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segfault upon "using GSL" on Julia master #31488

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giordano opened this issue Mar 26, 2019 · 1 comment · Fixed by #31651
Closed

segfault upon "using GSL" on Julia master #31488

giordano opened this issue Mar 26, 2019 · 1 comment · Fixed by #31651
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@JeffBezanson
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bug Indicates an unexpected problem or unintended behavior compiler:precompilation Precompilation of modules regression Regression in behavior compared to a previous version

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@giordano
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Julia master segfaults when using GSL:

coey@che:~/julia$ j
               _
   _       _ _(_)_     |  Documentation: https://docs.julialang.org
  (_)     | (_) (_)    |
   _ _   _| |_  __ _   |  Type "?" for help, "]?" for Pkg help.
  | | | | | | |/ _` |  |
  | | |_| | | | (_| |  |  Version 1.2.0-DEV.544 (2019-03-25)
 _/ |\__'_|_|_|\__'_|  |  Commit ea0c6e9e76 (0 days old master)
|__/                   |

julia> using GSL

signal (11): Segmentation fault
in expression starting at REPL[1]:1
unknown function (ip: 0x7fc07c6770df)
jl_deserialize_value_any at /home/coey/julia/src/dump.c:1969 [inlined]
jl_deserialize_value at /home/coey/julia/src/dump.c:2166
jl_deserialize_struct at /home/coey/julia/src/dump.c:1870
jl_deserialize_value_any at /home/coey/julia/src/dump.c:1969 [inlined]
jl_deserialize_value at /home/coey/julia/src/dump.c:2166
jl_deserialize_value_phic at /home/coey/julia/src/dump.c:1625 [inlined]
jl_deserialize_value at /home/coey/julia/src/dump.c:2043
jl_deserialize_value_array at /home/coey/julia/src/dump.c:1542
jl_deserialize_value at /home/coey/julia/src/dump.c:2034
jl_deserialize_struct at /home/coey/julia/src/dump.c:1870
jl_deserialize_value_any at /home/coey/julia/src/dump.c:1969 [inlined]
jl_deserialize_value at /home/coey/julia/src/dump.c:2166
jl_deserialize_value_array at /home/coey/julia/src/dump.c:1542
jl_deserialize_value at /home/coey/julia/src/dump.c:2034
jl_deserialize_struct at /home/coey/julia/src/dump.c:1870
jl_deserialize_value_any at /home/coey/julia/src/dump.c:1969 [inlined]
jl_deserialize_value at /home/coey/julia/src/dump.c:2166
jl_deserialize_value_array at /home/coey/julia/src/dump.c:1542
jl_deserialize_value at /home/coey/julia/src/dump.c:2034
jl_deserialize_struct at /home/coey/julia/src/dump.c:1870
jl_deserialize_value_any at /home/coey/julia/src/dump.c:1969 [inlined]
jl_deserialize_value at /home/coey/julia/src/dump.c:2166
jl_deserialize_struct at /home/coey/julia/src/dump.c:1870
jl_deserialize_value_any at /home/coey/julia/src/dump.c:1969 [inlined]
jl_deserialize_value at /home/coey/julia/src/dump.c:2166
jl_deserialize_value_array at /home/coey/julia/src/dump.c:1542
jl_deserialize_value at /home/coey/julia/src/dump.c:2034
jl_deserialize_struct at /home/coey/julia/src/dump.c:1870
jl_deserialize_value_any at /home/coey/julia/src/dump.c:1969 [inlined]
jl_deserialize_value at /home/coey/julia/src/dump.c:2166
jl_deserialize_struct at /home/coey/julia/src/dump.c:1870
jl_deserialize_value_any at /home/coey/julia/src/dump.c:1969 [inlined]
jl_deserialize_value at /home/coey/julia/src/dump.c:2166
jl_deserialize_value_array at /home/coey/julia/src/dump.c:1542
jl_deserialize_value at /home/coey/julia/src/dump.c:2034
jl_deserialize_struct at /home/coey/julia/src/dump.c:1870
jl_deserialize_value_any at /home/coey/julia/src/dump.c:1969 [inlined]
jl_deserialize_value at /home/coey/julia/src/dump.c:2166
jl_deserialize_value at /home/coey/julia/src/dump.c:1784
jl_deserialize_value_array at /home/coey/julia/src/dump.c:1542
jl_deserialize_value at /home/coey/julia/src/dump.c:2034
_jl_restore_incremental at /home/coey/julia/src/dump.c:3162
jl_restore_incremental at /home/coey/julia/src/dump.c:3221
_include_from_serialized at ./loading.jl:617
_require_search_from_serialized at ./loading.jl:713
_require at ./loading.jl:938
require at ./loading.jl:859
require at ./loading.jl:854
jl_apply_generic at /home/coey/julia/src/gf.c:2226
jl_apply at /home/coey/julia/src/julia.h:1594 [inlined]
call_require at /home/coey/julia/src/toplevel.c:398 [inlined]
eval_import_path at /home/coey/julia/src/toplevel.c:435
jl_toplevel_eval_flex at /home/coey/julia/src/toplevel.c:639
jl_toplevel_eval_flex at /home/coey/julia/src/toplevel.c:746
jl_toplevel_eval_in at /home/coey/julia/src/toplevel.c:826
eval at ./boot.jl:327
jl_apply_generic at /home/coey/julia/src/gf.c:2226
eval_user_input at /home/coey/julia/usr/share/julia/stdlib/v1.2/REPL/src/REPL.jl:86
macro expansion at /home/coey/julia/usr/share/julia/stdlib/v1.2/REPL/src/REPL.jl:118 [inlined]
#26 at ./task.jl:269
jl_apply_generic at /home/coey/julia/src/gf.c:2226
jl_apply at /home/coey/julia/src/julia.h:1594 [inlined]
start_task at /home/coey/julia/src/task.c:583
unknown function (ip: 0xffffffffffffffff)
Allocations: 1186985 (Pool: 1186717; Big: 268); GC: 1
Segmentation fault (core dumped)

The error has been bisected to c8510e3, part of #31015

First reported at JuliaMath/GSL.jl#99
@giordano giordano mentioned this issue Mar 26, 2019
Closed
@KristofferC KristofferC added this to the 1.2 milestone Mar 26, 2019
@JeffBezanson JeffBezanson added bug Indicates an unexpected problem or unintended behavior regression Regression in behavior compared to a previous version compiler:precompilation Precompilation of modules labels Mar 27, 2019
@giordano
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For the record, on my computer I get an OutOfMemoryError:

               _
   _       _ _(_)_     |  Documentation: https://docs.julialang.org
  (_)     | (_) (_)    |
   _ _   _| |_  __ _   |  Type "?" for help, "]?" for Pkg help.
  | | | | | | |/ _  |  |
  | | |_| | | | (_| |  |  Version 1.2.0-DEV.605 (2019-03-30)
 _/ |\__'_|_|_|\__'_|  |  Commit a46e37bcc5 (0 days old master)
|__/                   |

julia> versioninfo()
Julia Version 1.2.0-DEV.605
Commit a46e37bcc5 (2019-03-30 19:22 UTC)
Platform Info:
  OS: Linux (x86_64-pc-linux-gnu)
  CPU: Intel(R) Core(TM) i7-4870HQ CPU @ 2.50GHz
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-6.0.1 (ORCJIT, haswell)

julia> using GSL
ERROR: OutOfMemoryError()
Stacktrace:
 [1] _include_from_serialized(::String, ::Array{Any,1}) at ./loading.jl:617
 [2] _require_search_from_serialized(::Base.PkgId, ::String) at ./loading.jl:713
 [3] _require(::Base.PkgId) at ./loading.jl:938
 [4] require(::Base.PkgId) at ./loading.jl:859
 [5] require(::Module, ::Symbol) at ./loading.jl:854

@sostock sostock mentioned this issue Apr 6, 2019
Merged
@JeffBezanson JeffBezanson self-assigned this Apr 8, 2019
JeffBezanson added a commit that referenced this issue Apr 8, 2019
@JeffBezanson
fix #31488, regression precompiling modules with non-interned empty s…
feb436a 
…trings
@JeffBezanson JeffBezanson mentioned this issue Apr 8, 2019
Merged
JeffBezanson added a commit that referenced this issue Apr 9, 2019
@JeffBezanson
fix #31488, regression precompiling modules with non-interned empty s…
4671132 
…trings (#31651)
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bug Indicates an unexpected problem or unintended behavior compiler:precompilation Precompilation of modules regression Regression in behavior compared to a previous version
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fix #31488, regression precompiling modules with non-interned empty strings JuliaLang/julia
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@JeffBezanson @giordano @KristofferC