Last updated on 2024-07-17 01:48:26 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 2.0 | 8.97 | 230.04 | 239.01 | OK | |
| r-devel-linux-x86_64-debian-gcc | 2.0 | 5.82 | 167.70 | 173.52 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 2.0 | 291.23 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 2.0 | 290.46 | OK | |||
| r-devel-windows-x86_64 | 2.0 | 7.00 | 318.00 | 325.00 | OK | |
| r-patched-linux-x86_64 | 1.2 | 7.25 | 63.20 | 70.45 | OK | |
| r-release-linux-x86_64 | 2.0 | 5.82 | 219.14 | 224.96 | OK | |
| r-release-macos-arm64 | 1.2 | 39.00 | OK | |||
| r-release-macos-x86_64 | 1.2 | 53.00 | OK | |||
| r-release-windows-x86_64 | 1.2 | 8.00 | 75.00 | 83.00 | OK | |
| r-oldrel-macos-arm64 | 1.2 | 42.00 | OK | |||
| r-oldrel-macos-x86_64 | 1.2 | 65.00 | OK | |||
| r-oldrel-windows-x86_64 | 2.0 | 8.00 | 376.00 | 384.00 | OK |
Version: 2.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [7s/71s]
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/RtmpnUN8ya/aspirin.json'
The file has been saved to '/home/hornik/tmp/scratch/RtmpnUN8ya/aspirin.json'
The file has been saved to '/home/hornik/tmp/scratch/RtmpnUN8ya/aspirin.json'
The file has been saved to '/home/hornik/tmp/scratch/RtmpnUN8ya/aspirin.json'
The file has been saved to '/home/hornik/tmp/scratch/RtmpnUN8ya/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
Request failed [503]. Retrying in 3.2 seconds...
trying URL 'https://pubchem.ncbi.nlm.nih.gov/rest/pug/compound/name/aspirin/SDF'
downloaded 3641 bytes
SDF file to save --> 'aspirin_2024-07-15_18_05_32.238864.sdf'
Saved into folder --> /home/hornik/tmp/scratch/RtmpnUN8ya
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/RtmpnUN8ya
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/RtmpnUN8ya
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 1 | WARN 0 | SKIP 0 | PASS 202 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-get_pug_rest.R:47:3'): test for PNG output successful ──────────
<Not_Found/HTTPError/simpleError/error/condition>
Error:
Backtrace:
▆
1. └─PubChemR::get_pug_rest(...) at test-get_pug_rest.R:47:3
2. ├─png::readPNG(getURLContent(apiurl))
3. └─RCurl::getURLContent(apiurl)
4. └─RCurl:::stop.if.HTTP.error(http.header)
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 202 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc