Last updated on 2025-03-09 12:51:37 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.1.4 | 3.39 | 37.62 | 41.01 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.1.4 | 2.22 | 28.35 | 30.57 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.1.4 | 76.19 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 1.1.4 | 87.45 | OK | |||
| r-devel-macos-arm64 | 1.1.4 | 30.00 | OK | |||
| r-devel-macos-x86_64 | 1.1.4 | 66.00 | OK | |||
| r-devel-windows-x86_64 | 1.1.4 | 4.00 | 122.00 | 126.00 | ERROR | |
| r-patched-linux-x86_64 | 1.1.4 | 3.71 | 35.21 | 38.92 | OK | |
| r-release-linux-x86_64 | 1.1.4 | 3.28 | 34.49 | 37.77 | OK | |
| r-release-macos-arm64 | 1.1.4 | 46.00 | OK | |||
| r-release-macos-x86_64 | 1.1.4 | 104.00 | OK | |||
| r-release-windows-x86_64 | 1.1.4 | 5.00 | 108.00 | 113.00 | ERROR | |
| r-oldrel-macos-arm64 | 1.1.4 | OK | ||||
| r-oldrel-macos-x86_64 | 1.1.4 | 57.00 | OK | |||
| r-oldrel-windows-x86_64 | 1.1.4 | 6.00 | 137.00 | 143.00 | ERROR |
Version: 1.1.4
Check: tests
Result: ERROR
Running 'testthat.R' [44s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/tests.html
> # * https://testthat.r-lib.org/reference/test_package.html#special-files
>
> library(testthat)
> library(jlmerclusterperm)
>
> test_check("jlmerclusterperm")
Julia Version 1.11.3
Commit d63adeda50 (2025-01-21 19:42 UTC)
Build Info:
Official https://julialang.org/ release
Platform Info:
OS: Windows (x86_64-w64-mingw32)
CPU: 48 × AMD EPYC 7443 24-Core Processor
WORD_SIZE: 64
LLVM: libLLVM-16.0.6 (ORCJIT, znver3)
Threads: 1 default, 0 interactive, 1 GC (on 96 virtual cores)
nothing
ℹ Starting Julia with 2 threads
✔ Starting Julia with 2 threads [7.7s]
ℹ Activating package environment
✖ Activating package environment [9.3s]
i Starting Julia with 2 threads
v Starting Julia with 2 threads [7.7s]
i Activating package environment
x Activating package environment [2.3s]
[ FAIL 5 | WARN 0 | SKIP 7 | PASS 5 ]
══ Skipped tests (7) ═══════════════════════════════════════════════════════════
• On CRAN (7): 'test-jlmer.R:1:1', 'test-julia_rng.R:1:1',
'test-permute.R:1:1', 'test-progress.R:1:1', 'test-singularity.R:1:1',
'test-threshold_search.R:1:1', 'test-timewise_statistics.R:1:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-aaa-a-logging.R:7:1'): (code run outside of `test_that()`) ─────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: `Distributions=31c24e10-a181-5473-b8eb-7969acd0382f` depends on `Test=8dfed614-e22c-5e08-85e1-65c5234f0b40`, but no such entry exists in the manifest.
Stacktrace:
[1] pkgerror(::String, ::Vararg{String})
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:68
[2] validate_manifest(julia_version::VersionNumber, manifest_format::VersionNumber, stage1::Dict{String, Vector{Pkg.Types.Stage1}}, other::Dict{String, Any})
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:135
[3] Pkg.Types.Manifest(raw::Dict{String, Any}, f_or_io::String)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:203
[4] read_manifest(f_or_io::String)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:226
[5] Pkg.Types.EnvCache(env::Nothing)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:373
[6] EnvCache
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:351 [inlined]
[7] #show_update#170
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Operations.jl:2549 [inlined]
[8] develop(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}, new_git::Set{Base.UUID}; preserve::Pkg.Types.PreserveLevel, platform::Base.BinaryPlatforms.Platform)
@ Pkg.Operations C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Operations.jl:1495
[9] develop
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Operations.jl:1480 [inlined]
[10] develop(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; shared::Bool, preserve::Pkg.Types.PreserveLevel, platform::Base.BinaryPlatforms.Platform, kwargs::@Kwargs{io::Base.DevNull})
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:258
[11] develop(pkgs::Vector{Pkg.Types.PackageSpec}; io::Base.DevNull, kwargs::@Kwargs{})
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:159
[12] develop
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:148 [inlined]
[13] develop
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:146 [inlined]
[14] develop(; name::Nothing, uuid::Nothing, version::Nothing, url::Nothing, rev::Nothing, path::String, mode::Pkg.Types.PackageMode, subdir::Nothing, kwargs::@Kwargs{io::Base.DevNull})
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:176
[15] top-level scope
@ string:1
[16] eval
@ .\boot.jl:430 [inlined]
[17] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base .\loading.jl:2734
[18] include_string (repeats 2 times)
@ .\loading.jl:2744 [inlined]
[19] mainevalcmd(str::String)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\evaluating.jl:150
[20] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::@Kwargs{})
@ Base .\essentials.jl:1055
[21] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base .\essentials.jl:1052
[22] evaluate!
@ D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\evaluating.jl:67 [inlined]
[23] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\evaluating.jl:55
[24] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\communicating.jl:185
[25] (::Main.RConnector.var"#3#5")()
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\communicating.jl:145
in expression starting at string:1
Backtrace:
▆
1. └─jlmerclusterperm:::set_projenv(cache_dir = tempdir(), verbose = TRUE) at test-aaa-a-logging.R:7:1
2. └─JuliaConnectoR::juliaEval("Pkg.develop(path = \"JlmerClusterPerm\", io = devnull)")
3. └─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr)
4. ├─base::tryCatch(...)
5. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
6. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
7. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
8. └─JuliaConnectoR:::doCallJulia(funName, jlargs)
9. └─JuliaConnectoR:::handleCallbacksAndOutput()
── Error ('test-aaa-b-setup.R:7:3'): Setup with seed works (use 2 for testing) ──
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: `Distributions=31c24e10-a181-5473-b8eb-7969acd0382f` depends on `Test=8dfed614-e22c-5e08-85e1-65c5234f0b40`, but no such entry exists in the manifest.
Stacktrace:
[1] pkgerror(::String, ::Vararg{String})
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:68
[2] validate_manifest(julia_version::VersionNumber, manifest_format::VersionNumber, stage1::Dict{String, Vector{Pkg.Types.Stage1}}, other::Dict{String, Any})
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:135
[3] Pkg.Types.Manifest(raw::Dict{String, Any}, f_or_io::String)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:203
[4] read_manifest(f_or_io::String)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:226
[5] Pkg.Types.EnvCache(env::Nothing)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:373
[6] EnvCache
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:351 [inlined]
[7] add_snapshot_to_undo(env::Nothing)
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:1496
[8] add_snapshot_to_undo
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:1492 [inlined]
[9] activate(path::String; shared::Bool, temp::Bool, io::Base.DevNull)
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:1372
[10] top-level scope
@ string:1
[11] eval
@ .\boot.jl:430 [inlined]
[12] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base .\loading.jl:2734
[13] include_string (repeats 2 times)
@ .\loading.jl:2744 [inlined]
[14] mainevalcmd(str::String)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\evaluating.jl:150
[15] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::@Kwargs{})
@ Base .\essentials.jl:1055
[16] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base .\essentials.jl:1052
[17] evaluate!
@ D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\evaluating.jl:67 [inlined]
[18] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\evaluating.jl:55
[19] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\communicating.jl:185
[20] (::Main.RConnector.var"#3#5")()
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\communicating.jl:145
in expression starting at string:1
Backtrace:
▆
1. ├─testthat::expect_true(...) at test-aaa-b-setup.R:7:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. └─jlmerclusterperm::jlmerclusterperm_setup(...)
5. └─jlmerclusterperm:::setup_with_progress(...)
6. └─jlmerclusterperm:::set_projenv(cache_dir = cache_dir, verbose = verbose)
7. └─JuliaConnectoR::juliaEval("Pkg.activate(\".\", io = devnull)")
8. └─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr)
9. ├─base::tryCatch(...)
10. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
11. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
12. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
13. └─JuliaConnectoR:::doCallJulia(funName, jlargs)
14. └─JuliaConnectoR:::handleCallbacksAndOutput()
── Failure ('test-aaa-b-setup.R:13:3'): RNG initializes to seed=1 counter=0 ────
get_rng_seed() (`actual`) not equal to 1 (`expected`).
`actual` is NULL
`expected` is a double vector (1)
── Error ('test-aaa-b-setup.R:14:3'): RNG initializes to seed=1 counter=0 ──────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: UndefVarError: `rng` not defined in `Main`
Suggestion: check for spelling errors or missing imports.
Stacktrace:
[1] top-level scope
@ string:1
[2] eval
@ .\boot.jl:430 [inlined]
[3] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base .\loading.jl:2734
[4] include_string (repeats 2 times)
@ .\loading.jl:2744 [inlined]
[5] mainevalcmd(str::String)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\evaluating.jl:150
[6] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::@Kwargs{})
@ Base .\essentials.jl:1055
[7] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base .\essentials.jl:1052
[8] evaluate!
@ D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\evaluating.jl:67 [inlined]
[9] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\evaluating.jl:55
[10] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\communicating.jl:185
[11] (::Main.RConnector.var"#3#5")()
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\communicating.jl:145
in expression starting at string:1
Backtrace:
▆
1. ├─testthat::expect_equal(get_rng_state(), 0) at test-aaa-b-setup.R:14:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. └─jlmerclusterperm::get_rng_state()
5. └─JuliaConnectoR::juliaEval("Int(rng.ctr1)")
6. └─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr)
7. ├─base::tryCatch(...)
8. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
9. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
10. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
11. └─JuliaConnectoR:::doCallJulia(funName, jlargs)
12. └─JuliaConnectoR:::handleCallbacksAndOutput()
── Error ('test-clusterpermute.R:3:1'): (code run outside of `test_that()`) ────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: `Distributions=31c24e10-a181-5473-b8eb-7969acd0382f` depends on `Test=8dfed614-e22c-5e08-85e1-65c5234f0b40`, but no such entry exists in the manifest.
Stacktrace:
[1] pkgerror(::String, ::Vararg{String})
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:68
[2] validate_manifest(julia_version::VersionNumber, manifest_format::VersionNumber, stage1::Dict{String, Vector{Pkg.Types.Stage1}}, other::Dict{String, Any})
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:135
[3] Pkg.Types.Manifest(raw::Dict{String, Any}, f_or_io::String)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:203
[4] read_manifest(f_or_io::String)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:226
[5] Pkg.Types.EnvCache(env::Nothing)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:373
[6] EnvCache
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:351 [inlined]
[7] add_snapshot_to_undo(env::Nothing)
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:1496
[8] add_snapshot_to_undo
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:1492 [inlined]
[9] activate(path::String; shared::Bool, temp::Bool, io::Base.DevNull)
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:1372
[10] top-level scope
@ string:1
[11] eval
@ .\boot.jl:430 [inlined]
[12] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base .\loading.jl:2734
[13] include_string (repeats 2 times)
@ .\loading.jl:2744 [inlined]
[14] mainevalcmd(str::String)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\evaluating.jl:150
[15] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::@Kwargs{})
@ Base .\essentials.jl:1055
[16] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base .\essentials.jl:1052
[17] evaluate!
@ D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\evaluating.jl:67 [inlined]
[18] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\evaluating.jl:55
[19] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\communicating.jl:185
[20] (::Main.RConnector.var"#3#5")()
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.5\JuliaConnectoR\Julia\communicating.jl:145
in expression starting at string:1
Backtrace:
▆
1. └─jlmerclusterperm::jlmerclusterperm_setup(...) at test-clusterpermute.R:3:1
2. └─jlmerclusterperm:::setup_with_progress(...)
3. └─jlmerclusterperm:::set_projenv(cache_dir = cache_dir, verbose = verbose)
4. └─JuliaConnectoR::juliaEval("Pkg.activate(\".\", io = devnull)")
5. └─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr)
6. ├─base::tryCatch(...)
7. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
8. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
9. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
10. └─JuliaConnectoR:::doCallJulia(funName, jlargs)
11. └─JuliaConnectoR:::handleCallbacksAndOutput()
[ FAIL 5 | WARN 0 | SKIP 7 | PASS 5 ]
Error: Test failures
Execution halted
Flavor: r-devel-windows-x86_64
Version: 1.1.4
Check: tests
Result: ERROR
Running 'testthat.R' [45s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/tests.html
> # * https://testthat.r-lib.org/reference/test_package.html#special-files
>
> library(testthat)
> library(jlmerclusterperm)
>
> test_check("jlmerclusterperm")
Julia Version 1.11.3
Commit d63adeda50 (2025-01-21 19:42 UTC)
Build Info:
Official https://julialang.org/ release
Platform Info:
OS: Windows (x86_64-w64-mingw32)
CPU: 48 × AMD EPYC 7443 24-Core Processor
WORD_SIZE: 64
LLVM: libLLVM-16.0.6 (ORCJIT, znver3)
Threads: 1 default, 0 interactive, 1 GC (on 96 virtual cores)
nothing
ℹ Starting Julia with 2 threads
✔ Starting Julia with 2 threads [7.7s]
ℹ Activating package environment
✖ Activating package environment [9s]
i Starting Julia with 2 threads
v Starting Julia with 2 threads [7.6s]
i Activating package environment
x Activating package environment [2.4s]
[ FAIL 5 | WARN 0 | SKIP 7 | PASS 5 ]
══ Skipped tests (7) ═══════════════════════════════════════════════════════════
• On CRAN (7): 'test-jlmer.R:1:1', 'test-julia_rng.R:1:1',
'test-permute.R:1:1', 'test-progress.R:1:1', 'test-singularity.R:1:1',
'test-threshold_search.R:1:1', 'test-timewise_statistics.R:1:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-aaa-a-logging.R:7:1'): (code run outside of `test_that()`) ─────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: `Distributions=31c24e10-a181-5473-b8eb-7969acd0382f` depends on `Test=8dfed614-e22c-5e08-85e1-65c5234f0b40`, but no such entry exists in the manifest.
Stacktrace:
[1] pkgerror(::String, ::Vararg{String})
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:68
[2] validate_manifest(julia_version::VersionNumber, manifest_format::VersionNumber, stage1::Dict{String, Vector{Pkg.Types.Stage1}}, other::Dict{String, Any})
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:135
[3] Pkg.Types.Manifest(raw::Dict{String, Any}, f_or_io::String)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:203
[4] read_manifest(f_or_io::String)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:226
[5] Pkg.Types.EnvCache(env::Nothing)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:373
[6] EnvCache
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:351 [inlined]
[7] #show_update#170
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Operations.jl:2549 [inlined]
[8] develop(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}, new_git::Set{Base.UUID}; preserve::Pkg.Types.PreserveLevel, platform::Base.BinaryPlatforms.Platform)
@ Pkg.Operations C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Operations.jl:1495
[9] develop
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Operations.jl:1480 [inlined]
[10] develop(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; shared::Bool, preserve::Pkg.Types.PreserveLevel, platform::Base.BinaryPlatforms.Platform, kwargs::@Kwargs{io::Base.DevNull})
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:258
[11] develop(pkgs::Vector{Pkg.Types.PackageSpec}; io::Base.DevNull, kwargs::@Kwargs{})
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:159
[12] develop
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:148 [inlined]
[13] develop
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:146 [inlined]
[14] develop(; name::Nothing, uuid::Nothing, version::Nothing, url::Nothing, rev::Nothing, path::String, mode::Pkg.Types.PackageMode, subdir::Nothing, kwargs::@Kwargs{io::Base.DevNull})
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:176
[15] top-level scope
@ string:1
[16] eval
@ .\boot.jl:430 [inlined]
[17] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base .\loading.jl:2734
[18] include_string (repeats 2 times)
@ .\loading.jl:2744 [inlined]
[19] mainevalcmd(str::String)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\evaluating.jl:150
[20] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::@Kwargs{})
@ Base .\essentials.jl:1055
[21] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base .\essentials.jl:1052
[22] evaluate!
@ D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\evaluating.jl:67 [inlined]
[23] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\evaluating.jl:55
[24] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\communicating.jl:185
[25] (::Main.RConnector.var"#3#5")()
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\communicating.jl:145
in expression starting at string:1
Backtrace:
▆
1. └─jlmerclusterperm:::set_projenv(cache_dir = tempdir(), verbose = TRUE) at test-aaa-a-logging.R:7:1
2. └─JuliaConnectoR::juliaEval("Pkg.develop(path = \"JlmerClusterPerm\", io = devnull)")
3. └─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr)
4. ├─base::tryCatch(...)
5. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
6. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
7. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
8. └─JuliaConnectoR:::doCallJulia(funName, jlargs)
9. └─JuliaConnectoR:::handleCallbacksAndOutput()
── Error ('test-aaa-b-setup.R:7:3'): Setup with seed works (use 2 for testing) ──
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: `Distributions=31c24e10-a181-5473-b8eb-7969acd0382f` depends on `Test=8dfed614-e22c-5e08-85e1-65c5234f0b40`, but no such entry exists in the manifest.
Stacktrace:
[1] pkgerror(::String, ::Vararg{String})
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:68
[2] validate_manifest(julia_version::VersionNumber, manifest_format::VersionNumber, stage1::Dict{String, Vector{Pkg.Types.Stage1}}, other::Dict{String, Any})
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:135
[3] Pkg.Types.Manifest(raw::Dict{String, Any}, f_or_io::String)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:203
[4] read_manifest(f_or_io::String)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:226
[5] Pkg.Types.EnvCache(env::Nothing)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:373
[6] EnvCache
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:351 [inlined]
[7] add_snapshot_to_undo(env::Nothing)
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:1496
[8] add_snapshot_to_undo
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:1492 [inlined]
[9] activate(path::String; shared::Bool, temp::Bool, io::Base.DevNull)
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:1372
[10] top-level scope
@ string:1
[11] eval
@ .\boot.jl:430 [inlined]
[12] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base .\loading.jl:2734
[13] include_string (repeats 2 times)
@ .\loading.jl:2744 [inlined]
[14] mainevalcmd(str::String)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\evaluating.jl:150
[15] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::@Kwargs{})
@ Base .\essentials.jl:1055
[16] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base .\essentials.jl:1052
[17] evaluate!
@ D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\evaluating.jl:67 [inlined]
[18] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\evaluating.jl:55
[19] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\communicating.jl:185
[20] (::Main.RConnector.var"#3#5")()
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\communicating.jl:145
in expression starting at string:1
Backtrace:
▆
1. ├─testthat::expect_true(...) at test-aaa-b-setup.R:7:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. └─jlmerclusterperm::jlmerclusterperm_setup(...)
5. └─jlmerclusterperm:::setup_with_progress(...)
6. └─jlmerclusterperm:::set_projenv(cache_dir = cache_dir, verbose = verbose)
7. └─JuliaConnectoR::juliaEval("Pkg.activate(\".\", io = devnull)")
8. └─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr)
9. ├─base::tryCatch(...)
10. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
11. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
12. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
13. └─JuliaConnectoR:::doCallJulia(funName, jlargs)
14. └─JuliaConnectoR:::handleCallbacksAndOutput()
── Failure ('test-aaa-b-setup.R:13:3'): RNG initializes to seed=1 counter=0 ────
get_rng_seed() (`actual`) not equal to 1 (`expected`).
`actual` is NULL
`expected` is a double vector (1)
── Error ('test-aaa-b-setup.R:14:3'): RNG initializes to seed=1 counter=0 ──────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: UndefVarError: `rng` not defined in `Main`
Suggestion: check for spelling errors or missing imports.
Stacktrace:
[1] top-level scope
@ string:1
[2] eval
@ .\boot.jl:430 [inlined]
[3] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base .\loading.jl:2734
[4] include_string (repeats 2 times)
@ .\loading.jl:2744 [inlined]
[5] mainevalcmd(str::String)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\evaluating.jl:150
[6] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::@Kwargs{})
@ Base .\essentials.jl:1055
[7] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base .\essentials.jl:1052
[8] evaluate!
@ D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\evaluating.jl:67 [inlined]
[9] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\evaluating.jl:55
[10] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\communicating.jl:185
[11] (::Main.RConnector.var"#3#5")()
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\communicating.jl:145
in expression starting at string:1
Backtrace:
▆
1. ├─testthat::expect_equal(get_rng_state(), 0) at test-aaa-b-setup.R:14:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. └─jlmerclusterperm::get_rng_state()
5. └─JuliaConnectoR::juliaEval("Int(rng.ctr1)")
6. └─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr)
7. ├─base::tryCatch(...)
8. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
9. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
10. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
11. └─JuliaConnectoR:::doCallJulia(funName, jlargs)
12. └─JuliaConnectoR:::handleCallbacksAndOutput()
── Error ('test-clusterpermute.R:3:1'): (code run outside of `test_that()`) ────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: `Distributions=31c24e10-a181-5473-b8eb-7969acd0382f` depends on `Test=8dfed614-e22c-5e08-85e1-65c5234f0b40`, but no such entry exists in the manifest.
Stacktrace:
[1] pkgerror(::String, ::Vararg{String})
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:68
[2] validate_manifest(julia_version::VersionNumber, manifest_format::VersionNumber, stage1::Dict{String, Vector{Pkg.Types.Stage1}}, other::Dict{String, Any})
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:135
[3] Pkg.Types.Manifest(raw::Dict{String, Any}, f_or_io::String)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:203
[4] read_manifest(f_or_io::String)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:226
[5] Pkg.Types.EnvCache(env::Nothing)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:373
[6] EnvCache
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:351 [inlined]
[7] add_snapshot_to_undo(env::Nothing)
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:1496
[8] add_snapshot_to_undo
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:1492 [inlined]
[9] activate(path::String; shared::Bool, temp::Bool, io::Base.DevNull)
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:1372
[10] top-level scope
@ string:1
[11] eval
@ .\boot.jl:430 [inlined]
[12] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base .\loading.jl:2734
[13] include_string (repeats 2 times)
@ .\loading.jl:2744 [inlined]
[14] mainevalcmd(str::String)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\evaluating.jl:150
[15] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::@Kwargs{})
@ Base .\essentials.jl:1055
[16] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base .\essentials.jl:1052
[17] evaluate!
@ D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\evaluating.jl:67 [inlined]
[18] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\evaluating.jl:55
[19] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\communicating.jl:185
[20] (::Main.RConnector.var"#3#5")()
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.4\JuliaConnectoR\Julia\communicating.jl:145
in expression starting at string:1
Backtrace:
▆
1. └─jlmerclusterperm::jlmerclusterperm_setup(...) at test-clusterpermute.R:3:1
2. └─jlmerclusterperm:::setup_with_progress(...)
3. └─jlmerclusterperm:::set_projenv(cache_dir = cache_dir, verbose = verbose)
4. └─JuliaConnectoR::juliaEval("Pkg.activate(\".\", io = devnull)")
5. └─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr)
6. ├─base::tryCatch(...)
7. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
8. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
9. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
10. └─JuliaConnectoR:::doCallJulia(funName, jlargs)
11. └─JuliaConnectoR:::handleCallbacksAndOutput()
[ FAIL 5 | WARN 0 | SKIP 7 | PASS 5 ]
Error: Test failures
Execution halted
Flavor: r-release-windows-x86_64
Version: 1.1.4
Check: tests
Result: ERROR
Running 'testthat.R' [56s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/tests.html
> # * https://testthat.r-lib.org/reference/test_package.html#special-files
>
> library(testthat)
> library(jlmerclusterperm)
>
> test_check("jlmerclusterperm")
Julia Version 1.11.3
Commit d63adeda50 (2025-01-21 19:42 UTC)
Build Info:
Official https://julialang.org/ release
Platform Info:
OS: Windows (x86_64-w64-mingw32)
CPU: 56 × Intel(R) Xeon(R) CPU E5-2680 v4 @ 2.40GHz
WORD_SIZE: 64
LLVM: libLLVM-16.0.6 (ORCJIT, broadwell)
Threads: 1 default, 0 interactive, 1 GC (on 56 virtual cores)
nothing
ℹ Starting Julia with 2 threads
✔ Starting Julia with 2 threads [9.9s]
ℹ Activating package environment
✖ Activating package environment [11.1s]
i Starting Julia with 2 threads
v Starting Julia with 2 threads [9.6s]
i Activating package environment
x Activating package environment [2.8s]
[ FAIL 5 | WARN 0 | SKIP 7 | PASS 5 ]
══ Skipped tests (7) ═══════════════════════════════════════════════════════════
• On CRAN (7): 'test-jlmer.R:1:1', 'test-julia_rng.R:1:1',
'test-permute.R:1:1', 'test-progress.R:1:1', 'test-singularity.R:1:1',
'test-threshold_search.R:1:1', 'test-timewise_statistics.R:1:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-aaa-a-logging.R:7:1'): (code run outside of `test_that()`) ─────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: `Distributions=31c24e10-a181-5473-b8eb-7969acd0382f` depends on `Test=8dfed614-e22c-5e08-85e1-65c5234f0b40`, but no such entry exists in the manifest.
Stacktrace:
[1] pkgerror(::String, ::Vararg{String})
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:68
[2] validate_manifest(julia_version::VersionNumber, manifest_format::VersionNumber, stage1::Dict{String, Vector{Pkg.Types.Stage1}}, other::Dict{String, Any})
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:135
[3] Pkg.Types.Manifest(raw::Dict{String, Any}, f_or_io::String)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:203
[4] read_manifest(f_or_io::String)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:226
[5] Pkg.Types.EnvCache(env::Nothing)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:373
[6] EnvCache
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:351 [inlined]
[7] #show_update#170
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Operations.jl:2549 [inlined]
[8] develop(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}, new_git::Set{Base.UUID}; preserve::Pkg.Types.PreserveLevel, platform::Base.BinaryPlatforms.Platform)
@ Pkg.Operations C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Operations.jl:1495
[9] develop
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Operations.jl:1480 [inlined]
[10] develop(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; shared::Bool, preserve::Pkg.Types.PreserveLevel, platform::Base.BinaryPlatforms.Platform, kwargs::@Kwargs{io::Base.DevNull})
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:258
[11] develop(pkgs::Vector{Pkg.Types.PackageSpec}; io::Base.DevNull, kwargs::@Kwargs{})
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:159
[12] develop
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:148 [inlined]
[13] develop
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:146 [inlined]
[14] develop(; name::Nothing, uuid::Nothing, version::Nothing, url::Nothing, rev::Nothing, path::String, mode::Pkg.Types.PackageMode, subdir::Nothing, kwargs::@Kwargs{io::Base.DevNull})
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:176
[15] top-level scope
@ string:1
[16] eval
@ .\boot.jl:430 [inlined]
[17] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base .\loading.jl:2734
[18] include_string (repeats 2 times)
@ .\loading.jl:2744 [inlined]
[19] mainevalcmd(str::String)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\evaluating.jl:150
[20] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::@Kwargs{})
@ Base .\essentials.jl:1055
[21] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base .\essentials.jl:1052
[22] evaluate!
@ D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\evaluating.jl:67 [inlined]
[23] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\evaluating.jl:55
[24] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\communicating.jl:185
[25] (::Main.RConnector.var"#3#5")()
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\communicating.jl:145
in expression starting at string:1
Backtrace:
▆
1. └─jlmerclusterperm:::set_projenv(cache_dir = tempdir(), verbose = TRUE) at test-aaa-a-logging.R:7:1
2. └─JuliaConnectoR::juliaEval("Pkg.develop(path = \"JlmerClusterPerm\", io = devnull)")
3. └─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr)
4. ├─base::tryCatch(...)
5. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
6. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
7. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
8. └─JuliaConnectoR:::doCallJulia(funName, jlargs)
9. └─JuliaConnectoR:::handleCallbacksAndOutput()
── Error ('test-aaa-b-setup.R:7:3'): Setup with seed works (use 2 for testing) ──
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: `Distributions=31c24e10-a181-5473-b8eb-7969acd0382f` depends on `Test=8dfed614-e22c-5e08-85e1-65c5234f0b40`, but no such entry exists in the manifest.
Stacktrace:
[1] pkgerror(::String, ::Vararg{String})
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:68
[2] validate_manifest(julia_version::VersionNumber, manifest_format::VersionNumber, stage1::Dict{String, Vector{Pkg.Types.Stage1}}, other::Dict{String, Any})
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:135
[3] Pkg.Types.Manifest(raw::Dict{String, Any}, f_or_io::String)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:203
[4] read_manifest(f_or_io::String)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:226
[5] Pkg.Types.EnvCache(env::Nothing)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:373
[6] EnvCache
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:351 [inlined]
[7] add_snapshot_to_undo(env::Nothing)
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:1496
[8] add_snapshot_to_undo
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:1492 [inlined]
[9] activate(path::String; shared::Bool, temp::Bool, io::Base.DevNull)
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:1372
[10] top-level scope
@ string:1
[11] eval
@ .\boot.jl:430 [inlined]
[12] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base .\loading.jl:2734
[13] include_string (repeats 2 times)
@ .\loading.jl:2744 [inlined]
[14] mainevalcmd(str::String)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\evaluating.jl:150
[15] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::@Kwargs{})
@ Base .\essentials.jl:1055
[16] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base .\essentials.jl:1052
[17] evaluate!
@ D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\evaluating.jl:67 [inlined]
[18] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\evaluating.jl:55
[19] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\communicating.jl:185
[20] (::Main.RConnector.var"#3#5")()
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\communicating.jl:145
in expression starting at string:1
Backtrace:
▆
1. ├─testthat::expect_true(...) at test-aaa-b-setup.R:7:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. └─jlmerclusterperm::jlmerclusterperm_setup(...)
5. └─jlmerclusterperm:::setup_with_progress(...)
6. └─jlmerclusterperm:::set_projenv(cache_dir = cache_dir, verbose = verbose)
7. └─JuliaConnectoR::juliaEval("Pkg.activate(\".\", io = devnull)")
8. └─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr)
9. ├─base::tryCatch(...)
10. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
11. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
12. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
13. └─JuliaConnectoR:::doCallJulia(funName, jlargs)
14. └─JuliaConnectoR:::handleCallbacksAndOutput()
── Failure ('test-aaa-b-setup.R:13:3'): RNG initializes to seed=1 counter=0 ────
get_rng_seed() (`actual`) not equal to 1 (`expected`).
`actual` is NULL
`expected` is a double vector (1)
── Error ('test-aaa-b-setup.R:14:3'): RNG initializes to seed=1 counter=0 ──────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: UndefVarError: `rng` not defined in `Main`
Suggestion: check for spelling errors or missing imports.
Stacktrace:
[1] top-level scope
@ string:1
[2] eval
@ .\boot.jl:430 [inlined]
[3] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base .\loading.jl:2734
[4] include_string (repeats 2 times)
@ .\loading.jl:2744 [inlined]
[5] mainevalcmd(str::String)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\evaluating.jl:150
[6] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::@Kwargs{})
@ Base .\essentials.jl:1055
[7] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base .\essentials.jl:1052
[8] evaluate!
@ D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\evaluating.jl:67 [inlined]
[9] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\evaluating.jl:55
[10] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\communicating.jl:185
[11] (::Main.RConnector.var"#3#5")()
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\communicating.jl:145
in expression starting at string:1
Backtrace:
▆
1. ├─testthat::expect_equal(get_rng_state(), 0) at test-aaa-b-setup.R:14:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. └─jlmerclusterperm::get_rng_state()
5. └─JuliaConnectoR::juliaEval("Int(rng.ctr1)")
6. └─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr)
7. ├─base::tryCatch(...)
8. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
9. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
10. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
11. └─JuliaConnectoR:::doCallJulia(funName, jlargs)
12. └─JuliaConnectoR:::handleCallbacksAndOutput()
── Error ('test-clusterpermute.R:3:1'): (code run outside of `test_that()`) ────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: `Distributions=31c24e10-a181-5473-b8eb-7969acd0382f` depends on `Test=8dfed614-e22c-5e08-85e1-65c5234f0b40`, but no such entry exists in the manifest.
Stacktrace:
[1] pkgerror(::String, ::Vararg{String})
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:68
[2] validate_manifest(julia_version::VersionNumber, manifest_format::VersionNumber, stage1::Dict{String, Vector{Pkg.Types.Stage1}}, other::Dict{String, Any})
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:135
[3] Pkg.Types.Manifest(raw::Dict{String, Any}, f_or_io::String)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:203
[4] read_manifest(f_or_io::String)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\manifest.jl:226
[5] Pkg.Types.EnvCache(env::Nothing)
@ Pkg.Types C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:373
[6] EnvCache
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\Types.jl:351 [inlined]
[7] add_snapshot_to_undo(env::Nothing)
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:1496
[8] add_snapshot_to_undo
@ C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:1492 [inlined]
[9] activate(path::String; shared::Bool, temp::Bool, io::Base.DevNull)
@ Pkg.API C:\PROGRA~1\Julia\share\julia\stdlib\v1.11\Pkg\src\API.jl:1372
[10] top-level scope
@ string:1
[11] eval
@ .\boot.jl:430 [inlined]
[12] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base .\loading.jl:2734
[13] include_string (repeats 2 times)
@ .\loading.jl:2744 [inlined]
[14] mainevalcmd(str::String)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\evaluating.jl:150
[15] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::@Kwargs{})
@ Base .\essentials.jl:1055
[16] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base .\essentials.jl:1052
[17] evaluate!
@ D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\evaluating.jl:67 [inlined]
[18] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\evaluating.jl:55
[19] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\communicating.jl:185
[20] (::Main.RConnector.var"#3#5")()
@ Main.RConnector D:\RCompile\CRANpkg\lib\4.3\JuliaConnectoR\Julia\communicating.jl:145
in expression starting at string:1
Backtrace:
▆
1. └─jlmerclusterperm::jlmerclusterperm_setup(...) at test-clusterpermute.R:3:1
2. └─jlmerclusterperm:::setup_with_progress(...)
3. └─jlmerclusterperm:::set_projenv(cache_dir = cache_dir, verbose = verbose)
4. └─JuliaConnectoR::juliaEval("Pkg.activate(\".\", io = devnull)")
5. └─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr)
6. ├─base::tryCatch(...)
7. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
8. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
9. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
10. └─JuliaConnectoR:::doCallJulia(funName, jlargs)
11. └─JuliaConnectoR:::handleCallbacksAndOutput()
[ FAIL 5 | WARN 0 | SKIP 7 | PASS 5 ]
Error: Test failures
Execution halted
Flavor: r-oldrel-windows-x86_64