rcmdcheck
- Installation
- Usage

rcmdcheck

Run R CMD check from R and Capture Results

Run R CMD check from R programmatically and capture the results of the individual checks.

Installation

Install the released version from CRAN

install.packages("rcmdcheck")

Or install the development version from GitHub:

# install.packages("pak")
pak::pak("r-lib/rcmdcheck")

Usage

library(rcmdcheck)
rcmdcheck("path/to/R/package")

Call rcmdcheck() on a source R package .tar.gz file, or on a folder containing your R package. Supply quiet = FALSE if you want to omit the output. The result of the check is returned, in a list with elements errors, warnings, and notes. Each element is a character vector, and one element of the character vectors is a single failure.

Programmatic usage

rcmdcheck() returns an rcmdcheck object, which you can query and manipulate.

library(rcmdcheck)
chk <- rcmdcheck("tests/testthat/bad1", quiet = TRUE)
chk
#> ── R CMD check results ─────────────────────────────────── badpackage 1.0.0 ────
#> Duration: 12.5s
#> 
#> ❯ checking DESCRIPTION meta-information ... WARNING
#>   Non-standard license specification:
#>     Public domain
#>   Standardizable: FALSE
#> 
#> 0 errors ✔ | 1 warning ✖ | 0 notes ✔

check_details() turns the check results into a simple lists with the following information currently:

names(check_details(chk))
#>  [1] "package"      "version"      "notes"        "warnings"     "errors"      
#>  [6] "platform"     "checkdir"     "install_out"  "description"  "session_info"
#> [11] "cran"         "bioc"

package: Package name.
version: Package version number.
notes: Character vector of check NOTEs.
warnings: Character vector of check WARNINGs.
errors: Character vector of check ERRORs.
platform: Platform, e.g. x86_64-apple-darwin15.6.0.
checkdir: Check directory.
install_out: Output of the package installation.
description: The text of the DESCRIPTION file.
session_info: A sessioninfo::session_info object, session information from within the check process.
cran: Flag, whether this is a CRAN package. (Based on the Repository field in DESCRIPTION, which is typically only set for published CRAN packages.)
bioc: Flag, whether this is a Bioconductor package, based on the presence of the biocViews field in DESCRIPTION.

Note that if the check results were parsed from a file, some of these fields might be missing (NULL), as we don’t have access to the original DESCRIPTION, the installation output, etc.

Parsing check output

parse_check() parses check output from a file, parse_check_url() parses check output from a URL.

CRAN checks

rcmdcheck has a functions to access CRAN’s package check results.

cran_check_flavours() downloads the names of the CRAN platforms:

cran_check_flavours()
#>  [1] "r-devel-linux-x86_64-debian-clang" "r-devel-linux-x86_64-debian-gcc"  
#>  [3] "r-devel-linux-x86_64-fedora-clang" "r-devel-linux-x86_64-fedora-gcc"  
#>  [5] "r-devel-windows-x86_64"            "r-patched-linux-x86_64"           
#>  [7] "r-release-linux-x86_64"            "r-release-macos-arm64"            
#>  [9] "r-release-macos-x86_64"            "r-release-windows-x86_64"         
#> [11] "r-oldrel-macos-arm64"              "r-oldrel-macos-x86_64"            
#> [13] "r-oldrel-windows-x86_64"

cran_check_results() loads and parses all check results for a package.

cran_check_results("igraph")
#> $`r-devel-linux-x86_64-debian-clang`
#> ── R CMD check results ─────────────────────────────────────── igraph 2.1.4 ────
#> Duration: 0ms
#> 
#> ❯ checking compiled code ... NOTE
#>   File ‘igraph/libs/igraph.so’:
#>     Found non-API call to R: ‘Rf_allocSExp’
#>   
#>   Compiled code should not call non-API entry points in R.
#>   
#>   See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
#>   and section ‘Moving into C API compliance’ for issues with the use of
#>   non-API entry points.
#> 
#> 0 errors ✔ | 0 warnings ✔ | 1 note ✖
#> 
#> $`r-devel-linux-x86_64-debian-gcc`
#> ── R CMD check results ─────────────────────────────────────── igraph 2.1.4 ────
#> Duration: 0ms
#> 
#> ❯ checking compiled code ... NOTE
#>   File ‘igraph/libs/igraph.so’:
#>     Found non-API call to R: ‘Rf_allocSExp’
#>   
#>   Compiled code should not call non-API entry points in R.
#>   
#>   See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
#>   and section ‘Moving into C API compliance’ for issues with the use of
#>   non-API entry points.
#> 
#> 0 errors ✔ | 0 warnings ✔ | 1 note ✖
#> 
#> $`r-devel-linux-x86_64-fedora-clang`
#> ── R CMD check results ─────────────────────────────────────── igraph 2.1.4 ────
#> Duration: 0ms
#> 
#> ❯ checking compiled code ... NOTE
#>   File ‘igraph/libs/igraph.so’:
#>     Found non-API call to R: ‘Rf_allocSExp’
#>   
#>   Compiled code should not call non-API entry points in R.
#>   
#>   See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
#>   and section ‘Moving into C API compliance’ for issues with the use of
#>   non-API entry points.
#> 
#> 0 errors ✔ | 0 warnings ✔ | 1 note ✖
#> 
#> $`r-devel-linux-x86_64-fedora-gcc`
#> ── R CMD check results ─────────────────────────────────────── igraph 2.1.4 ────
#> Duration: 0ms
#> 
#> ❯ checking compiled code ... NOTE
#>   File ‘igraph/libs/igraph.so’:
#>     Found non-API call to R: ‘Rf_allocSExp’
#>   
#>   Compiled code should not call non-API entry points in R.
#>   
#>   See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
#>   and section ‘Moving into C API compliance’ for issues with the use of
#>   non-API entry points.
#> 
#> 0 errors ✔ | 0 warnings ✔ | 1 note ✖
#> 
#> $`r-devel-windows-x86_64`
#> ── R CMD check results ─────────────────────────────────────── igraph 2.1.4 ────
#> Duration: 0ms
#> 
#> ❯ checking compiled code ... NOTE
#>   File 'igraph/libs/x64/igraph.dll':
#>     Found non-API call to R: 'Rf_allocSExp'
#>   
#>   Compiled code should not call non-API entry points in R.
#>   
#>   See 'Writing portable packages' in the 'Writing R Extensions' manual,
#>   and section 'Moving into C API compliance' for issues with the use of
#>   non-API entry points.
#> 
#> 0 errors ✔ | 0 warnings ✔ | 1 note ✖
#> 
#> $`r-patched-linux-x86_64`
#> ── R CMD check results ─────────────────────────────────────── igraph 2.1.4 ────
#> Duration: 0ms
#> 
#> ❯ checking compiled code ... NOTE
#>   File ‘igraph/libs/igraph.so’:
#>     Found non-API call to R: ‘Rf_allocSExp’
#>   
#>   Compiled code should not call non-API entry points in R.
#>   
#>   See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
#>   and section ‘Moving into C API compliance’ for issues with the use of
#>   non-API entry points.
#> 
#> 0 errors ✔ | 0 warnings ✔ | 1 note ✖
#> 
#> $`r-release-linux-x86_64`
#> ── R CMD check results ─────────────────────────────────────── igraph 2.1.4 ────
#> Duration: 0ms
#> 
#> ❯ checking compiled code ... NOTE
#>   File ‘igraph/libs/igraph.so’:
#>     Found non-API call to R: ‘Rf_allocSExp’
#>   
#>   Compiled code should not call non-API entry points in R.
#>   
#>   See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
#>   and section ‘Moving into C API compliance’ for issues with the use of
#>   non-API entry points.
#> 
#> 0 errors ✔ | 0 warnings ✔ | 1 note ✖
#> 
#> $`r-release-macos-arm64`
#> ── R CMD check results ─────────────────────────────────────── igraph 2.1.4 ────
#> Duration: 0ms
#> 
#> ❯ checking compiled code ... NOTE
#>   File ‘igraph/libs/igraph.so’:
#>     Found non-API call to R: ‘Rf_allocSExp’
#>   
#>   Compiled code should not call non-API entry points in R.
#>   
#>   See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
#>   and section ‘Moving into C API compliance’ for issues with the use of
#>   non-API entry points.
#> 
#> 0 errors ✔ | 0 warnings ✔ | 1 note ✖
#> 
#> $`r-release-macos-x86_64`
#> ── R CMD check results ─────────────────────────────────────── igraph 2.1.4 ────
#> Duration: 0ms
#> 
#> ❯ checking compiled code ... NOTE
#>   File ‘igraph/libs/igraph.so’:
#>     Found non-API call to R: ‘Rf_allocSExp’
#>   
#>   Compiled code should not call non-API entry points in R.
#>   
#>   See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
#>   and section ‘Moving into C API compliance’ for issues with the use of
#>   non-API entry points.
#> 
#> 0 errors ✔ | 0 warnings ✔ | 1 note ✖
#> 
#> $`r-release-windows-x86_64`
#> ── R CMD check results ─────────────────────────────────────── igraph 2.1.4 ────
#> Duration: 0ms
#> 
#> ❯ checking compiled code ... NOTE
#>   File 'igraph/libs/x64/igraph.dll':
#>     Found non-API call to R: 'Rf_allocSExp'
#>   
#>   Compiled code should not call non-API entry points in R.
#>   
#>   See 'Writing portable packages' in the 'Writing R Extensions' manual,
#>   and section 'Moving into C API compliance' for issues with the use of
#>   non-API entry points.
#> 
#> 0 errors ✔ | 0 warnings ✔ | 1 note ✖
#> 
#> $`r-oldrel-macos-arm64`
#> ── R CMD check results ─────────────────────────────────────── igraph 2.1.4 ────
#> Duration: 0ms
#> 
#> ❯ checking installed package size ... NOTE
#>     installed size is 23.8Mb
#>     sub-directories of 1Mb or more:
#>       R      2.1Mb
#>       doc    1.2Mb
#>       help   2.9Mb
#>       libs  17.1Mb
#> 
#> 0 errors ✔ | 0 warnings ✔ | 1 note ✖
#> 
#> $`r-oldrel-macos-x86_64`
#> ── R CMD check results ─────────────────────────────────────── igraph 2.1.4 ────
#> Duration: 0ms
#> 
#> ❯ checking installed package size ... NOTE
#>     installed size is 23.6Mb
#>     sub-directories of 1Mb or more:
#>       R      1.3Mb
#>       doc    1.2Mb
#>       help   2.0Mb
#>       libs  18.7Mb
#> 
#> 0 errors ✔ | 0 warnings ✔ | 1 note ✖
#> 
#> $`r-oldrel-windows-x86_64`
#> ── R CMD check results ─────────────────────────────────────── igraph 2.1.4 ────
#> Duration: 0ms
#> 
#> ❯ checking installed package size ... NOTE
#>     installed size is 10.7Mb
#>     sub-directories of 1Mb or more:
#>       R      1.3Mb
#>       doc    1.2Mb
#>       help   2.1Mb
#>       libs   5.7Mb
#> 
#> 0 errors ✔ | 0 warnings ✔ | 1 note ✖
#> 
#> attr(,"package")
#> [1] "igraph"
#> attr(,"class")
#> [1] "rmcdcheck_cran_results"

Comparing checks

compare_checks() can compare two or more rcmdcheck objects. compare_to_cran() compares an rcmdcheck object to the CRAN checks of the same package:

chk <- rcmdcheck(quiet = TRUE)
compare_to_cran(chk)
#> ── R CMD check comparison ──────────────────── rcmdcheck 1.4.0 / 1.4.0.9000 ────
#> Status: OK

Background processes

rcmdcheck_process is a processx::process class, that can run R CMD check in the background. You can also use this to run multiple checks concurrently. processx::process methods can be used to poll or manipulate the check processes.

chkpx <- rcmdcheck_process$new()
chkpx
#> PROCESS 'R', running, pid 74156.

chkpx$wait()
chkpx$parse_results()
#> ── R CMD check results ─────────────────────────────── rcmdcheck 1.4.0.9000 ────
#> Duration: 19.5s
#> 
#> 0 errors ✔ | 0 warnings ✔ | 0 notes ✔