Julia: ErrorException("could not load library "libopenblas64_" on FreeBSD

Created on 30 Mar 2019 · 13Comments · Source: JuliaLang/julia

See https://cirrus-ci.com/task/6313708253872128 (ref https://github.com/JuliaMath/SpecialFunctions.jl/pull/151):

WARNING: Error during initialization of module LinearAlgebra:
ErrorException("could not load library "libopenblas64_"
Shared object "libgfortran.so.5" not found, required by "libopenblas64_.so"")
┌ Error: Error during initialization of module CHOLMOD
│   exception =
│    could not load library "libcholmod"
│    Shared object "libgfortran.so.5" not found, required by "libopenblas64_.so"
│    Stacktrace:
│     [1] #dlopen#3(::Bool, ::typeof(Libdl.dlopen), ::String, ::UInt32) at /usr/home/julia/buildbot/worker/package_freebsd64/build/usr/share/julia/stdlib/v1.2/Libdl/src/Libdl.jl:109
│     [2] dlopen at /usr/home/julia/buildbot/worker/package_freebsd64/build/usr/share/julia/stdlib/v1.2/Libdl/src/Libdl.jl:109 [inlined] (repeats 2 times)
│     [3] __init__() at /usr/home/julia/buildbot/worker/package_freebsd64/build/usr/share/julia/stdlib/v1.2/SuiteSparse/src/cholmod.jl:89
└ @ SuiteSparse.CHOLMOD /usr/home/julia/buildbot/worker/package_freebsd64/build/usr/share/julia/stdlib/v1.2/SuiteSparse/src/cholmod.jl:176
WARNING: Error during initialization of module LinearAlgebra:
ErrorException("could not load library "libopenblas64_"
Shared object "libgfortran.so.5" not found, required by "libopenblas64_.so"")
┌ Error: Error during initialization of module CHOLMOD
│   exception =
│    could not load library "libcholmod"
│    Shared object "libgfortran.so.5" not found, required by "libopenblas64_.so"
│    Stacktrace:
│     [1] #dlopen#3(::Bool, ::typeof(Libdl.dlopen), ::String, ::UInt32) at /usr/home/julia/buildbot/worker/package_freebsd64/build/usr/share/julia/stdlib/v1.2/Libdl/src/Libdl.jl:109
│     [2] dlopen at /usr/home/julia/buildbot/worker/package_freebsd64/build/usr/share/julia/stdlib/v1.2/Libdl/src/Libdl.jl:109 [inlined] (repeats 2 times)
│     [3] __init__() at /usr/home/julia/buildbot/worker/package_freebsd64/build/usr/share/julia/stdlib/v1.2/SuiteSparse/src/cholmod.jl:89
└ @ SuiteSparse.CHOLMOD /usr/home/julia/buildbot/worker/package_freebsd64/build/usr/share/julia/stdlib/v1.2/SuiteSparse/src/cholmod.jl:176

build

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giordano

All 13 comments

BinaryBuilder woes, @staticfloat?

ararslan on 1 Apr 2019

That is indeed what it sounds like. First things first; let's check to make sure that the julia tarball actually bundled libgfortran.so properly. I don't see the URL it pulled julia from in the cirrus CI logs. @ararslan where is that coming from?

staticfloat on 1 Apr 2019

https://github.com/ararslan/CirrusCI.jl/blob/master/bin/install.sh#L68-L76. Just the official binaries.

ararslan on 1 Apr 2019

Is there a way I can figure out exactly which URL was pulled from?

staticfloat on 1 Apr 2019

Not at the moment. I should add that to CirrusCI.jl. Based on the versioninfo output in the install section of the Cirrus log, it looks like it's a nightly binary, which means it's getting -latest.

Julia Version 1.2.0-DEV.600
Commit 0557467288 (2019-03-30 08:39 UTC)
Platform Info:
  OS: FreeBSD (x86_64-unknown-freebsd12.0)
  CPU: Intel(R) Xeon(R) CPU @ 2.50GHz
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-6.0.1 (ORCJIT, ivybridge)

The odd thing here is that it's identifying the OS as FreeBSD 12.0, which is what's running on, but my understanding was that we always listed the OS as what the Julia binary was built on. Last I checked we were packaging for FreeBSD on 11.1.

ararslan on 1 Apr 2019

Last I checked we were packaging for FreeBSD on 11.1.

The FreeBSD buildbot is now running 12.0. 🎉 Surprise! 🎉

staticfloat on 1 Apr 2019

Well, https://github.com/JuliaMath/SpecialFunctions.jl/blob/master/.cirrus.yml starts with

image: freebsd-12-0-release-amd64

Oh, you refer to the machine building the binary not running the test?

giordano on 1 Apr 2019

you refer to the machine building the binary not running the test?

Correct.

The FreeBSD buildbot is now running 12.0. :tada: Surprise! :tada:

Ahaha okay. Have we verified that binaries built on 12.0 work on 11.x? For Julia 1.2-DEV stuff I always use a source build, so I haven't tried any nightly binaries locally.

ararslan on 1 Apr 2019

Hmmm, libgfortran.so.5 _is_ being shipped, but it's not being picked up by libopenblas, because libopenblas doesn't have a proper RPATH $ORIGIN set.

staticfloat on 1 Apr 2019

Have we verified that binaries built on 12.0 work on 11.x?

Oops, turns out they are not. I guess I'll need to rebuild the FreeBSD bot as an 11.2 machine.

staticfloat on 1 Apr 2019

👍1

The FreeBSD bots have multiplied, and are also now all running 11.2. Once new nightlies make their way through the system and out the door, we should be good to go.

staticfloat on 2 Apr 2019

❤1

I must say that I don't remember what was the problem here, but it looks like now SpecialFunctions.jl works flawlessly on FreeBSD: https://cirrus-ci.com/github/JuliaMath/SpecialFunctions.jl

giordano on 30 Dec 2019

🎉1

The issue was that we were using a newer version of FreeBSD on the buildbots than what was running on Cirrus. Binaries built on FreeBSD 11.x can run on 12.x but not vice versa. Seems things have been resolved.

ararslan on 30 Dec 2019

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