CellProfiler/CellProfiler — Issue #266: Linux CP crash
Author: dlogan
Created: 2012-01-05 22:46:21+00:00
State: open
Labels: current

Running Linux version of CP 11675 from a node crashes when opening an image.

To reproduce:
(1) In Terminal, 'ssh -Y sn'
* '-Y' on a Mac enables trusted X11 forwarding
(2) ish
(3) cd /imaging/analysis/CPCluster/CellProfiler-2.0/11675
(4) ./python-2.6.sh CellProfiler.py

This opens CP just fine (well, there is a floating CP icon, but that's another story...). However, when I navigate to this Default Image Dir:
'/imaging/analysis/People/David'

and load this image in the lower-left GUI:
'Gph_orig_image.png'

CP crashes:

**********
[dlogan@node1383:/imaging/analysis/CPCluster/CellProfiler-2.0/11675]$ ./python-2.6.sh CellProfiler.py
Dropping: .cellprofiler-0.10.1 (not found)
Prepending: .cellprofiler-0.10.1 (ok)
WARNING:root:Distributed support disabled: please install nuageux
running build_ext
running build_ext
WARNING:cellprofiler.distributed:Distributed processing disabled (nuageux library not available).
Traceback (most recent call last):
File "/imaging/analysis/CPClusterSingle/CellProfiler-2.0/11675/cellprofiler/distributed.py", line 16, in
import nuageux
ImportError: No module named nuageux
Distributed processing disabled (nuageux library not available).
Traceback (most recent call last):
File "/imaging/analysis/CPClusterSingle/CellProfiler-2.0/11675/cellprofiler/distributed.py", line 16, in
import nuageux
ImportError: No module named nuageux
INFO:root:Subversion revision: 11675
Subversion revision: 11675
#
# A fatal error has been detected by the Java Runtime Environment:
#
# SIGSEGV (0xb) at pc=0x00000039a7e79a6a, pid=1926, tid=47854219565696
#
# JRE version: 6.0_21-b06
# Java VM: Java HotSpot(TM) 64-Bit Server VM (17.0-b16 mixed mode linux-amd64 )
# Problematic frame:
# C [libc.so.6+0x79a6a] strncmp+0x3a
#
# An error report file with more information is saved as:
# /imaging/analysis/CPClusterSingle/CellProfiler-2.0/11675/hs_err_pid1926.log
#
# If you would like to submit a bug report, please visit:
# http://java.sun.com/webapps/bugreport/crash.jsp
# The crash happened outside the Java Virtual Machine in native code.
# See problematic frame for where to report the bug.
#
./python-2.6.sh: line 27: 1926 Aborted python "$@"