Running ‘testthat.R’ [8s/47s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  > library(PubChemR)
  > 
  > # Functions used globally in package tests (testthat) ----
  > allSuccess <- function(object){
  +   all(unlist(lapply(object$result, "[[", "success")))
  + }
  > 
  > testRequest <- function(object, ...){
  +   test_that(paste0("pulling via '", request_args(object, "namespace"), "' is succesfull"), {
  +     expect_true(allSuccess(object))
  +   })
  + 
  +   test_that("prints output to the R Console", {
  +     expect_output(print(object))
  +   })
  + }
  > 
  > # Set 'skipTests' FALSE to run test codes. This is set TRUE to skip
  > # all tests on GitHub actions since some of PubChem requests were incomplete due to
  > # timeout and/or API related issues. BUILD & CHECK actions on GitHub returns error
  > # even if all tests were passed on local installations of R.
  > skipTests <- FALSE
  > 
  > if (!skipTests){
  +   test_check("PubChemR")
  + }
  The file has been saved to '/home/hornik/tmp/scratch/Rtmpz11pHn/aspirin.json'
  The file has been saved to '/home/hornik/tmp/scratch/Rtmpz11pHn/aspirin.json'
  The file has been saved to '/home/hornik/tmp/scratch/Rtmpz11pHn/aspirin.json'
  The file has been saved to '/home/hornik/tmp/scratch/Rtmpz11pHn/aspirin.json'
  The file has been saved to '/home/hornik/tmp/scratch/Rtmpz11pHn/aspirin.sdf'
  
  trying URL 'https://pubchem.ncbi.nlm.nih.gov/rest/pug/compound/cid/2244/SDF'
  downloaded 3641 bytes
  
  trying URL 'https://pubchem.ncbi.nlm.nih.gov/rest/pug/compound/cid/2244/SDF'
  downloaded 3641 bytes
  
  trying URL 'https://pubchem.ncbi.nlm.nih.gov/rest/pug/compound/name/aspirin/SDF'
  downloaded 3641 bytes
  
    SDF file to save --> 'aspirin_2024-09-10_18_20_49.876158.sdf'
  
    Saved into folder --> /home/hornik/tmp/scratch/Rtmpz11pHn
  
    Completed options
  
  trying URL 'https://pubchem.ncbi.nlm.nih.gov/rest/pug/compound/cid/2244/SDF'
  downloaded 3641 bytes
  
    SDF file to save --> 'file.sdf'
  
    Saved into folder --> /home/hornik/tmp/scratch/Rtmpz11pHn
  
    Completed options
  
  'path' is not specified. Saving files into a temporary folder.
  trying URL 'https://pubchem.ncbi.nlm.nih.gov/rest/pug/compound/name/aspirin/SDF'
  downloaded 3641 bytes
  
    SDF file to save --> 'file.sdf'
  
    Saved into folder --> /home/hornik/tmp/scratch/Rtmpz11pHn
  
    Completed options
  
  
   PubChem Substance Details (comment)
  
   Same as: <a href="http://pubchem.ncbi.nlm.nih.gov/summary/summary.cgi?sid=7847177">D00109</a>
   Is a reactant of enzyme EC: 3.1.1.55
  
  
   PubChem Substance Details (comment)
  
   Same as: <a href="http://pubchem.ncbi.nlm.nih.gov/summary/summary.cgi?sid=7847177">D00109</a>
   Is a reactant of enzyme EC: 3.1.1.55
  
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 203 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-get_aids.R:20:5'): pulling aids via 'cid' is succesfull ──────
  allSuccess(object) is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  ── Failure ('test-get_aids.R:24:5'): AIDs succesfully returns 'data.frame' and 'list' ──
  {
      ...
  } is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  Backtrace:
      ▆
   1. └─PubChemR (local) toDataFrame(object) at test-get_aids.R:24:5
   2.   └─testthat::expect_true(...) at test-get_aids.R:5:3
  
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 203 ]
  Error: Test failures
  Execution halted