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kernelpipes's Issues

Add step to retrieve kernel output

Add a step that can download kernel output locally.

Format:

output: /path/to/kernel

This would download kernel output files to the pipeline configuration directory

Add step for checking dataset status

For jobs that should only be run upon an updated version of a dataset, a step that queries the Kaggle API and checks the version/lastUpdated date would enable this. This functionality would compare the latest version number against a cached prior version number and only continue processing if the version changed.

UnicodeEncodeError: 'charmap' codec can't encode character '\u2e38'

It triggered, but failed - looks like an issue with a Unicode character. Perhaps I'm missing a requirement?

Same python env - 3.8.2, Windows embedded 64-bit.

2020-06-07 17:00:01,690 [INFO] kernel    : Running Kernel: mikehoney/ai-powered-literature-review-with-submissions
Traceback (most recent call last):
  File "runpy.py", line 193, in _run_module_as_main
  File "runpy.py", line 86, in _run_code
  File "D:\Users\mikeh\Documents\python\Scripts\kernelpipes.exe\__main__.py", line 7, in <module>
  File "d:\users\mikeh\documents\python\lib\site-packages\kernelpipes\pipeline.py", line 116, in main
    Pipeline.run(sys.argv[1])
  File "d:\users\mikeh\documents\python\lib\site-packages\kernelpipes\pipeline.py", line 105, in run
    Pipeline.schedule(directory, pipeline)
  File "d:\users\mikeh\documents\python\lib\site-packages\kernelpipes\pipeline.py", line 76, in schedule
    Pipeline.execute(directory, pipeline)
  File "d:\users\mikeh\documents\python\lib\site-packages\kernelpipes\pipeline.py", line 45, in execute
    Kernel(directory, step["kernel"])()
  File "d:\users\mikeh\documents\python\lib\site-packages\kernelpipes\steps\step.py", line 20, in __call__
    return self.run()
  File "d:\users\mikeh\documents\python\lib\site-packages\kernelpipes\steps\kernel.py", line 39, in run
    kaggle.api.kernels_pull(self.kernel, path, True, False)
  File "d:\users\mikeh\documents\python\lib\site-packages\kaggle\api\kaggle_api_extended.py", line 2018, in kernels_pull
    f.write(blob['source'])
  File "encodings\cp1252.py", line 19, in encode
UnicodeEncodeError: 'charmap' codec can't encode character '\u2e38' in position 9963: character maps to <undefined>

pip install error

Hi David. I'm very excited to try this project - thanks for posting it.

I'm trying to install it on a Windows VM I'm using for the CORD-19 project, but the "pip install ." is failing. I'm running python 3.8.2 embedded.

Any ideas?

D:\Users\mikeh\Documents\kernelpipes>pip install .
Processing d:\users\mikeh\documents\kernelpipes
    ERROR: Command errored out with exit status 1:
     command: 'd:\users\mikeh\documents\python\python.exe' -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'D:\\Users\\mikeh\\AppData\\Local\\Temp\\1\\pip-req-build-p_2nikk5\\setup.py'"'"'; __file__='"'"'D:\\Users\\mikeh\\AppData\\Local\\Temp\\1\\pip-req-build-p_2nikk5\\setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' egg_info --egg-base 'D:\Users\mikeh\AppData\Local\Temp\1\pip-pip-egg-info-bg1dwtem'
         cwd: D:\Users\mikeh\AppData\Local\Temp\1\pip-req-build-p_2nikk5\
    Complete output (8 lines):
    Traceback (most recent call last):
      File "<string>", line 1, in <module>
      File "D:\Users\mikeh\AppData\Local\Temp\1\pip-req-build-p_2nikk5\setup.py", line 20, in <module>
        packages=find_packages(where="src/python/"),
      File "d:\users\mikeh\documents\python\lib\site-packages\setuptools\__init__.py", line 70, in find
        convert_path(where),
      File "distutils\util.py", line 124, in convert_path
    ValueError: path 'src/python/' cannot end with '/'
    ----------------------------------------
ERROR: Command errored out with exit status 1: python setup.py egg_info Check the logs for full command output.

Add scheduler

System cron is one way to enable running a pipeline at a recurring frequency and works well for many instances. One issue that arises is that cron will kick off regardless if a prior instance is running.

Having a scheduler enabled inline would allow only executing a new instance if the prior instance completed.

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