##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:rols.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings rols_2.30.2.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.18-bioc/meat/rols.Rcheck’
* using R version 4.3.3 (2024-02-29)
* using platform: x86_64-apple-darwin20 (64-bit)
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘rols/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘rols’ version ‘2.30.2’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘rols’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking startup messages can be suppressed ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... ERROR
Running examples in ‘rols-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: CVParam
> ### Title: Controlled Vocabulary
> ### Aliases: CVParam charIsCVParam cvCharToCVPar as.character.CVParam
> ###   show,CVParam-method rep,CVParam-method
> 
> ### ** Examples
> 
> 
> ## User param
> CVParam(name = "A user param", value = "the value")
[, , A user param, the value] 
> ## CVParam ESI from PSI's Mass Spectrometry ontology
> Term("MS", "MS:1000073")
Error in (function (cond)  : 
  error in evaluating the argument 'object' in selecting a method for function 'Term': HTTP 500 Internal Server Error.
Calls: Term ... abort -> signal_abort -> signalCondition -> <Anonymous>
Execution halted
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
    5.     │ └─rols:::.Ontology(...)
    6.     │   └─methods::new(`<chr>`, ...)
    7.     │     ├─methods::initialize(value, ...)
    8.     │     └─methods::initialize(value, ...)
    9.     ├─httr2::resp_body_json(req_perform(request(url)))
   10.     │ └─httr2:::check_response(resp)
   11.     │   └─httr2:::is_response(resp)
   12.     └─httr2::req_perform(request(url))
   13.       └─httr2:::handle_resp(req, resp, error_call = error_call)
   14.         └─httr2:::resp_abort(resp, req, body, call = error_call)
   15.           └─rlang::abort(...)
  
  [ FAIL 12 | WARN 0 | SKIP 0 | PASS 12 ]
  Error: Test failures
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 2 ERRORs
See
  ‘/Users/biocbuild/bbs-3.18-bioc/meat/rols.Rcheck/00check.log’
for details.

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL rols
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library’
* installing *source* package ‘rols’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
Creating a generic function for ‘lapply’ from package ‘base’ in package ‘rols’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (rols)

R version 4.3.3 (2024-02-29) -- "Angel Food Cake"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20 (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> # setting R_TESTS to empty string because of 
> # https://github.com/hadley/testthat/issues/144
> # revert this when that issue in R is fixed.
> Sys.setenv("R_TESTS" = "")
> library("testthat")
> library("rols")

This is 'rols' version 2.30.2 

> 
> test_check("rols")
[, , Hello, World] 
[ FAIL 12 | WARN 0 | SKIP 0 | PASS 12 ]

══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_CVParam.R:6:15'): User param creation ──────────────────────────
Error in `h(simpleError(msg, call))`: error in evaluating the argument 'object' in selecting a method for function 'termLabel': error in evaluating the argument 'object' in selecting a method for function 'Term': HTTP 500 Internal Server Error.
Backtrace:
     ▆
  1. ├─testthat::expect_warning(as("[MS, MS:1000073, ESI, ]", "CVParam")) at test_CVParam.R:6:15
  2. │ └─testthat:::quasi_capture(...)
  3. │   ├─testthat (local) .capture(...)
  4. │   │ └─base::withCallingHandlers(...)
  5. │   └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
  6. ├─methods::as("[MS, MS:1000073, ESI, ]", "CVParam")
  7. │ └─rols (local) asMethod(object)
  8. │   ├─base::lapply(from, cvCharToCVPar)
  9. │   └─base::lapply(from, cvCharToCVPar)
 10. │     └─rols (local) FUN(X[[i]], ...)
 11. │       └─rols::CVParam(label = from[1], accession = from[2])
 12. │         ├─rols::termLabel(Term(label, accession))
 13. │         ├─rols::Term(label, accession)
 14. │         └─rols::Term(label, accession)
 15. │           └─rols (local) .local(object, ...)
 16. │             ├─rols::Term(Ontology(object), id)
 17. │             ├─BiocGenerics::Ontology(object)
 18. │             └─rols::Ontology(object)
 19. │               └─rols:::makeOntology(url)
 20. │                 ├─rols:::ontologyFromJson(resp_body_json(req_perform(request(url))))
 21. │                 │ └─rols:::.Ontology(...)
 22. │                 │   └─methods::new(`<chr>`, ...)
 23. │                 │     ├─methods::initialize(value, ...)
 24. │                 │     └─methods::initialize(value, ...)
 25. │                 ├─httr2::resp_body_json(req_perform(request(url)))
 26. │                 │ └─httr2:::check_response(resp)
 27. │                 │   └─httr2:::is_response(resp)
 28. │                 └─httr2::req_perform(request(url))
 29. │                   └─httr2:::handle_resp(req, resp, error_call = error_call)
 30. │                     └─httr2:::resp_abort(resp, req, body, call = error_call)
 31. │                       └─rlang::abort(...)
 32. │                         └─rlang:::signal_abort(cnd, .file)
 33. │                           └─base::signalCondition(cnd)
 34. ├─base (local) `<fn>`(`<ht2__500>`)
 35. └─base::.handleSimpleError(...)
 36.   └─base (local) h(simpleError(msg, call))
── Error ('test_CVParam.R:20:15'): CVParam creation and coercion ───────────────
Error in `h(simpleError(msg, call))`: error in evaluating the argument 'object' in selecting a method for function 'termLabel': error in evaluating the argument 'object' in selecting a method for function 'Term': HTTP 500 Internal Server Error.
Backtrace:
     ▆
  1. ├─rols::CVParam(label = "MS", accession = "MS:1000073") at test_CVParam.R:20:15
  2. │ ├─rols::termLabel(Term(label, accession))
  3. │ ├─rols::Term(label, accession)
  4. │ └─rols::Term(label, accession)
  5. │   └─rols (local) .local(object, ...)
  6. │     ├─rols::Term(Ontology(object), id)
  7. │     ├─BiocGenerics::Ontology(object)
  8. │     └─rols::Ontology(object)
  9. │       └─rols:::makeOntology(url)
 10. │         ├─rols:::ontologyFromJson(resp_body_json(req_perform(request(url))))
 11. │         │ └─rols:::.Ontology(...)
 12. │         │   └─methods::new(`<chr>`, ...)
 13. │         │     ├─methods::initialize(value, ...)
 14. │         │     └─methods::initialize(value, ...)
 15. │         ├─httr2::resp_body_json(req_perform(request(url)))
 16. │         │ └─httr2:::check_response(resp)
 17. │         │   └─httr2:::is_response(resp)
 18. │         └─httr2::req_perform(request(url))
 19. │           └─httr2:::handle_resp(req, resp, error_call = error_call)
 20. │             └─httr2:::resp_abort(resp, req, body, call = error_call)
 21. │               └─rlang::abort(...)
 22. │                 └─rlang:::signal_abort(cnd, .file)
 23. │                   └─base::signalCondition(cnd)
 24. ├─base (local) `<fn>`(`<ht2__500>`)
 25. └─base::.handleSimpleError(...)
 26.   └─base (local) h(simpleError(msg, call))
── Error ('test_CVParam.R:39:15'): Convert char to CVParam ─────────────────────
Error in `h(simpleError(msg, call))`: error in evaluating the argument 'object' in selecting a method for function 'termLabel': error in evaluating the argument 'object' in selecting a method for function 'Term': HTTP 500 Internal Server Error.
Backtrace:
     ▆
  1. ├─methods::as(x, "CVParam") at test_CVParam.R:39:15
  2. │ └─rols (local) asMethod(object)
  3. │   ├─base::lapply(from, cvCharToCVPar)
  4. │   └─base::lapply(from, cvCharToCVPar)
  5. │     └─rols (local) FUN(X[[i]], ...)
  6. │       └─rols::CVParam(label = from[1], accession = from[2])
  7. │         ├─rols::termLabel(Term(label, accession))
  8. │         ├─rols::Term(label, accession)
  9. │         └─rols::Term(label, accession)
 10. │           └─rols (local) .local(object, ...)
 11. │             ├─rols::Term(Ontology(object), id)
 12. │             ├─BiocGenerics::Ontology(object)
 13. │             └─rols::Ontology(object)
 14. │               └─rols:::makeOntology(url)
 15. │                 ├─rols:::ontologyFromJson(resp_body_json(req_perform(request(url))))
 16. │                 │ └─rols:::.Ontology(...)
 17. │                 │   └─methods::new(`<chr>`, ...)
 18. │                 │     ├─methods::initialize(value, ...)
 19. │                 │     └─methods::initialize(value, ...)
 20. │                 ├─httr2::resp_body_json(req_perform(request(url)))
 21. │                 │ └─httr2:::check_response(resp)
 22. │                 │   └─httr2:::is_response(resp)
 23. │                 └─httr2::req_perform(request(url))
 24. │                   └─httr2:::handle_resp(req, resp, error_call = error_call)
 25. │                     └─httr2:::resp_abort(resp, req, body, call = error_call)
 26. │                       └─rlang::abort(...)
 27. │                         └─rlang:::signal_abort(cnd, .file)
 28. │                           └─base::signalCondition(cnd)
 29. ├─base (local) `<fn>`(`<ht2__500>`)
 30. └─base::.handleSimpleError(...)
 31.   └─base (local) h(simpleError(msg, call))
── Error ('test_OlsSearch.R:2:5'): OlsSearch tgn ───────────────────────────────
<httr2_http_500/httr2_http/httr2_error/rlang_error/error/condition>
Error in `req_perform(request(url))`: HTTP 500 Internal Server Error.
Backtrace:
    ▆
 1. └─rols::OlsSearch("tgn", "PW") at test_OlsSearch.R:2:5
 2.   ├─httr2::resp_body_json(req_perform(request(url)))
 3.   │ └─httr2:::check_response(resp)
 4.   │   └─httr2:::is_response(resp)
 5.   └─httr2::req_perform(request(url))
 6.     └─httr2:::handle_resp(req, resp, error_call = error_call)
 7.       └─httr2:::resp_abort(resp, req, body, call = error_call)
 8.         └─rlang::abort(...)
── Error ('test_OlsSearch.R:10:1'): OlsSearch show ─────────────────────────────
Error in `(function (cond) 
.Internal(C_tryCatchHelper(addr, 1L, cond)))(structure(list(message = "HTTP 500 Internal Server Error.", 
    trace = structure(list(call = list(expect_null(show(OlsSearch(q = "cell", 
        ontology = "GO"))), quasi_label(enquo(object), label, 
        arg = "object"), eval_bare(expr, quo_get_env(quo)), show(OlsSearch(q = "cell", 
        ontology = "GO")), OlsSearch(q = "cell", ontology = "GO"), 
        resp_body_json(req_perform(request(url))), check_response(resp), 
        is_response(resp), req_perform(request(url)), handle_resp(req, 
            resp, error_call = error_call), resp_abort(resp, 
            req, body, call = error_call), abort(c(message, resp_auth_message(resp), 
            info), status = status, resp = resp, class = c(glue("httr2_http_{status}"), 
            "httr2_http", "httr2_error"), request = req, call = call)), 
        parent = c(0L, 1L, 2L, 0L, 0L, 5L, 6L, 7L, 5L, 9L, 10L, 
        11L), visible = c(TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, 
        TRUE, TRUE, TRUE, FALSE, FALSE, FALSE), namespace = c("testthat", 
        "testthat", "rlang", "methods", "rols", "httr2", "httr2", 
        "httr2", "httr2", "httr2", "httr2", "rlang"), scope = c("::", 
        "::", "::", "::", "::", "::", ":::", ":::", "::", ":::", 
        ":::", "::"), error_frame = c(FALSE, FALSE, FALSE, FALSE, 
        FALSE, FALSE, FALSE, FALSE, TRUE, FALSE, FALSE, FALSE
        )), row.names = c(NA, -12L), version = 2L, class = c("rlang_trace", 
    "rlib_trace", "tbl", "data.frame")), parent = NULL, status = 500L, 
    resp = structure(list(method = "GET", url = "http://www.ebi.ac.uk/ols4/api/search?q=cell&ontology=go&rows=20", 
        status_code = 500L, headers = structure(list(Vary = "Origin", 
            Vary = "Access-Control-Request-Method", Vary = "Access-Control-Request-Headers", 
            `Content-Type` = "application/json", Date = "Tue, 16 Apr 2024 12:05:08 GMT", 
            `Transfer-Encoding` = "chunked", Connection = "close"), class = "httr2_headers"), 
        body = as.raw(c(0x7b, 0x0a, 0x20, 0x20, 0x22, 0x74, 0x69, 
        0x6d, 0x65, 0x73, 0x74, 0x61, 0x6d, 0x70, 0x22, 0x20, 
        0x3a, 0x20, 0x22, 0x32, 0x30, 0x32, 0x34, 0x2d, 0x30, 
        0x34, 0x2d, 0x31, 0x36, 0x54, 0x31, 0x32, 0x3a, 0x30, 
        0x35, 0x3a, 0x30, 0x38, 0x2e, 0x35, 0x39, 0x35, 0x2b, 
        0x30, 0x30, 0x3a, 0x30, 0x30, 0x22, 0x2c, 0x0a, 0x20, 
        0x20, 0x22, 0x73, 0x74, 0x61, 0x74, 0x75, 0x73, 0x22, 
        0x20, 0x3a, 0x20, 0x35, 0x30, 0x30, 0x2c, 0x0a, 0x20, 
        0x20, 0x22, 0x65, 0x72, 0x72, 0x6f, 0x72, 0x22, 0x20, 
        0x3a, 0x20, 0x22, 0x49, 0x6e, 0x74, 0x65, 0x72, 0x6e, 
        0x61, 0x6c, 0x20, 0x53, 0x65, 0x72, 0x76, 0x65, 0x72, 
        0x20, 0x45, 0x72, 0x72, 0x6f, 0x72, 0x22, 0x2c, 0x0a, 
        0x20, 0x20, 0x22, 0x70, 0x61, 0x74, 0x68, 0x22, 0x20, 
        0x3a, 0x20, 0x22, 0x2f, 0x6f, 0x6c, 0x73, 0x34, 0x2f, 
        0x61, 0x70, 0x69, 0x2f, 0x73, 0x65, 0x61, 0x72, 0x63, 
        0x68, 0x22, 0x0a, 0x7d)), request = structure(list(url = "http://www.ebi.ac.uk/ols4/api/search?q=cell&ontology=go&rows=20", 
            method = NULL, headers = list(), body = NULL, fields = list(), 
            options = list(), policies = list()), class = "httr2_request"), 
        cache = <environment>), class = "httr2_response"), request = structure(list(
        url = "http://www.ebi.ac.uk/ols4/api/search?q=cell&ontology=go&rows=20", 
        method = NULL, headers = list(), body = NULL, fields = list(), 
        options = list(), policies = list()), class = "httr2_request"), 
    rlang = list(inherit = TRUE), call = req_perform(request(url))), class = c("httr2_http_500", 
"httr2_http", "httr2_error", "rlang_error", "error", "condition"
)))`: error in evaluating the argument 'object' in selecting a method for function 'show': HTTP 500 Internal Server Error.
Backtrace:
     ▆
  1. ├─testthat::expect_null(show(OlsSearch(q = "cell", ontology = "GO")))
  2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
  3. │   └─rlang::eval_bare(expr, quo_get_env(quo))
  4. ├─methods::show(OlsSearch(q = "cell", ontology = "GO"))
  5. ├─rols::OlsSearch(q = "cell", ontology = "GO")
  6. │ ├─httr2::resp_body_json(req_perform(request(url)))
  7. │ │ └─httr2:::check_response(resp)
  8. │ │   └─httr2:::is_response(resp)
  9. │ └─httr2::req_perform(request(url))
 10. │   └─httr2:::handle_resp(req, resp, error_call = error_call)
 11. │     └─httr2:::resp_abort(resp, req, body, call = error_call)
 12. │       └─rlang::abort(...)
 13. │         └─rlang:::signal_abort(cnd, .file)
 14. │           └─base::signalCondition(cnd)
 15. └─base (local) `<fn>`(`<ht2__500>`)
── Error ('test_OlsSearch.R:14:5'): OlsSearch rows ─────────────────────────────
<httr2_http_500/httr2_http/httr2_error/rlang_error/error/condition>
Error in `req_perform(request(url))`: HTTP 500 Internal Server Error.
Backtrace:
    ▆
 1. └─rols::OlsSearch(q = "cell", ontology = "GO") at test_OlsSearch.R:14:5
 2.   ├─httr2::resp_body_json(req_perform(request(url)))
 3.   │ └─httr2:::check_response(resp)
 4.   │   └─httr2:::is_response(resp)
 5.   └─httr2::req_perform(request(url))
 6.     └─httr2:::handle_resp(req, resp, error_call = error_call)
 7.       └─httr2:::resp_abort(resp, req, body, call = error_call)
 8.         └─rlang::abort(...)
── Error ('test_OlsSearch.R:35:5'): OlsSearch coercion ─────────────────────────
<httr2_http_500/httr2_http/httr2_error/rlang_error/error/condition>
Error in `req_perform(request(url))`: HTTP 500 Internal Server Error.
Backtrace:
    ▆
 1. └─rols::OlsSearch(q = "plasma", ontology = "GO", rows = 32) at test_OlsSearch.R:35:5
 2.   ├─httr2::resp_body_json(req_perform(request(url)))
 3.   │ └─httr2:::check_response(resp)
 4.   │   └─httr2:::is_response(resp)
 5.   └─httr2::req_perform(request(url))
 6.     └─httr2:::handle_resp(req, resp, error_call = error_call)
 7.       └─httr2:::resp_abort(resp, req, body, call = error_call)
 8.         └─rlang::abort(...)
── Error ('test_OlsSearch.R:50:5'): Empty olsSearch query ──────────────────────
<httr2_http_500/httr2_http/httr2_error/rlang_error/error/condition>
Error in `req_perform(request(url))`: HTTP 500 Internal Server Error.
Backtrace:
    ▆
 1. └─rols::OlsSearch("asdasdasdasd", ontology = "CL") at test_OlsSearch.R:50:5
 2.   ├─httr2::resp_body_json(req_perform(request(url)))
 3.   │ └─httr2:::check_response(resp)
 4.   │   └─httr2:::is_response(resp)
 5.   └─httr2::req_perform(request(url))
 6.     └─httr2:::handle_resp(req, resp, error_call = error_call)
 7.       └─httr2:::resp_abort(resp, req, body, call = error_call)
 8.         └─rlang::abort(...)
── Error ('test_Onologies.R:1:1'): (code run outside of `test_that()`) ─────────
Error in `h(simpleError(msg, call))`: error in evaluating the argument 'X' in selecting a method for function 'lapply': error in evaluating the argument 'X' in selecting a method for function 'lapply': HTTP 500 Internal Server Error.
Backtrace:
     ▆
  1. ├─rols::Ontologies() at test_Onologies.R:1:1
  2. ├─rols::Ontologies()
  3. │ └─rols:::makeOntologies()
  4. │   ├─rols:::.Ontologies(...)
  5. │   │ └─methods::new(`<chr>`, ...)
  6. │   │   ├─methods::initialize(value, ...)
  7. │   │   └─methods::initialize(value, ...)
  8. │   ├─base::lapply(ols_requests(url, "ontologies"), ontologyFromJson)
  9. │   └─rols:::ols_requests(url, "ontologies")
 10. │     ├─base::unlist(...)
 11. │     ├─base::lapply(...)
 12. │     └─httr2::req_perform_iterative(...)
 13. │       ├─base::tryCatch(...)
 14. │       │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
 15. │       │   └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
 16. │       │     └─base (local) doTryCatch(return(expr), name, parentenv, handler)
 17. │       ├─rlang::try_fetch(req_perform(req, path = get_path(i)), httr2_error = httr2_error)
 18. │       │ └─base::withCallingHandlers(...)
 19. │       └─httr2::req_perform(req, path = get_path(i))
 20. │         └─httr2:::handle_resp(req, resp, error_call = error_call)
 21. │           └─httr2:::resp_abort(resp, req, body, call = error_call)
 22. │             └─rlang::abort(...)
 23. │               └─rlang:::signal_abort(cnd, .file)
 24. │                 └─base::signalCondition(cnd)
 25. ├─base (local) `<fn>`(`<ht2__500>`)
 26. └─base::.handleSimpleError(...)
 27.   └─base (local) h(simpleError(msg, call))
── Error ('test_Properties.R:2:5'): Property constructors ──────────────────────
Error in `h(simpleError(msg, call))`: error in evaluating the argument 'X' in selecting a method for function 'lapply': error in evaluating the argument 'X' in selecting a method for function 'lapply': HTTP 500 Internal Server Error.
Backtrace:
     ▆
  1. ├─rols::Properties("so") at test_Properties.R:2:5
  2. ├─rols::Properties("so")
  3. │ └─rols (local) .local(object, ...)
  4. │   ├─base::lapply(ols_requests(url, what = "properties"), propertyFromJson)
  5. │   └─rols:::ols_requests(url, what = "properties")
  6. │     ├─base::unlist(...)
  7. │     ├─base::lapply(...)
  8. │     └─httr2::req_perform_iterative(...)
  9. │       ├─base::tryCatch(...)
 10. │       │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
 11. │       │   └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
 12. │       │     └─base (local) doTryCatch(return(expr), name, parentenv, handler)
 13. │       ├─rlang::try_fetch(req_perform(req, path = get_path(i)), httr2_error = httr2_error)
 14. │       │ └─base::withCallingHandlers(...)
 15. │       └─httr2::req_perform(req, path = get_path(i))
 16. │         └─httr2:::handle_resp(req, resp, error_call = error_call)
 17. │           └─httr2:::resp_abort(resp, req, body, call = error_call)
 18. │             └─rlang::abort(...)
 19. │               └─rlang:::signal_abort(cnd, .file)
 20. │                 └─base::signalCondition(cnd)
 21. ├─base (local) `<fn>`(`<ht2__500>`)
 22. └─base::.handleSimpleError(...)
 23.   └─base (local) h(simpleError(msg, call))
── Error ('test_Properties.R:29:5'): Property/ies show ─────────────────────────
Error in `h(simpleError(msg, call))`: error in evaluating the argument 'object' in selecting a method for function 'show': error in evaluating the argument 'X' in selecting a method for function 'lapply': error in evaluating the argument 'X' in selecting a method for function 'lapply': HTTP 500 Internal Server Error.
Backtrace:
     ▆
  1. ├─testthat::expect_null(show(Properties("so"))) at test_Properties.R:29:5
  2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
  3. │   └─rlang::eval_bare(expr, quo_get_env(quo))
  4. ├─methods::show(Properties("so"))
  5. ├─rols::Properties("so")
  6. ├─rols::Properties("so")
  7. │ └─rols (local) .local(object, ...)
  8. │   ├─base::lapply(ols_requests(url, what = "properties"), propertyFromJson)
  9. │   └─rols:::ols_requests(url, what = "properties")
 10. │     ├─base::unlist(...)
 11. │     ├─base::lapply(...)
 12. │     └─httr2::req_perform_iterative(...)
 13. │       ├─base::tryCatch(...)
 14. │       │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
 15. │       │   └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
 16. │       │     └─base (local) doTryCatch(return(expr), name, parentenv, handler)
 17. │       ├─rlang::try_fetch(req_perform(req, path = get_path(i)), httr2_error = httr2_error)
 18. │       │ └─base::withCallingHandlers(...)
 19. │       └─httr2::req_perform(req, path = get_path(i))
 20. │         └─httr2:::handle_resp(req, resp, error_call = error_call)
 21. │           └─httr2:::resp_abort(resp, req, body, call = error_call)
 22. │             └─rlang::abort(...)
 23. │               └─rlang:::signal_abort(cnd, .file)
 24. │                 └─base::signalCondition(cnd)
 25. ├─base (local) `<fn>`(`<ht2__500>`)
 26. ├─base::.handleSimpleError(...)
 27. │ └─base (local) h(simpleError(msg, call))
 28. └─base::.handleSimpleError(...)
 29.   └─base (local) h(simpleError(msg, call))
── Error ('test_Terms.R:1:1'): (code run outside of `test_that()`) ─────────────
<httr2_http_500/httr2_http/httr2_error/rlang_error/error/condition>
Error in `req_perform(request(url))`: HTTP 500 Internal Server Error.
Backtrace:
     ▆
  1. ├─BiocGenerics::Ontology("GO") at test_Terms.R:1:1
  2. └─rols::Ontology("GO")
  3.   └─rols:::makeOntology(url)
  4.     ├─rols:::ontologyFromJson(resp_body_json(req_perform(request(url))))
  5.     │ └─rols:::.Ontology(...)
  6.     │   └─methods::new(`<chr>`, ...)
  7.     │     ├─methods::initialize(value, ...)
  8.     │     └─methods::initialize(value, ...)
  9.     ├─httr2::resp_body_json(req_perform(request(url)))
 10.     │ └─httr2:::check_response(resp)
 11.     │   └─httr2:::is_response(resp)
 12.     └─httr2::req_perform(request(url))
 13.       └─httr2:::handle_resp(req, resp, error_call = error_call)
 14.         └─httr2:::resp_abort(resp, req, body, call = error_call)
 15.           └─rlang::abort(...)

[ FAIL 12 | WARN 0 | SKIP 0 | PASS 12 ]
Error: Test failures
Execution halted