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radical-cybertools / radical.analytics

Analytics for RADICAL-Cybertools
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UnicodeEncodeError: 'ascii' codec can't encode character '\u2019' in position 1050: ordinal not in range(128) #124

Open lee212 opened 4 years ago

lee212 commented 4 years ago 
Traceback (most recent call last):
  File "extasy-analytics-gromacs.py", line 304, in <module>
    appman.run()
  File "/ccs/home/hrlee/.conda/envs/workflow-2/lib/python3.6/site-packages/radical/entk/appman/appmanager.py", line 437, in run
    self.terminate()
  File "/ccs/home/hrlee/.conda/envs/workflow-2/lib/python3.6/site-packages/radical/entk/appman/appmanager.py", line 479, in terminate
    self._rmgr._terminate_resource_request()
  File "/ccs/home/hrlee/.conda/envs/workflow-2/lib/python3.6/site-packages/radical/entk/execman/rp/resource_manager.py", line 230, in _terminate_resource_request
    self._session.close(cleanup=cleanup, download=get_profiles)
  File "/ccs/home/hrlee/.conda/envs/workflow-2/lib/python3.6/site-packages/radical/pilot/session.py", line 288, in close
    self.fetch_json    (tgt='%s/%s' % (tgt, self.uid))
  File "/ccs/home/hrlee/.conda/envs/workflow-2/lib/python3.6/site-packages/radical/pilot/session.py", line 693, in fetch_json
    session=self)
  File "/ccs/home/hrlee/.conda/envs/workflow-2/lib/python3.6/site-packages/radical/pilot/utils/session.py", line 414, in fetch_json
    ru.write_json(json_docs, dst)
  File "/ccs/home/hrlee/.conda/envs/workflow-2/lib/python3.6/site-packages/radical/utils/json_io.py", line 62, in write_json
    json.dump(data, f, sort_keys=True, indent=4, ensure_ascii=False)
  File "/ccs/home/hrlee/.conda/envs/workflow-2/lib/python3.6/json/__init__.py", line 180, in dump
    fp.write(chunk)
UnicodeEncodeError: 'ascii' codec can't encode character '\u2019' in position 1050: ordinal not in range(128)

My stack:

  python               : 3.6.10
  pythonpath           : /sw/summit/xalt/1.2.0/site:/sw/summit/xalt/1.2.0/libexec
  virtualenv           : workflow-2
  radical.entk         : 1.4.0
  radical.pilot        : 1.4.1
  radical.saga         : 1.4.0
  radical.utils        : 1.4.0

And the session data is at: https://github.com/radical-experiments/extasy_profiling/blob/master/data/raw_gromacs/re.session.login5.hrlee.018425.0020.tar.gz

And the script is at: https://github.com/radical-experiments/extasy_profiling/blob/master/script/extasy-analytics-gromacs.py it runs like:

python extasy-analysis-gromacs.py --Wconfig settings/settings_extasy_chignolin_example.wcfg

Please see the README for configuration

lee212 commented 4 years ago

Output message from another session:

Update: pipeline.0000.stage.0002.task.0710 state: EXECUTED
Update: pipeline.0000.stage.0002.task.0710 state: DONE
close unit manager                                                            ok
wait for 1 pilot(s)
              0                                                               ok
closing session re.session.login5.hrlee.018430.0004                            \
close pilot manager                                                            \
wait for 1 pilot(s)
              0                                                               ok
                                                                              ok
Error: 'ascii' codec can't encode character '\u2019' in position 1050: ordinal not in range(128)
Traceback (most recent call last):
  File "/ccs/home/hrlee/.conda/envs/workflow-2/lib/python3.6/site-packages/radical/entk/appman/appmanager.py", line 426, in run
    self._run_workflow()
  File "/ccs/home/hrlee/.conda/envs/workflow-2/lib/python3.6/site-packages/radical/entk/appman/appmanager.py", line 736, in _run_workflow
    if not self._task_manager.check_heartbeat() and \
KeyboardInterrupt

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "extasy-analytics-gromacs.py", line 304, in <module>
    appman.run()
  File "/ccs/home/hrlee/.conda/envs/workflow-2/lib/python3.6/site-packages/radical/entk/appman/appmanager.py", line 437, in run
    self.terminate()
  File "/ccs/home/hrlee/.conda/envs/workflow-2/lib/python3.6/site-packages/radical/entk/appman/appmanager.py", line 479, in terminate
    self._rmgr._terminate_resource_request()
  File "/ccs/home/hrlee/.conda/envs/workflow-2/lib/python3.6/site-packages/radical/entk/execman/rp/resource_manager.py", line 230, in _terminate_resource_request
    self._session.close(cleanup=cleanup, download=get_profiles)
  File "/ccs/home/hrlee/.conda/envs/workflow-2/lib/python3.6/site-packages/radical/pilot/session.py", line 288, in close
    self.fetch_json    (tgt='%s/%s' % (tgt, self.uid))
  File "/ccs/home/hrlee/.conda/envs/workflow-2/lib/python3.6/site-packages/radical/pilot/session.py", line 693, in fetch_json
    session=self)
  File "/ccs/home/hrlee/.conda/envs/workflow-2/lib/python3.6/site-packages/radical/pilot/utils/session.py", line 414, in fetch_json
    ru.write_json(json_docs, dst)
  File "/ccs/home/hrlee/.conda/envs/workflow-2/lib/python3.6/site-packages/radical/utils/json_io.py", line 62, in write_json
    json.dump(data, f, sort_keys=True, indent=4, ensure_ascii=False)
  File "/ccs/home/hrlee/.conda/envs/workflow-2/lib/python3.6/json/__init__.py", line 180, in dump
    fp.write(chunk)
UnicodeEncodeError: 'ascii' codec can't encode character '\u2019' in position 1050: ordinal not in range(128)
mturilli commented 4 years ago

@lee212 thank you for reporting this. I am still not able to reproduce it. Could you try to do a:

print('\u2019')

In the shell that gives you this error? I am wondering whether it is an issue with the terminal unicode settings.