CRAN Package Check Results for Package occCite

Last updated on 2026-08-02 11:52:23 CEST.

Flavor	Version	Tinstall	Tcheck	Ttotal	Status	Flags
r-devel-linux-x86_64-debian-clang	0.6.2	11.49	137.05	148.54	OK
r-devel-linux-x86_64-debian-gcc	0.6.2	9.11	93.87	102.98	NOTE
r-devel-linux-x86_64-fedora-clang	0.6.2	20.00	201.37	221.37	OK
r-devel-linux-x86_64-fedora-gcc	0.6.2	8.00	93.38	101.38	ERROR
r-devel-windows-x86_64	0.6.2	16.00	169.00	185.00	OK
r-patched-linux-x86_64	0.6.2	11.14	125.96	137.10	OK
r-release-linux-x86_64	0.6.2	11.76	125.40	137.16	OK
r-release-macos-arm64	0.6.2	3.00	124.00	127.00	OK
r-release-macos-x86_64	0.6.2	8.00	231.00	239.00	OK
r-release-windows-x86_64	0.6.2	14.00	165.00	179.00	OK
r-oldrel-macos-arm64	0.6.2	3.00	134.00	137.00	OK
r-oldrel-macos-x86_64	0.6.2	8.00	235.00	243.00	OK
r-oldrel-windows-x86_64	0.6.2	20.00	186.00	206.00	OK

Check Details

Version: 0.6.2
Check: for new files in some other directories
Result: NOTE Found the following files/directories: ‘~/tmp/scratch/Rtmp0YG1ru’ ‘~/tmp/scratch/Rtmp19w8mu’ ‘~/tmp/scratch/Rtmp1KotcI’ ‘~/tmp/scratch/Rtmp1YKax4’ ‘~/tmp/scratch/Rtmp2YpS6q’ ‘~/tmp/scratch/Rtmp2rqwLf’ ‘~/tmp/scratch/Rtmp3IOHFU’ ‘~/tmp/scratch/Rtmp3Vqw28’ ‘~/tmp/scratch/Rtmp4O5xAE’ ‘~/tmp/scratch/Rtmp4VQT3W’ ‘~/tmp/scratch/Rtmp4ixzeB’ ‘~/tmp/scratch/Rtmp5iewoz’ ‘~/tmp/scratch/Rtmp6pCz5W’ ‘~/tmp/scratch/Rtmp7WvZa4’ ‘~/tmp/scratch/Rtmp7YZcvv’ ‘~/tmp/scratch/Rtmp8E4pwJ’ ‘~/tmp/scratch/Rtmp8oYu3o’ ‘~/tmp/scratch/Rtmp8zr8PC’ ‘~/tmp/scratch/Rtmp9OBOwA’ ‘~/tmp/scratch/Rtmp9X9FDy’ ‘~/tmp/scratch/Rtmp9pTzo4’ ‘~/tmp/scratch/RtmpA7eWxI’ ‘~/tmp/scratch/RtmpA9U9ai’ ‘~/tmp/scratch/RtmpAaMTS1’ ‘~/tmp/scratch/RtmpAqlHjA’ ‘~/tmp/scratch/RtmpBFTNOO’ ‘~/tmp/scratch/RtmpBNWGWq’ ‘~/tmp/scratch/RtmpBx7BGL’ ‘~/tmp/scratch/RtmpCUIfkG’ ‘~/tmp/scratch/RtmpD0aaaq’ ‘~/tmp/scratch/RtmpDi7oO2’ ‘~/tmp/scratch/RtmpExYxcS’ ‘~/tmp/scratch/RtmpGd4jjF’ ‘~/tmp/scratch/RtmpGr5Ih5’ ‘~/tmp/scratch/RtmpHBAhf7’ 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‘~/tmp/scratch/RtmpiQ3vFf’ ‘~/tmp/scratch/RtmpjJhFJN’ ‘~/tmp/scratch/Rtmpk61AYQ’ ‘~/tmp/scratch/Rtmpk7axVj’ ‘~/tmp/scratch/Rtmpk7iCvl’ ‘~/tmp/scratch/RtmpkZgNv0’ ‘~/tmp/scratch/Rtmpkz3IvG’ ‘~/tmp/scratch/Rtmpl1MtYT’ ‘~/tmp/scratch/RtmplIy27H’ ‘~/tmp/scratch/RtmplLbvaM’ ‘~/tmp/scratch/RtmpliqYo5’ ‘~/tmp/scratch/RtmpmSZdyZ’ ‘~/tmp/scratch/RtmpmaHTaf’ ‘~/tmp/scratch/RtmpnKjDBR’ ‘~/tmp/scratch/RtmpnKrbgM’ ‘~/tmp/scratch/RtmpoT2bsp’ ‘~/tmp/scratch/RtmpoU3JmC’ ‘~/tmp/scratch/Rtmppv3GoT’ ‘~/tmp/scratch/RtmpqjLwuy’ ‘~/tmp/scratch/RtmpqtlaZ2’ ‘~/tmp/scratch/Rtmpr7lH73’ ‘~/tmp/scratch/RtmprI1Htv’ ‘~/tmp/scratch/RtmprLTRDU’ ‘~/tmp/scratch/Rtmps6MFoh’ ‘~/tmp/scratch/Rtmps7Ofbv’ ‘~/tmp/scratch/RtmpszOA5f’ ‘~/tmp/scratch/RtmpsznvJ3’ ‘~/tmp/scratch/RtmptGX4Cq’ ‘~/tmp/scratch/RtmptMquvO’ ‘~/tmp/scratch/RtmptuNKxh’ ‘~/tmp/scratch/Rtmpu02HGZ’ ‘~/tmp/scratch/RtmpuCknfB’ ‘~/tmp/scratch/RtmpufGWjb’ ‘~/tmp/scratch/Rtmpv34AaH’ ‘~/tmp/scratch/Rtmpw4ZILb’ ‘~/tmp/scratch/RtmpwSUirI’ ‘~/tmp/scratch/RtmpwrTVmG’ ‘~/tmp/scratch/Rtmpx7OTDD’ ‘~/tmp/scratch/RtmpxKPVjl’ ‘~/tmp/scratch/RtmpxZbuWr’ ‘~/tmp/scratch/Rtmpxc7Xxq’ ‘~/tmp/scratch/RtmpxphBTQ’ ‘~/tmp/scratch/Rtmpxvm6bO’ ‘~/tmp/scratch/RtmpyD9hfP’ ‘~/tmp/scratch/RtmpyevLGw’ ‘~/tmp/scratch/RtmpzWxAC5’ ‘~/tmp/scratch/RtmpzZiQJY’ ‘~/tmp/scratch/RtmpzoB8WH’ ‘~/tmp/scratch/xvfb-run.2xE1w2’ ‘~/tmp/scratch/xvfb-run.3FqzeE’ ‘~/tmp/scratch/xvfb-run.3fdl5o’ ‘~/tmp/scratch/xvfb-run.3msFqe’ ‘~/tmp/scratch/xvfb-run.3zbymm’ ‘~/tmp/scratch/xvfb-run.4aQXh9’ ‘~/tmp/scratch/xvfb-run.5nOUTD’ ‘~/tmp/scratch/xvfb-run.7BSEiZ’ ‘~/tmp/scratch/xvfb-run.8j8L83’ ‘~/tmp/scratch/xvfb-run.93DzBJ’ ‘~/tmp/scratch/xvfb-run.AASAMu’ ‘~/tmp/scratch/xvfb-run.ASoa4c’ ‘~/tmp/scratch/xvfb-run.Av2gSu’ ‘~/tmp/scratch/xvfb-run.AvMj0n’ ‘~/tmp/scratch/xvfb-run.B9uYV5’ ‘~/tmp/scratch/xvfb-run.CCtoKB’ ‘~/tmp/scratch/xvfb-run.CetCQy’ ‘~/tmp/scratch/xvfb-run.CfxKkN’ ‘~/tmp/scratch/xvfb-run.DRPukU’ ‘~/tmp/scratch/xvfb-run.GZUwr6’ ‘~/tmp/scratch/xvfb-run.GnOomk’ ‘~/tmp/scratch/xvfb-run.ICutF6’ 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‘~/tmp/scratch/xvfb-run.kbvD9V’ ‘~/tmp/scratch/xvfb-run.nrwQH4’ ‘~/tmp/scratch/xvfb-run.oa7tHa’ ‘~/tmp/scratch/xvfb-run.ppMSSg’ ‘~/tmp/scratch/xvfb-run.racaVY’ ‘~/tmp/scratch/xvfb-run.sQF3ML’ ‘~/tmp/scratch/xvfb-run.sc6wwp’ ‘~/tmp/scratch/xvfb-run.u7keZc’ ‘~/tmp/scratch/xvfb-run.uRTONE’ ‘~/tmp/scratch/xvfb-run.w0C9Lg’ ‘~/tmp/scratch/xvfb-run.w6JAPO’ ‘~/tmp/scratch/xvfb-run.wmix6n’ ‘~/tmp/scratch/xvfb-run.wtr41f’ ‘~/tmp/scratch/xvfb-run.yaPlCH’ ‘~/tmp/scratch/xvfb-run.ydLeTE’ ‘~/tmp/scratch/xvfb-run.yqzmXf’ ‘~/tmp/scratch/xvfb-run.yxtKE8’ ‘~/tmp/scratch/xvfb-run.zM7RCC’ ‘~/tmp/scratch/xvfb-run.zbjhy0’ ‘~/tmp/scratch/xvfb-run.zuqzk1’ ‘/dev/shm/sm_segment.gimli1.1001.1b030000.0’ ‘/dev/shm/sm_segment.gimli1.1001.3ab70000.0’ ‘/dev/shm/sm_segment.gimli1.1001.4aa40000.0’ ‘/dev/shm/sm_segment.gimli1.1001.5f340000.0’ ‘/dev/shm/sm_segment.gimli1.1001.61110000.0’ ‘/dev/shm/sm_segment.gimli1.1001.667c0000.0’ ‘/dev/shm/sm_segment.gimli1.1001.90b90000.0’ ‘/dev/shm/sm_segment.gimli1.1001.95de0000.0’ ‘~/.cache/pocl/uncached/tempfile_5xCBZn’ ‘~/.cache/pocl/uncached/tempfile_JzlsdT’ ‘~/.cache/pocl/uncached/tempfile_SxHbm8’ ‘~/.cache/pocl/uncached/tempfile_hf6PN2’ ‘~/.cache/pocl/uncached/tempfile_m3LJ8f’ ‘~/.cache/pocl/uncached/tempfile_n67ybZ’ ‘~/.cache/pocl/uncached/tempfile_ot9q0Y’ ‘~/.cache/pocl/uncached/tempfile_v1K9lW’ Flavor: r-devel-linux-x86_64-debian-gcc

Version: 0.6.2
Check: tests
Result: 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 Flavor: r-devel-linux-x86_64-fedora-gcc