- using R Under development (unstable) (2025-09-10 r88809)
- using platform: x86_64-pc-linux-gnu
- R was compiled by
Debian clang version 19.1.7 (3+b2)
Debian flang-new version 19.1.7 (3+b2)
- running under: Debian GNU/Linux forky/sid
- using session charset: UTF-8
- checking for file ‘MiMIR/DESCRIPTION’ ... OK
- this is package ‘MiMIR’ version ‘1.5’
- package encoding: UTF-8
- checking CRAN incoming feasibility ... [1s/2s] OK
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- checking package dependencies ... OK
- checking if this is a source package ... OK
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- 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 ... OK
See the install log for details.
- checking package directory ... OK
- checking for future file timestamps ... 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 ... [6s/8s] OK
- checking whether the package can be loaded with stated dependencies ... [5s/7s] OK
- checking whether the package can be unloaded cleanly ... [5s/7s] OK
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- checking foreign function calls ... OK
- checking R code for possible problems ... [31s/46s] OK
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- checking Rd contents ... OK
- checking for unstated dependencies in examples ... OK
- checking contents of ‘data’ directory ... OK
- checking data for non-ASCII characters ... [0s/1s] OK
- checking LazyData ... OK
- checking data for ASCII and uncompressed saves ... OK
- checking examples ... [8s/11s] ERROR
Running examples in ‘MiMIR-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### 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
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- checking for non-standard things in the check directory ... OK
- DONE
Status: 1 ERROR