* using log directory 'd:/RCompile/CRANincoming/R-devel/jackstraw.Rcheck'
* using R Under development (unstable) (2024-09-15 r87152 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'jackstraw/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'jackstraw' version '1.3.16'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [15s] NOTE
Maintainer: 'Neo Christopher Chung <nchchung@gmail.com>'

Found the following (possibly) invalid URLs:
  URL: https://academic.oup.com/bioinformatics/article/32/5/713/1744055
    From: README.md
    Status: 403
    Message: Forbidden
  URL: https://academic.oup.com/genetics/article/212/4/1009/5931257?login=false
    From: README.md
    Status: 403
    Message: Forbidden
* 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 serialization versions ... OK
* checking whether package 'jackstraw' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for future file timestamps ... 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 ... 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 loading without being on the library search path ... OK
* checking use of S3 registration ... 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 line widths ... 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... ERROR
  Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(jackstraw)
  > 
  > test_check("jackstraw")
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 1122 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-jackstraw.R:106:9'): pip works ─────────────────────────────────
  Error in `smooth.spline(lambda, pi0, df = smooth.df)`: missing or infinite values in inputs are not allowed
  Backtrace:
       ▆
    1. ├─testthat::expect_silent(...) at test-jackstraw.R:106:9
    2. │ └─testthat:::quasi_capture(enquo(object), NULL, evaluate_promise)
    3. │   ├─testthat (local) .capture(...)
    4. │   │ ├─withr::with_output_sink(...)
    5. │   │ │ └─base::force(code)
    6. │   │ ├─base::withCallingHandlers(...)
    7. │   │ └─base::withVisible(code)
    8. │   └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
    9. └─jackstraw::pip(pvalue = pvalue, group = group, verbose = FALSE)
   10.   └─qvalue::lfdr(pvalue[group == i], ...)
   11.     └─qvalue::pi0est(p, ...)
   12.       └─stats::smooth.spline(lambda, pi0, df = smooth.df)
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 1122 ]
  Error: Test failures
  Execution halted
* checking PDF version of manual ... [13s] OK
* checking HTML version of manual ... OK
* DONE
Status: 1 ERROR, 1 NOTE