CRAN Package Check Results for Package rworkflows

Last updated on 2024-05-03 11:53:12 CEST.

Flavor	Version	T_install	T_check	T_total	Status
r-devel-linux-x86_64-debian-clang	1.0.1	10.40	157.86	168.26	OK
r-devel-linux-x86_64-fedora-clang	1.0.1			216.62	NOTE
r-devel-linux-x86_64-fedora-gcc	1.0.1			218.36	NOTE
r-devel-windows-x86_64	1.0.1	12.00	148.00	160.00	OK
r-patched-linux-x86_64	1.0.1	8.46	149.69	158.15	OK
r-release-linux-x86_64	1.0.1	5.33	150.71	156.04	OK
r-release-macos-arm64	1.0.1			98.00	OK
r-release-windows-x86_64	1.0.1	10.00	140.00	150.00	ERROR
r-oldrel-macos-arm64	1.0.1			107.00	NOTE
r-oldrel-macos-x86_64	1.0.1			171.00	NOTE
r-oldrel-windows-x86_64	1.0.1	12.00	170.00	182.00	OK

Additional issues

noSuggests

Check Details

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