diff --git a/inst/scripts/coRmiT.R b/inst/scripts/coRmiT.R index 388b9de..1f868e2 100755 --- a/inst/scripts/coRmiT.R +++ b/inst/scripts/coRmiT.R @@ -149,6 +149,13 @@ if( Sys.getenv('DEGHUNTER_MODE') == 'DEVELOPMENT' ){ ##################### ## ADD OR HEATMAP FOR MIRNA/STRATEGY/CORRELATION CUTOFF +if (is.null(opt$multimir_db)){ + multimir_db <- file.path(root_path, "inst", "multimir_data", paste0("parsed_raw_score_", opt$organism, ".RData")) +} else { + multimir_db <- opt$multimir_db +} +if (!file.exists(multimir_db)) + stop("Please, provide a valid Multimir database") check_and_create_dir(opt$output_files) @@ -162,7 +169,7 @@ if (exec_cormit){ output_files=opt$output_files, strat_names=unlist(strsplit(opt$strategies, ",")), organism=opt$organism, - multimir_db=opt$multimir_db, + multimir_db=multimir_db, sample_proportion = opt$sample_proportion, p_val_cutoff=opt$p_val_cutoff, corr_cutoffs=opt$corr_cutoffs,