• using R Under development (unstable) (2025-02-15 r87725)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     clang version 19.1.7     flang-new version 19.1.7
• running under: Fedora Linux 40 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• checking for file ‘rmzqc/DESCRIPTION’ ... OK
• this is package ‘rmzqc’ version ‘0.5.4’
• 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 ‘rmzqc’ can be installed ... [14s/41s] 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 ... 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 ... [13s/44s] 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 installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [8s/28s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [27s/84s] ERROR   Running ‘testthat.R’ [26s/83s] Running the tests in ‘tests/testthat.R’ failed. Complete output:   > library(testthat)   > library(rmzqc)   >   > test_check("rmzqc")   Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_.   trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest'   downloaded 7324 bytes      Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.191/psi-ms.obo' ...   trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.191/psi-ms.obo'   Content type 'application/octet-stream' length 1008314 bytes (984 KB)   ==================================================   downloaded 984 KB      Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_.   trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest'   Content type 'application/json; charset=utf-8' length 7324 bytes   ==================================================   downloaded 7324 bytes      Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.191/psi-ms.obo' ...   trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.191/psi-ms.obo'   Content type 'application/octet-stream' length 1008314 bytes (984 KB)   ==================================================   downloaded 984 KB      Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ...   trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo'   Error in download.file(custom_uri, tmp_filename) :     cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo'   Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ...   trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo'   Error in download.file(custom_uri, tmp_filename) :     cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo'   Error in getCVDictionary(source = "custom", custom_uri = "https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo", :     Download failed.   trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest'   Content type 'application/json; charset=utf-8' length 7324 bytes   ==================================================   downloaded 7324 bytes      Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_.   Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_.   Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_.   Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_.   Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_.   [ FAIL 2 | WARN 16 | SKIP 0 | PASS 87 ]      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Failure ('test_conversion.R:17:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ──   `toQCMetric(id = "MS:4000059", value = 13405)` produced messages.   ── Failure ('test_conversion.R:18:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ──   `toQCMetric(id = "MS:4000059", value = "13405")` produced messages.      [ FAIL 2 | WARN 16 | SKIP 0 | PASS 87 ]   Error: Test failures   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [39s/151s] OK
• checking PDF version of manual ... [8s/34s] 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