• using R version 4.5.3 (2026-03-11)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc-15 (Debian 15.2.0-16) 15.2.0     GNU Fortran (Debian 15.2.0-16) 15.2.0
• running under: Debian GNU/Linux forky/sid
• using session charset: UTF-8
• checking for file ‘EcoCleanR/DESCRIPTION’ ... OK
• this is package ‘EcoCleanR’ version ‘1.0.3’
• 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 ‘EcoCleanR’ can be installed ... OK See the install log for details.
• checking package directory ... OK
• checking for future file timestamps ... 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 ... [11s/15s] OK
• checking whether the package can be loaded with stated dependencies ... [11s/13s] OK
• checking whether the package can be unloaded cleanly ... [11s/14s] OK
• checking whether the namespace can be loaded with stated dependencies ... [10s/12s] OK
• checking whether the namespace can be unloaded cleanly ... [11s/13s] OK
• checking loading without being on the library search path ... [11s/13s] 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 ... [48s/87s] OK
• checking Rd files ... [0s/1s] 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 contents of ‘data’ directory ... OK
• checking data for non-ASCII characters ... [0s/0s] 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 ... [14s/17s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [23s/83s] ERROR   Running ‘testthat.R’ [23s/82s] Running the tests in ‘tests/testthat.R’ failed. Complete output:   > # This file is part of the standard setup for testthat.   > # It is recommended that you do not modify it.   > #   > # Where should you do additional test configuration?   > # Learn more about the roles of various files in:   > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview   > # * https://testthat.r-lib.org/articles/special-files.html   >   > library(testthat)   > library(EcoCleanR)   >   > test_check("EcoCleanR")   Querying WoRMS for 'Mexacanthina lugubris'...   [NOT FOUND]'Mexacanthina lugubris' not found in WoRMS.   Saving _problems/test-data_cleaning-101.R   Saving _problems/test-data_cleaning-103.R   Saving _problems/test-data_cleaning-105.R   Saving _problems/test-data_cleaning-107.R   Suggested threshold at 96th percentile: 8801832   Imputation iteration 1   Imputation iteration 2   No more missing values to impute.   [ FAIL 4 | WARN 0 | SKIP 7 | PASS 25 ]      ══ Skipped tests (7) ═══════════════════════════════════════════════════════════   • Skipping ec_extract_env_layers test - big shape files required to load for it     (1): 'test-data_cleaning.R:206:3'   • Skipping ec_flag_non_east_atlantic test - big shape files required to load     for it (1): 'test-data_cleaning.R:462:3'   • Skipping ec_flag_non_region test - big shape files required to load for it     (3): 'test-data_cleaning.R:191:3', 'test-data_cleaning.R:324:3',     'test-data_cleaning.R:366:3'   • Skipping ec_flag_non_west_atlantic test - big shape files required to load     for it (1): 'test-data_cleaning.R:484:3'   • Skipping ec_flag_non_west_pacific test - big shape files required to load for     it (1): 'test-data_cleaning.R:506:3'      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Failure ('test-data_cleaning.R:101:3'): ec_worms_synonym works ──────────────   Expected `result` to be an S3 object.   Actual OO type: none.   ── Failure ('test-data_cleaning.R:103:3'): ec_worms_synonym works ──────────────   Expected `all(c("Accepted_syn_worms", "ecodata_syn_with_count") %in% colnames(result))` to be TRUE.   Differences:   `actual`: FALSE   `expected`: TRUE      ── Failure ('test-data_cleaning.R:105:3'): ec_worms_synonym works ──────────────   Expected `"Mexacanthina lugubris" %in% result$Accepted_syn_worms` to be TRUE.   Differences:   `actual`: FALSE   `expected`: TRUE      ── Failure ('test-data_cleaning.R:107:3'): ec_worms_synonym works ──────────────   Expected `any(grepl("Mexacanthina lugubris \\([0-9]+\\)", result$ecodata_syn_with_count))` to be TRUE.   Differences:   `actual`: FALSE   `expected`: TRUE         [ FAIL 4 | WARN 0 | SKIP 7 | PASS 25 ]   Error:   ! Test failures.   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [4s/5s] OK
• checking PDF version of manual ... [5s/7s] OK
• checking HTML version of manual ... [1s/2s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 1 ERROR