Skip to content

Instantly share code, notes, and snippets.

@kozo2
Created December 13, 2013 16:10
Show Gist options
  • Save kozo2/7946590 to your computer and use it in GitHub Desktop.
Save kozo2/7946590 to your computer and use it in GitHub Desktop.
[knishida@dhcp255-85]~% cytoscape-unix-3.2.0-SNAPSHOT/cytoscape.sh
_
___ _ _| |_ ___ ___ ___ __ _ _ __ ___
/ __| | | | __|/ _ \/ __|/ __|/ _` | '_ \ / _ \
| (__| |_| | |_| (_) \__ \ (__| (_| | |_) | __/
\___|\__, |\__|\___/|___/\___|\__,_| .__/ \___|
|___/ |_|
Cytoscape 3.2.0-SNAPSHOT
Hit '<tab>' for a list of available commands
and '[cmd] --help' for help on a specific command.
Hit '<ctrl-d>' or 'osgi:shutdown' to shutdown Cytoscape.
Cytoscape 3.2.0-SNAPSHOT> cytoscape:script python /Users/knishida/hoge.py
Cytoscape 3.2.0-SNAPSHOT> java.lang.NullPointerException
at org.cytoscape.scripting.internal.ExecuteScriptCommandTask.run(ExecuteScriptCommandTask.java:63)
at org.cytoscape.work.internal.task.TaskRunner.run(TaskManagerImpl.java:262)
at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:439)
at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303)
at java.util.concurrent.FutureTask.run(FutureTask.java:138)
at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:895)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:918)
at java.lang.Thread.run(Thread.java:695)
@LouisCronje
Copy link

I have this exact problem now. Do know what the cause is?

@LouisCronje
Copy link

The problem is that you need to copy the jyphon jar file into the framework/../ext directory for anyone else (I think)

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment