• using R version 4.5.2 Patched (2026-01-31 r89382)
• using platform: x86_64-apple-darwin20
• R was compiled by     Apple clang version 14.0.0 (clang-1400.0.29.202)     GNU Fortran (GCC) 14.2.0
• running under: macOS Ventura 13.3.1
• using session charset: UTF-8
• checking for file ‘ORscraper/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘ORscraper’ version ‘0.1.0’
• 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 executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking whether package ‘ORscraper’ can be installed ... [4s/10s] OK See the install log for details.
• 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 code files for non-ASCII characters ... OK
• checking R files for syntax errors ... OK
• checking whether the package can be loaded ... [1s/3s] OK
• checking whether the package can be loaded with stated dependencies ... [1s/2s] OK
• checking whether the package can be unloaded cleanly ... [1s/2s] OK
• checking whether the namespace can be loaded with stated dependencies ... [1s/2s] OK
• checking whether the namespace can be unloaded cleanly ... [1s/3s] OK
• checking loading without being on the library search path ... [1s/3s] 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 ... [3s/7s] OK
• checking Rd files ... [0s/1s] 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 installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [2s/5s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [3s/19s] ERROR   Running ‘spelling.R’ [0s/1s]   Running ‘testthat.R’ [2s/17s] 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(ORscraper)   >   > test_check("ORscraper")   Saving _problems/test_extract_chip_id-10.R   Saving _problems/test_search_ncbi_clinvar-31.R   [ FAIL 2 | WARN 0 | SKIP 0 | PASS 62 ]      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Failure ('test_extract_chip_id.R:10:3'): Testing the extract_chip_id function ──   Expected `result` to equal "100.1".   Differences:   `actual`: "4.5"   `expected`: "100.1"      ── Error ('test_search_ncbi_clinvar.R:31:3'): search_ncbi_clinvar correctly retrieves pathogenicity information ──   <curl_error_operation_timedout/curl_error/error/condition>   Error in `curl::curl_fetch_memory(url, handle = handle)`: Timeout was reached [eutils.ncbi.nlm.nih.gov]:   Connection timed out after 10003 milliseconds   Backtrace:       ▆    1. ├─ORscraper::search_ncbi_clinvar(...) at test_search_ncbi_clinvar.R:31:3    2. │ └─rentrez::entrez_search(db = "clinvar", term = gene_query)    3. │ └─rentrez:::make_entrez_query(...)    4. │ └─httr::GET(uri, query = args, config = config)    5. │ └─httr:::request_perform(req, hu$handle$handle)    6. │ ├─httr:::request_fetch(req$output, req$url, handle)    7. │ └─httr:::request_fetch.write_memory(req$output, req$url, handle)    8. │ └─curl::curl_fetch_memory(url, handle = handle)    9. └─curl:::raise_libcurl_error(...)      [ FAIL 2 | WARN 0 | SKIP 0 | PASS 62 ]   Error:   ! Test failures.   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [18s/49s] OK
• checking PDF version of manual ... [7s/17s] OK
• DONE Status: 1 ERROR
• using check arguments '--no-clean-on-error '