- using R Under development (unstable) (2025-02-14 r87718 ucrt)
- using platform: x86_64-w64-mingw32
- R was compiled by
gcc.exe (GCC) 13.3.0
GNU Fortran (GCC) 13.3.0
- running under: Windows Server 2022 x64 (build 20348)
- using session charset: UTF-8
- checking for file 'promor/DESCRIPTION' ... OK
- checking extension type ... Package
- this is package 'promor' version '0.2.1'
- 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 hidden files and directories ... OK
- checking for portable file names ... OK
- checking whether package 'promor' can be installed ... OK
See the install log for details.
- checking installed package size ... OK
- checking package directory ... OK
- checking 'build' 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 ... [5s] OK
- checking whether the package can be loaded with stated dependencies ... [5s] OK
- checking whether the package can be unloaded cleanly ... [5s] OK
- checking whether the namespace can be loaded with stated dependencies ... [5s] OK
- checking whether the namespace can be unloaded cleanly ... [5s] OK
- checking loading without being on the library search path ... [5s] 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 ... [13s] OK
- checking Rd files ... [1s] NOTE
checkRd: (-1) impute_plot.Rd:32: Lost braces; missing escapes or markup?
32 | \item{global}{Logical. If \code{TRUE} ({default}), a global density plot is
| ^
- checking Rd metadata ... 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 ... [1s] OK
- checking LazyData ... OK
- checking data for ASCII and uncompressed saves ... OK
- checking installed files from 'inst/doc' ... OK
- checking files in 'vignettes' ... OK
- checking examples ... [89s] ERROR
Running examples in 'promor-Ex.R' failed
The error most likely occurred in:
> ### Name: onegroup_only
> ### Title: Proteins that are only expressed in a given group
> ### Aliases: onegroup_only
>
> ### ** Examples
>
> # Generate a raw_df object with default settings. No technical replicates.
> raw_df <- create_df(
+ prot_groups = "https://raw.githubusercontent.com/caranathunge/promor_example_data/main/pg1.txt",
+ exp_design = "https://raw.githubusercontent.com/caranathunge/promor_example_data/main/ed1.txt"
+ )
Warning in scan(file = file, what = what, sep = sep, quote = quote, dec = dec, :
URL 'https://raw.githubusercontent.com/caranathunge/promor_example_data/main/pg1.txt': Timeout of 60 seconds was reached
Error in scan(file = file, what = what, sep = sep, quote = quote, dec = dec, :
cannot read from connection
Calls: create_df -> read.csv -> read.table -> scan
Execution halted
- checking for unstated dependencies in 'tests' ... OK
- checking tests ... [11s] OK
Running 'testthat.R' [11s]
- checking for unstated dependencies in vignettes ... OK
- checking package vignettes ... OK
- checking re-building of vignette outputs ... [2s] OK
- checking PDF version of manual ... [28s] OK
- checking HTML version of manual ... [6s] OK
- DONE
Status: 1 ERROR, 1 NOTE