Cytoscape crashes when importing a network with Cy3D as renderer
1
0
Entering edit mode
4 months ago

Whenever I import a Cy3D network in cytoscape, the program crashes. It does not show me any errors, just quits.

The file I import is *.gml format and here is some sample data:

graph [
  node [
    id 0
    label "172.18.64.0/24"
  ]
  node [
    id 1
    label "172.18.160.0/20"
  ]
  edge [
    source 0
    target 92
  ]
  edge [
    source 1
    target 188
  ]

I use Ubuntu 20.04.1 LTS and java.

Cytoscape version 3.8.2 and Cy3D version 1.1.3

olof@olof-ubuntu:~$ java -version
openjdk version "1.8.0_275"
OpenJDK Runtime Environment (build 1.8.0_275-8u275-b01-0ubuntu1~20.04-b01)
OpenJDK 64-Bit Server VM (build 25.275-b01, mixed mode)
olof@olof-ubuntu:~$ cat /etc/os-release 
NAME="Ubuntu"
VERSION="20.04.1 LTS (Focal Fossa)"

I recorded a quick video and put it on youtube to show what I mean.

Cy3D ubuntu cytoscape crash • 278 views
ADD COMMENT
0
Entering edit mode
4 months ago
scooter ▴ 450

Greetings, Well, the first problem is that Cytoscape 3.8 requires Java 11. Can you try upgrading to OpenJDK 11 and try again?

-- scooter

ADD COMMENT
0
Entering edit mode

@scooter, the same thing happens when I use java 11.

olof@olof-ubuntu:~$ java -version
openjdk version "11.0.10" 2021-01-19
OpenJDK Runtime Environment (build 11.0.10+9-Ubuntu-0ubuntu1.20.04)
OpenJDK 64-Bit Server VM (build 11.0.10+9-Ubuntu-0ubuntu1.20.04, mixed mode, sharing)
ADD REPLY

Login before adding your answer.

Traffic: 1667 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6