Replay can not be handed a folder of symlinked files. This error occurs when handed a folder of symlinked files.
replay provenance --i-in-fp ../for-replay/ --o-out-fp test
Parsing ../for-replay/duo-faiths.qzv
Traceback (most recent call last):
File "/scratch/crh423/conda/envs/qiime2-2022.2/bin/replay", line 8, in <module>
sys.exit(replay())
File "/scratch/crh423/conda/envs/qiime2-2022.2/lib/python3.8/site-packages/click/core.py", line 829, in __call__
return self.main(*args, **kwargs)
File "/scratch/crh423/conda/envs/qiime2-2022.2/lib/python3.8/site-packages/click/core.py", line 782, in main
rv = self.invoke(ctx)
File "/scratch/crh423/conda/envs/qiime2-2022.2/lib/python3.8/site-packages/click/core.py", line 1259, in invoke
return _process_result(sub_ctx.command.invoke(sub_ctx))
File "/scratch/crh423/conda/envs/qiime2-2022.2/lib/python3.8/site-packages/click/core.py", line 1066, in invoke
return ctx.invoke(self.callback, **ctx.params)
File "/scratch/crh423/conda/envs/qiime2-2022.2/lib/python3.8/site-packages/click/core.py", line 610, in invoke
return callback(*args, **kwargs)
File "/scratch/crh423/conda/envs/qiime2-2022.2/lib/python3.8/site-packages/provenance_lib/click_commands.py", line 66, in provenance
replay_provenance(payload=i_in_fp,
File "/scratch/crh423/conda/envs/qiime2-2022.2/lib/python3.8/site-packages/provenance_lib/replay.py", line 173, in replay_provenance
dag = ProvDAG(
File "/scratch/crh423/conda/envs/qiime2-2022.2/lib/python3.8/site-packages/provenance_lib/parse.py", line 108, in __init__
parser_results = parse_provenance(cfg, artifact_data)
File "/scratch/crh423/conda/envs/qiime2-2022.2/lib/python3.8/site-packages/provenance_lib/parse.py", line 443, in parse_provenance
return parser.parse_prov(cfg, payload)
File "/scratch/crh423/conda/envs/qiime2-2022.2/lib/python3.8/site-packages/provenance_lib/parse.py", line 382, in parse_prov
with zipfile.ZipFile(archive) as zf:
File "/scratch/crh423/conda/envs/qiime2-2022.2/lib/python3.8/zipfile.py", line 1251, in __init__
self.fp = io.open(file, filemode)
OSError: [Errno 40] Too many levels of symbolic links: '../for-replay/duo-faiths.qzv'
This would be beneficial if a user had a bunch of files that were stored in different places that they want to rerun without taking up additional storage to copy those files into a input directory.
Replay can not be handed a folder of symlinked files. This error occurs when handed a folder of symlinked files.
This would be beneficial if a user had a bunch of files that were stored in different places that they want to rerun without taking up additional storage to copy those files into a input directory.