- using R Under development (unstable) (2025-09-11 r88810)
- using platform: x86_64-pc-linux-gnu
- R was compiled by
gcc (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)
GNU Fortran (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)
- running under: Fedora Linux 42 (Workstation Edition)
- using session charset: UTF-8
- using option ‘--no-stop-on-test-error’
- checking for file ‘MiMIR/DESCRIPTION’ ... OK
- this is package ‘MiMIR’ version ‘1.5’
- package encoding: UTF-8
- checking package namespace information ... OK
- checking package dependencies ... OK
- checking if this is a source package ... OK
- checking if there is a namespace ... OK
- checking for executable files ... OK
- checking for hidden files and directories ... OK
- checking for portable file names ... OK
- checking for sufficient/correct file permissions ... OK
- checking whether package ‘MiMIR’ can be installed ... [32s/43s] OK
See the install log for details.
- checking package directory ... OK
- checking DESCRIPTION meta-information ... OK
- checking top-level files ... OK
- checking for left-over files ... OK
- checking index information ... OK
- checking package subdirectories ... OK
- checking code files for non-ASCII characters ... OK
- checking R files for syntax errors ... OK
- checking whether the package can be loaded ... OK
- checking whether the package can be loaded with stated dependencies ... OK
- checking whether the package can be unloaded cleanly ... OK
- checking whether the namespace can be loaded with stated dependencies ... OK
- checking whether the namespace can be unloaded cleanly ... OK
- checking loading without being on the library search path ... OK
- checking use of S3 registration ... OK
- checking dependencies in R code ... OK
- checking S3 generic/method consistency ... OK
- checking replacement functions ... OK
- checking foreign function calls ... OK
- checking R code for possible problems ... [41s/52s] OK
- checking Rd files ... OK
- checking Rd metadata ... OK
- checking Rd line widths ... OK
- checking Rd cross-references ... OK
- checking for missing documentation entries ... OK
- checking for code/documentation mismatches ... OK
- checking Rd \usage sections ... OK
- checking Rd contents ... OK
- checking for unstated dependencies in examples ... OK
- checking contents of ‘data’ directory ... OK
- checking data for non-ASCII characters ... OK
- checking LazyData ... OK
- checking data for ASCII and uncompressed saves ... OK
- checking examples ... [11s/14s] ERROR
Running examples in ‘MiMIR-Ex.R’ failed
The error most likely occurred in:
> ### Name: MetaboWAS
> ### Title: MetaboWAS
> ### Aliases: MetaboWAS
>
> ### ** Examples
>
> require(MiMIR)
> require(plotly)
Loading required package: plotly
Loading required package: ggplot2
Attaching package: ‘plotly’
The following object is masked from ‘package:ggplot2’:
last_plot
The following object is masked from ‘package:stats’:
filter
The following object is masked from ‘package:graphics’:
layout
> require(ggplot2)
>
> #' #load the dataset
> metabolic_measures <- synthetic_metabolic_dataset
> phenotypes <- synthetic_phenotypic_dataset
>
> #Computing a MetaboWAS for age corrected by sex
> MetaboWAS(met=metabolic_measures, pheno=phenotypes, test_variable="age", covariates= "sex")
Error in `ggplot2::scale_y_continuous()`:
! `limits` must be a vector of length 2, not length 7.
Backtrace:
▆
1. └─MiMIR::MetaboWAS(...)
2. └─ggplot2::scale_y_continuous(expand = c(0, 0), limits = c(0, ylim))
3. └─ggplot2::continuous_scale(...)
4. └─ggplot2:::check_continuous_limits(limits, call = call)
5. └─ggplot2:::check_length(limits, 2L, arg = arg, call = call)
6. └─cli::cli_abort(msg, call = call, arg = arg)
7. └─rlang::abort(...)
Execution halted
- checking PDF version of manual ... [10s/13s] OK
- checking HTML version of manual ... OK
- checking for non-standard things in the check directory ... OK
- checking for detritus in the temp directory ... OK
- DONE
Status: 1 ERROR