Remove recount3 cached files

Source: R/recount3_cache_rm.R

This function removes the recount3 files you have stored in your recount3_cache().

recount3_cache_rm(bfc = recount3_cache())

Arguments

bfc

A BiocFileCache-class object where the files will be cached to, typically created by recount3_cache().

Value

A character(0) if the removal of files was successful.

See also

Other recount3 cache functions: recount3_cache_files(), recount3_cache()

Examples

## List the URLs you have downloaded
recount3_cache_files()
#>  [1] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/sra.recount_project.MD.gz"                                      
#>  [2] "http://duffel.rail.bio/recount3/human/data_sources/gtex/metadata/gtex.recount_project.MD.gz"                                    
#>  [3] "http://duffel.rail.bio/recount3/human/data_sources/tcga/metadata/tcga.recount_project.MD.gz"                                    
#>  [4] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/15/SRP009615/sra.sra.SRP009615.MD.gz"                           
#>  [5] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/15/SRP009615/sra.recount_project.SRP009615.MD.gz"               
#>  [6] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/15/SRP009615/sra.recount_qc.SRP009615.MD.gz"                    
#>  [7] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/15/SRP009615/sra.recount_seq_qc.SRP009615.MD.gz"                
#>  [8] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/15/SRP009615/sra.recount_pred.SRP009615.MD.gz"                  
#>  [9] "http://duffel.rail.bio/recount3/human/annotations/gene_sums/human.gene_sums.G026.gtf.gz"                                        
#> [10] "http://duffel.rail.bio/recount3/human/data_sources/sra/gene_sums/15/SRP009615/sra.gene_sums.SRP009615.G026.gz"                  
#> [11] "http://duffel.rail.bio/recount3/human/annotations/exon_sums/human.exon_sums.G026.gtf.gz"                                        
#> [12] "http://duffel.rail.bio/recount3/human/data_sources/sra/exon_sums/15/SRP009615/sra.exon_sums.SRP009615.G026.gz"                  
#> [13] "http://duffel.rail.bio/recount3/human/data_sources/sra/junctions/15/SRP009615/sra.junctions.SRP009615.ALL.RR.gz"                
#> [14] "http://duffel.rail.bio/recount3/human/data_sources/sra/junctions/15/SRP009615/sra.junctions.SRP009615.ALL.MM.gz"                
#> [15] "http://duffel.rail.bio/recount3/human/data_sources/sra/junctions/15/SRP009615/sra.junctions.SRP009615.ALL.ID.gz"                
#> [16] "http://duffel.rail.bio/recount3/mouse/data_sources/sra/metadata/sra.recount_project.MD.gz"                                      
#> [17] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/99/DRP000499/sra.sra.DRP000499.MD.gz"                           
#> [18] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/99/DRP000499/sra.recount_project.DRP000499.MD.gz"               
#> [19] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/99/DRP000499/sra.recount_qc.DRP000499.MD.gz"                    
#> [20] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/99/DRP000499/sra.recount_seq_qc.DRP000499.MD.gz"                
#> [21] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/99/DRP000499/sra.recount_pred.DRP000499.MD.gz"                  
#> [22] "http://duffel.rail.bio/recount3/human/data_sources/sra/gene_sums/99/DRP000499/sra.gene_sums.DRP000499.G026.gz"                  
#> [23] "http://duffel.rail.bio/recount3/human/annotations/gene_sums/human.gene_sums.G029.gtf.gz"                                        
#> [24] "http://duffel.rail.bio/recount3/human/data_sources/sra/gene_sums/15/SRP009615/sra.gene_sums.SRP009615.G029.gz"                  
#> [25] "http://duffel.rail.bio/recount3/human/annotations/gene_sums/human.gene_sums.F006.gtf.gz"                                        
#> [26] "http://duffel.rail.bio/recount3/human/data_sources/sra/gene_sums/15/SRP009615/sra.gene_sums.SRP009615.F006.gz"                  
#> [27] "http://duffel.rail.bio/recount3/human/annotations/gene_sums/human.gene_sums.R109.gtf.gz"                                        
#> [28] "http://duffel.rail.bio/recount3/human/data_sources/sra/gene_sums/15/SRP009615/sra.gene_sums.SRP009615.R109.gz"                  
#> [29] "http://duffel.rail.bio/recount3/human/annotations/gene_sums/human.gene_sums.ERCC.gtf.gz"                                        
#> [30] "http://duffel.rail.bio/recount3/human/data_sources/sra/gene_sums/15/SRP009615/sra.gene_sums.SRP009615.ERCC.gz"                  
#> [31] "http://duffel.rail.bio/recount3/human/annotations/gene_sums/human.gene_sums.SIRV.gtf.gz"                                        
#> [32] "http://duffel.rail.bio/recount3/human/data_sources/sra/gene_sums/15/SRP009615/sra.gene_sums.SRP009615.SIRV.gz"                  
#> [33] "http://snaptron.cs.jhu.edu/data/temp/recount3/human/collections/geuvadis_smartseq/metadata/geuvadis_smartseq.recount_project.gz"
#> [34] "http://snaptron.cs.jhu.edu/data/temp/recount3/human/data_sources/sra/metadata/66/ERP110066/sra.sra.ERP110066.MD.gz"             
#> [35] "http://snaptron.cs.jhu.edu/data/temp/recount3/human/data_sources/sra/metadata/66/ERP110066/sra.recount_project.ERP110066.MD.gz" 
#> [36] "http://snaptron.cs.jhu.edu/data/temp/recount3/human/data_sources/sra/metadata/66/ERP110066/sra.recount_qc.ERP110066.MD.gz"      
#> [37] "http://snaptron.cs.jhu.edu/data/temp/recount3/human/data_sources/sra/metadata/66/ERP110066/sra.recount_pred.ERP110066.MD.gz"    
#> [38] "http://snaptron.cs.jhu.edu/data/temp/recount3/human/collections/geuvadis_smartseq/metadata/geuvadis_smartseq.custom.gz"         
#> [39] "http://snaptron.cs.jhu.edu/data/temp/recount3/human/annotations/gene_sums/human.gene_sums.G026.gtf.gz"                          
#> [40] "http://snaptron.cs.jhu.edu/data/temp/recount3/human/data_sources/sra/gene_sums/66/ERP110066/sra.gene_sums.ERP110066.G026.gz"    
#> [41] "http://duffel.rail.bio/recount3/mouse/data_sources/sra/metadata/67/DRP002367/sra.sra.DRP002367.MD.gz"                           
#> [42] "http://duffel.rail.bio/recount3/mouse/data_sources/sra/metadata/67/DRP002367/sra.recount_project.DRP002367.MD.gz"               
#> [43] "http://duffel.rail.bio/recount3/mouse/data_sources/sra/metadata/67/DRP002367/sra.recount_qc.DRP002367.MD.gz"                    
#> [44] "http://duffel.rail.bio/recount3/mouse/data_sources/sra/metadata/67/DRP002367/sra.recount_seq_qc.DRP002367.MD.gz"                
#> [45] "http://duffel.rail.bio/recount3/mouse/data_sources/sra/metadata/67/DRP002367/sra.recount_pred.DRP002367.MD.gz"                  
#> [46] "http://duffel.rail.bio/recount3/mouse/annotations/gene_sums/mouse.gene_sums.M023.gtf.gz"                                        
#> [47] "http://duffel.rail.bio/recount3/mouse/data_sources/sra/gene_sums/67/DRP002367/sra.gene_sums.DRP002367.M023.gz"                  
#> [48] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/66/ERP110066/sra.sra.ERP110066.MD.gz"                           
#> [49] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/66/ERP110066/sra.recount_project.ERP110066.MD.gz"               
#> [50] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/66/ERP110066/sra.recount_qc.ERP110066.MD.gz"                    
#> [51] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/66/ERP110066/sra.recount_seq_qc.ERP110066.MD.gz"                
#> [52] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/66/ERP110066/sra.recount_pred.ERP110066.MD.gz"                  
#> [53] "http://duffel.rail.bio/recount3/human/data_sources/gtex/metadata/ER/BLADDER/gtex.gtex.BLADDER.MD.gz"                            
#> [54] "http://duffel.rail.bio/recount3/human/data_sources/gtex/metadata/ER/BLADDER/gtex.recount_project.BLADDER.MD.gz"                 
#> [55] "http://duffel.rail.bio/recount3/human/data_sources/gtex/metadata/ER/BLADDER/gtex.recount_qc.BLADDER.MD.gz"                      
#> [56] "http://duffel.rail.bio/recount3/human/data_sources/gtex/metadata/ER/BLADDER/gtex.recount_seq_qc.BLADDER.MD.gz"                  
#> [57] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/67/SRP103067/sra.sra.SRP103067.MD.gz"                           
#> [58] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/67/SRP103067/sra.recount_project.SRP103067.MD.gz"               
#> [59] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/67/SRP103067/sra.recount_qc.SRP103067.MD.gz"                    
#> [60] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/67/SRP103067/sra.recount_seq_qc.SRP103067.MD.gz"                
#> [61] "http://duffel.rail.bio/recount3/human/data_sources/sra/metadata/67/SRP103067/sra.recount_pred.SRP103067.MD.gz"                  
if (FALSE) {
## Now delete the cached files
recount3_cache_rm()

## List againt your recount3 files (should be empty)
recount3_cache_files()
}