS/X found: ${isMacOsX}
> [echo]
> [echo] Java/Ant Environment:
> [echo] Java version: 1.6.0_18
> [echo] Java vendor: Sun Microsystems Inc.
> [echo] Java dir: /usr/lib/jvm/java-6-openjdk/jre
> [echo] Java ext dir:
> /usr/lib/jvm/java-6-openjdk/jre/lib/ext:/usr/java/packages/lib/ext
> [echo] Java3: ${isJava13}
> [echo] Java4: ${isJava14}
> [echo] Java5: ${isJava15}
> [echo] Java6: true
> [echo] Java4+: true
> [echo] Java5+: true
> [echo] not Java5+: ${isNotJava15+}
> [echo] Java6: true
> [echo] Ant version: Apache Ant version 1.8.0 compiled on March 11
> 2010
> [echo] ${ANT_HOME}: /usr/share/ant
> [echo] hasAnt16: ${hasAnt16}
> [echo]
> [echo] CDK Environment:
> [echo] CDK version: 1.0.2
> [echo] build.xml: $Id: build.xml 10282 2008-03-02 15:25:03Z egonw $
> [echo] Junit found: ${junit.present}
> [echo] --- required libraries ---
> [echo] Vecmath found: true
> [echo] Log4j found: true
> [echo] JGraphT found: ${jgrapht.present}
> [echo] --- distributed (but optional) libraries ---
> [echo] Batik found: ${batik.present}
> [echo] CMLDOM found: ${cmllibs.present}
> [echo] DADML found: ${dadml.present}
> [echo] JAI found: ${jai.present}
> [echo] XIndice found: ${xindice.present}
> [echo] SJava found: ${sjava.present}
> [echo] JNI-InChI found: ${jniinchi.present}
> [echo] --- optional libraries ---
> [echo]
> [echo] Compiling:
> [echo] for: modern
> [echo] debug: on
> [echo] nowarn: on
> [echo] deprecation: on
> [echo] optimization: off
>
> dist-all:
>
> checkPlatforms:
>
> check:
>
> setupBuildDir:
> [mkdir] Created dir: /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build
> [mkdir] Created dir:
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/sourcedist
> [mkdir] Created dir: /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/dist
> [mkdir] Created dir:
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/reports
>
> init:
>
> javacc:
>
> customize:
>
> runDoclet:
> [echo] Not skipping doclet run...
> [javac] Compiling 1 source file to
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build
> [javac] Note:
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/src/net/sf/cdk/tools/MakeJavafilesFiles.java
> uses unchecked or unsafe operations.
> [javac] Note: Recompile with -Xlint:unchecked for details.
> [javac] Compiling 1 source file to
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build
> [javac] Note:
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/src/net/sf/cdk/tools/MakeRequiresfilesFiles.java
> uses unchecked or unsafe operations.
> [javac] Note: Recompile with -Xlint:unchecked for details.
>
> checkCompilableBlobs:
>
> compile-init:
>
> checkPlatforms:
>
> check:
>
> setupBuildDir:
>
> init:
>
> compile-needed-test:
>
> javacc:
>
> customize:
>
> runDoclet:
> [echo] Not skipping doclet run...
>
> checkCompilableBlobs:
>
> compile-info:
> [echo] Determine compilable blobs...
> [echo] Compile DADML: ${compile.dadml}
> [echo] Compile JAI: ${compile.jai}
> [echo] Compile Xindice: ${compile.xindice}
> [echo] Compile Jumbo52: ${compile.jumbo52}
> [echo] Compile R Project: ${compile.r-project}
> [echo] Compile Batik: ${do.compile.batik}
> [echo] Compile JNI-InChI: ${compile.jniinchi}
>
> compile-module:
> [echo] Compiling classes for CDK's interfaces module.
> [mkdir] Created dir:
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/dist/jar
> [echo] Datafiles defined: ${module.datafiles.present}
> [echo] Extra files defined: ${module.extrafiles.present}
> [echo] CDK dependencies defined: ${module.cdkdepends.present}
> [echo] Library dependencies defined: true
> [echo] Developer Library dependencies defined:
> ${module.devellibdepends.present}
> [mkdir] Created dir:
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src
> [copy] Copying 39 files to
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src
> [javac] Compiling 39 source files to
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build
> [jar] Building jar:
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/dist/jar/cdk-interfaces.jar
>
> checkPlatforms:
>
> check:
>
> setupBuildDir:
>
> init:
>
> compile-needed-test:
>
> javacc:
>
> customize:
>
> runDoclet:
> [echo] Not skipping doclet run...
>
> checkCompilableBlobs:
>
> compile-info:
> [echo] Determine compilable blobs...
> [echo] Compile DADML: ${compile.dadml}
> [echo] Compile JAI: ${compile.jai}
> [echo] Compile Xindice: ${compile.xindice}
> [echo] Compile Jumbo52: ${compile.jumbo52}
> [echo] Compile R Project: ${compile.r-project}
> [echo] Compile Batik: ${do.compile.batik}
> [echo] Compile JNI-InChI: ${compile.jniinchi}
>
> compile-module:
> [echo] Compiling classes for CDK's core module.
> [echo] Datafiles defined: true
> [echo] Extra files defined: ${module.extrafiles.present}
> [echo] CDK dependencies defined: true
> [echo] Library dependencies defined: true
> [echo] Developer Library dependencies defined:
> ${module.devellibdepends.present}
> [delete] Deleting directory
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src
> [mkdir] Created dir:
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src
> [copy] Copying 22 files to
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src
> [javac] Compiling 22 source files to
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build
> [javac] Note: Some input files use unchecked or unsafe operations.
> [javac] Note: Recompile with -Xlint:unchecked for details.
> [jar] Building jar:
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/dist/jar/cdk-core.jar
>
> checkPlatforms:
>
> check:
>
> setupBuildDir:
>
> init:
>
> compile-needed-test:
>
> javacc:
>
> customize:
>
> runDoclet:
> [echo] Not skipping doclet run...
>
> checkCompilableBlobs:
>
> compile-info:
> [echo] Determine compilable blobs...
> [echo] Compile DADML: ${compile.dadml}
> [echo] Compile JAI: ${compile.jai}
> [echo] Compile Xindice: ${compile.xindice}
> [echo] Compile Jumbo52: ${compile.jumbo52}
> [echo] Compile R Project: ${compile.r-project}
> [echo] Compile Batik: ${do.compile.batik}
> [echo] Compile JNI-InChI: ${compile.jniinchi}
>
> compile-module:
> [echo] Compiling classes for CDK's standard module.
> [echo] Datafiles defined: ${module.datafiles.present}
> [echo] Extra files defined: ${module.extrafiles.present}
> [echo] CDK dependencies defined: true
> [echo] Library dependencies defined: true
> [echo] Developer Library dependencies defined:
> ${module.devellibdepends.present}
> [delete] Deleting directory
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src
> [mkdir] Created dir:
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src
> [copy] Copying 82 files to
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src
> [javac] Compiling 82 source files to
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BFSShortestPath.java:35:
> package org._3pq.jgrapht does not exist
> [javac] import org._3pq.jgrapht.Edge;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BFSShortestPath.java:36:
> package org._3pq.jgrapht does not exist
> [javac] import org._3pq.jgrapht.Graph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BFSShortestPath.java:37:
> package org._3pq.jgrapht.traverse does not exist
> [javac] import org._3pq.jgrapht.traverse.BreadthFirstIterator;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BFSShortestPath.java:52:
> cannot find symbol
> [javac] symbol : class Graph
> [javac] location: class org.openscience.cdk.graph.BFSShortestPath
> [javac] public static List findPathBetween( Graph graph, Object
> startVertex,
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BFSShortestPath.java:88:
> cannot find symbol
> [javac] symbol : class BreadthFirstIterator
> [javac] location: class org.openscience.cdk.graph.BFSShortestPath
> [javac] private static class MyBreadthFirstIterator extends
> BreadthFirstIterator {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BFSShortestPath.java:90:
> cannot find symbol
> [javac] symbol : class Graph
> [javac] location: class
> org.openscience.cdk.graph.BFSShortestPath.MyBreadthFirstIterator
> [javac] public MyBreadthFirstIterator(Graph g, Object
> startVertex) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BFSShortestPath.java:94:
> cannot find symbol
> [javac] symbol : class Edge
> [javac] location: class
> org.openscience.cdk.graph.BFSShortestPath.MyBreadthFirstIterator
> [javac] protected void encounterVertex( Object vertex, Edge edge ) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BFSShortestPath.java:99:
> cannot find symbol
> [javac] symbol : class Edge
> [javac] location: class
> org.openscience.cdk.graph.BFSShortestPath.MyBreadthFirstIterator
> [javac] public Edge getSpanningTreeEdge( Object vertex ) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:40:
> package org._3pq.jgrapht does not exist
> [javac] import org._3pq.jgrapht.Edge;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:41:
> package org._3pq.jgrapht does not exist
> [javac] import org._3pq.jgrapht.Graph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:42:
> package org._3pq.jgrapht does not exist
> [javac] import org._3pq.jgrapht.UndirectedGraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:43:
> package org._3pq.jgrapht.alg does not exist
> [javac] import org._3pq.jgrapht.alg.ConnectivityInspector;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:44:
> package org._3pq.jgrapht.event does not exist
> [javac] import org._3pq.jgrapht.event.GraphEdgeChangeEvent;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:45:
> package org._3pq.jgrapht.event does not exist
> [javac] import org._3pq.jgrapht.event.GraphVertexChangeEvent;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:46:
> package org._3pq.jgrapht.graph does not exist
> [javac] import org._3pq.jgrapht.graph.SimpleGraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:47:
> package org._3pq.jgrapht.graph does not exist
> [javac] import org._3pq.jgrapht.graph.Subgraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:63:
> cannot find symbol
> [javac] symbol : class UndirectedGraph
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac] private UndirectedGraph graph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:70:
> cannot find symbol
> [javac] symbol : class UndirectedGraph
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac] public BiconnectivityInspector(UndirectedGraph g) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:246:
> cannot find symbol
> [javac] symbol : class GraphEdgeChangeEvent
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac] public void edgeAdded( GraphEdgeChangeEvent e ) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:254:
> cannot find symbol
> [javac] symbol : class GraphEdgeChangeEvent
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac] public void edgeRemoved( GraphEdgeChangeEvent e ) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:262:
> cannot find symbol
> [javac] symbol : class GraphVertexChangeEvent
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac] public void vertexAdded( GraphVertexChangeEvent e ) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:270:
> cannot find symbol
> [javac] symbol : class GraphVertexChangeEvent
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac] public void vertexRemoved( GraphVertexChangeEvent e ) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:38:
> package org._3pq.jgrapht does not exist
> [javac] import org._3pq.jgrapht.DirectedGraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:39:
> package org._3pq.jgrapht does not exist
> [javac] import org._3pq.jgrapht.Edge;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:40:
> package org._3pq.jgrapht does not exist
> [javac] import org._3pq.jgrapht.Graph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:41:
> package org._3pq.jgrapht.graph does not exist
> [javac] import org._3pq.jgrapht.graph.DefaultDirectedGraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:42:
> package org._3pq.jgrapht.graph does not exist
> [javac] import org._3pq.jgrapht.graph.SimpleGraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:43:
> package org._3pq.jgrapht.traverse does not exist
> [javac] import org._3pq.jgrapht.traverse.BreadthFirstIterator;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:59:
> cannot find symbol
> [javac] symbol : class Graph
> [javac] location: class org.openscience.cdk.graph.MinimalPathIterator
> [javac] private Graph g;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:60:
> cannot find symbol
> [javac] symbol : class DirectedGraph
> [javac] location: class org.openscience.cdk.graph.MinimalPathIterator
> [javac] private DirectedGraph shortestPathGraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:73:
> cannot find symbol
> [javac] symbol : class SimpleGraph
> [javac] location: class org.openscience.cdk.graph.MinimalPathIterator
> [javac] public MinimalPathIterator(SimpleGraph g, Object sourceVertex,
> Object targetVertex) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:274:
> cannot find symbol
> [javac] symbol : class Graph
> [javac] location: class org.openscience.cdk.graph.MinimalPathIterator
> [javac] private List edgeList(Graph g, List vertexList) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:288:
> cannot find symbol
> [javac] symbol : class BreadthFirstIterator
> [javac] location: class org.openscience.cdk.graph.MinimalPathIterator
> [javac] private static class MyBreadthFirstIterator extends
> BreadthFirstIterator {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:290:
> cannot find symbol
> [javac] symbol : class Graph
> [javac] location: class
> org.openscience.cdk.graph.MinimalPathIterator.MyBreadthFirstIterator
> [javac] public MyBreadthFirstIterator(Graph g, Object
> startVertex) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:297:
> cannot find symbol
> [javac] symbol : class Edge
> [javac] location: class
> org.openscience.cdk.graph.MinimalPathIterator.MyBreadthFirstIterator
> [javac] protected void encounterVertex( Object vertex, Edge edge ) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MoleculeGraphs.java:31:
> package org._3pq.jgrapht.graph does not exist
> [javac] import org._3pq.jgrapht.graph.SimpleGraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MoleculeGraphs.java:56:
> cannot find symbol
> [javac] symbol : class SimpleGraph
> [javac] location: class org.openscience.cdk.graph.MoleculeGraphs
> [javac] static public SimpleGraph getMoleculeGraph(IAtomContainer
> molecule) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/SSSRFinder.java:31:
> package org._3pq.jgrapht does not exist
> [javac] import org._3pq.jgrapht.UndirectedGraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/CycleBasis.java:42:
> package org._3pq.jgrapht does not exist
> [javac] import org._3pq.jgrapht.Edge;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/CycleBasis.java:43:
> package org._3pq.jgrapht does not exist
> [javac] import org._3pq.jgrapht.UndirectedGraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/CycleBasis.java:44:
> package org._3pq.jgrapht.alg does not exist
> [javac] import org._3pq.jgrapht.alg.DijkstraShortestPath;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/CycleBasis.java:45:
> package org._3pq.jgrapht.graph does not exist
> [javac] import org._3pq.jgrapht.graph.UndirectedSubgraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java:31:
> package org._3pq.jgrapht does not exist
> [javac] import org._3pq.jgrapht.DirectedGraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java:32:
> package org._3pq.jgrapht does not exist
> [javac] import org._3pq.jgrapht.Edge;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java:33:
> package org._3pq.jgrapht does not exist
> [javac] import org._3pq.jgrapht.Graph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java:34:
> package org._3pq.jgrapht does not exist
> [javac] import org._3pq.jgrapht.UndirectedGraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java:35:
> package org._3pq.jgrapht.alg does not exist
> [javac] import org._3pq.jgrapht.alg.ConnectivityInspector;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java:36:
> package org._3pq.jgrapht.graph does not exist
> [javac] import org._3pq.jgrapht.graph.SimpleDirectedGraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java:37:
> package org._3pq.jgrapht.graph does not exist
> [javac] import org._3pq.jgrapht.graph.SimpleGraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java:38:
> package org._3pq.jgrapht.graph does not exist
> [javac] import org._3pq.jgrapht.graph.Subgraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/CycleBasis.java:74:
> cannot find symbol
> [javac] symbol : class UndirectedGraph
> [javac] location: class
> org.openscience.cdk.ringsearch.cyclebasis.CycleBasis
> [javac] private UndirectedGraph baseGraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/CycleBasis.java:82:
> cannot find symbol
> [javac] symbol : class UndirectedGraph
> [javac] location: class
> org.openscience.cdk.ringsearch.cyclebasis.CycleBasis
> [javac] public CycleBasis (UndirectedGraph g) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java:60:
> cannot find symbol
> [javac] symbol : class UndirectedGraph
> [javac] location: class
> org.openscience.cdk.ringsearch.cyclebasis.SimpleCycleBasis
> [javac] private UndirectedGraph graph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java:65:
> cannot find symbol
> [javac] symbol : class UndirectedGraph
> [javac] location: class
> org.openscience.cdk.ringsearch.cyclebasis.SimpleCycleBasis
> [javac] public SimpleCycleBasis (List cycles, List edgeList,
> UndirectedGraph graph) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java:74:
> cannot find symbol
> [javac] symbol : class UndirectedGraph
> [javac] location: class
> org.openscience.cdk.ringsearch.cyclebasis.SimpleCycleBasis
> [javac] public SimpleCycleBasis (UndirectedGraph graph) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java:796:
> cannot find symbol
> [javac] symbol : class Edge
> [javac] location: class
> org.openscience.cdk.ringsearch.cyclebasis.SimpleCycleBasis
> [javac] private int getEdgeIndex(Edge edge) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycle.java:27:
> package org._3pq.jgrapht does not exist
> [javac] import org._3pq.jgrapht.Edge;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycle.java:28:
> package org._3pq.jgrapht does not exist
> [javac] import org._3pq.jgrapht.UndirectedGraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycle.java:29:
> package org._3pq.jgrapht.graph does not exist
> [javac] import org._3pq.jgrapht.graph.UndirectedSubgraph;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycle.java:46:
> cannot find symbol
> [javac] symbol: class UndirectedSubgraph
> [javac] public class SimpleCycle extends UndirectedSubgraph {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycle.java:56:
> cannot find symbol
> [javac] symbol : class UndirectedGraph
> [javac] location: class
> org.openscience.cdk.ringsearch.cyclebasis.SimpleCycle
> [javac] public SimpleCycle (UndirectedGraph g, Collection edges) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycle.java:66:
> cannot find symbol
> [javac] symbol : class UndirectedGraph
> [javac] location: class
> org.openscience.cdk.ringsearch.cyclebasis.SimpleCycle
> [javac] public SimpleCycle (UndirectedGraph g, Set edges) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java:800:
> cannot find symbol
> [javac] symbol : class SimpleGraph
> [javac] location: class
> org.openscience.cdk.ringsearch.cyclebasis.SimpleCycleBasis
> [javac] private class AuxiliaryGraph extends SimpleGraph {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java:812:
> cannot find symbol
> [javac] symbol : class Graph
> [javac] location: class
> org.openscience.cdk.ringsearch.cyclebasis.SimpleCycleBasis.AuxiliaryGraph
> [javac] Graph g;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java:815:
> cannot find symbol
> [javac] symbol : class Graph
> [javac] location: class
> org.openscience.cdk.ringsearch.cyclebasis.SimpleCycleBasis.AuxiliaryGraph
> [javac] AuxiliaryGraph(Graph graph, boolean[] u) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java:885:
> cannot find symbol
> [javac] symbol : class SimpleGraph
> [javac] location: class
> org.openscience.cdk.ringsearch.cyclebasis.SimpleCycleBasis
> [javac] private class AuxiliaryGraph2 extends SimpleGraph {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java:900:
> cannot find symbol
> [javac] symbol : class Graph
> [javac] location: class
> org.openscience.cdk.ringsearch.cyclebasis.SimpleCycleBasis.AuxiliaryGraph2
> [javac] private Graph g;
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java:904:
> cannot find symbol
> [javac] symbol : class Graph
> [javac] location: class
> org.openscience.cdk.ringsearch.cyclebasis.SimpleCycleBasis.AuxiliaryGraph2
> [javac] AuxiliaryGraph2(Graph graph, List edgeList, boolean[]
> ui, boolean[] uj) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/geometry/BondTools.java:431:
> warning: [deprecation]
> getMorganNumbers(org.openscience.cdk.interfaces.IAtomContainer) in
> org.openscience.cdk.graph.invariant.MorganNumbersTools has been deprecated
> [javac] int[] morgannumbers =
> MorganNumbersTools.getMorganNumbers(container);
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BFSShortestPath.java:57:
> cannot find symbol
> [javac] symbol : method hasNext()
> [javac] location: class
> org.openscience.cdk.graph.BFSShortestPath.MyBreadthFirstIterator
> [javac] while( iter.hasNext( ) ) {
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BFSShortestPath.java:58:
> cannot find symbol
> [javac] symbol : method next()
> [javac] location: class
> org.openscience.cdk.graph.BFSShortestPath.MyBreadthFirstIterator
> [javac] Object vertex = iter.next( );
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BFSShortestPath.java:72:
> cannot find symbol
> [javac] symbol : class Edge
> [javac] location: class org.openscience.cdk.graph.BFSShortestPath
> [javac] Edge edge = iter.getSpanningTreeEdge( endVertex );
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BFSShortestPath.java:95:
> non-static variable super cannot be referenced from a static context
> [javac] super.encounterVertex( vertex, edge );
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BFSShortestPath.java:100:
> cannot find symbol
> [javac] symbol : class Edge
> [javac] location: class
> org.openscience.cdk.graph.BFSShortestPath.MyBreadthFirstIterator
> [javac] return (Edge) getSeenData( vertex );
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BFSShortestPath.java:100:
> cannot find symbol
> [javac] symbol : method getSeenData(java.lang.Object)
> [javac] location: class
> org.openscience.cdk.graph.BFSShortestPath.MyBreadthFirstIterator
> [javac] return (Edge) getSeenData( vertex );
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:80:
> cannot find symbol
> [javac] symbol : class ConnectivityInspector
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac] new
> ConnectivityInspector(graph).connectedSets().iterator();
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:88:
> cannot find symbol
> [javac] symbol : class Graph
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac] Graph subgraph = new Subgraph(graph,
> connectedSet, null);
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:88:
> cannot find symbol
> [javac] symbol : class Subgraph
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac] Graph subgraph = new Subgraph(graph,
> connectedSet, null);
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:113:
> cannot find symbol
> [javac] symbol : class Edge
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac] Edge edge =
> subgraph.getEdge(parentVertex, currentVertex);
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:126:
> cannot find symbol
> [javac] symbol : class Edge
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac] Edge edge =
> (Edge)edges.next();
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:126:
> cannot find symbol
> [javac] symbol : class Edge
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac] Edge edge =
> (Edge)edges.next();
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:149:
> cannot find symbol
> [javac] symbol : class SimpleGraph
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac] SimpleGraph h = new SimpleGraph();
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:149:
> cannot find symbol
> [javac] symbol : class SimpleGraph
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac] SimpleGraph h = new SimpleGraph();
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:166:
> cannot find symbol
> [javac] symbol : class Edge
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac] Edge l = (Edge)
> adjacentEdges.next();
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:166:
> cannot find symbol
> [javac] symbol : class Edge
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac] Edge l = (Edge)
> adjacentEdges.next();
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:177:
> cannot find symbol
> [javac] symbol : class Edge
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac]
> Edge f = subgraph.getEdge(u, pu);
> [javac]
> ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:196:
> cannot find symbol
> [javac] symbol : class ConnectivityInspector
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac] ConnectivityInspector
> connectivityInspector =
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/BiconnectivityInspector.java:197:
> cannot find symbol
> [javac] symbol : class ConnectivityInspector
> [javac] location: class org.openscience.cdk.graph.BiconnectivityInspector
> [javac] new ConnectivityInspector(h);
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:138:
> cannot find symbol
> [javac] symbol : class DefaultDirectedGraph
> [javac] location: class org.openscience.cdk.graph.MinimalPathIterator
> [javac] shortestPathGraph = new DefaultDirectedGraph();
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:144:
> cannot find symbol
> [javac] symbol : method hasNext()
> [javac] location: class
> org.openscience.cdk.graph.MinimalPathIterator.MyBreadthFirstIterator
> [javac] for (MyBreadthFirstIterator iter = new
> MyBreadthFirstIterator(g, targetVertex); iter.hasNext(); ) {
> [javac]
> ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:145:
> cannot find symbol
> [javac] symbol : method next()
> [javac] location: class
> org.openscience.cdk.graph.MinimalPathIterator.MyBreadthFirstIterator
> [javac] Object vertex = iter.next();
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:152:
> cannot find symbol
> [javac] symbol : class Edge
> [javac] location: class org.openscience.cdk.graph.MinimalPathIterator
> [javac] Edge edge = (Edge) edges.next();
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:152:
> cannot find symbol
> [javac] symbol : class Edge
> [javac] location: class org.openscience.cdk.graph.MinimalPathIterator
> [javac] Edge edge = (Edge) edges.next();
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:235:
> cannot find symbol
> [javac] symbol : class Edge
> [javac] location: class org.openscience.cdk.graph.MinimalPathIterator
> [javac] Edge edge =
> (Edge)edgeIterator.next();
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:235:
> cannot find symbol
> [javac] symbol : class Edge
> [javac] location: class org.openscience.cdk.graph.MinimalPathIterator
> [javac] Edge edge =
> (Edge)edgeIterator.next();
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:298:
> non-static variable super cannot be referenced from a static context
> [javac] super.encounterVertex(vertex, edge);
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:305:
> non-static variable super cannot be referenced from a static context
> [javac] Object nextVertex = super.provideNextVertex();
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MinimalPathIterator.java:305:
> cannot find symbol
> [javac] symbol : method provideNextVertex()
> [javac] location: class java.lang.Object
> [javac] Object nextVertex = super.provideNextVertex();
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MoleculeGraphs.java:57:
> cannot find symbol
> [javac] symbol : class SimpleGraph
> [javac] location: class org.openscience.cdk.graph.MoleculeGraphs
> [javac] SimpleGraph graph = new SimpleGraph();
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/graph/MoleculeGraphs.java:57:
> cannot find symbol
> [javac] symbol : class SimpleGraph
> [javac] location: class org.openscience.cdk.graph.MoleculeGraphs
> [javac] SimpleGraph graph = new SimpleGraph();
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/isomorphism/IsomorphismTester.java:145:
> warning: [deprecation]
> getMorganNumbers(org.openscience.cdk.interfaces.IAtomContainer) in
> org.openscience.cdk.graph.invariant.MorganNumbersTools has been deprecated
> [javac] this.baseTable =
> MorganNumbersTools.getMorganNumbers(base);
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/isomorphism/IsomorphismTester.java:159:
> warning: [deprecation]
> getMorganNumbers(org.openscience.cdk.interfaces.IAtomContainer) in
> org.openscience.cdk.graph.invariant.MorganNumbersTools has been deprecated
> [javac] this.compareTable =
> MorganNumbersTools.getMorganNumbers(compare);
> [javac] ^
> [javac]
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build/src/org/openscience/cdk/ringsearch/SSSRFinder.java:198:
> cannot find symbol
> [javac] symbol : class UndirectedGraph
> [javac] location: class org.openscience.cdk.ringsearch.SSSRFinder
> [javac] UndirectedGraph molGraph =
> MoleculeGraphs.getMoleculeGraph(ac);
> [javac] ^
> [javac] Note: Some input files use unchecked or unsafe operations.
> [javac] Note: Recompile with -Xlint:unchecked for details.
> [javac] 100 errors
> [javac] 3 warnings
>
> BUILD FAILED
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build.xml:452: The following
> error occurred while executing this line:
> /build/user-cdk_1.0.2-4-amd64-g6ftO_/cdk-1.0.2/build.xml:352: Compile failed;
> see the compiler error output for details.
>
> Total time: 6 seconds
> make: *** [debian/stamp-ant-build] Error 1
The full build log is available from:
http://people.debian.org/~lucas/logs/2010/06/02/cdk_1:1.0.2-4_lsid64.buildlog
A list of current common problems and possible solutions is available at
http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute!
About the archive rebuild: The rebuild was done on about 50 AMD64 nodes
of the Grid'5000 platform, using a clean chroot. Internet was not
accessible from the build systems.
--
| Lucas Nussbaum
| [email protected] http://www.lucas-nussbaum.net/ |
| jabber: [email protected] GPG: 1024D/023B3F4F |
__
This is the maintainer address of Debian's Java team
<http://lists.alioth.debian.org/mailman/listinfo/pkg-java-maintainers>. Please
use
[email protected] for discussions and questions.
