Entering edit mode
5.4 years ago
manubiomed20
▴
10
I can't open IGV on ubuntu 18.04.2 LTS terminal. The following error appears:
WARN [2019-07-26T08:22:22,691] [Globals.java:138] [AWT-EventQueue-0] Development mode is enabled
jul 26, 2019 8:22:22 AM java.util.prefs.FileSystemPreferences$1 run
INFORMAÇÕES: Created user preferences directory.
INFO [2019-07-26T08:22:22,741] [DirectoryManager.java:179] [AWT-EventQueue-0] IGV Directory: /home/Giulia/igv
INFO [2019-07-26T08:22:22,795] [Main.java:155] [AWT-EventQueue-0] Startup IGV Version 2.4.17 01/26/2019 12:40 AM
INFO [2019-07-26T08:22:22,796] [Main.java:156] [AWT-EventQueue-0] Java 1.8.0_152-release
INFO [2019-07-26T08:22:22,796] [DirectoryManager.java:84] [AWT-EventQueue-0] Fetching user directory...
INFO [2019-07-26T08:22:22,891] [Main.java:157] [AWT-EventQueue-0] Default User Directory: /home/Giulia
INFO [2019-07-26T08:22:22,891] [Main.java:158] [AWT-EventQueue-0] OS: Linux
#
# A fatal error has been detected by the Java Runtime Environment:
#
# SIGSEGV (0xb) at pc=0x0000000000000000, pid=12090, tid=0x00007f5ceffff700
#
# JRE version: OpenJDK Runtime Environment (8.0_152-b12) (build 1.8.0_152-release-1056-b12)
# Java VM: OpenJDK 64-Bit Server VM (25.152-b12 mixed mode linux-amd64 compressed oops)
# Problematic frame:
# C 0x0000000000000000
#
# Failed to write core dump. Core dumps have been disabled. To enable core dumping, try "ulimit -c unlimited" before starting Java again
#
# An error report file with more information is saved as:
# /home/Giulia/hs_err_pid12090.log
#
# If you would like to submit a bug report, please visit:
# http://bugreport.java.com/bugreport/crash.jsp
# The crash happened outside the Java Virtual Machine in native code.
# See problematic frame for where to report the bug
Which version of IGV did you get? If you got the (all platforms version) then it needs
Java 11
to run./home/Giulia/hs_err_pid12090.log
may also contain useful information.You will also need to have
X11
configured to get GUI from IGV, if you are logging into a remote server.I put the command
ulimit -c unlimited
, but couldn't open igv. How can I solve this problem?What does
/home/Giulia/hs_err_pid12090.log
contain?what is your version of IGV. the last version of IGV runs with an embedded java 11. here you're using java 1.8