* using log directory ‘/Users/ripley/R/packages/tests-devel/BayesBrainMap.Rcheck’
* using R Under development (unstable) (2026-09-18 r90566)
* using platform: aarch64-apple-darwin27.0.0
* R was compiled by
    Apple clang version 21.0.0 (clang-2100.3.34.2)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Golden Gate 27.0
* using session charset: UTF-8
* current time: 2026-09-28 15:31:38 UTC
* using option ‘--no-stop-on-test-error’
* checking for file ‘BayesBrainMap/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘BayesBrainMap’ version ‘0.2.0’
* 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 ‘BayesBrainMap’ can be installed ... WARNING
Found the following significant warnings:
  Note: possible error in 'dual_reg(BOLD, prior$mean, ': argument 4 matches multiple formal arguments 
See ‘/Users/ripley/R/packages/tests-devel/BayesBrainMap.Rcheck/00install.out’ for details.
Information on the location(s) of code generating the ‘Note’s can be
obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
to ‘yes’.
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
fit_BBM: warning in dual_reg(BOLD, prior$mean, GSR = FALSE, scale =
  FALSE, hpf = 0): partial argument match of 'scale' to 'scale_by'
fit_BBM: possible error in dual_reg(BOLD, prior$mean, GSR = FALSE,
  scale = FALSE, hpf = 0): argument 4 matches multiple formal arguments
* 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 examples ... ERROR
Running examples in ‘BayesBrainMap-Ex.R’ failed
The error most likely occurred in:

> ### Name: estimate_prior
> ### Title: Estimate prior
> ### Aliases: estimate_prior estimate_prior.cifti estimate_prior.gifti
> ###   estimate_prior.nifti
> 
> ### ** Examples
> 
> nT <- 21
> nV <- 140
> nQ <- 6
> mU <- matrix(rnorm(nV*nQ), nrow=nV)
> mS <- mU %*% diag(seq(nQ, 1)) %*% matrix(rnorm(nQ*nT), nrow=nQ)
> BOLD <- list(B1=mS, B2=mS, B3=mS)
> BOLD <- lapply(BOLD, function(x){x + rnorm(nV*nT, sd=.05)})
> template <- mU
> estimate_prior(BOLD=BOLD, template=mU, FC_nSamp=2000, usePar=FALSE)
Setting `scale_sm_FWHM == 0`.

Data input format:              numeric matrix 
Image dimensions:               140 
Initial in-mask locations:      140 
Number of networks:             6
Number of training subjects:    3 
Number of covariates:           0 

Including Cholesky-based FC prior with 2000 samples (100 random pivots x 20 samples per pivot).

Subject 1 of 3.
	Reading in data... 
	Dual regression... Error in fMRItools::dual_reg(GICA = template, ...) : 
  argument 3 matches multiple formal arguments
	Subject 1 was skipped (error).
Error in fMRItools::dual_reg(GICA = template, ...) : 
  argument 3 matches multiple formal arguments

Error in estimate_prior(BOLD = BOLD, template = mU, FC_nSamp = 2000, usePar = FALSE) : 
  Error on first subject. Check data?
Execution halted
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘run_BayesBrainMap_tests.R’
  Running ‘testthat.R’
 OK
* checking PDF version of manual ... OK
* checking HTML version of manual ... OK
* checking for detritus in the temp directory ... OK
* DONE

Status: 1 ERROR, 1 WARNING, 1 NOTE
See
  ‘/Users/ripley/R/packages/tests-devel/BayesBrainMap.Rcheck/00check.log’
for details.

       37.67 real        29.17 user         6.48 sys