CRAN Package Check Results for Package PubChemR

Last updated on 2025-02-14 13:50:11 CET.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 2.1.3 8.44 179.75 188.19 OK
r-devel-linux-x86_64-debian-gcc 2.1.3 5.43 117.26 122.69 OK
r-devel-linux-x86_64-fedora-clang 2.1.3 323.30 OK
r-devel-linux-x86_64-fedora-gcc 2.1.3 293.30 OK
r-devel-windows-x86_64 2.1.3 10.00 365.00 375.00 OK
r-patched-linux-x86_64 2.1.3 7.66 169.88 177.54 OK
r-release-linux-x86_64 2.1.3 7.84 167.29 175.13 OK
r-release-macos-arm64 2.1.3 232.00 OK
r-release-macos-x86_64 2.1.3 311.00 OK
r-release-windows-x86_64 2.1.3 10.00 342.00 352.00 OK
r-oldrel-macos-arm64 2.1.3 232.00 OK
r-oldrel-macos-x86_64 2.1.3 323.00 OK
r-oldrel-windows-x86_64 2.1.3 13.00 405.00 418.00 ERROR

Additional issues

OpenBLAS

Check Details

Version: 2.1.3
Check: tests
Result: ERROR Running 'testthat.R' [64s] 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 'D:\temp\2025_02_12_01_50_00_17817\RtmpyYPNeM/aspirin.json' The file has been saved to 'D:\temp\2025_02_12_01_50_00_17817\RtmpyYPNeM/aspirin.json' The file has been saved to 'D:\temp\2025_02_12_01_50_00_17817\RtmpyYPNeM/aspirin.json' The file has been saved to 'D:\temp\2025_02_12_01_50_00_17817\RtmpyYPNeM/aspirin.json' The file has been saved to 'D:\temp\2025_02_12_01_50_00_17817\RtmpyYPNeM/aspirin.sdf' Request failed [400]. Retrying in 3.8 seconds... Request failed [400]. Retrying in 3.7 seconds... SDF file saved successfully: File Name: 'aspirin_20250212_085705.sdf' Saved at: D:\temp\2025_02_12_01_50_00_17817\RtmpyYPNeM SDF file saved successfully: File Name: 'file.sdf' Saved at: D:\temp\2025_02_12_01_50_00_17817\RtmpyYPNeM 'path' is not specified. Saving files into a temporary folder. SDF file saved successfully: File Name: 'file.sdf' Saved at: D:\temp\2025_02_12_01_50_00_17817\RtmpyYPNeM 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 202 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-get_sids.R:20:5'): pulling sids via 'smiles' is succesfull ─── allSuccess(object) is not TRUE `actual`: FALSE `expected`: TRUE ── Failure ('test-get_sids.R:53:3'): pulling sids for multiple identifiers with undefined input. ── sids$result[[1]]$success is not TRUE `actual` is NULL `expected` is a logical vector (TRUE) [ FAIL 2 | WARN 0 | SKIP 0 | PASS 202 ] Error: Test failures Execution halted Flavor: r-oldrel-windows-x86_64