CRAN Package Check Results for Package PubChemR

Last updated on 2025-10-31 02:50:40 CET.

Flavor	Version	T_install	T_check	T_total	Status
r-devel-linux-x86_64-debian-clang	2.1.5	8.18	180.73	188.91	OK
r-devel-linux-x86_64-debian-gcc	2.1.6	4.75	49.09	53.84	OK
r-devel-linux-x86_64-fedora-clang	2.1.6	28.00	97.67	125.67	ERROR
r-devel-linux-x86_64-fedora-gcc	2.1.6			103.15	OK
r-devel-windows-x86_64	2.1.5	11.00	366.00	377.00	OK
r-patched-linux-x86_64	2.1.5	8.35	173.66	182.01	OK
r-release-linux-x86_64	2.1.5	6.29	169.23	175.52	OK
r-release-macos-arm64	2.1.6	4.00	97.00	101.00	OK
r-release-macos-x86_64	2.1.6	8.00	129.00	137.00	OK
r-release-windows-x86_64	2.1.5	12.00	318.00	330.00	OK
r-oldrel-macos-arm64	2.1.6	4.00	102.00	106.00	OK
r-oldrel-macos-x86_64	2.1.6	9.00	143.00	152.00	OK
r-oldrel-windows-x86_64	2.1.5	13.00	402.00	415.00	NOTE

Check Details

Version: 2.1.6
Check: tests
Result: ERROR Running ‘testthat.R’ [10s/66s] 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 '/tmp/RtmpXNbVa5/working_dir/Rtmpx3srOk/aspirin.json' The file has been saved to '/tmp/RtmpXNbVa5/working_dir/Rtmpx3srOk/aspirin.json' The file has been saved to '/tmp/RtmpXNbVa5/working_dir/Rtmpx3srOk/aspirin.json' The file has been saved to '/tmp/RtmpXNbVa5/working_dir/Rtmpx3srOk/aspirin.json' The file has been saved to '/tmp/RtmpXNbVa5/working_dir/Rtmpx3srOk/aspirin.sdf' Request failed [400]. Retrying in 1.5 seconds... Request failed [400]. Retrying in 2.8 seconds... SDF file saved successfully: File Name: 'aspirin_20251030_064745.sdf' Saved at: /tmp/RtmpXNbVa5/working_dir/Rtmpx3srOk Failed to download SDF file. Error:cannot open URL 'https://pubchem.ncbi.nlm.nih.gov/rest/pug/compound/cid/2244/SDF' 'path' is not specified. Saving files into a temporary folder. SDF file saved successfully: File Name: 'file.sdf' Saved at: /tmp/RtmpXNbVa5/working_dir/Rtmpx3srOk 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 169 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-get_sdf.R:30:3'): pulling SDFs via 'cid' is succesful ──────── file.exists(file.path(temp_dir, "file.sdf")) is not TRUE `actual`: FALSE `expected`: TRUE [ FAIL 1 | WARN 2 | SKIP 0 | PASS 169 ] Error: Test failures Execution halted Flavor: r-devel-linux-x86_64-fedora-clang

Version: 2.1.5
Check: installed package size
Result: NOTE installed size is 5.0Mb sub-directories of 1Mb or more: doc 4.7Mb Flavor: r-oldrel-windows-x86_64