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JuliaLang / MbedTLS.jl

Wrapper around mbedtls
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SystemError opening cert.pem with PackageCompiler-generated binary #218

Closed kmsquire closed 4 years ago

kmsquire commented 4 years ago

In this line:

https://github.com/JuliaLang/MbedTLS.jl/commit/f45903118feca9aab1993a40aa82b51444c40256#diff-3f2c05e28eda33cb95585f4259519af5R758

the absolute path to cert.pem is recorded.

When compiling under PackageCompiler, that points to <MyPackageCompiled>/share/julia/cert.pem, which doesn't exist.

(I got around it for now by copying the cert.pem file to the expected location...)

Cc: @JackDunnNZ @KristofferC

KristofferC commented 4 years ago

What is this file used for in Base? I guess it could be bundled in PackageCompiler but it will always be a bit problematic to non-declaratively depend on "random" files that Julia ships with. From PackageCompiler's p.o.v, best would be to either ship it as an Artifact, or just read the content of it into the source during precompile time.

KwatMDPhD commented 2 years ago

I still have this error. I'm on macOS.

~/craft/GSEA.jl/build/gsea ./bin/gsea                                                     23:55:50
fatal: error thrown and no exception handler available.
InitError(mod=:MbedTLS, error=Base.SystemError(prefix="opening file "/Users/kwat/craft/GSEA.jl/build/gsea/share/julia/cert.pem"", errnum=2, extrainfo=nothing))
YY.systemerrorYY.69_24432.clone at /Users/kwat/craft/GSEA.jl/build/gsea/lib/julia/sys.dylib (unknown line)
systemerrorYY.YY.kw_39627.clone at /Users/kwat/craft/GSEA.jl/build/gsea/lib/julia/sys.dylib (unknown line)
systemerrorYY.YY.kw_39637.clone at /Users/kwat/craft/GSEA.jl/build/gsea/lib/julia/sys.dylib (unknown line)
YY.openYY.639_32472.clone at /Users/kwat/craft/GSEA.jl/build/gsea/lib/julia/sys.dylib (unknown line)
YY.openYY.355_38261.clone at /Users/kwat/craft/GSEA.jl/build/gsea/lib/julia/sys.dylib (unknown line)
open at ./io.jl:328 [inlined]
read at ./io.jl:436
jl_apply_generic at /Users/kwat/craft/GSEA.jl/build/gsea/lib/julia/libjulia-internal.1.7.dylib (unknown line)
__sslinit___23013.clone at /Users/kwat/craft/GSEA.jl/build/gsea/lib/julia/sys.dylib (unknown line)
__init___23025.clone at /Users/kwat/craft/GSEA.jl/build/gsea/lib/julia/sys.dylib (unknown line)
jfptr___init___23026.clone_1 at /Users/kwat/craft/GSEA.jl/build/gsea/lib/julia/sys.dylib (unknown line)
jl_apply_generic at /Users/kwat/craft/GSEA.jl/build/gsea/lib/julia/libjulia-internal.1.7.dylib (unknown line)
jl_module_run_initializer at /Users/kwat/craft/GSEA.jl/build/gsea/lib/julia/libjulia-internal.1.7.dylib (unknown line)
_finish_julia_init at /Users/kwat/craft/GSEA.jl/build/gsea/lib/julia/libjulia-internal.1.7.dylib (unknown line)
julia_init at /Users/kwat/craft/GSEA.jl/build/gsea/lib/julia/libjulia-internal.1.7.dylib (unknown line)
jl_init at /Users/kwat/craft/GSEA.jl/build/gsea/lib/julia/libjulia-internal.1.7.dylib (unknown line)
main at /Users/kwat/craft/GSEA.jl/build/gsea/bin/gsea (unknown line)

https://github.com/KwatMDPhD/GSEA.jl/issues/59

How can I fix this?

Thanks in advance.