CRAN Package Check Results for Package occCite

Last updated on 2021-02-09 06:50:56 CET.

Flavor	Version	T_install	T_check	T_total	Status
r-devel-linux-x86_64-debian-clang	0.4.5	9.69	95.01	104.70	ERROR
r-devel-linux-x86_64-debian-gcc	0.4.5	7.82	71.00	78.82	ERROR
r-devel-linux-x86_64-fedora-clang	0.4.5			129.84	ERROR
r-devel-linux-x86_64-fedora-gcc	0.4.5			121.25	ERROR
r-devel-windows-ix86+x86_64	0.4.5	33.00	142.00	175.00	ERROR
r-patched-linux-x86_64	0.4.5	10.07	89.42	99.49	ERROR
r-patched-solaris-x86	0.4.5			178.00	ERROR
r-release-linux-x86_64	0.4.5	8.92	90.03	98.95	ERROR
r-release-macos-x86_64	0.4.5				NOTE
r-release-windows-ix86+x86_64	0.4.5	16.00	106.00	122.00	ERROR
r-oldrel-macos-x86_64	0.4.5				NOTE
r-oldrel-windows-ix86+x86_64	0.4.5	10.00	112.00	122.00	ERROR

Check Details

Version: 0.4.5
Check: tests
Result: ERROR
     Running 'testthat.R' [10s/25s]
    Running the tests in 'tests/testthat.R' failed.
    Complete output:
     > library(testthat)
     > library(occCite)
     >
     > test_check("occCite")
     == Skipped tests ===============================================================
     * GBIF Login information not available (1)
     * On CRAN (14)

     == Warnings ====================================================================
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2
     -- Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2

     == Failed tests ================================================================
     -- Failure (test-taxonRectification.R:11:3): functions on which it depends function as necessary --
     "NCBI" %in% sources$title is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     -- Failure (test-taxonRectification.R:21:3): functions on which it depends function as necessary --
     nrow(temp) == 1 is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     -- Failure (test-taxonRectification.R:22:3): functions on which it depends function as necessary --
     temp$user_supplied_name == temp$matched_name is not TRUE

     `actual`: TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE and 31 more...
     `expected`: TRUE ...
     -- Failure (test-taxonRectification.R:23:3): functions on which it depends function as necessary --
     temp$data_source_title == datasources is not TRUE

     actual | expected
     [1] FALSE - TRUE [1]
     [2] FALSE -
     [3] FALSE -
     [4] FALSE -
     [5] FALSE -
     [6] FALSE -
     [7] FALSE -
     [8] FALSE -
     [9] FALSE -
     [10] FALSE -
     ... ... ... and 31 more ...
     -- Failure (test-taxonRectification.R:36:3): taxonRectification performs as expected --
     testResult$`Best Match`[1] == "Buteo buteo harterti" is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     -- Failure (test-taxonRectification.R:37:3): taxonRectification performs as expected --
     testResult$`Searched Taxonomic Databases w/ Matches` == "NCBI" is not TRUE

     `actual`: FALSE
     `expected`: TRUE

     [ FAIL 6 | WARN 22 | SKIP 15 | PASS 185 ]
     Error: Test failures
     Execution halted
Flavor: r-devel-linux-x86_64-debian-clang

Version: 0.4.5
Check: tests
Result: ERROR
     Running ‘testthat.R’ [8s/25s]
    Running the tests in ‘tests/testthat.R’ failed.
    Complete output:
     > library(testthat)
     > library(occCite)
     >
     > test_check("occCite")
     ══ Skipped tests ═══════════════════════════════════════════════════════════════
     ● GBIF Login information not available (1)
     ● On CRAN (14)

     ══ Warnings ════════════════════════════════════════════════════════════════════
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2
     ── Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2

     ══ Failed tests ════════════════════════════════════════════════════════════════
     ── Failure (test-taxonRectification.R:11:3): functions on which it depends function as necessary ──
     "NCBI" %in% sources$title is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     ── Failure (test-taxonRectification.R:21:3): functions on which it depends function as necessary ──
     nrow(temp) == 1 is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     ── Failure (test-taxonRectification.R:22:3): functions on which it depends function as necessary ──
     temp$user_supplied_name == temp$matched_name is not TRUE

     `actual`: TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE and 31 more...
     `expected`: TRUE ...
     ── Failure (test-taxonRectification.R:23:3): functions on which it depends function as necessary ──
     temp$data_source_title == datasources is not TRUE

     actual | expected
     [1] FALSE - TRUE [1]
     [2] FALSE -
     [3] FALSE -
     [4] FALSE -
     [5] FALSE -
     [6] FALSE -
     [7] FALSE -
     [8] FALSE -
     [9] FALSE -
     [10] FALSE -
     ... ... ... and 31 more ...
     ── Failure (test-taxonRectification.R:36:3): taxonRectification performs as expected ──
     testResult$`Best Match`[1] == "Buteo buteo harterti" is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     ── Failure (test-taxonRectification.R:37:3): taxonRectification performs as expected ──
     testResult$`Searched Taxonomic Databases w/ Matches` == "NCBI" is not TRUE

     `actual`: FALSE
     `expected`: TRUE

     [ FAIL 6 | WARN 22 | SKIP 15 | PASS 185 ]
     Error: Test failures
     Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc

Version: 0.4.5
Check: dependencies in R code
Result: NOTE
    Namespaces in Imports field not imported from:
     ‘ape’ ‘bit64’ ‘knitr’ ‘magrittr’
     All declared Imports should be used.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-solaris-x86, r-release-macos-x86_64, r-oldrel-macos-x86_64

Version: 0.4.5
Check: data for non-ASCII characters
Result: NOTE
Note: found 6 marked UTF-8 strings
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-solaris-x86, r-release-macos-x86_64, r-oldrel-macos-x86_64

Version: 0.4.5
Check: tests
Result: ERROR
     Running ‘testthat.R’ [12s/25s]
    Running the tests in ‘tests/testthat.R’ failed.
    Complete output:
     > library(testthat)
     > library(occCite)
     >
     > test_check("occCite")
     ══ Skipped tests ═══════════════════════════════════════════════════════════════
     ● GBIF Login information not available (1)
     ● On CRAN (14)

     ══ Warnings ════════════════════════════════════════════════════════════════════
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2
     ── Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2

     ══ Failed tests ════════════════════════════════════════════════════════════════
     ── Failure (test-taxonRectification.R:11:3): functions on which it depends function as necessary ──
     "NCBI" %in% sources$title is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     ── Failure (test-taxonRectification.R:21:3): functions on which it depends function as necessary ──
     nrow(temp) == 1 is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     ── Failure (test-taxonRectification.R:22:3): functions on which it depends function as necessary ──
     temp$user_supplied_name == temp$matched_name is not TRUE

     `actual`: TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE and 31 more...
     `expected`: TRUE ...
     ── Failure (test-taxonRectification.R:23:3): functions on which it depends function as necessary ──
     temp$data_source_title == datasources is not TRUE

     actual | expected
     [1] FALSE - TRUE [1]
     [2] FALSE -
     [3] FALSE -
     [4] FALSE -
     [5] FALSE -
     [6] FALSE -
     [7] FALSE -
     [8] FALSE -
     [9] FALSE -
     [10] FALSE -
     ... ... ... and 31 more ...
     ── Failure (test-taxonRectification.R:36:3): taxonRectification performs as expected ──
     testResult$`Best Match`[1] == "Buteo buteo harterti" is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     ── Failure (test-taxonRectification.R:37:3): taxonRectification performs as expected ──
     testResult$`Searched Taxonomic Databases w/ Matches` == "NCBI" is not TRUE

     `actual`: FALSE
     `expected`: TRUE

     [ FAIL 6 | WARN 22 | SKIP 15 | PASS 185 ]
     Error: Test failures
     Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang

Version: 0.4.5
Check: tests
Result: ERROR
     Running ‘testthat.R’ [12s/27s]
    Running the tests in ‘tests/testthat.R’ failed.
    Complete output:
     > library(testthat)
     > library(occCite)
     >
     > test_check("occCite")
     ══ Skipped tests ═══════════════════════════════════════════════════════════════
     ● GBIF Login information not available (1)
     ● On CRAN (14)

     ══ Warnings ════════════════════════════════════════════════════════════════════
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2
     ── Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2

     ══ Failed tests ════════════════════════════════════════════════════════════════
     ── Failure (test-taxonRectification.R:11:3): functions on which it depends function as necessary ──
     "NCBI" %in% sources$title is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     ── Failure (test-taxonRectification.R:21:3): functions on which it depends function as necessary ──
     nrow(temp) == 1 is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     ── Failure (test-taxonRectification.R:22:3): functions on which it depends function as necessary ──
     temp$user_supplied_name == temp$matched_name is not TRUE

     `actual`: TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE and 31 more...
     `expected`: TRUE ...
     ── Failure (test-taxonRectification.R:23:3): functions on which it depends function as necessary ──
     temp$data_source_title == datasources is not TRUE

     actual | expected
     [1] FALSE - TRUE [1]
     [2] FALSE -
     [3] FALSE -
     [4] FALSE -
     [5] FALSE -
     [6] FALSE -
     [7] FALSE -
     [8] FALSE -
     [9] FALSE -
     [10] FALSE -
     ... ... ... and 31 more ...
     ── Failure (test-taxonRectification.R:36:3): taxonRectification performs as expected ──
     testResult$`Best Match`[1] == "Buteo buteo harterti" is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     ── Failure (test-taxonRectification.R:37:3): taxonRectification performs as expected ──
     testResult$`Searched Taxonomic Databases w/ Matches` == "NCBI" is not TRUE

     `actual`: FALSE
     `expected`: TRUE

     [ FAIL 6 | WARN 22 | SKIP 15 | PASS 185 ]
     Error: Test failures
     Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 0.4.5
Check: tests
Result: ERROR
     Running 'testthat.R' [22s]
    Running the tests in 'tests/testthat.R' failed.
    Complete output:
     > library(testthat)
     > library(occCite)
     >
     > test_check("occCite")
     == Skipped tests ===============================================================
     * GBIF Login information not available (1)
     * On CRAN (14)

     == Warnings ====================================================================
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2
     -- Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2

     == Failed tests ================================================================
     -- Failure (test-taxonRectification.R:11:3): functions on which it depends function as necessary --
     "NCBI" %in% sources$title is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     -- Failure (test-taxonRectification.R:21:3): functions on which it depends function as necessary --
     nrow(temp) == 1 is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     -- Failure (test-taxonRectification.R:22:3): functions on which it depends function as necessary --
     temp$user_supplied_name == temp$matched_name is not TRUE

     `actual`: TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE and 31 more...
     `expected`: TRUE ...
     -- Failure (test-taxonRectification.R:23:3): functions on which it depends function as necessary --
     temp$data_source_title == datasources is not TRUE

     actual | expected
     [1] FALSE - TRUE [1]
     [2] FALSE -
     [3] FALSE -
     [4] FALSE -
     [5] FALSE -
     [6] FALSE -
     [7] FALSE -
     [8] FALSE -
     [9] FALSE -
     [10] FALSE -
     ... ... ... and 31 more ...
     -- Failure (test-taxonRectification.R:36:3): taxonRectification performs as expected --
     testResult$`Best Match`[1] == "Buteo buteo harterti" is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     -- Failure (test-taxonRectification.R:37:3): taxonRectification performs as expected --
     testResult$`Searched Taxonomic Databases w/ Matches` == "NCBI" is not TRUE

     `actual`: FALSE
     `expected`: TRUE

     [ FAIL 6 | WARN 22 | SKIP 15 | PASS 185 ]
     Error: Test failures
     Execution halted
Flavor: r-devel-windows-ix86+x86_64

Version: 0.4.5
Check: tests
Result: ERROR
     Running ‘testthat.R’ [10s/25s]
    Running the tests in ‘tests/testthat.R’ failed.
    Complete output:
     > library(testthat)
     > library(occCite)
     >
     > test_check("occCite")
     ══ Skipped tests ═══════════════════════════════════════════════════════════════
     ● GBIF Login information not available (1)
     ● On CRAN (14)

     ══ Warnings ════════════════════════════════════════════════════════════════════
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2
     ── Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2

     ══ Failed tests ════════════════════════════════════════════════════════════════
     ── Failure (test-taxonRectification.R:11:3): functions on which it depends function as necessary ──
     "NCBI" %in% sources$title is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     ── Failure (test-taxonRectification.R:21:3): functions on which it depends function as necessary ──
     nrow(temp) == 1 is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     ── Failure (test-taxonRectification.R:22:3): functions on which it depends function as necessary ──
     temp$user_supplied_name == temp$matched_name is not TRUE

     `actual`: TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE and 31 more...
     `expected`: TRUE ...
     ── Failure (test-taxonRectification.R:23:3): functions on which it depends function as necessary ──
     temp$data_source_title == datasources is not TRUE

     actual | expected
     [1] FALSE - TRUE [1]
     [2] FALSE -
     [3] FALSE -
     [4] FALSE -
     [5] FALSE -
     [6] FALSE -
     [7] FALSE -
     [8] FALSE -
     [9] FALSE -
     [10] FALSE -
     ... ... ... and 31 more ...
     ── Failure (test-taxonRectification.R:36:3): taxonRectification performs as expected ──
     testResult$`Best Match`[1] == "Buteo buteo harterti" is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     ── Failure (test-taxonRectification.R:37:3): taxonRectification performs as expected ──
     testResult$`Searched Taxonomic Databases w/ Matches` == "NCBI" is not TRUE

     `actual`: FALSE
     `expected`: TRUE

     [ FAIL 6 | WARN 22 | SKIP 15 | PASS 185 ]
     Error: Test failures
     Execution halted
Flavor: r-patched-linux-x86_64

Version: 0.4.5
Check: tests
Result: ERROR
     Running ‘testthat.R’ [15s/53s]
    Running the tests in ‘tests/testthat.R’ failed.
    Complete output:
     > library(testthat)
     > library(occCite)
     >
     > test_check("occCite")
     ══ Skipped tests ═══════════════════════════════════════════════════════════════
     ● GBIF Login information not available (1)
     ● On CRAN (14)

     ══ Warnings ════════════════════════════════════════════════════════════════════
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2
     ── Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2

     ══ Failed tests ════════════════════════════════════════════════════════════════
     ── Failure (test-taxonRectification.R:11:3): functions on which it depends function as necessary ──
     "NCBI" %in% sources$title is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     ── Failure (test-taxonRectification.R:21:3): functions on which it depends function as necessary ──
     nrow(temp) == 1 is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     ── Failure (test-taxonRectification.R:22:3): functions on which it depends function as necessary ──
     temp$user_supplied_name == temp$matched_name is not TRUE

     `actual`: TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE and 31 more...
     `expected`: TRUE ...
     ── Failure (test-taxonRectification.R:23:3): functions on which it depends function as necessary ──
     temp$data_source_title == datasources is not TRUE

     actual | expected
     [1] FALSE - TRUE [1]
     [2] FALSE -
     [3] FALSE -
     [4] FALSE -
     [5] FALSE -
     [6] FALSE -
     [7] FALSE -
     [8] FALSE -
     [9] FALSE -
     [10] FALSE -
     ... ... ... and 31 more ...
     ── Failure (test-taxonRectification.R:36:3): taxonRectification performs as expected ──
     testResult$`Best Match`[1] == "Buteo buteo harterti" is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     ── Failure (test-taxonRectification.R:37:3): taxonRectification performs as expected ──
     testResult$`Searched Taxonomic Databases w/ Matches` == "NCBI" is not TRUE

     `actual`: FALSE
     `expected`: TRUE

     [ FAIL 6 | WARN 22 | SKIP 15 | PASS 185 ]
     Error: Test failures
     Execution halted
Flavor: r-patched-solaris-x86

Version: 0.4.5
Check: tests
Result: ERROR
     Running ‘testthat.R’ [10s/24s]
    Running the tests in ‘tests/testthat.R’ failed.
    Complete output:
     > library(testthat)
     > library(occCite)
     >
     > test_check("occCite")
     ══ Skipped tests ═══════════════════════════════════════════════════════════════
     ● GBIF Login information not available (1)
     ● On CRAN (14)

     ══ Warnings ════════════════════════════════════════════════════════════════════
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     ── Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected ──
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2
     ── Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected ──
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2

     ══ Failed tests ════════════════════════════════════════════════════════════════
     ── Failure (test-taxonRectification.R:11:3): functions on which it depends function as necessary ──
     "NCBI" %in% sources$title is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     ── Failure (test-taxonRectification.R:21:3): functions on which it depends function as necessary ──
     nrow(temp) == 1 is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     ── Failure (test-taxonRectification.R:22:3): functions on which it depends function as necessary ──
     temp$user_supplied_name == temp$matched_name is not TRUE

     `actual`: TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE and 31 more...
     `expected`: TRUE ...
     ── Failure (test-taxonRectification.R:23:3): functions on which it depends function as necessary ──
     temp$data_source_title == datasources is not TRUE

     actual | expected
     [1] FALSE - TRUE [1]
     [2] FALSE -
     [3] FALSE -
     [4] FALSE -
     [5] FALSE -
     [6] FALSE -
     [7] FALSE -
     [8] FALSE -
     [9] FALSE -
     [10] FALSE -
     ... ... ... and 31 more ...
     ── Failure (test-taxonRectification.R:36:3): taxonRectification performs as expected ──
     testResult$`Best Match`[1] == "Buteo buteo harterti" is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     ── Failure (test-taxonRectification.R:37:3): taxonRectification performs as expected ──
     testResult$`Searched Taxonomic Databases w/ Matches` == "NCBI" is not TRUE

     `actual`: FALSE
     `expected`: TRUE

     [ FAIL 6 | WARN 22 | SKIP 15 | PASS 185 ]
     Error: Test failures
     Execution halted
Flavor: r-release-linux-x86_64

Version: 0.4.5
Check: tests
Result: ERROR
     Running 'testthat.R' [18s]
    Running the tests in 'tests/testthat.R' failed.
    Complete output:
     > library(testthat)
     > library(occCite)
     >
     > test_check("occCite")
     == Skipped tests ===============================================================
     * GBIF Login information not available (1)
     * On CRAN (14)

     == Warnings ====================================================================
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     4. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2
     -- Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2

     == Failed tests ================================================================
     -- Failure (test-taxonRectification.R:11:3): functions on which it depends function as necessary --
     "NCBI" %in% sources$title is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     -- Failure (test-taxonRectification.R:21:3): functions on which it depends function as necessary --
     nrow(temp) == 1 is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     -- Failure (test-taxonRectification.R:22:3): functions on which it depends function as necessary --
     temp$user_supplied_name == temp$matched_name is not TRUE

     `actual`: TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE and 31 more...
     `expected`: TRUE ...
     -- Failure (test-taxonRectification.R:23:3): functions on which it depends function as necessary --
     temp$data_source_title == datasources is not TRUE

     actual | expected
     [1] FALSE - TRUE [1]
     [2] FALSE -
     [3] FALSE -
     [4] FALSE -
     [5] FALSE -
     [6] FALSE -
     [7] FALSE -
     [8] FALSE -
     [9] FALSE -
     [10] FALSE -
     ... ... ... and 31 more ...
     -- Failure (test-taxonRectification.R:36:3): taxonRectification performs as expected --
     testResult$`Best Match`[1] == "Buteo buteo harterti" is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     -- Failure (test-taxonRectification.R:37:3): taxonRectification performs as expected --
     testResult$`Searched Taxonomic Databases w/ Matches` == "NCBI" is not TRUE

     `actual`: FALSE
     `expected`: TRUE

     [ FAIL 6 | WARN 22 | SKIP 15 | PASS 185 ]
     Error: Test failures
     Execution halted
Flavor: r-release-windows-ix86+x86_64

Version: 0.4.5
Check: tests
Result: ERROR
     Running 'testthat.R' [19s]
    Running the tests in 'tests/testthat.R' failed.
    Complete output:
     > library(testthat)
     > library(occCite)
     >
     > test_check("occCite")
     == Skipped tests ===============================================================
     * GBIF Login information not available (1)
     * On CRAN (14)

     == Warnings ====================================================================
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:18:3): studyTaxonList works with a phylogeny --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = phylogeny, datasources = c("NCBI")) test-studyTaxonList.R:18:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-studyTaxonList.R:45:3): studyTaxonList works with a vector of species --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::studyTaxonList(x = taxVector, datasources = c("NCBI")) test-studyTaxonList.R:45:2
     3. occCite::taxonRectification(taxName = targets[[count]], datasources = datasources)
     -- Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected --
     The following sources were not found in Global Names Index source list: NCBI
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2
     -- Warning (test-taxonRectification.R:27:3): taxonRectification performs as expected --
     No valid taxonomic data sources supplied. Populating default list from all available sources.
     Backtrace:
     1. occCite::taxonRectification(...) test-taxonRectification.R:27:2

     == Failed tests ================================================================
     -- Failure (test-taxonRectification.R:11:3): functions on which it depends function as necessary --
     "NCBI" %in% sources$title is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     -- Failure (test-taxonRectification.R:21:3): functions on which it depends function as necessary --
     nrow(temp) == 1 is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     -- Failure (test-taxonRectification.R:22:3): functions on which it depends function as necessary --
     temp$user_supplied_name == temp$matched_name is not TRUE

     `actual`: TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE and 31 more...
     `expected`: TRUE ...
     -- Failure (test-taxonRectification.R:23:3): functions on which it depends function as necessary --
     temp$data_source_title == datasources is not TRUE

     actual | expected
     [1] FALSE - TRUE [1]
     [2] FALSE -
     [3] FALSE -
     [4] FALSE -
     [5] FALSE -
     [6] FALSE -
     [7] FALSE -
     [8] FALSE -
     [9] FALSE -
     [10] FALSE -
     ... ... ... and 31 more ...
     -- Failure (test-taxonRectification.R:36:3): taxonRectification performs as expected --
     testResult$`Best Match`[1] == "Buteo buteo harterti" is not TRUE

     `actual`: FALSE
     `expected`: TRUE
     -- Failure (test-taxonRectification.R:37:3): taxonRectification performs as expected --
     testResult$`Searched Taxonomic Databases w/ Matches` == "NCBI" is not TRUE

     `actual`: FALSE
     `expected`: TRUE

     [ FAIL 6 | WARN 22 | SKIP 15 | PASS 185 ]
     Error: Test failures
     Execution halted
Flavor: r-oldrel-windows-ix86+x86_64