• using R Under development (unstable) (2025-09-11 r88811)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     clang version 21.1.0     flang version 21.1.0
• running under: Fedora Linux 42 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• checking for file ‘isoorbi/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘isoorbi’ version ‘1.3.1’
• 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 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 ‘isoorbi’ can be installed ... [15s/23s] OK See the install log for details.
• checking installed package size ... INFO   installed size is 6.2Mb   sub-directories of 1Mb or more:     doc 2.0Mb     extdata 3.3Mb
• 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 whether startup messages can be suppressed ... 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 ... [25s/38s] 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 ... [7s/10s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [27s/41s] ERROR   Running ‘testthat.R’ [27s/40s] Running the tests in ‘tests/testthat.R’ failed. Complete output:   > library(testthat)   > library(dplyr)      Attaching package: 'dplyr'      The following object is masked from 'package:testthat':          matches      The following objects are masked from 'package:stats':          filter, lag      The following objects are masked from 'package:base':          intersect, setdiff, setequal, union      >   > # run the test   > test_check("isoorbi")   Loading required package: isoorbi         [ FAIL 5 | WARN 1 | SKIP 0 | PASS 350 ]      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Failure ('test_blocks_functions.R:352:3'): test orbi_add_blocks_to_plot() ───   orbi_add_blocks_to_plot(fig) has type 'object', not 'list'.   Backtrace:       ▆    1. ├─base::suppressMessages(...) at test_blocks_functions.R:352:3    2. │ └─base::withCallingHandlers(...)    3. └─testthat::expect_type(orbi_add_blocks_to_plot(fig), "list")   ── Failure ('test_plotting_functions.R:84:3'): orbi_plot_satellite_peaks() tests ──   orbi_plot_satellite_peaks(df2) has type 'object', not 'list'.   ── Failure ('test_plotting_functions.R:107:3'): orbi_plot_raw_data() tests ─────   orbi_plot_raw_data(df, y = "ratio") has type 'object', not 'list'.   ── Failure ('test_plotting_functions.R:139:3'): orbi_plot_isotopocule_coverage() tests ──   `fig` has type 'object', not 'list'.   ── Failure ('test_shotnoise_functions.R:94:3'): orbi_plot_shot_noise() tests ───   orbi_plot_shot_noise(df, "time.min") has type 'object', not 'list'.      [ FAIL 5 | WARN 1 | SKIP 0 | PASS 350 ]   Error: Test failures   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [77s/111s] OK
• checking PDF version of manual ... [8s/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