[InterMine Dev] malariamine tutorial error

Quang Trinh quang.trinh at gmail.com
Tue Oct 18 01:53:40 BST 2011


Hi,
  I am going through the malariamine tutorial and get this error
message on step 7.1 ( ant -Dsource=uniprot-malaria -v ):


BUILD FAILED
/u/qtrinh/intermine/intermine_0_98/imbuild/integrate.xml:54: The
following error occurred while executing this line:
/u/qtrinh/intermine/intermine_0_98/bio/sources/uniprot/build.xml:24:
dataDir is not a directory:uniprot
	at org.apache.tools.ant.ProjectHelper.addLocationToBuildException(ProjectHelper.java:541)
	at org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:419)
	at org.intermine.task.Integrate.performAction(Integrate.java:223)
	at org.intermine.task.Integrate.performAction(Integrate.java:135)
	at org.intermine.task.Integrate.execute(Integrate.java:127)
	at org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288)
	at sun.reflect.GeneratedMethodAccessor2.invoke(Unknown Source)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
	at java.lang.reflect.Method.invoke(Method.java:597)
	at org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:105)
	at org.apache.tools.ant.Task.perform(Task.java:348)
	at org.apache.tools.ant.Target.execute(Target.java:357)
	at org.apache.tools.ant.Target.performTasks(Target.java:385)
	at org.apache.tools.ant.Project.executeSortedTargets(Project.java:1329)
	at org.apache.tools.ant.Project.executeTarget(Project.java:1298)
	at org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecutor.java:41)
	at org.apache.tools.ant.Project.executeTargets(Project.java:1181)
	at org.apache.tools.ant.Main.runBuild(Main.java:698)
	at org.apache.tools.ant.Main.startAnt(Main.java:199)
	at org.apache.tools.ant.launch.Launcher.run(Launcher.java:257)
	at org.apache.tools.ant.launch.Launcher.main(Launcher.java:104)
Caused by: /u/qtrinh/intermine/intermine_0_98/bio/sources/uniprot/build.xml:24:
dataDir is not a directory:uniprot
	at org.intermine.task.DirectoryConverterTask.execute(DirectoryConverterTask.java:63)
	at org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288)
	at sun.reflect.GeneratedMethodAccessor2.invoke(Unknown Source)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
	at java.lang.reflect.Method.invoke(Method.java:597)
	at org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:105)
	at org.apache.tools.ant.Task.perform(Task.java:348)
	at org.apache.tools.ant.Target.execute(Target.java:357)
	at org.apache.tools.ant.Target.performTasks(Target.java:385)
	at org.apache.tools.ant.Project.executeSortedTargets(Project.java:1329)
	at org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleCheckExecutor.java:38)
	at org.apache.tools.ant.Project.executeTargets(Project.java:1181)
	at org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:416)
	... 19 more
--- Nested Exception ---
/u/qtrinh/intermine/intermine_0_98/bio/sources/uniprot/build.xml:24:
dataDir is not a directory:uniprot
	at org.intermine.task.DirectoryConverterTask.execute(DirectoryConverterTask.java:63)
	at org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288)
	at sun.reflect.GeneratedMethodAccessor2.invoke(Unknown Source)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
	at java.lang.reflect.Method.invoke(Method.java:597)
	at org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:105)
	at org.apache.tools.ant.Task.perform(Task.java:348)
	at org.apache.tools.ant.Target.execute(Target.java:357)
	at org.apache.tools.ant.Target.performTasks(Target.java:385)
	at org.apache.tools.ant.Project.executeSortedTargets(Project.java:1329)
	at org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleCheckExecutor.java:38)
	at org.apache.tools.ant.Project.executeTargets(Project.java:1181)
	at org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:416)
	at org.intermine.task.Integrate.performAction(Integrate.java:223)
	at org.intermine.task.Integrate.performAction(Integrate.java:135)
	at org.intermine.task.Integrate.execute(Integrate.java:127)
	at org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288)
	at sun.reflect.GeneratedMethodAccessor2.invoke(Unknown Source)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
	at java.lang.reflect.Method.invoke(Method.java:597)
	at org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:105)
	at org.apache.tools.ant.Task.perform(Task.java:348)
	at org.apache.tools.ant.Target.execute(Target.java:357)
	at org.apache.tools.ant.Target.performTasks(Target.java:385)
	at org.apache.tools.ant.Project.executeSortedTargets(Project.java:1329)
	at org.apache.tools.ant.Project.executeTarget(Project.java:1298)
	at org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecutor.java:41)
	at org.apache.tools.ant.Project.executeTargets(Project.java:1181)
	at org.apache.tools.ant.Main.runBuild(Main.java:698)
	at org.apache.tools.ant.Main.startAnt(Main.java:199)
	at org.apache.tools.ant.launch.Launcher.run(Launcher.java:257)
	at org.apache.tools.ant.launch.Launcher.main(Launcher.java:104)

  Could someone tell me how to get around this error message?

Thanks,

Q



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