Issue with run.cytonorm

[ReubenMcG]

Hi. I am following the "Discovery workflow with batch alignment using CytoNorm" tutorial. I have used this successfully in the past.

When I run
cell.dat <- run.cytonorm(dat = cell.dat, model = cytnrm, batch.col = batch.col)

I get the following two error messages:
"WARNING -- the pre- and post-alignment row barcodes do not align"
"WARNING -- the pre- and post-alignment batch labels"

after which R crashes each time and I have to restart the r session.

For the prep and train step I used the following code:

cytnrm <- prep.cytonorm(dat = ref.dat,
                        cellular.cols = cellular.cols,
                        cluster.cols = cluster.cols,
                        batch.col = batch.col,
                        sample.col = sample.col,
                        meta.k = 20)  

cytnrm <- train.cytonorm(model = cytnrm, align.cols = cellular.cols)

Any ideas what's going on? Any help much appreciated :).

R version 4.2.2 (2022-10-31)
Platform: aarch64-apple-darwin20 (64-bit)
Running under: macOS Monterey 12.6

Matrix products: default
LAPACK: /Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/lib/libRlapack.dylib

locale:
[1] en_NZ.UTF-8/en_NZ.UTF-8/en_NZ.UTF-8/C/en_NZ.UTF-8/en_NZ.UTF-8

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

loaded via a namespace (and not attached):
 [1] Rcpp_1.0.9          RSpectra_0.16-1     plyr_1.8.8          pillar_1.8.1        compiler_4.2.2      RColorBrewer_1.1-3  tools_4.2.2         lifecycle_1.0.3    
 [9] tibble_3.1.8        gtable_0.3.1        lattice_0.20-45     pkgconfig_2.0.3     rlang_1.0.6         Matrix_1.5-3        igraph_1.3.5        DBI_1.1.3          
[17] cli_3.4.1           rstudioapi_0.14     ggrepel_0.9.2       parallel_4.2.2      gridExtra_2.3       stringr_1.4.1       dplyr_1.0.10        generics_0.1.3     
[25] vctrs_0.5.1         grid_4.2.2          tidyselect_1.2.0    data.table_1.14.6   Spectre_1.0.0       ellipse_0.4.3       glue_1.6.2          R6_2.5.1           
[33] rstatix_0.7.1       fansi_1.0.3         rARPACK_0.11-0      BiocParallel_1.32.1 carData_3.0-5       reshape2_1.4.4      tidyr_1.2.1         purrr_0.3.5        
[41] ggplot2_3.4.0       corpcor_1.6.10      car_3.1-1           magrittr_2.0.3      matrixStats_0.62.0  codetools_0.2-18    backports_1.4.1     scales_1.2.1       
[49] mixOmics_6.22.0     MASS_7.3-58.1       assertthat_0.2.1    abind_1.4-5         colorspace_2.0-3    utf8_1.2.2          stringi_1.7.8       munsell_0.5.0      
[57] broom_1.0.1