runtests.jl Segmentation fault- clang_getTranslationUnitCursor at /usr/bin/../lib/x86_64-linux-gnu/libclang-3.6.so.1

[krejcmat]

Hi all,
I am trying to deploy Clang for future development of julia interface for GRASS GIS.
After checkout master Clang build[2] works. If I run tests from Clang.jl I got errors[1]. I am not sure on what I should focus from this error message. Additional info of system [3]

[1]

PC:~/.julia/v0.5/Clang/test$ julia runtests.jl 

signal (11): Segmentation fault
clang_getTranslationUnitCursor at /usr/bin/../lib/x86_64-linux-gnu/libclang-3.6.so.1 (unknown line)
wci_getTranslationUnitCursor at /home/matt/.julia/v0.5/Clang/src/../deps/usr/lib/libwrapclang.so (unknown line)
tu_cursor at /home/matt/.julia/v0.5/Clang/src/cindex.jl:349
parse_header at /home/matt/.julia/v0.5/Clang/src/cindex.jl:67
jlcall___parse_header#0___21984 at  (unknown line)
jl_apply_generic at /usr/bin/../lib/x86_64-linux-gnu/julia/libjulia.so (unknown line)
julia_parse_header_21982 at  (unknown line)
unknown function (ip: 0x7f0fa84b7633)
unknown function (ip: 0x7f0fa84b6a71)
unknown function (ip: 0x7f0fa84b677d)
unknown function (ip: 0x7f0fa84b7c85)
unknown function (ip: 0x7f0fa84b8079)
unknown function (ip: 0x7f0fa84cbdaf)
unknown function (ip: 0x7f0fa84cc679)
jl_load at /usr/bin/../lib/x86_64-linux-gnu/julia/libjulia.so (unknown line)
include at ./boot.jl:261
jl_apply_generic at /usr/bin/../lib/x86_64-linux-gnu/julia/libjulia.so (unknown line)
include_from_node1 at ./loading.jl:304
jl_apply_generic at /usr/bin/../lib/x86_64-linux-gnu/julia/libjulia.so (unknown line)
unknown function (ip: 0x7f0fa84b7633)
unknown function (ip: 0x7f0fa84b6a71)
unknown function (ip: 0x7f0fa84cb988)
unknown function (ip: 0x7f0fa84cc679)
jl_load at /usr/bin/../lib/x86_64-linux-gnu/julia/libjulia.so (unknown line)
include at ./boot.jl:261
jl_apply_generic at /usr/bin/../lib/x86_64-linux-gnu/julia/libjulia.so (unknown line)
include_from_node1 at ./loading.jl:304
jl_apply_generic at /usr/bin/../lib/x86_64-linux-gnu/julia/libjulia.so (unknown line)
process_options at ./client.jl:279
_start at ./client.jl:375
unknown function (ip: 0x7f0fa5023cf9)
jl_apply_generic at /usr/bin/../lib/x86_64-linux-gnu/julia/libjulia.so (unknown line)
unknown function (ip: 0x401b41)
unknown function (ip: 0x40171f)
__libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line)
unknown function (ip: 0x401765)
unknown function (ip: (nil))
Segmentation fault (core dumped)

[2]

julia> ENV["LLVM_CONFIG"]="/usr/lib/llvm-3.6/bin/llvm-config"
julia>Pkg.clone("https://github.com/ihnorton/Clang.jl.git")
...
julia> Pkg.build("Clang")
INFO: Building Clang
g++ wrapclang.cpp -fPIC -c -o wrapclang.cpp.o -I/usr/lib/llvm-3.6/include -g -Wall -Wno-strict-aliasing -fno-omit-frame-pointer -fPIC 
g++ wrapclang.cpp.o -rdynamic -shared -o libwrapclang.so -L/usr/lib/llvm-3.6/lib  -L/usr/lib/llvm-3.6/lib -lclang

[3]

Installed libs
matt@matt-pc:~/.julia/v0.5/Clang/test$ dpkg --get-selections | grep llvm
libllvm-3.6-ocaml-dev               install
libllvm3.4:amd64                install
libllvm3.4:i386                 deinstall
libllvm3.6:amd64                install
libllvm3.6-dbg:amd64                install
llvm-3.6                    install
llvm-3.6-dev                    install
llvm-3.6-doc                    install
llvm-3.6-examples               install
llvm-3.6-runtime                install

matt@matt-pc:~/.julia/v0.5/Clang/test$ dpkg --get-selections | grep libclang
libclang-3.4-dev                install
libclang-3.6-dev                install
libclang-common-3.4-dev             install
libclang-common-3.6-dev             install
libclang-dev                    install
libclang1-3.4:amd64             install
libclang1-3.6:amd64             install
libclang1-3.6-dbg               install


  | | |_| | | | (_| |  |  Version 0.5.0-dev+433 (2015-09-29 15:39 UTC)
 _/ |\__'_|_|_|\__'_|  |  Commit e60fd18 (15 days old master)
|__/                   |  x86_64-linux-gnu

Does anyone now how I should figure out problem? Thanks for any advice!

best Matej

[lascott]

Looks related to this so adding my problem here.
I am looking to use this to rewrite the calls to NAG c libraries.

Clang.jl seg faults on using Clang

Here is the enviroment

louis@Neruda /usr/lib $ echo ${LD_LIBRARY_PATH}
/usr/lib/llvm-3.8/lib:/usr/lib/x86_64-linux-gnu
louis@Neruda /usr/lib $ echo ${PATH}
/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/lib/jvm/default-java/bin

louis@Neruda ~/.julia/v0.6/Clang/test $ dpkg --get-selections | grep llvm
libllvm3.4:amd64				install
libllvm3.6:amd64				install
libllvm3.6:i386					install
libllvm3.8v4:amd64				install
llvm-3.8					install
llvm-3.8-dev					install
llvm-3.8-runtime				install
louis@Neruda ~/.julia/v0.6/Clang/test $ dpkg --get-selections | grep libclang
libclang-3.8-dev				install
libclang-common-3.8-dev				install
libclang1-3.8:amd64				install

louis@Neruda ~/.julia/v0.6/Clang/test $ julia

    _         _ _(_)_    |  A fresh approach to technical computing
   (_)       |  (_) (_)    |  Documentation: http://docs.julialang.org
   _ _    _|  |_  __ _ |  Type "?help" for help.
   | |  |  |  |  |  |/ _` |  |
   | |  |_|  |  |  | (_| |  |  Version 0.6.0-dev.1241 (2016-11-14 21:35 UTC)
 _/  |\__'_|_|_|\__'_| |  Commit 80770e9 (13 days old master)
|__/                          |  x86_64-linux-gnu

looks like it builds without errors, but libwrapclang is not found

julia> Pkg.build("Clang")
INFO: Building Clang
g++ wrapclang.cpp.o -rdynamic -shared -o libwrapclang.so -L/usr/lib/llvm-3.8/lib -L/usr/lib/llvm-3.8/lib -lclang

julia> Libdl.find_library(["libc"])
"libc"

julia> Libdl.find_library(["libwrapclang"])
""

julia> using Clang

signal (11): Segmentation fault
while loading /home/louis/.julia/v0.6/Clang/src/cindex/types.jl, in expression starting on line 228
unknown function (ip: 0x7f80ab2129bf)
Allocations: 1874268 (Pool: 1873262; Big: 1006); GC: 1
Segmentation fault

Able to run clang on a simple test code example

louis@Neruda $ cat test.c

typedef float V __attribute__((vector_size(16)));
V foo(V a, V b) { return a+b*a; }

louis@Neruda $ clang test.c -S -emit-llvm -o -

; ModuleID = 'test.c'
target datalayout = "e-m:e-i64:64-f80:128-n8:16:32:64-S128"
target triple = "x86_64-unknown-linux-gnu"

; Function Attrs: nounwind uwtable
define <4 x float> @foo(<4 x float> %a, <4 x float> %b) #0 {
  %1 = alloca <4 x float>, align 16
  %2 = alloca <4 x float>, align 16
  store <4 x float> %a, <4 x float>* %1, align 16
  store <4 x float> %b, <4 x float>* %2, align 16
  %3 = load <4 x float>, <4 x float>* %1, align 16
  %4 = load <4 x float>, <4 x float>* %2, align 16
  %5 = load <4 x float>, <4 x float>* %1, align 16
  %6 = fmul <4 x float> %4, %5
  %7 = fadd <4 x float> %3, %6
  ret <4 x float> %7
}

attributes #0 = { nounwind uwtable "disable-tail-calls"="false" "less-precise-fpmad"="false" "no-frame-pointer-elim"="true" "no-frame-pointer-elim-non-leaf" "no-infs-fp-math"="false" "no-nans-fp-math"="false" "stack-protector-buffer-size"="8" "target-cpu"="x86-64" "target-features"="+fxsr,+mmx,+sse,+sse2" "unsafe-fp-math"="false" "use-soft-float"="false" }

!llvm.ident = !{!0}

!0 = !{!"clang version 3.8.0-2ubuntu3~trusty4 (tags/RELEASE_380/final)"}

louis@Neruda $ clang test.c -S -O3 -o -

	.text
	.file	"test.c"
	.globl	foo
	.align	16, 0x90
	.type	foo,@function
foo:                                    # @foo
	.cfi_startproc

# BB#0:
	mulps	%xmm0, %xmm1
	addps	%xmm1, %xmm0
	retq
.Lfunc_end0:
	.size	foo, .Lfunc_end0-foo
	.cfi_endproc


	.ident	"clang version 3.8.0-2ubuntu3~trusty4 (tags/RELEASE_380/final)"
	.section	".note.GNU-stack","",@progbits