CRAN Package Check Results for Package vcfR

Last updated on 2021-10-23 00:49:13 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.12.0 130.62 196.46 327.08 OK
r-devel-linux-x86_64-debian-gcc 1.12.0 100.35 155.70 256.05 OK
r-devel-linux-x86_64-fedora-clang 1.12.0 502.01 NOTE
r-devel-linux-x86_64-fedora-gcc 1.12.0 462.42 OK
r-devel-windows-x86_64 1.12.0 188.00 209.00 397.00 OK
r-devel-windows-x86_64-gcc10-UCRT 1.12.0 ERROR
r-patched-linux-x86_64 1.12.0 126.30 205.23 331.53 OK
r-patched-solaris-x86 1.12.0 429.10 OK
r-release-linux-x86_64 1.12.0 123.13 204.45 327.58 OK
r-release-macos-arm64 1.12.0 NOTE
r-release-macos-x86_64 1.12.0 NOTE
r-release-windows-ix86+x86_64 1.12.0 280.00 404.00 684.00 OK
r-oldrel-macos-x86_64 1.12.0 NOTE
r-oldrel-windows-ix86+x86_64 1.12.0 377.00 442.00 819.00 OK

Check Details

Version: 1.12.0
Check: installed package size
Result: NOTE
     installed size is 7.2Mb
     sub-directories of 1Mb or more:
     libs 5.2Mb
Flavors: r-devel-linux-x86_64-fedora-clang, r-release-macos-arm64, r-release-macos-x86_64, r-oldrel-macos-x86_64

Version: 1.12.0
Check: package dependencies
Result: NOTE
    Packages suggested but not available for checking: 'adegenet', 'poppr'
Flavor: r-devel-windows-x86_64-gcc10-UCRT

Version: 1.12.0
Check: tests
Result: ERROR
     Running 'testthat.R'
    Running the tests in 'tests/testthat.R' failed.
    Complete output:
     >
     > library("testthat")
     > #library("vcfR")
     > #
     > #
     > test_check("vcfR")
     Loading required package: vcfR
    
     ***** *** vcfR *** *****
     This is vcfR 1.12.0
     browseVignettes('vcfR') # Documentation
     citation('vcfR') # Citation
     ***** ***** ***** *****
    
     Failed with error: 'there is no package called 'adegenet''
     Failed with error: 'there is no package called 'adegenet''
     ══ Failed tests ════════════════════════════════════════════════════════════════
     ── Failure (test_conversion.R:15:3): vcfR2genind works ─────────────────────────
     `my_genind` inherits from `'matrix'/'array'` not `'character'`.
     ── Failure (test_conversion.R:22:3): vcfR2genind works, return.alleles = TRUE ──
     `my_genind` inherits from `'matrix'/'array'` not `'character'`.
     ── Error (test_conversion.R:23:3): vcfR2genind works, return.alleles = TRUE ────
     Error in `is.data.frame(x)`: trying to get slot "tab" from an object of a basic class ("matrix") with no slots
     Backtrace:
     █
     1. ├─base::unlist(...) test_conversion.R:23:2
     2. ├─base::lapply(...)
     3. ├─base::strsplit(colnames(my_genind@tab), ".", fixed = TRUE)
     4. └─base::colnames(my_genind@tab)
     5. └─base::is.data.frame(x)
     ── Error (test_conversion.R:31:3): vcfR2genlight works ─────────────────────────
     <packageNotFoundError/error/condition>
     Error in `library(adegenet)`: there is no package called 'adegenet'
     Backtrace:
     █
     1. ├─base::suppressMessages(library(adegenet)) test_conversion.R:31:2
     2. │ └─base::withCallingHandlers(...)
     3. └─base::library(adegenet)
    
     [ FAIL 4 | WARN 2 | SKIP 0 | PASS 482 ]
     Error: Test failures
     Execution halted
Flavor: r-devel-windows-x86_64-gcc10-UCRT

Version: 1.12.0
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
    --- re-building 'converting_data.Rmd' using rmarkdown
    Failed with error: 'there is no package called 'adegenet''
    Quitting from lines 82-85 (converting_data.Rmd)
    Error: processing vignette 'converting_data.Rmd' failed with diagnostics:
    there is no package called 'poppr'
    --- failed re-building 'converting_data.Rmd'
    
    --- re-building 'intro_to_vcfR.Rmd' using rmarkdown
    --- finished re-building 'intro_to_vcfR.Rmd'
    
    --- re-building 'vcf_data.Rmd' using rmarkdown
    --- finished re-building 'vcf_data.Rmd'
    
    --- re-building 'workflow.Rmd' using rmarkdown
    --- finished re-building 'workflow.Rmd'
    
    SUMMARY: processing the following file failed:
     'converting_data.Rmd'
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-devel-windows-x86_64-gcc10-UCRT