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@nh13 nh13 commented May 27, 2020

The following two commands work just fine:

enasearch retrieve_run_report --accession PRJNA473989 --file results.txt
enasearch retrieve_run_report --accession PRJNA473989

But the following gives an exception

$ enasearch retrieve_run_report --accession PRJNA473989 > /dev/null
Traceback (most recent call last):
  File "/path/to/bin/enasearch", line 6, in <module>
    from enasearch.__main__ import main
  File "/path/to/lib/python2.7/site-packages/enasearch/__main__.py", line 6, in <module>
    cli.cli()
  File "/path/to/lib/python2.7/site-packages/click/core.py", line 829, in __call__
    return self.main(*args, **kwargs)
  File "/path/to/lib/python2.7/site-packages/click/core.py", line 782, in main
    rv = self.invoke(ctx)
  File "/path/to/lib/python2.7/site-packages/click/core.py", line 1259, in invoke
    return _process_result(sub_ctx.command.invoke(sub_ctx))
  File "/path/to/lib/python2.7/site-packages/click/core.py", line 1066, in invoke
    return ctx.invoke(self.callback, **ctx.params)
  File "/path/to/lib/python2.7/site-packages/click/core.py", line 610, in invoke
    return callback(*args, **kwargs)
  File "/path/to/lib/python2.7/site-packages/enasearch/cli.py", line 20, in handle_exception
    raise click.ClickException(e)
  File "/path/to/lib/python2.7/site-packages/click/exceptions.py", line 23, in __init__
    ctor_msg = ctor_msg.encode("utf-8")
AttributeError: 'exceptions.UnicodeEncodeError' object has no attribute 'encode'

This is because the run report has a Unicode character


def print_display(results, display):
"""Print the results given the choosen display"""
results = results.encode("utf-8")
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this should be better handled for python 2/3, and str/bytes/unicode

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