Last updated on 2025-04-17 05:49:55 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.6 | 7.59 | 129.23 | 136.82 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.0.6 | 5.36 | 91.07 | 96.43 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.0.6 | 207.35 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 1.0.6 | 218.88 | OK | |||
| r-devel-windows-x86_64 | 1.0.6 | 10.00 | 148.00 | 158.00 | OK | |
| r-patched-linux-x86_64 | 1.0.6 | 8.45 | 122.71 | 131.16 | OK | |
| r-release-linux-x86_64 | 1.0.6 | 6.99 | 122.99 | 129.98 | OK | |
| r-release-macos-arm64 | 1.0.6 | 119.00 | OK | |||
| r-release-macos-x86_64 | 1.0.6 | 156.00 | OK | |||
| r-release-windows-x86_64 | 1.0.6 | 11.00 | 901.00 | 912.00 | ERROR | |
| r-oldrel-macos-arm64 | 1.0.6 | 111.00 | OK | |||
| r-oldrel-macos-x86_64 | 1.0.6 | 181.00 | OK | |||
| r-oldrel-windows-x86_64 | 1.0.6 | 13.00 | 174.00 | 187.00 | OK |
Version: 1.0.6
Check: examples
Result: ERROR
Running examples in 'rworkflows-Ex.R' failed
The error most likely occurred in:
> ### Name: construct_runners
> ### Title: Construct runners
> ### Aliases: construct_runners
>
> ### ** Examples
>
> runners <- construct_runners()
Warning in file(file, "rt", encoding = fileEncoding) :
URL 'https://bioconductor.org/config.yaml': status was 'SSL connect error'
Error in file(file, "rt", encoding = fileEncoding) :
cannot open the connection to 'https://bioconductor.org/config.yaml'
Calls: construct_runners ... unname -> unlist -> bioc_r_versions -> <Anonymous> -> file
Execution halted
Flavor: r-release-windows-x86_64
Version: 1.0.6
Check: tests
Result: ERROR
Running 'testthat.R' [12m]
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(rworkflows)
>
> test_check("rworkflows")
Saving yaml ==> D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg\file12c50706dbdmyenv_conda.yml
Saving yaml ==> D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg\file12c50706dbdmyenv_conda.yml
Saving yaml ==> D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg\file12c50706dbdmyenv_conda.yml
name: myenv
channels:
- conda-forge
- nodefaults
dependencies:
- anndata
- scanpy
Saving yaml ==> D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg\file12c50706dbdmyenv_conda.yml
Loading required namespace: reticulate
Only tag name supplied to 'cont'. Assuming default= "bioconductor/bioconductor_docker"
Constructing DESCRIPTION files for 1 R package(s).
Constructing DESCRIPTION for: ABSSeq
trying URL 'https://github.com/neurogenomics/templateR/raw/master/DESCRIPTION'
Cannot import DESCRIPTION file: NULL
When refs is provided, paths must have the same length (or be set to NULL). Setting paths=NULL.
When refs is provided, paths must have the same length (or be set to NULL). Setting paths=NULL.
Cannot find DESCRIPTION for: typoooo
Cannot find DESCRIPTION file for: typoooo
Cannot import DESCRIPTION file: typo
Cannot import DESCRIPTION file: D:/RCompile/CRANpkg/local/4.5/rworkflows.Rcheck/tests/DESCRIPTION
When refs is provided, paths must have the same length (or be set to NULL). Setting paths=NULL.
trying URL 'https://github.com/neurogenomics/MAGMA_Celltyping/raw/master/DESCRIPTION'
Finding hex sticker(s) for 1 package(s).
Hex URL does not exist (or is not public). Returning NULL.
Finding hex sticker(s) for 1 package(s).
Hex URL does not exist (or is not public). Returning NULL.
Cannot import DESCRIPTION file: D:/RCompile/CRANpkg/local/4.5/rworkflows.Rcheck/tests/DESCRIPTION
Skipping test.
Cannot import DESCRIPTION file: NULL
Finding hex sticker(s) for 1 package(s).
Hex URL does not exist (or is not public). Returning NULL.
Finding hex sticker(s) for 1 package(s).
When refs is provided, paths must have the same length (or be set to NULL). Setting paths=NULL.
Finding hex sticker(s) for 1 package(s).
Finding hex sticker(s) for 1 package(s).
Finding hex sticker(s) for 1 package(s).
Cannot find hex URL domain name. Returning NULL.
Finding hex sticker(s) for 1 package(s).
Hex URL does not exist (or is not public). Returning NULL.
Finding hex sticker(s) for 1 package(s).
Skipping test.
Skipping test.
Loading required namespace: biocViews
trying URL 'https://github.com/neurogenomics/templateR/raw/master/DESCRIPTION'
Content type 'text/plain; charset=utf-8' length 692 bytes
==================================================
downloaded 692 bytes
Hello world
[1] 0
Creating new dev container config file ==> D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg/devcontainer.json
Using existing dev container config file ==> D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg/devcontainer.json
Config file preview:
{"image":["ghcr.io/neurogenomics/rworkflows:dev"],"features":{"ghcr.io/devcontainers/features/conda:1":[]},"customizations":{"vscode":{"settings":[],"extensions":[["reditorsupport.r"],["visualstudioexptteam.vscodeintellicode"],["ionutvmi.path-autocomplete"]]}}}Creating new Docker file ==> D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg/Dockerfile
Using existing Docker file: D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg/Dockerfile
Docker file preview:
Creating new Issue Template ==> D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg/bug_report.yml
Creating new Issue Template ==> D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg/feature_request.yml
Creating new Issue Template ==> D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg/config.yml
Using existing Issue Template: D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg/bug_report.yml
Issue Template preview:
Using existing Issue Template: D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg/feature_request.yml
Issue Template preview:
Using existing Issue Template: D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg/config.yml
Issue Template preview:
Creating new README file ==> D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg/README.Rmd
Using existing README file: D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg/README.Rmd
README file preview:
Creating new vignette file ==> D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg/vignettes/docker.Rmd
Using existing vignette file: D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg/vignettes/docker.Rmd
Vignette file preview:
Creating new vignette file ==> D:\temp\2025_04_16_01_50_00_21006\RtmpOOWtTg/vignettes/mypackage.Rmd
[ FAIL 7 | WARN 6 | SKIP 9 | PASS 57 ]
══ Skipped tests (9) ═══════════════════════════════════════════════════════════
• On CRAN (9): 'test-bioc_r_versions.R:3:3', 'test-check_cont.R:4:5',
'test-check_r_version.R:3:3', 'test-construct_runners.R:3:3',
'test-get_yaml.R:2:3', 'test-gha_python_versions.R:3:3',
'test-url_exists.R:3:3', 'test-use_badges.R:2:3', 'test-use_workflow.R:2:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-check_bioc_version.R:3:3'): check_bioc_version works ───────────
Error in `file(file, "rt", encoding = fileEncoding)`: cannot open the connection to 'https://bioconductor.org/config.yaml'
Backtrace:
▆
1. ├─testthat::expect_equal(check_bioc_version(bioc = "3.17"), "3.17") at test-check_bioc_version.R:3:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. └─rworkflows:::check_bioc_version(bioc = "3.17")
5. └─rworkflows::bioc_r_versions(return_opts = TRUE)
6. └─yaml::read_yaml("https://bioconductor.org/config.yaml")
7. └─base::file(file, "rt", encoding = fileEncoding)
── Error ('test-construct_cont.R:15:3'): construct_cont works ──────────────────
Error in `file(file, "rt", encoding = fileEncoding)`: cannot open the connection to 'https://bioconductor.org/config.yaml'
Backtrace:
▆
1. └─rworkflows::construct_cont(versions_explicit = TRUE) at test-construct_cont.R:15:3
2. └─base::lapply(...)
3. └─rworkflows (local) FUN(X[[i]], ...)
4. └─rworkflows::bioc_r_versions(bioc_version = bioc_version)
5. └─yaml::read_yaml("https://bioconductor.org/config.yaml")
6. └─base::file(file, "rt", encoding = fileEncoding)
── Error ('test-fill_description.R:5:3'): fill_description works ───────────────
Error in `utils::download.file(url, path)`: cannot open URL 'https://github.com/neurogenomics/templateR/raw/master/DESCRIPTION'
Backtrace:
▆
1. └─utils::download.file(url, path) at test-fill_description.R:5:3
── Error ('test-get_description.R:30:3'): get_description works ────────────────
Error in `utils::download.file("https://github.com/neurogenomics/MAGMA_Celltyping/raw/master/DESCRIPTION",
tmp)`: cannot open URL 'https://github.com/neurogenomics/MAGMA_Celltyping/raw/master/DESCRIPTION'
Backtrace:
▆
1. └─utils::download.file(...) at test-get_description.R:30:3
── Failure ('test-get_hex.R:38:3'): get_hex works ──────────────────────────────
hex6[[1]] (`actual`) not equal to hex1[[1]] (`expected`).
`actual` is a character vector ('<img src="https://github.com/neurogenomics/rworkflows/raw/master/inst/hex/hex.png" title="Hex sticker for rworkflows" height="300">')
`expected` is NULL
── Failure ('test-get_hex.R:43:3'): get_hex works ──────────────────────────────
hex7[[1]] (`actual`) not equal to hex1[[1]] (`expected`).
`actual` is a character vector ('<img src="https://github.com/neurogenomics/rworkflows/raw/master/inst/hex/hex.png" title="Hex sticker for rworkflows" height="300">')
`expected` is NULL
── Failure ('test-get_hex.R:49:3'): get_hex works ──────────────────────────────
hex8[[1]] (`actual`) not equal to hex1[[1]] (`expected`).
`actual` is a character vector ('<img src="https://github.com/neurogenomics/rworkflows/raw/master/inst/hex/hex.png" title="Hex sticker for rworkflows" height="300">')
`expected` is NULL
[ FAIL 7 | WARN 6 | SKIP 9 | PASS 57 ]
Error: Test failures
Execution halted
Flavor: r-release-windows-x86_64