flimfit / FLIMfit

State of the art fluorescence lifetime imaging analysis software
http://flimfit.org
GNU General Public License v2.0
23 stars 14 forks source link

Libgomp crash. #159

Open imunro opened 9 years ago

imunro commented 9 years ago

Beatson report the error below error on several occasions. with 4.9.1 while trying to do an irf shift optimisation, with Global Analysis image wide and 2 exponentials. Only one data set was loaded.

I have so far failed to reproduce this and my current wild guess is that it's a memory issue. Plausible @seanwarren do you think?

libgomp: Thread creation failed: Resource temporarily unavailable


      std::terminate() detected at Thu Sep  3 14:41:35 2015

Configuration: Crash Decoding : Disabled Current Visual : Quartz Default Encoding : ISO-8859-1 MATLAB Architecture: maci64 MATLAB Root : /Applications/MATLAB/MATLAB_Compiler_Runtime/v84 MATLAB Version : 8.4.0.150421 (R2014b) Operating System : Darwin 13.4.0 Darwin Kernel Version 13.4.0: Wed Mar 18 16:20:14 PDT 2015; root:xnu-2422.115.14~1/RELEASE_X86_64 x86_64 Processor ID : x86 Family 6 Model 42 Stepping 7, GenuineIntel Software OpenGL : 0 Virtual Machine : Java 1.7.0_55-b13 with Oracle Corporation Java HotSpot(TM) 64-Bit Server VM mixed mode Window System : Quartz

Fault Count: 1

Abnormal termination: std::terminate()

Register State (captured): RAX = 00007fff6c0490b0 RBX = 000000011abca878 RCX = 00007fff6c0490b0 RDX = 00007fff6c055388 RSP = 000000011abca110 RBP = 000000011abca430 RSI = 00007fff6c0261a1 RDI = 000000011abca1c0

R8 = 00007fff6c0490b0 R9 = 000000000000000f R10 = 000000010dad0277 R11 = 000000011abca280 R12 = 000000011abcb000 R13 = 0000000000000000 R14 = 00007fff754e7420 R15 = 0000000000000000

RIP = 000000010d93fe8b RFL = 000000000000000f

CS = 000000010dad1a00 FS = 000000010dad0287 GS = 000000010da35b10

Stack Trace (captured): [ 0] 0x000000010d93ae64 /Applications/MATLAB/MATLAB_Compiler_Runtime/v84/bin/maci64/libmwfl.dylib+00028260 _ZN2fl4diag15stacktrace_base7captureERKNS0_14thread_contextEm+00000052 [ 1] 0x000000010d93ea2a /Applications/MATLAB/MATLAB_Compiler_Runtime/v84/bin/maci64/libmwfl.dylib+00043562 _ZN2fl4test17terminate_handledEv+00000906 [ 2] 0x000000010d93e477 /Applications/MATLAB/MATLAB_Compiler_Runtime/v84/bin/maci64/libmwfl.dylib+00042103 _ZN2fl4diag13terminate_logEPKcPK17darwin_ucontext+00000119 [ 3] 0x00000001122b9b7a /Applications/MATLAB/MATLAB_Compiler_Runtime/v84/bin/maci64/libmwmcr.dylib+00387962 _Z32mnRunPathDependentInitializationv+00003146 [ 4] 0x00000001122b9e58 /Applications/MATLAB/MATLAB_Compiler_Runtime/v84/bin/maci64/libmwmcr.dylib+00388696 _Z32mnRunPathDependentInitializationv+00003880 [ 5] 0x00000001122b93a0 /Applications/MATLAB/MATLAB_Compiler_Runtime/v84/bin/maci64/libmwmcr.dylib+00385952 _Z32mnRunPathDependentInitializationv+00001136 [ 6] 0x00000001122b8e54 /Applications/MATLAB/MATLAB_Compiler_Runtime/v84/bin/maci64/libmwmcr.dylib+00384596 _Z22mnInstallCrashHandlersv+00000420 [ 7] 0x000000010b49e9e8 /Users/emcghee/Downloads/FLIMfit 4.9.1.app/Contents/Resources/libstdc++.6.dylib+00014824 _ZN10cxxabiv111__terminateEPFvvE+00000008

If this problem is reproducible, please submit a Service Request via: http://www.mathworks.com/support/contact_us/

A technical support engineer might contact you with further information.

Thank you for your help.\ This crash report has been saved to disk as /Users/emcghee/matlab_crash_dump.34260-1 **

MATLAB is exiting because of fatal error /Users/emcghee/Downloads/FLIMfit 4.9.1.app/Contents/Resources/script: line 65: 99796 Killed: 9 "/Users/emcghee/Downloads/FLIMfit 4.9.1.app/Contents/Resources/FLIMfit.app/Contents/MacOS/FLIMfit"

imunro commented 8 years ago

I suspect that this may be related to #219

seanwarren commented 8 years ago

Yes that sounds likely, nice catch

imunro commented 8 years ago

I just e-mailed Ewan to suggest he follow this issue.

imunro commented 8 years ago

Under Mac users

"Please also download the MCR for your platform below. “ should read

"You can download the MCR for your platform using the links above.” Otherwise it looks good.

My main thought though is that the OME team have a big team setup to provide holiday/overnight cover in the event of DOS attacks power outages etc and you have a part-time Sean (ok I appreciate you’ve given up sleeping) Given that we’ve had no issues so far is it worth moving the download page or are you thinking to have two?

Ian

On 27 Apr 2016, at 12:06, Sean Warren notifications@github.com<mailto:notifications@github.com> wrote:

Yes that sounds likely, nice catch

— You are receiving this because you authored the thread. Reply to this email directly or view it on GitHubhttps://github.com/imperial-photonics/FLIMfit/issues/159#issuecomment-215050653