Gephi forums

Re: Gephi 0.8.2 initilizes but fails to launch in linux...

2015-04-24T19:12:36+01:00

I figured this out. Two things:

1) The documentation on setting JDK_HOME is full of lies
2) Gephi doesn't work for me with jdk 8 on Linux

From here: gephi.github.io/users/install/ [apologies I had to de-linkify that URL because the spam blocker on this forum takes umbrage with github.io]

If you still have the wrong Java package running after following the linux installation procedure described above, then manually set the Java virtual machine. To do so, you have to set the home folder of the desired JVM in the environment variable JAVA_HOME or in the environment variable JDK_HOME.

Actually, the script bin/gephi looks for "jdkhome" [all lowercase, no underscore] rather than "JDK_HOME"

So, I extracted an oracle jdk1.7 into a directory someplace and it successfully launches thus:

CODE:

jdkhome=/usr/lib/jvm/jdk1.7.0_67/ ./bin/gephi

You can also edit bin/gephi to permanantise this

Cheers,
Gary

Statistics:Posted by chunkyks — 24 Apr 2015 19:12

Re: Gephi 0.8.2 initilizes but fails to launch in linux...

2014-10-22T17:10:09+01:00

I get the exact same behavior on two computers, one with 14.04 and another with 14.10.

Statistics:Posted by lotterylaunch — 22 Oct 2014 17:10

Re: Gephi 0.8.2 initilizes but fails to launch in linux...

2014-10-07T14:39:28+01:00

Ditto!
The logo comes up with the message "Loading cached objects..." for about 7 seconds and then gephi dies, returns control at the console.
Tried https://gist.github.com/dcht00/432caaf3e6c50a2202b8, but to no avail. Then, unistalled this bit.
After that probed a bit more in gephi/0.8.2/dev/var/log to find:

CODE:

java.lang.IllegalStateException: java.lang.IllegalAccessException: Class org.openide.util.WeakListenerImpl$ProxyListener can not access a member of class org.openide.filesystems.$Proxy0 with modifiers "public"        at org.openide.util.WeakListenerImpl$ProxyListener.(WeakListenerImpl.java:423)        at org.openide.util.WeakListenerImpl.create(WeakListenerImpl.java:164)        at org.openide.util.WeakListeners.create(WeakListeners.java:271)        at org.openide.filesystems.MultiFileObject.(MultiFileObject.java:125)        at org.openide.filesystems.MultiFileObject.(MultiFileObject.java:142)        at org.openide.filesystems.MultiFileSystem.getMultiRoot(MultiFileSystem.java:267)        at org.openide.filesystems.MultiFileSystem.findResource(MultiFileSystem.java:355)        at org.openide.filesystems.FileUtil.getConfigFile(FileUtil.java:2276)        at org.openide.filesystems.FileUtil.getConfigRoot(FileUtil.java:2306)        at org.netbeans.core.startup.Main.getModuleSystem(Main.java:158)        at org.netbeans.core.startup.Main.start(Main.java:305)        at org.netbeans.core.startup.TopThreadGroup.run(TopThreadGroup.java:123)        at java.lang.Thread.run(Thread.java:745)Caused by: java.lang.IllegalAccessException: Class org.openide.util.WeakListenerImpl$ProxyListener can not access a member of class org.openide.filesystems.$Proxy0 with modifiers "public"        at sun.reflect.Reflection.ensureMemberAccess(Reflection.java:101)        at java.lang.reflect.AccessibleObject.slowCheckMemberAccess(AccessibleObject.java:295)        at java.lang.reflect.AccessibleObject.checkAccess(AccessibleObject.java:287)        at java.lang.reflect.Constructor.newInstance(Constructor.java:398)        at org.openide.util.WeakListenerImpl$ProxyListener.(WeakListenerImpl.java:413)

System info etc:

CODE:

>Log Session: Tuesday, October 7, 2014 6:59:01 PM IST>System Info:   Product Version         = Gephi 0.8.2 201210100934  Operating System        = Linux version 3.13.0-36-generic running on amd64  Java; VM; Vendor        = 1.8.0_20; Java HotSpot(TM) 64-Bit Server VM 25.20-b23; Oracle Corporation  Runtime                 = Java(TM) SE Runtime Environment 1.8.0_20-b26  Java Home               = /usr/lib/jvm/java-8-oracle/jre  System Locale; Encoding = en_US (gephi); UTF-8  Home Directory          = /home/usrName  Current Directory       = /home/usrName/sw/gephi  User Directory          = /home/usrName/.gephi/0.8.2/dev  Cache Directory         = /home/usrName/.gephi/0.8.2/dev/var/cache  Installation            = /home/usrName/sw/gephi/gephi                            /home/usrName/sw/gephi/platform                            /home/usrName/sw/gephi/platform

Any help would be appreciated. The sooner the better!
Please let me know if I've:
1. Missed installing some dependency; fyi followed the instructions at http://gephi.github.io/users/install/ for linux, to the letter.
2. Having memory issues. Shouldn't be is my guess!

Thanks for your time!
Cheers,
A.

Statistics:Posted by artintsystem — 07 Oct 2014 14:39

Re: Gephi 0.8.2 initilizes but fails to launch in linux...

2014-07-21T05:25:10+01:00

Seems not relevant but tried installing: libnss-myhostname ->but does not help!

Statistics:Posted by vidyaraj.r@gmail.com — 21 Jul 2014 05:25

Gephi 0.8.2 initilizes but fails to launch in linux...

2014-07-21T05:17:04+01:00

I use Ubuntu 14.04 OS

Attching the dmesg|tail output here:
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
[ 17.446842] init: plymouth-upstart-bridge main process ended, respawning
[ 30.539938] alx 0000:03:00.0 eth0: NIC Up: 100 Mbps Full
[ 45.004761] type=1400 audit(1405911967.961:68): apparmor="STATUS" operation="profile_replace" profile="unconfined" name="/usr/lib/cups/backend/cups-pdf" pid=2200 comm="apparmor_parser"
[ 45.004773] type=1400 audit(1405911967.961:69): apparmor="STATUS" operation="profile_replace" profile="unconfined" name="/usr/sbin/cupsd" pid=2200 comm="apparmor_parser"
[ 45.005428] type=1400 audit(1405911967.961:70): apparmor="STATUS" operation="profile_replace" profile="unconfined" name="/usr/sbin/cupsd" pid=2200 comm="apparmor_parser"
[ 53.257304] systemd-hostnamed[2262]: Warning: nss-myhostname is not installed. Changing the local hostname might make it unresolveable. Please install nss-myhostname!
[ 1190.487895] type=1400 audit(1405913113.809:71): apparmor="STATUS" operation="profile_replace" profile="unconfined" name="/usr/lib/cups/backend/cups-pdf" pid=3182 comm="apparmor_parser"
[ 1190.487908] type=1400 audit(1405913113.809:72): apparmor="STATUS" operation="profile_replace" profile="unconfined" name="/usr/sbin/cupsd" pid=3182 comm="apparmor_parser"
[ 1190.488586] type=1400 audit(1405913113.809:73): apparmor="STATUS" operation="profile_replace" profile="unconfined" name="/usr/sbin/cupsd" pid=3182 comm="apparmor_parser"
[ 2595.452320] systemd-hostnamed[4242]: Warning: nss-myhostname is not installed. Changing the local hostname might make it unresolveable. Please install nss-myhostname!

Statistics:Posted by vidyaraj.r@gmail.com — 21 Jul 2014 05:17