- using R Under development (unstable) (2025-12-31 r89265)
- 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 ‘clinicalomicsdbR/DESCRIPTION’ ... OK
- this is package ‘clinicalomicsdbR’ version ‘1.0.5’
- 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 ‘clinicalomicsdbR’ can be installed ... 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 ... 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 examples ... ERROR
Running examples in ‘clinicalomicsdbR-Ex.R’ failed
The error most likely occurred in:
> ### Name: clinicalomicsdbR
> ### Title: clinicalomicsdbR object
> ### Aliases: clinicalomicsdbR
>
> ### ** Examples
>
> clinicalomicsdbR$new()$filter(drugs = c("ipilimumab", "rituximab"))$study_list # downloads all files
Error in `req_perform()`:
! Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! SSL peer certificate or SSH remote key was not OK [trials.linkedomics.org]:
SSL certificate problem: certificate has expired
Backtrace:
▆
1. └─clinicalomicsdbR$new()$filter(drugs = c("ipilimumab", "rituximab"))
2. └─httr2::req_perform(req, verbosity = self$verbosity)
3. └─httr2:::handle_resp(req, resp, error_call = error_call)
4. └─rlang::cnd_signal(resp)
Execution halted
- checking PDF version of manual ... 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