CRAN Package Check Results for Package PubChemR

Last updated on 2024-10-07 06:49:32 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 2.1.1 8.56 176.59 185.15 ERROR
r-devel-linux-x86_64-debian-gcc 2.1.1 6.11 117.92 124.03 OK
r-devel-linux-x86_64-fedora-clang 2.1.1 320.26 OK
r-devel-linux-x86_64-fedora-gcc 2.1.1 300.62 OK
r-devel-windows-x86_64 2.1.1 11.00 296.00 307.00 OK
r-patched-linux-x86_64 2.1.1 8.55 167.52 176.07 OK
r-release-linux-x86_64 2.1.1 8.00 165.57 173.57 OK
r-release-macos-arm64 2.1.1 209.00 OK
r-release-macos-x86_64 2.1.1 269.00 OK
r-release-windows-x86_64 2.1.1 12.00 340.00 352.00 OK
r-oldrel-macos-arm64 2.1.1 225.00 OK
r-oldrel-macos-x86_64 2.1.1 284.00 OK
r-oldrel-windows-x86_64 2.1.1 12.00 364.00 376.00 OK

Check Details

Version: 2.1.1
Check: tests
Result: ERROR Running ‘testthat.R’ [7s/58s] 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/RtmpFeiC1u/aspirin.json' The file has been saved to '/home/hornik/tmp/scratch/RtmpFeiC1u/aspirin.json' The file has been saved to '/home/hornik/tmp/scratch/RtmpFeiC1u/aspirin.json' The file has been saved to '/home/hornik/tmp/scratch/RtmpFeiC1u/aspirin.json' The file has been saved to '/home/hornik/tmp/scratch/RtmpFeiC1u/aspirin.sdf' Request failed [400]. Retrying in 1 seconds... Request failed [400]. Retrying in 7.2 seconds... SDF file saved successfully: File Name: 'aspirin_20241003_181346.sdf' Saved at: /home/hornik/tmp/scratch/RtmpFeiC1u SDF file saved successfully: File Name: 'file.sdf' Saved at: /home/hornik/tmp/scratch/RtmpFeiC1u 'path' is not specified. Saving files into a temporary folder. SDF file saved successfully: File Name: 'file.sdf' Saved at: /home/hornik/tmp/scratch/RtmpFeiC1u 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 'name' 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 Flavor: r-devel-linux-x86_64-debian-clang