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Dev logging #304

Merged
merged 48 commits into from
Apr 5, 2022
Merged

Dev logging #304

merged 48 commits into from
Apr 5, 2022

Commits on Feb 7, 2022

  1. bump version

    @jacob-rosenthal
    jacob-rosenthal committed Feb 7, 2022
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  2. Merge pull request #290 from Dana-Farber-AIOS/release-2.0.4 

    Release 2.0.4
    @jacob-rosenthal
    jacob-rosenthal committed Feb 7, 2022
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  3. pin working pip version in Dockerfile

    @jacob-rosenthal
    jacob-rosenthal committed Feb 7, 2022
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  4. Add option to manually trigger docker Action

    @jacob-rosenthal
    jacob-rosenthal committed Feb 7, 2022
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  5. pin spams version in dockerfile

    @jacob-rosenthal
    jacob-rosenthal committed Feb 7, 2022
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Commits on Feb 9, 2022

  1. Update README.md 

    Upon repeating installations to follow up to #296 and #297, I found that installing numpy first and using --no-cache-dir is the safest and most reliable way to install pathml
    Surya Narayanan Hari committed Feb 9, 2022
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  2. clean up installation instructions; add troubleshooting section

    @jacob-rosenthal
    jacob-rosenthal committed Feb 9, 2022
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  3. remove old sentences

    @jacob-rosenthal
    jacob-rosenthal committed Feb 9, 2022
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Commits on Feb 21, 2022

  1. set up a logger with varying levels to track the four main files of t… 

    …he project. Also encorporated the ability to turn 'dev mode' on/off so that logging for pathml isnt done for users using the library. Work still needs to be done in logging more of the project
    Bryan Gass committed Feb 21, 2022
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  2. added the imports for loguru

    Bryan Gass committed Feb 21, 2022
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Commits on Feb 22, 2022

  1. Merge pull request #298 from Dana-Farber-AIOS/surya-narayanan-safe-wo… 

    …rking-install

Update README.md
    @jacob-rosenthal
    jacob-rosenthal committed Feb 22, 2022
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Commits on Feb 28, 2022

  1. Got all the base logging stuff figured out. There was a misunderstand… 

    …ing before with how levels, filters and how they work with handlers within loguru. That has since been remedied
    Bryan Gass committed Feb 28, 2022
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  2. all errors that got raised with some message to the user is now logged

    Bryan Gass committed Feb 28, 2022
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Commits on Mar 2, 2022

  1. somewhat brute forcing the fixes on logging at the moment. Log files … 

    …are now being generated but still testing to have everything fully functional.
    Bryan Gass committed Mar 2, 2022
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  2. changed the bash script to recognize if the directory exists before c… 

    …d'ing into it. Also changed the notebook to include the images to download.
    Bryan Gass committed Mar 2, 2022
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Commits on Mar 9, 2022

  1. need to still remove wrappers, add dependecies, save logs to consiste… 

    …nt file path and remove logs that have already been saved to examples directory
    Bryan Gass committed Mar 9, 2022
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  2. need to still remove wrappers, save logs to consistent file path and … 

    …remove logs that have already been saved to examples directory
    Bryan Gass committed Mar 9, 2022
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  3. add logging function to docs

    @jacob-rosenthal
    jacob-rosenthal committed Mar 9, 2022
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  4. added global variable call in enable_logging(), also making sure lint… 

    …ing, doc creation and everything else is working on my end
    Bryan Gass committed Mar 9, 2022
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Commits on Mar 14, 2022

  1. logging is now functional, tests have been built to (naively) test fo… 

    …r functional logging which pass. logger_wraps have been removed from all functions. An absolute file path has been set for log
    Bryan Gass committed Mar 14, 2022
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  2. changed enable_logging() to configure the logger.

    Bryan Gass committed Mar 14, 2022
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Commits on Mar 16, 2022

  1. updates to logs and log tests

    @jacob-rosenthal
    jacob-rosenthal committed Mar 16, 2022
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Commits on Mar 17, 2022

  1. trying to get logger.configure to work within a function

    Bryan Gass committed Mar 17, 2022
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Commits on Mar 21, 2022

  1. currently not working but think I might have found a way to get a one… 

    … function solution.
    Bryan Gass committed Mar 21, 2022
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Commits on Mar 22, 2022

  1. Logging is now functional through the use of a single function call w… 

    …hich supports the custimization of a single handler
    Bryan Gass committed Mar 22, 2022
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Commits on Mar 23, 2022

  1. updates to logging implementation

    @jacob-rosenthal
    jacob-rosenthal committed Mar 23, 2022
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  2. fixed logger warnings that were making tests fail

    Bryan Gass committed Mar 23, 2022
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  3. format for log handler in tests

    @jacob-rosenthal
    jacob-rosenthal committed Mar 23, 2022
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  4. got rid of test that used logging_example() and tests are running again

    Bryan Gass committed Mar 23, 2022
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  5. removed bindings to logger in h5manager

    Bryan Gass committed Mar 23, 2022
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Commits on Mar 28, 2022

  1. squash this commit, removed import * from all pathml modules

    Bryan Gass committed Mar 28, 2022
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  2. Implemented logging and associated tests.

    Bryan Gass committed Mar 28, 2022
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  3. Merge branch 'dev-logging' of github.com:Dana-Farber-AIOS/pathml into… 

    … dev-logging
    Bryan Gass committed Mar 28, 2022
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  4. update docs and clean up logging

    @jacob-rosenthal
    jacob-rosenthal committed Mar 28, 2022
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  5. Merge branch 'dev-logging' of github.com:Dana-Farber-AIOS/pathml into… 

    … dev-logging
    @jacob-rosenthal
    jacob-rosenthal committed Mar 28, 2022
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  6. fix logging tests

    @jacob-rosenthal
    jacob-rosenthal committed Mar 28, 2022
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  7. remove extra files and dirs

    @jacob-rosenthal
    jacob-rosenthal committed Mar 28, 2022
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  8. clean up logging tests

    @jacob-rosenthal
    jacob-rosenthal committed Mar 28, 2022
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  9. separate enable and disable methods for logging. Fix tests

    @jacob-rosenthal
    jacob-rosenthal committed Mar 28, 2022
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Commits on Apr 4, 2022

  1. add logging for backends

    @jacob-rosenthal
    jacob-rosenthal committed Apr 4, 2022
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Commits on Apr 5, 2022

  1. add logging for dask clients

    @jacob-rosenthal
    jacob-rosenthal committed Apr 5, 2022
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  2. minor updates to logger

    @jacob-rosenthal
    jacob-rosenthal committed Apr 5, 2022
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  3. Merge branch 'dev' into dev-logging

    @jacob-rosenthal
    jacob-rosenthal committed Apr 5, 2022
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  4. add loguru to env file

    @jacob-rosenthal
    jacob-rosenthal committed Apr 5, 2022
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  5. Merge branch 'dev-logging' of github.com:Dana-Farber-AIOS/pathml into… 

    … dev-logging
    @jacob-rosenthal
    jacob-rosenthal committed Apr 5, 2022
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  6. revert changes to codex example

    @jacob-rosenthal
    jacob-rosenthal committed Apr 5, 2022
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  7. remove logs inside exceptions

    @jacob-rosenthal
    jacob-rosenthal committed Apr 5, 2022
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  8. remove unused reshape method

    @jacob-rosenthal
    jacob-rosenthal committed Apr 5, 2022
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