Graph and complexgraph results in following error #440
Description
Graph and complexgraph both are giving similar such error.
julia> Catalyst.Graph(rn)
Error showing value of type Graph:
ERROR: IOError: could not spawn `dot -Tsvg`: no such file or directory (ENOENT)
Stacktrace:
[1] _spawn_primitive(file::String, cmd::Cmd, stdio::Vector{Any})
@ Base ./process.jl:99
[2] #637
@ ./process.jl:112 [inlined]
[3] setup_stdios(f::Base.var"#637#638"{Cmd}, stdios::Vector{Any})
@ Base ./process.jl:196
[4] _spawn
@ ./process.jl:111 [inlined]
[5] open(cmds::Cmd, stdio::IOContext{IOBuffer}; write::Bool, read::Bool)
@ Base ./process.jl:374
[6] open(f::Catalyst.var"#1996#1999"{Graph}, cmds::Cmd, args::IOContext{IOBuffer}; kwargs::Base.Iterators.Pairs{Symbol, Bool, Tuple{Symbol}, NamedTuple{(:write,), Tuple{Bool}}})
@ Base ./process.jl:391
[7] run_graphviz(io::IOContext{IOBuffer}, graph::Graph; prog::Nothing, format::String)
@ Catalyst ~/.julia/packages/Catalyst/Iw1xh/src/graphs.jl:122
[8] show(io::IOContext{IOBuffer}, #unused#::MIME{Symbol("image/svg+xml")}, graph::Graph)
@ Catalyst ~/.julia/packages/Catalyst/Iw1xh/src/graphs.jl:134
[9] show(io::IOContext{IOBuffer}, m::String, x::Graph)
@ Base.Multimedia ./multimedia.jl:111
[10] displayinplotpane(x::Graph)
@ Atom ~/.julia/packages/Atom/bfwsW/src/display/showdisplay.jl:67
[11] display(d::Atom.JunoDisplay, x::Graph)
@ Atom ~/.julia/packages/Atom/bfwsW/src/display/showdisplay.jl:118
[12] display(x::Any)
@ Base.Multimedia ./multimedia.jl:328
[13] #invokelatest#2
@ ./essentials.jl:708 [inlined]
[14] invokelatest
@ ./essentials.jl:706 [inlined]
[15] print_response(errio::IO, response::Any, show_value::Bool, have_color::Bool, specialdisplay::Union{Nothing, AbstractDisplay})
@ REPL /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/REPL/src/REPL.jl:247
[16] (::REPL.var"#40#41"{REPL.LineEditREPL, Pair{Any, Bool}, Bool, Bool})(io::Any)
@ REPL /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/REPL/src/REPL.jl:231
[17] with_repl_linfo(f::Any, repl::REPL.LineEditREPL)
@ REPL /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/REPL/src/REPL.jl:462
[18] print_response(repl::REPL.AbstractREPL, response::Any, show_value::Bool, have_color::Bool)
@ REPL /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/REPL/src/REPL.jl:229
[19] (::REPL.var"#do_respond#61"{Bool, Bool, Atom.var"#246#247"{Module}, REPL.LineEditREPL, REPL.LineEdit.Prompt})(s::REPL.LineEdit.MIState, buf::Any, ok::Bool)
@ REPL /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/REPL/src/REPL.jl:798
[20] #invokelatest#2
@ ./essentials.jl:708 [inlined]
[21] invokelatest
@ ./essentials.jl:706 [inlined]
[22] run_interface(terminal::REPL.Terminals.TextTerminal, m::REPL.LineEdit.ModalInterface, s::REPL.LineEdit.MIState)
@ REPL.LineEdit /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/REPL/src/LineEdit.jl:2441
[23] run_frontend(repl::REPL.LineEditREPL, backend::REPL.REPLBackendRef)
@ REPL /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/REPL/src/REPL.jl:1126
[24] (::REPL.var"#44#49"{REPL.LineEditREPL, REPL.REPLBackendRef})()
@ REPL ./task.jl:411this is on julia 1.6.3, with
(@v1.6) pkg> st
Status `~/.julia/environments/v1.6/Project.toml`
[c52e3926] Atom v0.12.35
[6e4b80f9] BenchmarkTools v1.2.0
[052768ef] CUDA v3.5.0
[479239e8] Catalyst v10.0.0
[861a8166] Combinatorics v1.0.2
[2445eb08] DataDrivenDiffEq v0.6.6
[aae7a2af] DiffEqFlux v1.43.0
[c894b116] DiffEqJump v7.3.1
[0c46a032] DifferentialEquations v6.19.0
[587475ba] Flux v0.12.8
[e5e0dc1b] Juno v0.8.4
[093fc24a] LightGraphs v1.3.5
[961ee093] ModelingToolkit v6.7.1
[91a5bcdd] Plots v1.23.2
[1fd47b50] QuadGK v2.4.2
[b4db0fb7] ReactionNetworkImporters v0.11.2
[90137ffa] StaticArrays v1.2.13
[8dfed614] TestI did not have such problem with julia 1.6.2. anyone here has tried this with julia 1.6.3 ?