fetch_data('iris') returns an error

shahyash10 commented 3 years ago

pmlb version 1.0.2a0 and 1.0.1.post3 (fails on both)
Issue exists on both macos big sur and WSL ubuntu, both from within a miniconda environment
python version 3.9.2

Code to recreate:


>>> from pmlb import fetch_data
>>> z = fetch_data('iris')
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/home/yashs97/miniconda3/envs/EGADS/lib/python3.9/site-packages/pmlb/pmlb.py", line 80, in fetch_data
dataset = pd.read_csv(dataset_url, sep='\t', compression='gzip')
File "/home/yashs97/miniconda3/envs/EGADS/lib/python3.9/site-packages/pandas/io/parsers.py", line 610, in read_csv
return _read(filepath_or_buffer, kwds)
File "/home/yashs97/miniconda3/envs/EGADS/lib/python3.9/site-packages/pandas/io/parsers.py", line 462, in _read
parser = TextFileReader(filepath_or_buffer, **kwds)
File "/home/yashs97/miniconda3/envs/EGADS/lib/python3.9/site-packages/pandas/io/parsers.py", line 819, in __init__
self._engine = self._make_engine(self.engine)
File "/home/yashs97/miniconda3/envs/EGADS/lib/python3.9/site-packages/pandas/io/parsers.py", line 1050, in _make_engine
return mapping[engine](self.f, **self.options)  # type: ignore[call-arg]
File "/home/yashs97/miniconda3/envs/EGADS/lib/python3.9/site-packages/pandas/io/parsers.py", line 1898, in __init__
self._reader = parsers.TextReader(self.handles.handle, **kwds)
File "pandas/_libs/parsers.pyx", line 518, in pandas._libs.parsers.TextReader.__cinit__
File "pandas/_libs/parsers.pyx", line 620, in pandas._libs.parsers.TextReader._get_header
File "pandas/_libs/parsers.pyx", line 814, in pandas._libs.parsers.TextReader._tokenize_rows
File "pandas/_libs/parsers.pyx", line 1943, in pandas._libs.parsers.raise_parser_error
File "/home/yashs97/miniconda3/envs/EGADS/lib/python3.9/_compression.py", line 68, in readinto
data = self.read(len(byte_view))
File "/home/yashs97/miniconda3/envs/EGADS/lib/python3.9/gzip.py", line 487, in read
if not self._read_gzip_header():
File "/home/yashs97/miniconda3/envs/EGADS/lib/python3.9/gzip.py", line 435, in _read_gzip_header
raise BadGzipFile('Not a gzipped file (%r)' % magic)
gzip.BadGzipFile: Not a gzipped file (b've')

shahyash10 commented 3 years ago

@lacava Is this something you can please help out with? Thanks!

lacava commented 3 years ago

i'm getting the same error on a fresh install. may have to do with going over our LFS bandwidth quota for the month. https://github.com/EpistasisLab/pmlb/runs/2392306391?check_suite_focus=true#step:5:4

lacava commented 3 years ago

@yashs97 can you try now? (we bought more storage, working for me now)

shahyash10 commented 3 years ago

Its working for me as well, thanks so much @lacava

EpistasisLab / pmlb

fetch_data('iris') returns an error #148