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Latin1 bug #126

Closed wasade closed 1 year ago

wasade commented 1 year ago

We discovered an issue on load of data using č characters, causing load operations to bomb on Python's HTTP client. This patch fixes the immediate issue. Addressing other HTTP actions may be necessary but unclear at the moment.

cc @cassidysymons @antgonza

Traceback (most recent call last):
  File "/home/qiita/redbiom-loader/redbiom-qiita-loader-amplicon-wgs.py", line 259, in load_study_metadata
    redbiom.admin.load_sample_metadata_full_search(df)
  File "/home/qiita/miniconda3/envs/qiita/lib/python3.9/site-packages/redbiom/admin.py", line 657, in load_sample_
metadata_full_search
    post('metadata', 'SADD', payload)
  File "/home/qiita/miniconda3/envs/qiita/lib/python3.9/site-packages/redbiom/_requests.py", line 57, in f
    req = s.post(config['hostname'],
  File "/home/qiita/miniconda3/envs/qiita/lib/python3.9/site-packages/requests/sessions.py", line 577, in post
    return self.request('POST', url, data=data, json=json, **kwargs)
  File "/home/qiita/miniconda3/envs/qiita/lib/python3.9/site-packages/requests/sessions.py", line 529, in request
    resp = self.send(prep, **send_kwargs)
  File "/home/qiita/miniconda3/envs/qiita/lib/python3.9/site-packages/requests/sessions.py", line 645, in send
    r = adapter.send(request, **kwargs)
  File "/home/qiita/miniconda3/envs/qiita/lib/python3.9/site-packages/requests/adapters.py", line 440, in send
    resp = conn.urlopen(
  File "/home/qiita/miniconda3/envs/qiita/lib/python3.9/site-packages/urllib3/connectionpool.py", line 703, in url
open
    httplib_response = self._make_request(
  File "/home/qiita/miniconda3/envs/qiita/lib/python3.9/site-packages/urllib3/connectionpool.py", line 398, in _ma
ke_request
    conn.request(method, url, **httplib_request_kw)
  File "/home/qiita/miniconda3/envs/qiita/lib/python3.9/site-packages/urllib3/connection.py", line 239, in request
    super(HTTPConnection, self).request(method, url, body=body, headers=headers)
  File "/home/qiita/miniconda3/envs/qiita/lib/python3.9/http/client.py", line 1285, in request
    self._send_request(method, url, body, headers, encode_chunked)
  File "/home/qiita/miniconda3/envs/qiita/lib/python3.9/http/client.py", line 1330, in _send_request
    body = _encode(body, 'body')
  File "/home/qiita/miniconda3/envs/qiita/lib/python3.9/http/client.py", line 168, in _encode
    raise UnicodeEncodeError(
UnicodeEncodeError: 'latin-1' codec can't encode character '\u010d' in position 30: Body ('č') is not valid Latin-
1. Use body.encode('utf-8') if you want to send it encoded in UTF-8.