trying to fetch SRR6008323 from
Traceback (most recent call last):
File "/opt/conda/envs/biotools/bin/amalgkit", line 378, in <module>
args.handler(args)
File "/opt/conda/envs/biotools/bin/amalgkit", line 33, in command_getfastq
getfastq_main(args)
File "/opt/conda/envs/biotools/lib/python3.9/site-packages/amalgkit/getfastq.py", line 815, in getfastq_main
download_sra(metadata, sra_stat, args, output_dir, overwrite=False)
File "/opt/conda/envs/biotools/lib/python3.9/site-packages/amalgkit/getfastq.py", line 234, in download_sra
urllib.request.urlretrieve(str(sra_source), os.path.join(work_dir, (str(sra_id + '.sra'))))
File "/opt/conda/envs/biotools/lib/python3.9/urllib/request.py", line 239, in urlretrieve
with contextlib.closing(urlopen(url, data)) as fp:
File "/opt/conda/envs/biotools/lib/python3.9/urllib/request.py", line 214, in urlopen
return opener.open(url, data, timeout)
File "/opt/conda/envs/biotools/lib/python3.9/urllib/request.py", line 501, in open
req = Request(fullurl, data)
File "/opt/conda/envs/biotools/lib/python3.9/urllib/request.py", line 320, in __init__
self.full_url = url
File "/opt/conda/envs/biotools/lib/python3.9/urllib/request.py", line 346, in full_url
self._parse()
File "/opt/conda/envs/biotools/lib/python3.9/urllib/request.py", line 375, in _parse
raise ValueError("unknown url type: %r" % self.full_url)
ValueError: unknown url type: ''