R Under development (unstable) (2024-07-10 r86888 ucrt) -- "Unsuffered Consequences"
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> library(testthat)
> library(genieBPC)
> 
> test_check("genieBPC")
! The OncoTree code inputted does not exist in the data and will be ignored. OncoTree codes will not be used to select a unique next generation sequencing panel for each patient.
[ FAIL 1 | WARN 0 | SKIP 49 | PASS 63 ]

══ Skipped tests (49) ══════════════════════════════════════════════════════════
• .is_connected_to_genie(pat = Sys.getenv("SYNAPSE_PAT")) is not TRUE (29):
  'test-check-genie-access.R:7:3', 'test-check-genie-access.R:16:3',
  'test-create_analytic_cohort.R:169:3', 'test-create_analytic_cohort.R:185:3',
  'test-create_analytic_cohort.R:223:3', 'test-create_analytic_cohort.R:259:3',
  'test-create_analytic_cohort.R:287:3', 'test-create_analytic_cohort.R:335:3',
  'test-create_analytic_cohort.R:383:3', 'test-create_analytic_cohort.R:424:3',
  'test-create_analytic_cohort.R:493:3', 'test-create_analytic_cohort.R:515:3',
  'test-create_analytic_cohort.R:610:3', 'test-create_analytic_cohort.R:760:3',
  'test-create_analytic_cohort.R:859:3', 'test-create_analytic_cohort.R:929:3',
  'test-create_analytic_cohort.R:947:3', 'test-create_analytic_cohort.R:959:3',
  'test-create_analytic_cohort.R:986:3', 'test-pull_data_synapse.R:57:3',
  'test-pull_data_synapse.R:71:3', 'test-pull_data_synapse.R:82:3',
  'test-pull_data_synapse.R:192:3', 'test-set_synapse_credentials.R:6:3',
  'test-set_synapse_credentials.R:14:3', 'test-set_synapse_credentials.R:22:3',
  'test-set_synapse_credentials.R:30:3', 'test-set_synapse_credentials.R:38:3',
  'test-synapse_version.R:3:3'
• .is_connected_to_genie(pat = Sys.getenv("SYNAPSE_PAT_NO_TERMS")) is not TRUE
  (3): 'test-check-genie-access.R:48:3', 'test-check-genie-access.R:55:3',
  'test-pull_data_synapse.R:633:3'
• .is_connected_to_genie(pat = Sys.getenv("SYNAPSE_PAT_PUBLIC")) is not TRUE
  (5): 'test-check-genie-access.R:27:3', 'test-check-genie-access.R:37:3',
  'test-pull_data_synapse.R:508:3', 'test-pull_data_synapse.R:578:3',
  'test-pull_data_synapse.R:593:3'
• .is_connected_to_genie(set_synapse_credentials(pat =
  Sys.getenv("SYNAPSE_PAT"))) is not TRUE (3):
  'test-pull_data_synapse.R:148:3', 'test-pull_data_synapse.R:228:3',
  'test-pull_data_synapse.R:463:3'
• .is_connected_to_genie(username = Sys.getenv("SYNAPSE_USERNAME"), (1):
  'test-pull_data_synapse.R:488:3'
• .is_connected_to_genie(username = Sys.getenv("SYNAPSE_USERNAME_NO_TERMS"),
  (1): 'test-pull_data_synapse.R:609:3'
• genieBPC:::.is_connected_to_genie() is not TRUE (7):
  'test-drug_regimen_sunburst.R:28:3', 'test-drug_regimen_sunburst.R:36:3',
  'test-drug_regimen_sunburst.R:48:3', 'test-drug_regimen_sunburst.R:56:3',
  'test-drug_regimen_sunburst.R:62:3', 'test-drug_regimen_sunburst.R:137:3',
  'test-select_unique_ngs.R:65:3'

══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test-pull_data_synapse.R:525:1'): (code run outside of `test_that()`) ──
... > 0 is not TRUE

`actual`:   FALSE
`expected`: TRUE 

[ FAIL 1 | WARN 0 | SKIP 49 | PASS 63 ]
> 
> proc.time()
   user  system elapsed 
   7.73    0.71    9.12