• using R Under development (unstable) (2026-07-23 r90295)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2)     GNU Fortran (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2)
• running under: Fedora Linux 44 (Server Edition)
• using session charset: UTF-8 * current time: 2026-07-24 06:15:46 UTC
• using option ‘--no-stop-on-test-error’
• checking for file ‘occCite/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘occCite’ version ‘0.6.2’
• 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 ‘occCite’ can be installed ... [8s/11s] OK See the install log for details.
• 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 ... [11s/14s] 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 contents of ‘data’ directory ... OK
• checking data for non-ASCII characters ... 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 ... OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [9s/287s] ERROR   Running ‘testthat.R’ [9s/286s] Running the tests in ‘tests/testthat.R’ failed. Complete output:   > library(testthat)   > library(occCite)   >   > test_check("occCite")   Saving _problems/test-occCitation-80.R   Saving _problems/test-occCitation-82.R   Saving _problems/test-occCitation-86.R   Saving _problems/test-occCitation-89.R   Saving _problems/test-occCitation-93.R   Saving _problems/test-occCitation-95.R   Saving _problems/test-occCitation-99.R   Saving _problems/test-occCitation-101.R   Saving _problems/test-occCitation-105.R   Saving _problems/test-occCitation-107.R   Saving _problems/test-occCitation-110.R   Saving _problems/test-occCitation-111.R        OccCite query occurred on: 20 June, 2024        User query type: User-supplied list of taxa.        Sources for taxonomic rectification: GBIF Backbone Taxonomy             Taxonomic cleaning results:               Input Name Best Match Taxonomic Databases w/ Matches   1 Protea cynaroides Protea cynaroides (L.) L. GBIF Backbone Taxonomy        Sources for occurrence data: gbif, bien                            Species Occurrences Sources   1 Protea cynaroides (L.) L. 2334 17        GBIF dataset DOIs:                          Species GBIF Access Date GBIF DOI   1 Protea cynaroides (L.) L. 2022-03-02 10.15468/dl.ztbx8c        OccCite query occurred on: 20 June, 2024        User query type: User-supplied list of taxa.        Sources for taxonomic rectification: GBIF Backbone Taxonomy             Taxonomic cleaning results:               Input Name Best Match Taxonomic Databases w/ Matches   1 Protea cynaroides Protea cynaroides (L.) L. GBIF Backbone Taxonomy        Sources for occurrence data: gbif                            Species Occurrences Sources   1 Protea cynaroides (L.) L. 2189 13        GBIF dataset DOIs:                          Species GBIF Access Date GBIF DOI   1 Protea cynaroides (L.) L. 2022-03-02 10.15468/dl.ztbx8c        OccCite query occurred on: 20 June, 2024        User query type: User-supplied list of taxa.        Sources for taxonomic rectification: GBIF Backbone Taxonomy             Taxonomic cleaning results:               Input Name Best Match Taxonomic Databases w/ Matches   1 Protea cynaroides Protea cynaroides (L.) L. GBIF Backbone Taxonomy        Sources for occurrence data: bien                            Species Occurrences Sources   1 Protea cynaroides (L.) L. 145 4   [1] "Checking ggplot version...4.0.3"   Failed with error: 'there is no package called 'waffle''   Failed with error: 'there is no package called 'waffle''   [ FAIL 12 | WARN 0 | SKIP 20 | PASS 154 ]      ══ Skipped tests (20) ══════════════════════════════════════════════════════════   • !requireNamespace(paste0("waf", "fle"), quietly = TRUE) is TRUE (2):     'test-sumFig.R:47:3', 'test-sumFig.R:56:3'   • GBIF login available (1): 'test-GBIFLoginManager.R:16:3'   • On CRAN (14): 'test-GBIFLoginManager.R:24:3', 'test-GBIFtableCleanup.R:6:3',     'test-gbifRetriever.R:6:3', 'test-gbifRetriever.R:29:3',     'test-getBIENpoints.R:6:3', 'test-getBIENpoints.R:28:3',     'test-getGBIFpoints.R:6:3', 'test-getGBIFpoints.R:24:3',     'test-occCitation.R:26:3', 'test-prevGBIFdownload.R:6:3',     'test-prevGBIFdownload.R:34:3', 'test-tabGBIF.R:9:3', 'test-tabGBIF.R:24:3',     'test-tabGBIF.R:48:3'   • empty test (2): 'test-sumFig.R:13:1', 'test-sumFig.R:25:1'   • internet connection established (1): 'test-occCitation.R:115:3'      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Failure ('test-occCitation.R:80:3'): outputs for BIEN results are as expected ──   Expected `class(testResults) == "occCiteCitation"` to be TRUE.   Differences:   `actual`: FALSE   `expected`: TRUE      ── Failure ('test-occCitation.R:82:3'): outputs for BIEN results are as expected ──   Expected `"occCitationResults" %in% names(testResults)` to be TRUE.   Differences:   `actual`: FALSE   `expected`: TRUE      ── Failure ('test-occCitation.R:83:3'): outputs for BIEN results are as expected ──   Expected `class(testResults$occCitationResults[[1]])` to equal "data.frame".   Differences:   1/1 mismatches   x[1]: "NULL"   y[1]: "data.frame"   ── Failure ('test-occCitation.R:88:3'): outputs for BIEN results are as expected ──   Expected `"occSearch" %in% names(testResults$occCitationResults[[1]])` to be TRUE.   Differences:   `actual`: FALSE   `expected`: TRUE      ── Failure ('test-occCitation.R:90:3'): outputs for BIEN results are as expected ──   Expected `class(testResults$occCitationResults[[1]]$occSearch)` to equal "character".   Differences:   1/1 mismatches   x[1]: "NULL"   y[1]: "character"   ── Failure ('test-occCitation.R:94:3'): outputs for BIEN results are as expected ──   Expected `"Dataset Key" %in% names(testResults$occCitationResults[[1]])` to be TRUE.   Differences:   `actual`: FALSE   `expected`: TRUE      ── Failure ('test-occCitation.R:96:3'): outputs for BIEN results are as expected ──   Expected `class(testResults$occCitationResults[[1]]$`Dataset Key`)` to equal "character".   Differences:   1/1 mismatches   x[1]: "NULL"   y[1]: "character"   ── Failure ('test-occCitation.R:100:3'): outputs for BIEN results are as expected ──   Expected `"Citation" %in% names(testResults$occCitationResults[[1]])` to be TRUE.   Differences:   `actual`: FALSE   `expected`: TRUE      ── Failure ('test-occCitation.R:102:3'): outputs for BIEN results are as expected ──   Expected `class(testResults$occCitationResults[[1]]$Citation)` to equal "character".   Differences:   1/1 mismatches   x[1]: "NULL"   y[1]: "character"   ── Failure ('test-occCitation.R:106:3'): outputs for BIEN results are as expected ──   Expected `"Accession Date" %in% names(testResults$occCitationResults[[1]])` to be TRUE.   Differences:   `actual`: FALSE   `expected`: TRUE      ── Failure ('test-occCitation.R:109:3'): outputs for BIEN results are as expected ──   Expected `"Number of Occurrences" %in% names(testResults$occCitationResults[[1]])` to be TRUE.   Differences:   `actual`: FALSE   `expected`: TRUE      ── Failure ('test-occCitation.R:111:3'): outputs for BIEN results are as expected ──   Expected `is.numeric(testResults$occCitationResults[[1]]$`Number of Occurrences`)` to be TRUE.   Differences:   `actual`: FALSE   `expected`: TRUE         [ FAIL 12 | WARN 0 | SKIP 20 | PASS 154 ]   Error:   ! Test failures.   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [18s/302s] OK
• 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