segfault on readme example

[anandijain]

mwe:

using GLMakie
using GraphMakie
using Graphs
g = complete_graph(10)
graphplot(g)

trace:

[3144] signal (11.2): Segmentation fault: 11
in expression starting at none:0
_ZN9libunwind10CFI_ParserINS_17LocalAddressSpaceEE9decodeFDEERS1_mPNS2_8FDE_InfoEPNS2_8CIE_InfoE at /usr/lib/system/libunwind.dylib (unknown line)
Allocations: 46273614 (Pool: 46267756; Big: 5858); GC: 61
fish: Job 1, 'julia --startup-file=no $argv' terminated by signal SIGSEGV (Address boundary error)

versioninfo():

Julia Version 1.9.0-beta3
Commit 24204a73447 (2023-01-18 07:20 UTC)
Platform Info:
OS: macOS (arm64-apple-darwin21.4.0)
CPU: 8 × Apple M1
WORD_SIZE: 64
LIBM: libopenlibm
LLVM: libLLVM-14.0.6 (ORCJIT, apple-m1)
Threads: 8 on 4 virtual cores
Environment:
JULIA_NUM_THREADS = 8

Manifest

Status `~/.julia/environments/graphmakie/Manifest.toml`
[621f4979] AbstractFFTs v1.2.1
[1520ce14] AbstractTrees v0.4.4
[79e6a3ab] Adapt v3.5.0
[27a7e980] Animations v0.4.1
[ec485272] ArnoldiMethod v0.2.0
[67c07d97] Automa v0.8.2
[13072b0f] AxisAlgorithms v1.0.1
[39de3d68] AxisArrays v0.4.6
[fa961155] CEnum v0.4.2
[49dc2e85] Calculus v0.5.1
[d360d2e6] ChainRulesCore v1.15.7
[a2cac450] ColorBrewer v0.4.0
[35d6a980] ColorSchemes v3.20.0
[3da002f7] ColorTypes v0.11.4
[c3611d14] ColorVectorSpace v0.9.10
[5ae59095] Colors v0.12.10
[34da2185] Compat v4.5.0
[187b0558] ConstructionBase v1.4.1
[d38c429a] Contour v0.6.2
[9a962f9c] DataAPI v1.14.0
[864edb3b] DataStructures v0.18.13
[e2d170a0] DataValueInterfaces v1.0.0
[b429d917] DensityInterface v0.4.0
[31c24e10] Distributions v0.25.80
[ffbed154] DocStringExtensions v0.9.3
[fa6b7ba4] DualNumbers v0.6.8
[411431e0] Extents v0.1.1
[c87230d0] FFMPEG v0.4.1
[7a1cc6ca] FFTW v1.5.0
[5789e2e9] FileIO v1.16.0
[1a297f60] FillArrays v0.13.7
[53c48c17] FixedPointNumbers v0.8.4
[59287772] Formatting v0.4.2
[b38be410] FreeType v4.0.0
[663a7486] FreeTypeAbstraction v0.10.0
[f7f18e0c] GLFW v3.4.1
[e9467ef8] GLMakie v0.8.1
[46192b85] GPUArraysCore v0.1.3
[cf35fbd7] GeoInterface v1.2.1
[5c1252a2] GeometryBasics v0.4.5
[1ecd5474] GraphMakie v0.5.2
[a2bd30eb] Graphics v1.1.2
[86223c79] Graphs v1.7.4
[3955a311] GridLayoutBase v0.9.1
[42e2da0e] Grisu v1.0.2
[34004b35] HypergeometricFunctions v0.3.11
[2803e5a7] ImageAxes v0.6.10
[c817782e] ImageBase v0.1.5
[a09fc81d] ImageCore v0.9.4
[82e4d734] ImageIO v0.6.6
[bc367c6b] ImageMetadata v0.9.8
[9b13fd28] IndirectArrays v1.0.0
[d25df0c9] Inflate v0.1.3
[a98d9a8b] Interpolations v0.14.7
[8197267c] IntervalSets v0.7.4
[3587e190] InverseFunctions v0.1.8
[92d709cd] IrrationalConstants v0.1.1
[f1662d9f] Isoband v0.1.1
[c8e1da08] IterTools v1.4.0
[82899510] IteratorInterfaceExtensions v1.0.0
[692b3bcd] JLLWrappers v1.4.1
[682c06a0] JSON v0.21.3
[b835a17e] JpegTurbo v0.1.1
[5ab0869b] KernelDensity v0.6.5
[b964fa9f] LaTeXStrings v1.3.0
[8cdb02fc] LazyModules v0.3.1
[2ab3a3ac] LogExpFunctions v0.3.20
[1914dd2f] MacroTools v0.5.10
⌅ [ee78f7c6] Makie v0.19.1
⌅ [20f20a25] MakieCore v0.6.1
[dbb5928d] MappedArrays v0.4.1
[7eb4fadd] Match v1.2.0
[0a4f8689] MathTeXEngine v0.5.4
[7269a6da] MeshIO v0.4.10
[978d7f02] MiniQhull v0.4.0
[e1d29d7a] Missings v1.1.0
[66fc600b] ModernGL v1.1.6
[e94cdb99] MosaicViews v0.3.4
[77ba4419] NaNMath v1.0.1
[f09324ee] Netpbm v1.1.0
[46757867] NetworkLayout v0.4.4
[510215fc] Observables v0.5.4
[6fe1bfb0] OffsetArrays v1.12.9
[52e1d378] OpenEXR v0.3.2
[bac558e1] OrderedCollections v1.4.1
[90014a1f] PDMats v0.11.16
[f57f5aa1] PNGFiles v0.3.17
[19eb6ba3] Packing v0.5.0
[5432bcbf] PaddedViews v0.5.11
[69de0a69] Parsers v2.5.3
[eebad327] PkgVersion v0.3.2
[995b91a9] PlotUtils v1.3.4
[647866c9] PolygonOps v0.1.2
[21216c6a] Preferences v1.3.0
[92933f4c] ProgressMeter v1.7.2
[4b34888f] QOI v1.0.0
[1fd47b50] QuadGK v2.7.0
[b3c3ace0] RangeArrays v0.3.2
[c84ed2f1] Ratios v0.4.3
[189a3867] Reexport v1.2.2
[05181044] RelocatableFolders v1.0.0
[ae029012] Requires v1.3.0
[79098fc4] Rmath v0.7.1
[fdea26ae] SIMD v3.4.4
[7b38b023] ScanByte v0.3.3
[6c6a2e73] Scratch v1.1.1
[efcf1570] Setfield v1.1.1
⌅ [65257c39] ShaderAbstractions v0.2.9
[992d4aef] Showoff v1.0.3
[73760f76] SignedDistanceFields v0.4.0
[699a6c99] SimpleTraits v0.9.4
[45858cf5] Sixel v0.1.2
[66db9d55] SnoopPrecompile v1.0.3
[a2af1166] SortingAlgorithms v1.1.0
[276daf66] SpecialFunctions v2.1.7
[c5dd0088] StableHashTraits v0.3.1
[cae243ae] StackViews v0.1.1
[90137ffa] StaticArrays v1.5.12
[1e83bf80] StaticArraysCore v1.4.0
[82ae8749] StatsAPI v1.5.0
[2913bbd2] StatsBase v0.33.21
[4c63d2b9] StatsFuns v1.1.1
[09ab397b] StructArrays v0.6.14
[3783bdb8] TableTraits v1.0.1
[bd369af6] Tables v1.10.0
[62fd8b95] TensorCore v0.1.1
[731e570b] TiffImages v0.6.3
[3bb67fe8] TranscodingStreams v0.9.11
[981d1d27] TriplotBase v0.1.0
[9d95972d] TupleTools v1.3.0
[1cfade01] UnicodeFun v0.4.1
[efce3f68] WoodburyMatrices v0.5.5
[6e34b625] Bzip2_jll v1.0.8+0
[83423d85] Cairo_jll v1.16.1+1
[5ae413db] EarCut_jll v2.2.4+0
[2e619515] Expat_jll v2.4.8+0
[b22a6f82] FFMPEG_jll v4.4.2+2
[f5851436] FFTW_jll v3.3.10+0
[a3f928ae] Fontconfig_jll v2.13.93+0
[d7e528f0] FreeType2_jll v2.10.4+0
[559328eb] FriBidi_jll v1.0.10+0
[0656b61e] GLFW_jll v3.3.8+0
[78b55507] Gettext_jll v0.21.0+0
[7746bdde] Glib_jll v2.74.0+2
[3b182d85] Graphite2_jll v1.3.14+0
[2e76f6c2] HarfBuzz_jll v2.8.1+1
[905a6f67] Imath_jll v3.1.2+0
[1d5cc7b8] IntelOpenMP_jll v2018.0.3+2
[aacddb02] JpegTurbo_jll v2.1.2+0
[c1c5ebd0] LAME_jll v3.100.1+0
[dd4b983a] LZO_jll v2.10.1+0
⌅ [e9f186c6] Libffi_jll v3.2.2+1
[d4300ac3] Libgcrypt_jll v1.8.7+0
[7e76a0d4] Libglvnd_jll v1.6.0+0
[7add5ba3] Libgpg_error_jll v1.42.0+0
[94ce4f54] Libiconv_jll v1.16.1+2
[4b2f31a3] Libmount_jll v2.35.0+0
[38a345b3] Libuuid_jll v2.36.0+0
[856f044c] MKL_jll v2022.2.0+0
[e7412a2a] Ogg_jll v1.3.5+1
[18a262bb] OpenEXR_jll v3.1.1+0
[458c3c95] OpenSSL_jll v1.1.19+0
[efe28fd5] OpenSpecFun_jll v0.5.5+0
[91d4177d] Opus_jll v1.3.2+0
[30392449] Pixman_jll v0.40.1+0
[460c41e3] QhullMiniWrapper_jll v1.0.0+1
⌅ [784f63db] Qhull_jll v8.0.1001+0
[f50d1b31] Rmath_jll v0.4.0+0
[02c8fc9c] XML2_jll v2.10.3+0
[aed1982a] XSLT_jll v1.1.34+0
[4f6342f7] Xorg_libX11_jll v1.6.9+4
[0c0b7dd1] Xorg_libXau_jll v1.0.9+4
[935fb764] Xorg_libXcursor_jll v1.2.0+4
[a3789734] Xorg_libXdmcp_jll v1.1.3+4
[1082639a] Xorg_libXext_jll v1.3.4+4
[d091e8ba] Xorg_libXfixes_jll v5.0.3+4
[a51aa0fd] Xorg_libXi_jll v1.7.10+4
[d1454406] Xorg_libXinerama_jll v1.1.4+4
[ec84b674] Xorg_libXrandr_jll v1.5.2+4
[ea2f1a96] Xorg_libXrender_jll v0.9.10+4
[14d82f49] Xorg_libpthread_stubs_jll v0.1.0+3
[c7cfdc94] Xorg_libxcb_jll v1.13.0+3
[c5fb5394] Xorg_xtrans_jll v1.4.0+3
[9a68df92] isoband_jll v0.2.3+0
[a4ae2306] libaom_jll v3.4.0+0
[0ac62f75] libass_jll v0.15.1+0
[f638f0a6] libfdk_aac_jll v2.0.2+0
[b53b4c65] libpng_jll v1.6.38+0
[075b6546] libsixel_jll v1.10.3+0
[f27f6e37] libvorbis_jll v1.3.7+1
[1270edf5] x264_jll v2021.5.5+0
[dfaa095f] x265_jll v3.5.0+0
[0dad84c5] ArgTools v1.1.1
[56f22d72] Artifacts
[2a0f44e3] Base64
[8bf52ea8] CRC32c
[ade2ca70] Dates
[8ba89e20] Distributed
[f43a241f] Downloads v1.6.0
[7b1f6079] FileWatching
[9fa8497b] Future
[b77e0a4c] InteractiveUtils
[4af54fe1] LazyArtifacts
[b27032c2] LibCURL v0.6.3
[76f85450] LibGit2
[8f399da3] Libdl
[37e2e46d] LinearAlgebra
[56ddb016] Logging
[d6f4376e] Markdown
[a63ad114] Mmap
[ca575930] NetworkOptions v1.2.0
[44cfe95a] Pkg v1.9.0
[de0858da] Printf
[3fa0cd96] REPL
[9a3f8284] Random
[ea8e919c] SHA v0.7.0
[9e88b42a] Serialization
[1a1011a3] SharedArrays
[6462fe0b] Sockets
[2f01184e] SparseArrays
[10745b16] Statistics v1.9.0
[4607b0f0] SuiteSparse
[fa267f1f] TOML v1.0.3
[a4e569a6] Tar v1.10.0
[8dfed614] Test
[cf7118a7] UUIDs
[4ec0a83e] Unicode
[e66e0078] CompilerSupportLibraries_jll v1.0.2+0
[deac9b47] LibCURL_jll v7.84.0+0
[29816b5a] LibSSH2_jll v1.10.2+0
[c8ffd9c3] MbedTLS_jll v2.28.0+0
[14a3606d] MozillaCACerts_jll v2022.10.11
[4536629a] OpenBLAS_jll v0.3.21+0
[05823500] OpenLibm_jll v0.8.1+0
[efcefdf7] PCRE2_jll v10.42.0+0
[bea87d4a] SuiteSparse_jll v5.10.1+0
[83775a58] Zlib_jll v1.2.13+0
[8e850b90] libblastrampoline_jll v5.2.0+0
[8e850ede] nghttp2_jll v1.48.0+0
[3f19e933] p7zip_jll v17.4.0+0
Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m`

[hexaeder]

Cannot reproduce (same Makie, GLMakie, GraphMakie and Graphs version). Same Julia, same CPU. Can you check if the problem also occurs for a basic scatter or lines plot? I suspect this happes further down the Makie stack. Maybe try to delete the compile cache and install GLMakie again?

copy pastable example:

using Pkg
pkg"activate --temp"
pkg"add GLMakie@0.8.1, GraphMakie, Graphs"
using GLMakie
using GraphMakie
using Graphs
g = complete_graph(10)
graphplot(g)

julia> versioninfo()
Julia Version 1.9.0-beta3
Commit 24204a73447 (2023-01-18 07:20 UTC)
Platform Info:
  OS: macOS (arm64-apple-darwin21.4.0)
  CPU: 8 × Apple M1
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-14.0.6 (ORCJIT, apple-m1)
  Threads: 1 on 4 virtual cores
Environment:
  LD_LIBRARY_PATH = ~/.julia/conda/3/lib:
  JULIA_IMAGE_THREADS = 1

[anandijain]

2023-02-01.12-56-02.mp4

its only when i click on the graph

[hexaeder]

Interesting, I tried to reproduce again but I can click and zoom in the plot however I like. Is it also a problem with current GLMakie version 0.8.2?

Also, could you try

using Pkg
pkg"activate --temp"
pkg"add GLMakie@0.8.1, GraphMakie, Graphs"
using GLMakie, GraphMakie, Graphs
p = rand(Point2f, 10)
scatter(p)
lines!(p)

[anandijain]

yeah same thing

[52225] signal (11.2): Segmentation fault: 11
in expression starting at none:0
_ZN9libunwind10CFI_ParserINS_17LocalAddressSpaceEE9decodeFDEERS1_mPNS2_8FDE_InfoEPNS2_8CIE_InfoE at /usr/lib/system/libunwind.dylib (unknown line)
Allocations: 37153196 (Pool: 37141327; Big: 11869); GC: 98
fish: Job 1, 'julia +beta --startup=no' terminated by signal SIGSEGV (Address boundary error)

[SimonDanisch]

Can you open a Julia issue about this? This looks like an M1 Julia issue...

[gbaraldi]

I've seen this before, this is an issue with the display backend. I can get this with just GLFW.
MakieOrg/Makie.jl#2517
I think the issue is GLFW + julia

[hdavid16]

Closing as not a GraphMakie issue