Segmentation fault when running mismatch with multiple threads

[Cody-G]

I think this is a bug in Base, either in the Base.FFTW (which is split into its own package in julia 0.7) or in the threading code. I realize threading is an experimental feature so I'm not really surprised it fails, but I'd be willing to make a proper bug report. @timholy could you recommend how/where I should report this?

Note that the crash won't happen unless you start julia with more than one thread using the JULIA_NUM_THREADS environmental variable.

I've only been able to test on Julia 0.6

I've also tried using FFTW.set_num_threads() to change the number of threads to 1 or to be equal to JULIA_NUM_THREADS, but neither worked.

Code:

using BlockRegistration, RegisterMismatch

a = rand(3,3,10)
fixed = rand(3,3)

Threads.@threads for i = 1:10
    mismatch(fixed, a[:,:,i], (1,1))
end

Error:

signal (11): Segmentation fault
while loading /home/cody/.julia/reg_and_seg/v0.6/EmpiricalTiming/test/threading_bug.jl, in expression starting on line 6
fftwf_hash at /home/cody/src/julia_06/usr/bin/../lib/libfftw3f.so.3 (unknown line)
unknown function (ip: 0x7f71049e45dd)
fftwf_solvtab_exec at /home/cody/src/julia_06/usr/bin/../lib/libfftw3f.so.3 (unknown line)
fftwf_init_threads at /home/cody/src/julia_06/usr/bin/../lib/libfftw3f_threads.so (unknown line)
_init_ at ./fft/FFTW.jl:99
set_timelimit at ./fft/FFTW.jl:171 [inlined]
Type at ./fft/FFTW.jl:494
rplan_fwd at /home/cody/.julia/reg_and_seg/v0.6/RFFT/src/RFFT.jl:73
unknown function (ip: 0x7f71130dc95c)
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:339 [inlined]
jl_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
#plan_rfft!#7 at /home/cody/.julia/reg_and_seg/v0.6/RFFT/src/RFFT.jl:79
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:343 [inlined]
jl_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
#plan_rfft! at ./<missing>:0
unknown function (ip: 0x7f71130dc536)
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:339 [inlined]
jl_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
#call#35 at /home/cody/.julia/reg_and_seg/v0.6/BlockRegistration/src/RegisterMismatch.jl:88
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:343 [inlined]
jl_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
#CMStorage#41 at /home/cody/.julia/reg_and_seg/v0.6/BlockRegistration/src/RegisterMismatch.jl:98
unknown function (ip: 0x7f71130a2726)
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:339 [inlined]
jl_call_method_internal at /home/l_call_method_internal at /home/jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
while loading /home/cody/.julia/reg_and_seg/v0.6/EmpiricalTiming/test/threading_bug.jl, in expression starting on line 6
jl_apply at /home/cody/src/julia_06/src/julia.h:1424 [inlined]
jl_invoke at /home/cody/src/julia_06/src/gf.c:51
#mismatch#42 at /home/cody/.julia/reg_and_seg/v0.6/BlockRegistration/src/RegisterMismatch.jl:119
unknown function (ip: 0x7f71130a1f4a)
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:339 [inlined]
jl_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
#mismatch at ./<missing>:0
mismatch at /home/cody/.julia/reg_and_seg/v0.6/BlockRegistration/src/RegisterMismatchCommon.jl:10
unknown function (ip: 0x7f71130a151d)
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:339 [inlined]
jl_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
macro expansion at /home/cody/.julia/reg_and_seg/v0.6/EmpiricalTiming/test/threading_bug.jl:7 [inlined]
#15#threadsfor_fun at 0x7f71050080f8)
ucts.jl:63
#15#threadsfor_fun at 0x7f71050080f8)
#15#threadsfor_fun at ./threadingconstructs.jl:30
unknown function (ip: 0x7f71130a000f)
unknown function (ip: 0x7f71050084e0)
fftw_mkapiplan at /home/cody/src/julia_06/usr/bin/../lib/libfftw3.so.3 (unknown linefftw_mkapiplan at /home/cody/src/julia_06/usr/bin/../lib/libfftw3.so.3 (unknown line)
ti_run_fun at /home/cody/src/julia_06/src/threading.c:318
fftw_plan_guru64_dft_r2c at /home/cody/src/julia_06/usr/bin/../lib/libfftw3.so.3 (unknown line)
Type at ./fft/FFTW.jl:496
jl_threading_run at : 0x7f71130dd3ejuljl_threading_run at /home/cody/src/julia_06/src/threading.c:720
macro expansion at ./threadingconstructs.jl:73 [inlined]
anonymous at ./<missing> (unknown line)
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:339 [inlined]
jl_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:339 [inlined]
jl_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
jl_toplevel_eval_flex at /home/cody/src/julia_06/src/toplevel.c:589
#plan_rfft!#7 at /home/cody/.julia/reg_and_seg/v0.6/RFFT/src/RFFT.jl:79
jl_parse_eval_all at /0x7f71130dc8f7)
jl_parse_eval_all at /0x7f71130dc8f7)
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:339 [inlined]
jl_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
jl_load at /home/cody/src/julia_06/src/toplevel.c:616
#plan_rfft! at ./<missing>:0
unknown function (ip: 0x7f71130dc536)
include_from_node1 at ./loading.jl:576
jl_call_fptr_internal 0x7/home/cobe2)
jl_call_fptr_internal 0x7/home/cobe2)
jl_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
#call#35 at /home/cody/.julia/reg_and_seg/v0.6/BlockRegistration/src/RegisterMismatch.jl:88
jl_call_fptr_internal 0x7f71130ada03)
jl_call_fptr_internal 0x7f71130ada03)
jl_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:339 [inlined]
jl_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
include at ./sysimg.jl:14
#CMStorage#41 at /home/cody/.julia/reg_and_seg/v0.6/BlockRegistration/src/RegisterMismatch.jl:98
unknown function (ip: 0x7f71130a2726)
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:339 [inlined]
jl_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
unknown function (ip: 0x7f714a3f49db)
jl_apply at /home/cody/src/julia_06/src/julia.h:1424 [inlined]
jl_invoke at /home/cody/src/julia_06/src/gf.c:51
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:339 [inlined]
l_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
#mismatch#42 at /home/cody/.julia/reg_and_seg/v0.6/BlockRegistration/src/RegisterMismatch.jl:119
jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
unknown function (ip: 0x7f71130a1f4a)
do_call at /home/cody/src/julia_06/src/interpreter.c:75
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:339 [inlined]
jl_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
eval at /home/cody/src/julia_06/src/interpreter.c:242
#mismatch at ./<missing>:0
mismatch at /home/cody/.julia/reg_and_seg/v0.6/BlockRegistration/src/RegisterMismatchCommon.jl:10
jl_interpret_toplevel_expr at /home/cojl_interpret_toplevel_expr at /home/cody/src/julia_06/src/interpreter.c:34
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:339 [inlined]
jl_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
jl_toplevel_eval_flex at /home/cody/src/julia_06/src/toplevel.c:577
macro expansion at /home/cody/.julia/reg_and_seg/v0.6/EmpiricalTiming/test/threading_bug.jl:7 [inlined]
#15#threadsfor_fun at ./threadingconstructs.jl:63
#15#threadsfor_fun at ./threadingconstructs.jl:30
jl_toplevel_eval_in at x7f71130a000rc/jl_toplevel_eval_in at /home/cody/src/julia_06/src/builtins.c:496
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:339 [inlined]
ti_run_fun at /home/cody/src/julia_06/src/threading.c:318
ti_threadfun at /home/cody/src/julia_06/src/threading.c:429
uv__thread_start at /home/cody/src/julia_06/deps/srccache/libuv-d8ab1c6a33e77bf155facb54215dd8798e13825d/src/unix/thread.c:53
eval at ./boot.jl:235
unknown function (ip: 0x7f714a51d61f)
unknown function (ip: 0x7f714fcf37fb)
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:339 [inlined]
jl_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
eval_user_input at ./REPL.jl:66
unknown function (ip: 0x7f714a5a10ef)
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:339 [inlined]
jl_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
macro expansion at ./REPL.jl:97 [inlined]
#1 at ./event.jl:73
unknown function (ip: 0x7f711304473f)
jl_call_fptr_internal at /home/cody/src/julia_06/src/julia_internal.h:339 [inlined]
jl_call_method_internal at /home/cody/src/julia_06/src/julia_internal.h:358 [inlined]
jl_apply_generic at /home/cody/src/julia_06/src/gf.c:1926
jl_apply at /home/cody/src/julia_06/src/julia.h:1424 [inlined]
start_task at /home/cody/src/julia_06/src/task.c:267
unknown function (ip: 0xffffffffffffffff)
Allocations: 14882784 (Pool: 14880530; Big: 2254); GC: 29
Segmentation fault (core dumped)