diff --git a/bdc/topmed_data_tables.Rmd b/bdc/topmed_data_tables.Rmd index e9b91ea..42e79d1 100644 --- a/bdc/topmed_data_tables.Rmd +++ b/bdc/topmed_data_tables.Rmd @@ -114,7 +114,7 @@ txt_files <- avtable("reference_file") %>% ```{r} fl <- tempfile() system("pip install --upgrade --no-cache-dir terra-notebook-utils") -tnu <- "/home/rstudio/.local/bin/tnu" +tnu <- "/usr/local/bin/tnu" system(paste(tnu, "config set-workspace", avworkspace())) system(paste(tnu, "config set-workspace-namespace", avworkspace_namespace())) system(paste(tnu, "drs copy-batch", paste(txt_files, collapse=" "), "--dst", fl)) @@ -279,7 +279,7 @@ json <- list("validate_genotype_model.table_files" = file_list, "validate_genotype_model.workspace_name" = avworkspace_name(), "validate_genotype_model.workspace_namespace" = avworkspace_namespace(), "validate_genotype_model.import_tables" = "true", - "validate_genotype_model.check_md5.project_id" = gcloud_project() + "validate_genotype_model.md5check.project_id" = gcloud_project() ) %>% toJSON(pretty=TRUE, auto_unbox=TRUE, unbox=TRUE) write(json, "validate_genotype_model.json") ```