* using log directory ‘/Volumes/Builds/packages/big-sur-x86_64/results/4.5/matrixTests.Rcheck’
* using R Under development (unstable) (2025-01-24 r87627)
* 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 ‘matrixTests/DESCRIPTION’ ... OK
* this is package ‘matrixTests’ version ‘0.2.3’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... INFO
Package suggested but not available for checking: ‘cosinor2’
* 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 ‘matrixTests’ can be installed ... [3s/5s] OK
See 'https://www.r-project.org/nosvn/R.check/r-devel-macos-x86_64/matrixTests-00install.html' for details.
* checking installed package size ... OK
* checking package 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 ... [0s/0s] OK
* checking whether the package can be loaded with stated dependencies ... [0s/0s] OK
* checking whether the package can be unloaded cleanly ... [0s/0s] OK
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* checking whether the namespace can be unloaded cleanly ... [0s/0s] OK
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* 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 ... [5s/9s] OK
* checking Rd files ... [0s/0s] 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 examples ... [0s/1s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [16s/27s] ERROR
  Running ‘andersondarling_behaviour.r’ [0s/0s]
  Running ‘andersondarling_correctness.r’ [1s/1s]
  Running ‘andersondarling_errors.r’ [0s/0s]
  Running ‘andersondarling_warnings.r’ [0s/0s]
  Running ‘bartlett_behaviour.r’ [0s/0s]
  Running ‘bartlett_correctness.r’ [2s/4s]
  Running ‘bartlett_errors.r’ [0s/0s]
  Running ‘bartlett_warnings.r’ [0s/0s]
  Running ‘brownforsythe_behaviour.r’ [0s/0s]
  Running ‘brownforsythe_correctness.r’ [7s/13s]
  Running ‘brownforsythe_errors.r’ [0s/0s]
  Running ‘brownforsythe_warnings.r’ [0s/0s]
  Running ‘cor_pearson_behaviour.r’ [0s/0s]
  Running ‘cor_pearson_correctness.r’ [1s/1s]
  Running ‘cor_pearson_errors.r’ [0s/0s]
  Running ‘cor_pearson_warnings.r’ [0s/0s]
  Running ‘cosinor_behaviour.r’ [0s/0s]
  Running ‘cosinor_correctness.r’ [1s/2s]
Running the tests in ‘tests/cosinor_correctness.r’ failed.
Complete output:
  > library(matrixTests)
  > 
  > #--- functions -----------------------------------------------------------------
  > 
  > cosinor_cosinor <- function(mat, time, per) {
  +   stopifnot(ncol(mat) == length(time))
  +   if(is.vector(mat)) mat <- matrix(mat, nrow=1)
  +   n <- m <- amp <- acr <- dfm <- dfr <- rsq <- f <- p <- numeric(nrow(mat))
  + 
  +   for(i in 1:nrow(mat)) {
  +     dat <- data.frame(x=mat[i,], t=time)
  +     dat <- dat[!is.na(dat$x) & !is.na(dat$t),]
  +     res <- cosinor::cosinor.lm(x ~ time(t), data=dat, period=per)
  + 
  +     n[i]   <- nrow(dat)
  +     m[i]   <- res$coefficients[1]
  +     amp[i] <- res$coefficients[2]
  +     acr[i] <- abs(cosinor2::correct.acrophase(res) / pi * (per/2))
  +     dfm[i] <- cosinor2::cosinor.detect(res)[2]
  +     dfr[i] <- cosinor2::cosinor.detect(res)[3]
  +     rsq[i] <- cosinor2::cosinor.PR(res)[[2]]
  +     f[i]   <- cosinor2::cosinor.detect(res)[1]
  +     p[i]   <- cosinor2::cosinor.detect(res)[4]
  +   }
  + 
  +   data.frame(obs=n, mesor=m, amplitude=amp, acrophase=acr, rsquared=rsq,
  +              df.model=dfm, df.residual=dfr, statistic=f,
  +              pvalue=p, period=per
  +              )
  + }
  > 
  > 
  > #--- montecarlo ----------------------------------------------------------------
  > 
  > # equally spaced 10 time points, period = 10
  > X <- matrix(rnorm(10000), ncol=10)
  > t <- -5:4
  > res1 <- cosinor_cosinor(X, t, 10)
  Error in loadNamespace(x) : there is no package called 'cosinor2'
  Calls: cosinor_cosinor ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
  Execution halted
* checking PDF version of manual ... [6s/10s] OK
* DONE
Status: 1 ERROR
* using check arguments '--no-clean-on-error '

* elapsed time (check, wall clock): 1:08