CRAN Package Check Results for Package PubChemR

Last updated on 2025-02-18 05:50:52 CET.

Flavor	Version	T_install	T_check	T_total	Status
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	5.63	115.18	120.81	OK
r-devel-linux-x86_64-fedora-clang	2.1.3			323.30	OK
r-devel-linux-x86_64-fedora-gcc	2.1.3			314.40	OK
r-devel-macos-arm64	2.1.3			232.00	OK
r-devel-macos-x86_64	2.1.3			442.00	OK
r-devel-windows-x86_64	2.1.3	10.00	346.00	356.00	OK
r-patched-linux-x86_64	2.1.3	8.39	169.42	177.81	OK
r-release-linux-x86_64	2.1.3	6.86	165.51	172.37	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	11.00	412.00	423.00	ERROR
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	402.00	415.00	OK

Additional issues

OpenBLAS

Check Details

Version: 2.1.3
Check: tests
Result: ERROR Running 'testthat.R' [86s] 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_16_01_50_00_32289\Rtmp0Y9oUU/aspirin.json' The file has been saved to 'D:\temp\2025_02_16_01_50_00_32289\Rtmp0Y9oUU/aspirin.json' The file has been saved to 'D:\temp\2025_02_16_01_50_00_32289\Rtmp0Y9oUU/aspirin.json' The file has been saved to 'D:\temp\2025_02_16_01_50_00_32289\Rtmp0Y9oUU/aspirin.json' The file has been saved to 'D:\temp\2025_02_16_01_50_00_32289\Rtmp0Y9oUU/aspirin.sdf' Request failed [400]. Retrying in 3.4 seconds... Request failed [400]. Retrying in 4.1 seconds... SDF file saved successfully: File Name: 'aspirin_20250216_090903.sdf' Saved at: D:\temp\2025_02_16_01_50_00_32289\Rtmp0Y9oUU SDF file saved successfully: File Name: 'file.sdf' Saved at: D:\temp\2025_02_16_01_50_00_32289\Rtmp0Y9oUU 'path' is not specified. Saving files into a temporary folder. Failed to download SDF file. Error:cannot open URL 'https://pubchem.ncbi.nlm.nih.gov/rest/pug/compound/name/aspirin/SDF' 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 1 | WARN 2 | SKIP 0 | PASS 203 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-get_sdf.R:60:3'): save SDF files to temporary working directory when path is not specified. ── file.exists(file.path(default_path, "file.sdf")) is not TRUE `actual`: FALSE `expected`: TRUE [ FAIL 1 | WARN 2 | SKIP 0 | PASS 203 ] Error: Test failures Execution halted Flavor: r-release-windows-x86_64