incremental compilation broken on Mac

[mrkite92]

Hi Celeste gurus,

Atom: 1.20.1 x64 Electron: 1.6.9 OS: Mac OS X 10.12.6

Stack trace on Atom while using command using Celeste:

Precompiling module Celeste. WARNING: eval from module Main to Model:
Expr(:curly, Expr(:., :Core, :Tuple)::Any, Expr(:., :Core, :Float64)::Any, Expr(:., :Core, :Float64)::Any)::Any incremental compilation may be broken for this module

ERROR: LoadError: LoadError: LoadError: TypeError: SArray: in S, expected S<:Tuple, got Tuple{Int64,Int64,Int64} Stacktrace: [1] include_from_node1(::String) at ./loading.jl:569 [2] include(::String) at ./sysimg.jl:14 [3] include_from_node1(::String) at ./loading.jl:569 [4] include(::String) at ./sysimg.jl:14 [5] include_from_node1(::String) at ./loading.jl:569 [6] include(::String) at ./sysimg.jl:14 [7] anonymous at ./:2 while loading /Users/marquett/.julia/v0.6/Celeste/src/bivariate_normals.jl, in expression starting on line 521 while loading /Users/marquett/.julia/v0.6/Celeste/src/Model.jl, in expression starting on line 54 while loading /Users/marquett/.julia/v0.6/Celeste/src/Celeste.jl, in expression starting on line 18

[giordano]

The "incremental compilation may be broken for this module" warning is already fixed on master, see #697. Instead, I have no idea what's causing the error.

[mrkite92]

Le 6 oct. 2017 à 15:07, Mosè Giordano notifications@github.com a écrit :

The "incremental compilation may be broken for this module" warning is already fixed on master, see #697 https://github.com/jeff-regier/Celeste.jl/issues/697. Instead, I have no idea what's causing the error.

OK, thanks for immediate answer. Latest master pulled, tests went smoothly until:

ti profile: prep: 7.983e-06 (7983) fork: 0.000137581 (387.659 - 339.201) user: 1.7804e-05 (217.781 - 27.2226) join: 9.35e-07 (4.334e-06 - 1.619e-06)

signal (11): Segmentation fault: 11 while loading /Users/marquett/.julia/v0.6/Celeste/test/test_infer.jl, in expression starting on line 9 Assertion failed: (uvhas_active_reqs(stream->loop)), function uvwrite_callbacks, file /Users/osx/buildbot/slave/package_osx10_9-x64/build/deps/srccache/libuv-52d72a52cc7ccd570929990f010ed16e2ec604c8/src/unix/stream.c, line 956.

signal (6): Abort trap: 6 while loading /Users/marquett/.julia/v0.6/Celeste/test/test_infer.jl, in expression starting on line 9 __pthread_kill at /usr/lib/system/libsystem_kernel.dylib (unknown line) Allocations: 763281431 (Pool: 763269202; Big: 12229); GC: 1889 ===============================[ ERROR: Celeste ]===============================

failed process: Process(/Applications/Julia-0.6.app/Contents/Resources/julia/bin/julia -Ccore2 -J/Applications/Julia-0.6.app/Contents/Resources/julia/lib/julia/sys.dylib --compile=yes --depwarn=yes --check-bounds=yes --code-coverage=none --color=no --compilecache=yes /Users/marquett/.julia/v0.6/Celeste/test/runtests.jl, ProcessSignaled(6)) [0]

================================================================================ Base.Pkg.Entry.PkgTestError("Celeste had test errors")

The directory /Users/osx/ (bold above) seems suspect to me…

Cheers, JB

[kbarbary]

The directory /Users/osx/... is just a directory on the machine where libuv was compiled. If you had compiled Julia from source, you'd see a directory on your machine.

Do you know if you're running with julia threads? This seems similar to #720.

[jeff-regier]

I tried it on my mac laptop. Installation seems to go smoothly.

Jeffreys-MacBook-Pro:Celeste jeff$ rm -rf ~/.julia
Jeffreys-MacBook-Pro:Celeste jeff$ julia
               _
   _       _ _(_)_     |  A fresh approach to technical computing
  (_)     | (_) (_)    |  Documentation: https://docs.julialang.org
   _ _   _| |_  __ _   |  Type "?help" for help.
  | | | | | | |/ _` |  |
  | | |_| | | | (_| |  |  Version 0.6.0 (2017-06-19 13:05 UTC)
 _/ |\__'_|_|_|\__'_|  |  Official http://julialang.org/ release
|__/                   |  x86_64-apple-darwin13.4.0

julia> Pkg.clone("https://github.com/jeff-regier/Celeste.jl.git")
INFO: Initializing package repository /Users/jeff/.julia/v0.6
INFO: Cloning METADATA from https://github.com/JuliaLang/METADATA.jl
INFO: Cloning Celeste from https://github.com/jeff-regier/Celeste.jl.git
INFO: Computing changes...
INFO: Cloning cache of AxisAlgorithms from https://github.com/timholy/AxisAlgorithms.jl.git
INFO: Cloning cache of BinDeps from https://github.com/JuliaLang/BinDeps.jl.git
...
ar: creating archive libwcs-PIC.a
INFO: Package database updated

julia> Pkg.build("Celeste")
INFO: Building SpecialFunctions
INFO: Building Rmath
...
INFO: Changing Directory to /Users/jeff/.julia/v0.6/Celeste/deps/src/sep-1.0.2

julia> using Celeste
...

I'll try the unit tests shortly, once nersc.gov is back up....

[jeff-regier]

I don't get any error with the sequence of commands below on a Macbook. I'm using Julia 0.6.1 here---that could have helped. Please reopen the issue if the commands below, with Julia 0.6.1, still lead to an error message.

$ rm -rf ~/.julia
$ julia 
               _
   _       _ _(_)_     |  A fresh approach to technical computing
  (_)     | (_) (_)    |  Documentation: https://docs.julialang.org
   _ _   _| |_  __ _   |  Type "?help" for help.
  | | | | | | |/ _` |  |
  | | |_| | | | (_| |  |  Version 0.6.1 (2017-10-24 22:15 UTC)
 _/ |\__'_|_|_|\__'_|  |  Official http://julialang.org/ release
|__/                   |  x86_64-apple-darwin14.5.0

julia> Pkg.clone("https://github.com/jeff-regier/Celeste.jl.git")
INFO: Initializing package repository /Users/jeff/.julia/v0.6
INFO: Cloning METADATA from https://github.com/JuliaLang/METADATA.jl
INFO: Cloning Celeste from https://github.com/jeff-regier/Celeste.jl.git
INFO: Computing changes...
INFO: Cloning cache of AxisAlgorithms from https://github.com/timholy/AxisAlgorithms.jl.git
INFO: Cloning cache of BinDeps from https://github.com/JuliaLang/BinDeps.jl.git
...
julia> Pkg.build("Celeste")
INFO: Building SpecialFunctions
INFO: Building Rmath
INFO: Building Homebrew
Already up-to-date.
INFO: Building Blosc
...
julia> Pkg.test("Celeste")
INFO: Testing Celeste
curl --create-dirs -o 3900/6/269/fpM-003900-u6-0269.fit.gz https://data.sdss.org/sas/dr12/boss/photo/redux/301/3900/objcs/6/fpM-003900-u6-0269.fit.gz
...
Test Summary:                          |
whole accuracy benchmark pipeline runs | No tests
Test Summary:            | Pass  Total
flux <-> mags conversion |    4      4
Test Summary:      | Pass  Total
...