diff options
Diffstat (limited to 'wqflask')
| -rw-r--r-- | wqflask/scripts/textfiles_generator.py | 17 |
1 files changed, 14 insertions, 3 deletions
diff --git a/wqflask/scripts/textfiles_generator.py b/wqflask/scripts/textfiles_generator.py index 59bbdb29..b7c94eb0 100644 --- a/wqflask/scripts/textfiles_generator.py +++ b/wqflask/scripts/textfiles_generator.py @@ -253,8 +253,7 @@ def argument_parser(): def run_textfiles_generator(args): try: - - for (d_type, dataset_name, _species) in DATASET_NAMES: + for (d_type, dataset_name, _species) in fetch_to_generate_dataset("ProbeSet", "textfile"): file_name = __generate_file_name__(dataset_name, args.SQL_URI) if not check_file_expiry(os.path.join( args.TMPDIR, "Probesets"), file_name): @@ -266,7 +265,7 @@ def run_textfiles_generator(args): def run_metadata_files_generator(args): - for (dataset_type, dataset_name, species) in DATASET_NAMES: + for (dataset_type, dataset_name, species) in fetch_to_generate_dataset("ProbeSet", "metadata"): try: if not check_file_expiry(os.path.join(TMPDIR, f"metadata_{dataset_type}"), dataset_name): return @@ -305,6 +304,18 @@ def check_file_expiry(target_file_path, dataset_name, max_days=20): return True +def fetch_to_generate_dataset(dataset_type, gen_type): + try: + with lmdb.open(os.path.join("/tmp", "todolist_generate"), readonly=True, lock=False) as env: + with env.begin() as txn: + data = txn.get(f"{gen_type}:{dataset_type}".encode()) + if data: + return [result for result in pickle.loads(data).values()] + return DATASET_NAMES + except Exception as err: + return DATASET_NAMES + + if __name__ == '__main__': args = argument_parser() TMPDIR = args.TMPDIR |