2D Problem with an interface: Error on discretization #413
Description
Describe the bug 🐞
An error on MethodOfLines.discretize(pdesys, discretization)
ERROR: ArgumentError: invalid index: nothing of type Nothing
Minimal Reproducible Example 👇
using DifferentialEquations, ModelingToolkit, MethodOfLines, DomainSets
@parameters t x y1 y2
@variables c1(..)
@variables c2(..)
Dt = Differential(t)
Dx = Differential(x)
Dxx = Dx^2
Dy1 = Differential(y1)
Dyy1 = Dy1^2
Dy2 = Differential(y2)
Dyy2 = Dy2^2
li_vel(y) = 2 * (0.5 - y)
eq1 = Dt(c1(t, x, y1)) ~ Dxx(c1(t, x, y1)) + Dyy1(c1(t, x, y1)) - Dx(c1(t, x, y1))*li_vel(y1)
eq2 = Dt(c2(t, x, y2)) ~ Dxx(c2(t, x, y2)) + Dyy2(c2(t, x, y2)) - Dx(c2(t, x, y2))*li_vel(y2)
eqs = [eq1, eq2]
domains = [t ∈ Interval(0.0, 0.15),
x ∈ Interval(0.0, 1.0),
y1 ∈ Interval(0.0, 0.5),
y2 ∈ Interval(0.5, 1.0)]
bcs = [
c1(0, x, y1) ~ 0.5, # init
c2(0, x, y2) ~ 0.5,
c1(t, 0, y1) ~ 0, # flow in
c2(t, 1, y2) ~ 1,
Dx(c1(t, 1, y1)) ~ 0, # flow out
Dx(c2(t, 0, y1)) ~ 0,
Dy1(c1(t, x, 0)) ~ 0, # bottom & top walls
Dy2(c2(t, x, 1)) ~ 0,
Dy1(c1(t, x, 0.5)) + c1(t, x, 0.5) ~ c2(t, x, 0.5), # membrane
Dy2(c2(t, x, 0.5)) + c2(t, x, 0.5) ~ c1(t, x, 0.5),
]
domains = [t ∈ Interval(0.0, 0.15),
y1 ∈ Interval(0.0, 0.5),
y2 ∈ Interval(0.5, 1.0)]
@named pdesys = PDESystem(eqs, bcs, domains,
[t, x, y1, y2], [c1(t, x, y1), c2(t, x, y2)])
discretization = MOLFiniteDifference([x => 0.1, y1 => 0.1, y2 => 0.1], t)
prob = MethodOfLines.discretize(pdesys, discretization)
# error on previous line
alg = Rosenbrock23()
sol = solve(prob, alg, saveat = 0.1);Error & Stacktrace
ERROR: ArgumentError: invalid index: nothing of type Nothing
Stacktrace:
[1] to_index(i::Nothing)
@ Base ./indices.jl:300
[2] to_index(A::Vector{Symbolics.VarDomainPairing}, i::Nothing)
@ Base ./indices.jl:277
[3] _to_indices1(A::Vector{Symbolics.VarDomainPairing}, inds::Tuple{Base.OneTo{Int64}}, I1::Nothing)
@ Base ./indices.jl:359
[4] to_indices
@ ./indices.jl:354 [inlined]
[5] to_indices
@ ./indices.jl:345 [inlined]
[6] getindex
@ ./abstractarray.jl:1291 [inlined]
[7] (::PDEBase.var"#54#62"{Vector{Symbolics.VarDomainPairing}})(x::SymbolicUtils.BasicSymbolic{Real})
@ PDEBase ~/.julia/packages/PDEBase/o7LGc/src/variable_map.jl:34
[8] iterate
@ ./generator.jl:47 [inlined]
[9] collect_to!(dest::Vector{Pair{…}}, itr::Base.Generator{Vector{…}, PDEBase.var"#54#62"{…}}, offs::Int64, st::Int64)
@ Base ./array.jl:892
[10] collect_to_with_first!(dest::Vector{…}, v1::Pair{…}, itr::Base.Generator{…}, st::Int64)
@ Base ./array.jl:870
[11] _collect(c::Vector{…}, itr::Base.Generator{…}, ::Base.EltypeUnknown, isz::Base.HasShape{…})
@ Base ./array.jl:864
[12] collect_similar(cont::Vector{Any}, itr::Base.Generator{Vector{Any}, PDEBase.var"#54#62"{Vector{…}}})
@ Base ./array.jl:763
[13] map(f::Function, A::Vector{Any})
@ Base ./abstractarray.jl:3285
[14] PDEBase.VariableMap(pdesys::PDESystem, disc::MOLFiniteDifference{…}; replaced_vars::Dict{…})
@ PDEBase ~/.julia/packages/PDEBase/o7LGc/src/variable_map.jl:33
[15] symbolic_discretize(pdesys::PDESystem, discretization::MOLFiniteDifference{…})
@ PDEBase ~/.julia/packages/PDEBase/o7LGc/src/symbolic_discretize.jl:17
[16] discretize(pdesys::PDESystem, discretization::MOLFiniteDifference{…}; analytic::Nothing, kwargs::@Kwargs{})
@ PDEBase ~/.julia/packages/PDEBase/o7LGc/src/discretization_state.jl:57
[17] discretize(pdesys::PDESystem, discretization::MOLFiniteDifference{…})
@ PDEBase ~/.julia/packages/PDEBase/o7LGc/src/discretization_state.jl:54
[18] top-level scope
@ ~/Julia/MembH2Otransport.jl/src/PDE/m20_2D_middle-interf_4discourse.jl:52
Some type information was truncated. Use `show(err)` to see complete types.
Environment (please complete the following information):
- Output of
using Pkg; Pkg.status()
(MembH2Otransport) pkg> st
Project MembH2Otransport v0.1.0
Status `~/Julia/MembH2Otransport.jl/Project.toml`
[5a033b19] CurveFit v0.6.0
[a93c6f00] DataFrames v1.6.1
[0c46a032] DifferentialEquations v7.14.0
[5b8099bc] DomainSets v0.7.14
[f6369f11] ForwardDiff v0.10.36
[92fee26a] GZip v0.6.2
[94925ecb] MethodOfLines v0.11.3
⌃ [961ee093] ModelingToolkit v9.32.0
[8913a72c] NonlinearSolve v3.14.0
[f0f68f2c] PlotlyJS v0.18.13
[91a5bcdd] Plots v1.40.8
[727e6d20] SimpleNonlinearSolve v1.12.0
[1986cc42] Unitful v1.21.0
[fdbf4ff8] XLSX v0.10.2
[ade2ca70] Dates
[9e88b42a] Serialization
Info Packages marked with ⌃ have new versions available and may be upgradable.- Output of
using Pkg; Pkg.status(; mode = PKGMODE_MANIFEST)
julia> using Pkg; Pkg.status(; mode = PKGMODE_MANIFEST)
Project MembH2Otransport v0.1.0
Status `~/Julia/MembH2Otransport.jl/Manifest.toml`
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[36c8627f] Pango_jll v1.54.1+0
[30392449] Pixman_jll v0.43.4+0
[c0090381] Qt6Base_jll v6.7.1+1
[629bc702] Qt6Declarative_jll v6.7.1+2
[ce943373] Qt6ShaderTools_jll v6.7.1+1
[e99dba38] Qt6Wayland_jll v6.7.1+1
⌅ [f50d1b31] Rmath_jll v0.4.3+0
⌅ [fb77eaff] Sundials_jll v5.2.2+0
[a44049a8] Vulkan_Loader_jll v1.3.243+0
[a2964d1f] Wayland_jll v1.21.0+1
[2381bf8a] Wayland_protocols_jll v1.31.0+0
[02c8fc9c] XML2_jll v2.13.3+0
[aed1982a] XSLT_jll v1.1.41+0
[ffd25f8a] XZ_jll v5.4.6+0
[f67eecfb] Xorg_libICE_jll v1.1.1+0
[c834827a] Xorg_libSM_jll v1.2.4+0
[4f6342f7] Xorg_libX11_jll v1.8.6+0
[0c0b7dd1] Xorg_libXau_jll v1.0.11+0
[935fb764] Xorg_libXcursor_jll v1.2.0+4
[a3789734] Xorg_libXdmcp_jll v1.1.4+0
[1082639a] Xorg_libXext_jll v1.3.6+0
[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 v0.9.11+0
[14d82f49] Xorg_libpthread_stubs_jll v0.1.1+0
[c7cfdc94] Xorg_libxcb_jll v1.17.0+0
[cc61e674] Xorg_libxkbfile_jll v1.1.2+0
[e920d4aa] Xorg_xcb_util_cursor_jll v0.1.4+0
[12413925] Xorg_xcb_util_image_jll v0.4.0+1
[2def613f] Xorg_xcb_util_jll v0.4.0+1
[975044d2] Xorg_xcb_util_keysyms_jll v0.4.0+1
[0d47668e] Xorg_xcb_util_renderutil_jll v0.3.9+1
[c22f9ab0] Xorg_xcb_util_wm_jll v0.4.1+1
[35661453] Xorg_xkbcomp_jll v1.4.6+0
[33bec58e] Xorg_xkeyboard_config_jll v2.39.0+0
[c5fb5394] Xorg_xtrans_jll v1.5.0+0
[3161d3a3] Zstd_jll v1.5.6+0
[35ca27e7] eudev_jll v3.2.9+0
[214eeab7] fzf_jll v0.53.0+0
[1a1c6b14] gperf_jll v3.1.1+0
[a4ae2306] libaom_jll v3.9.0+0
[0ac62f75] libass_jll v0.15.2+0
[1183f4f0] libdecor_jll v0.2.2+0
[2db6ffa8] libevdev_jll v1.11.0+0
[f638f0a6] libfdk_aac_jll v2.0.3+0
[36db933b] libinput_jll v1.18.0+0
[b53b4c65] libpng_jll v1.6.43+1
[f27f6e37] libvorbis_jll v1.3.7+2
[009596ad] mtdev_jll v1.1.6+0
[1317d2d5] oneTBB_jll v2021.12.0+0
⌅ [1270edf5] x264_jll v2021.5.5+0
⌅ [dfaa095f] x265_jll v3.5.0+0
[d8fb68d0] xkbcommon_jll v1.4.1+1
[0dad84c5] ArgTools v1.1.1
[56f22d72] Artifacts
[2a0f44e3] Base64
[ade2ca70] Dates
[8ba89e20] Distributed
[f43a241f] Downloads v1.6.0
[7b1f6079] FileWatching
[9fa8497b] Future
[b77e0a4c] InteractiveUtils
[4af54fe1] LazyArtifacts
[b27032c2] LibCURL v0.6.4
[76f85450] LibGit2
[8f399da3] Libdl
[37e2e46d] LinearAlgebra
[56ddb016] Logging
[d6f4376e] Markdown
[a63ad114] Mmap
[ca575930] NetworkOptions v1.2.0
[44cfe95a] Pkg v1.10.0
[de0858da] Printf
[3fa0cd96] REPL
[9a3f8284] Random
[ea8e919c] SHA v0.7.0
[9e88b42a] Serialization
[1a1011a3] SharedArrays
[6462fe0b] Sockets
[2f01184e] SparseArrays v1.10.0
[10745b16] Statistics v1.10.0
[4607b0f0] SuiteSparse
[fa267f1f] TOML v1.0.3
[a4e569a6] Tar v1.10.0
[8dfed614] Test
[cf7118a7] UUIDs
[4ec0a83e] Unicode
[e66e0078] CompilerSupportLibraries_jll v1.1.1+0
[deac9b47] LibCURL_jll v8.4.0+0
[e37daf67] LibGit2_jll v1.6.4+0
[29816b5a] LibSSH2_jll v1.11.0+1
[c8ffd9c3] MbedTLS_jll v2.28.2+1
[14a3606d] MozillaCACerts_jll v2023.1.10
[4536629a] OpenBLAS_jll v0.3.23+4
[05823500] OpenLibm_jll v0.8.1+2
[efcefdf7] PCRE2_jll v10.42.0+1
[bea87d4a] SuiteSparse_jll v7.2.1+1
[83775a58] Zlib_jll v1.2.13+1
[8e850b90] libblastrampoline_jll v5.11.0+0
[8e850ede] nghttp2_jll v1.52.0+1
[3f19e933] p7zip_jll v17.4.0+2
Info Packages marked with ⌃ and ⌅ have new versions available. Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading. To see why use `status --outdated -m`- Output of
versioninfo()
julia> versioninfo()
Julia Version 1.10.5
Commit 6f3fdf7b362 (2024-08-27 14:19 UTC)
Build Info:
Official https://julialang.org/ release
Platform Info:
OS: macOS (arm64-apple-darwin22.4.0)
CPU: 8 × Apple M1
WORD_SIZE: 64
LIBM: libopenlibm
LLVM: libLLVM-15.0.7 (ORCJIT, apple-m1)
Threads: 6 default, 0 interactive, 3 GC (on 4 virtual cores)
Environment:
JULIA_EDITOR = code
JULIA_NUM_THREADS = 6Additional context
See also on Discourse
The manual says
Note that if you want to use a higher order interface condition, this may not work if you have no simple condition of the form c1(t, 0.5) ~ c2(t, 0.5)I do not have that kind of conditions. However if I add a simple condition,
bcs with a simple conditionI still get the same error, so it is probably not the error cause, but the next problem.
ChrisRackauckas
Okay that’s an odd error 😅. Open an issue on that.