diff --git a/workflow/rules/download-references.smk b/workflow/rules/download-references.smk index 765b849..9686dae 100644 --- a/workflow/rules/download-references.smk +++ b/workflow/rules/download-references.smk @@ -50,11 +50,25 @@ rule download_repeatmasker_annotation_file: "../scripts/get_rmsk.py" -checkpoint download_gtRNAdb: +rule download_gtRNAdb: output: - protected(directory(tRNA_annotation_dir)), + protected( + multiext( + str(tRNA_annotation_dir.joinpath(config["genome"]["label"])), + "-filtered-tRNAs.fa", + "-mature-tRNAs.fa", + "-tRNAs_name_map.txt", + "-tRNAs-confidence-set.out", + "-tRNAs-confidence-set.ss", + "-tRNAs-detailed.out", + "-tRNAs-detailed.ss", + "-tRNAs.bed", + "-tRNAs.fa", + ) + ), params: url=config["genome"]["gtrnadb_url"], + output_dir=tRNA_annotation_dir, log: log_folder.joinpath("download/genome/gtrnadb.log"), conda: