Updated: Sep-09-2026

This vignette provides troubleshooting tips for common issues encountered when using the MotifPeeker package.

If you encounter an issue that is not covered, please open an issue on the GitHub repository.


Session Info

utils::sessionInfo()
## R version 4.6.1 (2026-06-24)
## Platform: x86_64-pc-linux-gnu
## Running under: Ubuntu 24.04.4 LTS
## 
## Matrix products: default
## BLAS:   /home/biocbuild/bbs-3.24-bioc/R/lib/libRblas.so 
## LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.12.0  LAPACK version 3.12.0
## 
## locale:
##  [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C              
##  [3] LC_TIME=en_GB              LC_COLLATE=C              
##  [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8   
##  [7] LC_PAPER=en_US.UTF-8       LC_NAME=C                 
##  [9] LC_ADDRESS=C               LC_TELEPHONE=C            
## [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C       
## 
## time zone: America/New_York
## tzcode source: system (glibc)
## 
## attached base packages:
## [1] stats     graphics  grDevices utils     datasets  methods   base     
## 
## other attached packages:
## [1] MotifPeeker_1.5.1
## 
## loaded via a namespace (and not attached):
##   [1] DBI_1.3.0                         bitops_1.1-0                     
##   [3] gridExtra_2.3.1                   httr2_1.3.0                      
##   [5] rlang_1.3.0                       magrittr_2.0.5                   
##   [7] otel_0.2.0                        matrixStats_1.5.0                
##   [9] compiler_4.6.1                    RSQLite_3.53.3                   
##  [11] vctrs_0.7.3                       pkgconfig_2.0.3                  
##  [13] crayon_1.5.3                      fastmap_1.2.0                    
##  [15] dbplyr_2.6.0                      XVector_0.53.0                   
##  [17] memes_1.21.0                      ca_0.71.1                        
##  [19] Rsamtools_2.29.0                  rmarkdown_2.32                   
##  [21] tzdb_0.5.0                        UCSC.utils_1.9.0                 
##  [23] purrr_1.2.2                       bit_4.6.0                        
##  [25] xfun_0.60                         BSgenome.Hsapiens.UCSC.hg38_1.4.5
##  [27] cachem_1.1.0                      cigarillo_1.3.1                  
##  [29] GenomeInfoDb_1.49.1               jsonlite_2.0.0                   
##  [31] blob_1.3.0                        DelayedArray_0.39.6              
##  [33] BiocParallel_1.47.0               parallel_4.6.1                   
##  [35] R6_2.6.1                          bslib_0.12.0                     
##  [37] RColorBrewer_1.1-3                rtracklayer_1.73.0               
##  [39] GenomicRanges_1.65.4              jquerylib_0.1.4                  
##  [41] Rcpp_1.1.2                        Seqinfo_1.3.2                    
##  [43] assertthat_0.2.1                  SummarizedExperiment_1.43.0      
##  [45] iterators_1.0.14                  knitr_1.52                       
##  [47] readr_2.2.0                       IRanges_2.47.5                   
##  [49] BiocBaseUtils_1.15.1              Matrix_1.7-6                     
##  [51] tidyselect_1.2.1                  dichromat_2.0-1                  
##  [53] abind_1.4-8                       yaml_2.3.12                      
##  [55] viridis_0.6.5                     TSP_1.2.7                        
##  [57] codetools_0.2-20                  curl_8.0.0                       
##  [59] lattice_0.23-1                    tibble_3.3.1                     
##  [61] Biobase_2.73.2                    S7_0.2.2                         
##  [63] evaluate_1.0.5                    heatmaply_1.6.0                  
##  [65] BiocFileCache_3.3.0               universalmotif_1.31.48           
##  [67] Biostrings_2.81.9                 pillar_1.11.1                    
##  [69] filelock_1.0.3                    MatrixGenerics_1.25.0            
##  [71] DT_0.34.0                         foreach_1.5.2                    
##  [73] stats4_4.6.1                      plotly_4.12.1                    
##  [75] generics_0.1.4                    RCurl_1.98-1.20                  
##  [77] S4Vectors_0.51.9                  hms_1.1.4                        
##  [79] ggplot2_4.0.3                     scales_1.4.0                     
##  [81] glue_1.8.1                        tools_4.6.1                      
##  [83] dendextend_1.19.1                 BiocIO_1.23.3                    
##  [85] data.table_1.18.6.1               BSgenome_1.81.1                  
##  [87] webshot_0.5.5                     GenomicAlignments_1.49.2         
##  [89] registry_0.5-1                    XML_3.99-0.24                    
##  [91] grid_4.6.1                        tidyr_1.3.2                      
##  [93] seriation_1.5.8                   restfulr_0.0.17                  
##  [95] cli_3.6.6                         S4Arrays_1.13.0                  
##  [97] viridisLite_0.4.3                 dplyr_1.2.1                      
##  [99] gtable_0.3.6                      sass_0.4.10                      
## [101] digest_0.6.39                     BiocGenerics_0.59.12             
## [103] SparseArray_1.13.2                rjson_0.2.23                     
## [105] htmlwidgets_1.6.4                 farver_2.1.2                     
## [107] memoise_2.0.1                     htmltools_0.5.9                  
## [109] lifecycle_1.0.5                   httr_1.4.9                       
## [111] bit64_4.8.6                       MASS_7.3-66