Running ‘testthat.R’ [4s/65s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(biolink)
  > 
  > test_check("biolink")
  ── 1. Error: Reference Gene Ontology URL is valid (@test-links-go.r#7)  ────────
  Timeout was reached: Connection timed out after 10001 milliseconds
  1: expect_equal(check_url_status(url), 200) at testthat/test-links-go.r:7
  2: quasi_label(enquo(object), label)
  3: eval_bare(get_expr(quo), get_env(quo))
  4: check_url_status(url)
  5: httr::GET(url) at /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/biolink.Rcheck/tests/testthat/helper-functions.r:4
  6: request_perform(req, hu$handle$handle)
  7: request_fetch(req$output, req$url, handle)
  8: request_fetch.write_memory(req$output, req$url, handle)
  9: curl::curl_fetch_memory(url, handle = handle)
  
  ── 2. Failure: Reference PubMed URL is valid (@test-links-pubmed.r#7)  ─────────
  check_url_status(url) not equal to 200.
  1/1 mismatches
  [1] 404 - 200 == 204
  
  ── 3. Failure: PubMed tag retrieval (@test-tags-pubmed.r#12)  ──────────────────
  query_pubmed(ids, "year") not equal to `years`.
  Lengths differ: 0 is not 2
  
  ── 4. Failure: PubMed tag retrieval (@test-tags-pubmed.r#13)  ──────────────────
  query_pubmed(ids, "journal") not equal to `journals`.
  Lengths differ: 0 is not 2
  
  ── 5. Failure: PubMed tag retrieval (@test-tags-pubmed.r#14)  ──────────────────
  query_pubmed(ids, "title") not equal to `titles`.
  Lengths differ: 0 is not 2
  
  ── 6. Failure: PubMed tag substitution (@test-tags-pubmed.r#23)  ───────────────
  `link` not equal to `ref`.
  1/1 mismatches
  x[1]: "<a href=\"https://www.ncbi.nlm.nih.gov/pubmed/22066989\"></a>"
  y[1]: "<a href=\"https://www.ncbi.nlm.nih.gov/pubmed/22066989\">2012</a>"
  
  ── 7. Failure: PubMed tag substitution (@test-tags-pubmed.r#27)  ───────────────
  `link` not equal to `ref`.
  1/1 mismatches
  x[1]: "<a href=\"https://www.ncbi.nlm.nih.gov/pubmed/22066989\"></a>"
  y[1]: "<a href=\"https://www.ncbi.nlm.nih.gov/pubmed/22066989\">FEMS immunology 
  y[1]: and medical microbiology</a>"
  
  ── 8. Failure: PubMed tag substitution (@test-tags-pubmed.r#31)  ───────────────
  `link` not equal to `ref`.
  1/1 mismatches
  x[1]: "<a href=\"https://www.ncbi.nlm.nih.gov/pubmed/22066989\"></a>"
  y[1]: "<a href=\"https://www.ncbi.nlm.nih.gov/pubmed/22066989\">Monoubiquitinate
  y[1]: d proteins decorate the Anaplasma phagocytophilum-occupied vacuolar membra
  y[1]: ne.</a>"
  
  ══ testthat results  ═══════════════════════════════════════════════════════════
  OK: 112 SKIPPED: 1 FAILED: 8
  1. Error: Reference Gene Ontology URL is valid (@test-links-go.r#7) 
  2. Failure: Reference PubMed URL is valid (@test-links-pubmed.r#7) 
  3. Failure: PubMed tag retrieval (@test-tags-pubmed.r#12) 
  4. Failure: PubMed tag retrieval (@test-tags-pubmed.r#13) 
  5. Failure: PubMed tag retrieval (@test-tags-pubmed.r#14) 
  6. Failure: PubMed tag substitution (@test-tags-pubmed.r#23) 
  7. Failure: PubMed tag substitution (@test-tags-pubmed.r#27) 
  8. Failure: PubMed tag substitution (@test-tags-pubmed.r#31) 
  
  Error: testthat unit tests failed
  Execution halted