rcmdcheck | Run R CMD check from R and collect the results | Development Tools library

by r-lib R Version: v1.4.0 License: Non-SPDX

X-Ray Key Features Code Snippets Community Discussions(10)Vulnerabilities Install Support

kandi X-RAY | rcmdcheck Summary

rcmdcheck is a R library typically used in Utilities, Development Tools applications. rcmdcheck has no bugs, it has no vulnerabilities and it has low support. However rcmdcheck has a Non-SPDX License. You can download it from GitHub.

Run R CMD check from R and Capture Results.

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Quality

Security

License

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Support

rcmdcheck has a low active ecosystem.

It has 109 star(s) with 24 fork(s). There are 8 watchers for this library.

It had no major release in the last 12 months.

There are 17 open issues and 128 have been closed. On average issues are closed in 359 days. There are 2 open pull requests and 0 closed requests.

It has a neutral sentiment in the developer community.

The latest version of rcmdcheck is v1.4.0

Quality

rcmdcheck has 0 bugs and 0 code smells.

Security

rcmdcheck has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.

rcmdcheck code analysis shows 0 unresolved vulnerabilities.

There are 0 security hotspots that need review.

License

rcmdcheck has a Non-SPDX License.

Non-SPDX licenses can be open source with a non SPDX compliant license, or non open source licenses, and you need to review them closely before use.

Reuse

rcmdcheck releases are available to install and integrate.

Installation instructions are not available. Examples and code snippets are available.

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rcmdcheck Key Features

No Key Features are available at this moment for rcmdcheck.

rcmdcheck Examples and Code Snippets

No Code Snippets are available at this moment for rcmdcheck.

Community Discussions

Trending Discussions on rcmdcheck

Using GitHub Actions to create a .env file in the workflow

How to detect whether there's an OpenGL device in R?

Error in github action from usethis package Can't find 'action.yml', 'action.yaml' or 'Dockerfile'

How to reference GitHub Secrets in GitHub Actions workflow for .Renviron file

github action cannot find the files of my R package

How can I get an R environment via Sys.getenv() with GitHub Actions using secrets?

Github Action failing with R CMD check, using old commit?

Github Actions - R package R-CMD-Check "PhantomJS not found"

R package failing R CMD Check due to non standard expressions inside dplyr function arguments

Github Action failing: Process completed with exit code 1 when installing system dependencies for R-CMD-Check

QUESTION

Using GitHub Actions to create a .env file in the workflow

Asked 2022-Jan-28 at 15:36

I recently created this post trying to figure out how to reference GitHub Secrets in a GitHub action. I believe I got that solved & figured out and I'm onto a different issue.

Below is a sample of the workflow code as of right now, the issue I need help with is the Create and populate .Renviron file part.

...

ANSWER

Answered 2021-Sep-01 at 09:23

The file is there where you expect to be

Source https://stackoverflow.com/questions/69006482

QUESTION

How to detect whether there's an OpenGL device in R?

Asked 2021-Dec-27 at 22:09

I'm running R CMD CHECK via a Github action for the package I'm currently writing. It is ran on a Mac platform which does not have an OpenGL device, so R CMD CHECK fails because I run the rgl package in the examples. I think this will not be a problem for CRAN when I'll submit the package, I believe the CRAN platforms all have an OpenGL device, but I would like that R CMD CHECK works with the Github action. How could one detect whether there's an OpenGL device? If this is possible, I would change my examples to

...

ANSWER

Answered 2021-Dec-27 at 20:31

I think it's hard to do what you want, because there are several ways rgl initialization can fail: you may not have X11 available, X11 may not support OpenGL on the display you have configured, etc.

If you are always running tests on the same machine, you can probably figure out where it fails and detect that in some other way, but it's easier to tell rgl not to attempt to use OpenGL before loading it.

For testing, the easiest way to do this is to set an environment variable RGL_USE_NULL=TRUE before running R, or from within R before attempting to load rgl. Within an R session you can use options(rgl.useNULL = TRUE) before loading rgl for the same result.

When rgl is not using OpenGL you can still produce displays in a browser using rglwidget(), and there are ways for displays to be updated automatically, which might be useful in RStudio or similar GUIs: use options(rgl.printRglwidget = TRUE, rgl.useNULL = TRUE).

Source https://stackoverflow.com/questions/70497543

QUESTION

Error in github action from usethis package Can't find 'action.yml', 'action.yaml' or 'Dockerfile'

Asked 2021-Sep-15 at 12:02

I have been trying to start using github actions for continuous integrations in my packages, however,even though I am using the premade functions of usethis package it is not working, and the runners stop immediately.

I have tried with the following functions:

...

ANSWER

Answered 2021-Sep-15 at 12:02

Notice this part in error message:

Source https://stackoverflow.com/questions/69190854

QUESTION

How to reference GitHub Secrets in GitHub Actions workflow for .Renviron file

Asked 2021-Aug-30 at 08:08

Hi I'm just about finished up using GitHub actions to add CI / CD steps to deploy an R Shiny app I have. The problem I'm having is there is a file in R called .Renviron that I use to store credentials to access a SQL DB of mine in the R script. Normally I deploy my app locally and this file is included when I use the rsconnect package, but now that I'm using GitHub actions I believe I have to make this .Renviron file manually myself in a bash script step.

Below is what my github workflow code looks like as of right now. The problem I'm having issues with is the Create and populate .Renviron file part.

...

ANSWER

Answered 2021-Aug-30 at 08:08

You are correct, you can't use ${{ secrets.my_secret }} in the bash scripts.

That won’t work, because “${{ }}” and the “secrets” variable are GitHub Actions constructs that Bash doesn’t understand. You’ll have to pass the secret to your step as an environment variable:

However, you may also use env mapping like you have in your last step. It would be like this:

Source https://stackoverflow.com/questions/68978306

QUESTION

github action cannot find the files of my R package

Asked 2021-Mar-07 at 08:33

I am trying to get Github Action to check my package. The packages compiles fine (not even a note) on my computer. I created a yaml script to go into the github workflow directory using usethis::use_github_action_check_standard() but it fails with a bunch of warnings like

No files were found with the provided path: check. No artifacts will be uploaded.

The path check is a temporary directory created by rcmdcheck for storing files. So, I presume it is a problem connected with this command. But everything was created by the usethis utility and nobody else seems to have the same problem.

I looked around a lot and the last fix I tried was to manually add a step to install imported and suggested packages, as suggested in this post, to no avail.

What am I doing wrong? Thanks in advance.

the yaml script is

...

ANSWER

Answered 2021-Mar-07 at 08:33

I solved the problem by moving everything to the main branch.

Source https://stackoverflow.com/questions/66415475

QUESTION

How can I get an R environment via Sys.getenv() with GitHub Actions using secrets?

Asked 2021-Feb-04 at 22:29

I would like to use Sys.getenv() to retrieve an environment variable.

Locally, I'm able to save a .Renviron file in my working directory that has the variables in it. These load perfectly fine and tests pass.

The repository is here for reference: https://github.com/Stoltzman-Consulting/githubActionsR

However, due to the fact there are secrets stored, I cannot upload this file into my repository. I have created secrets in the GitHub secrets section:

My tests are as follows:

...

ANSWER

Answered 2021-Feb-04 at 22:29

One solution that works, create ~/.Renviron within a block

Source https://stackoverflow.com/questions/65926899

QUESTION

Github Action failing with R CMD check, using old commit?

Asked 2021-Jan-12 at 19:30

I'm not sure how best to describe this, hence the rather vague title.

I have an R package that uses Github Actions to run checks. You can see the workflow file here:

https://github.com/Azure/Microsoft365R/blob/master/.github/workflows/check-standard.yaml

It's basically the same as the check-standard workflow in the r-lib/actions repo, with some tweaks for my particular requirements. My latest commit is failing the check for the MacOS build, with this error:

...

ANSWER

Answered 2021-Jan-12 at 19:30

You're using actions/cache to cache your R libs. By this you're restoring a cache that might be invalid if your key and the restore-keys isn't set up properly.

At the moment, there is no direct way to manually clear the cache. For some other options you can check Clear cache in GitHub Actions.

Source https://stackoverflow.com/questions/65686873

QUESTION

Github Actions - R package R-CMD-Check "PhantomJS not found"

Asked 2020-Nov-01 at 15:53

I am using GitHub actions for CI of my R package. I am trying using both testthat and shinytest in my package. I have the package structure set up correctly according to the shinytest documentation. When I run R-CMD-CHECK in RStudio, my package (including both testthat and shinytest testing works).

My GitHub Actions .yaml workflow is:

...

ANSWER

Answered 2020-Oct-29 at 14:57

It's hard to investigate the issue without detailed logs and no information about what dependencies (remotes) are being installed in Query dependencies step. It seems the PhantomJS dependency is not being installed at all. The workflow succeeds on ubuntu-20.04 because the runner has PhantomJS installed out-of-the-box. You can see all the installed software on provided runner types here. The other runner types used in the workflow above (windows-latest and macOS-latest) are missing PhantomJS. That's why your workflow fails on Windows and MacOS but succeeds on Ubuntu.

Source https://stackoverflow.com/questions/64491156

QUESTION

R package failing R CMD Check due to non standard expressions inside dplyr function arguments

Asked 2020-Sep-14 at 04:49

    data.frame(a=1:20) %>%
    dplyr::mutate(x = ifelse(a <= 10 & a > 0, 10, a)) %>%
    dplyr::mutate(y = unlist(x) / sum(unlist(x)))

...

ANSWER

Answered 2020-Sep-14 at 04:49

A few ways to mitigate this:

Add utils::globalVariables(c("a","x")) somewhere within your package's .R files. Not within a function, this call needs to happen when the files are sourced (e.g., during checks).

Or referencing https://dplyr.tidyverse.org/articles/programming.html#eliminating-r-cmd-check-notes-1,

use .data$:

Source https://stackoverflow.com/questions/63877893

QUESTION

Github Action failing: Process completed with exit code 1 when installing system dependencies for R-CMD-Check

Asked 2020-Aug-16 at 22:56

I am trying to run the use_github_action_check_standard() command from the usethis R package to check my package on every push on GitHub Actions.

The test works without a problem on Windows and MacOS, but for both Linux versions my workflow code fails before it even gets to the package code.

It fails when it tries to install the system dependencies where it gives me the error ##[error]Process completed with exit code 1.

When I look at the raw logs (below), I notice the line: Cache not found for input keys: Linux-287c850eb370edd647ed85b6fac18cbaee02effa7d01b981304dce84a452b22c-1-, Linux--1-. But I'm afraid I don't understand that error. Also I don't think this is it, because the key appears in the group above (notice the ##[endgroup]) already but the error only appears in the next group (as on the Screenshot).

Any ideas? Many thanks!

I also post my entire workflow code below.

Screenshot

Raw Log ...

ANSWER

Answered 2020-Aug-16 at 22:56

I figured it out in the end but will leave this here, as it might be useful for someone else!

The error was associated with the R code that was in the command:

Source https://stackoverflow.com/questions/63385691

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