Last updated on 2024-05-03 22:53:38 CEST.
Package | ERROR | NOTE | OK |
---|---|---|---|
rworkflows | 1 | 4 | 6 |
Current CRAN status: ERROR: 1, NOTE: 4, OK: 6
Version: 1.0.1
Check: data for non-ASCII characters
Result: NOTE
Note: found 12 marked UTF-8 strings
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 1.0.1
Check: examples
Result: ERROR
Running examples in 'rworkflows-Ex.R' failed
The error most likely occurred in:
> ### Name: fill_description
> ### Title: Fill _DESCRIPTION_
> ### Aliases: fill_description
>
> ### ** Examples
>
> #### Get example DESCRIPTION file ####
> url <- "https://github.com/neurogenomics/templateR/raw/master/DESCRIPTION"
> path <- tempfile(fileext = "DESCRIPTION")
> utils::download.file(url,path)
trying URL 'https://github.com/neurogenomics/templateR/raw/master/DESCRIPTION'
Warning in utils::download.file(url, path) :
URL 'https://raw.githubusercontent.com/neurogenomics/templateR/master/DESCRIPTION': status was 'SSL connect error'
Error in utils::download.file(url, path) :
cannot open URL 'https://github.com/neurogenomics/templateR/raw/master/DESCRIPTION'
Execution halted
Flavor: r-release-windows-x86_64
Version: 1.0.1
Check: tests
Result: ERROR
Running 'testthat.R' [12s]
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\RtmpycmJtS\filebd5c4eb16a6myenv_conda.yml
Saving yaml ==> D:\temp\RtmpycmJtS\filebd5c4eb16a6myenv_conda.yml
Saving yaml ==> D:\temp\RtmpycmJtS\filebd5c4eb16a6myenv_conda.yml
name: myenv
channels:
- conda-forge
- nodefaults
dependencies:
- anndata
- scanpy
Saving yaml ==> D:\temp\RtmpycmJtS\filebd5c4eb16a6myenv_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/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/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).
Hex URL does not exist (or is not public). Returning NULL.
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).
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.
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).
Hex URL does not exist (or is not public). Returning NULL.
Skipping test.
Skipping test.
Loading required namespace: biocViews
trying URL 'https://github.com/neurogenomics/templateR/raw/master/DESCRIPTION'
Hello world
[1] 0
Creating new dev container config file ==> D:\temp\RtmpycmJtS/devcontainer.json
Using existing dev container config file ==> D:\temp\RtmpycmJtS/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\RtmpycmJtS/Dockerfile
Using existing Docker file: D:\temp\RtmpycmJtS/Dockerfile
Docker file preview:
Creating new Issue Template ==> D:\temp\RtmpycmJtS/bug_report.md
Creating new Issue Template ==> D:\temp\RtmpycmJtS/feature_request.md
Using existing Issue Template: D:\temp\RtmpycmJtS/bug_report.md
Issue Template preview:
Using existing Issue Template: D:\temp\RtmpycmJtS/feature_request.md
Issue Template preview:
Creating new README file ==> D:\temp\RtmpycmJtS/README.Rmd
Using existing README file: D:\temp\RtmpycmJtS/README.Rmd
README file preview:
Creating new vignette file ==> D:\temp\RtmpycmJtS/vignettes/docker.Rmd
Using existing vignette file: D:\temp\RtmpycmJtS/vignettes/docker.Rmd
Vignette file preview:
Creating new vignette file ==> D:\temp\RtmpycmJtS/vignettes/mypackage.Rmd
[ FAIL 4 | WARN 3 | SKIP 10 | PASS 61 ]
══ Skipped tests (10) ══════════════════════════════════════════════════════════
• On CRAN (10): 'test-bioc_r_versions.R:3:3', 'test-check_cont.R:4:5',
'test-check_r_version.R:3:3', 'test-construct_cont.R:22:3',
'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-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:64:3'): get_hex works ──────────────────────────────
hex11[[1]] (`actual`) not equal to "https://github.com/neurogenomics/rworkflows/raw/master/inst/hex/hex.png" (`expected`).
`actual` is NULL
`expected` is a character vector ('https://github.com/neurogenomics/rworkflows/raw/master/inst/hex/hex.png')
── Error ('test-infer_deps.R:7:3'): infer_deps 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-infer_deps.R:7:3
[ FAIL 4 | WARN 3 | SKIP 10 | PASS 61 ]
Error: Test failures
Execution halted
Flavor: r-release-windows-x86_64
Version: 1.0.1
Check: package dependencies
Result: NOTE
Packages suggested but not available for checking:
'BiocPkgTools', 'biocViews'
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64
Version: 1.0.1
Check: Rd cross-references
Result: NOTE
Packages unavailable to check Rd xrefs: ‘BiocPkgTools’, ‘biocViews’
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64