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Joss paper updates #87

Merged
merged 46 commits into from
Nov 6, 2023
Merged

Joss paper updates #87

merged 46 commits into from
Nov 6, 2023

Commits on Mar 16, 2023

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  2. Small edit

    kbonney committed Mar 16, 2023
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Commits on Apr 27, 2023

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  2. Adding joss workflow

    kbonney committed Apr 27, 2023
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Commits on Apr 28, 2023

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  2. Another attempt

    kbonney committed Apr 28, 2023
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  3. Attempt 3

    kbonney committed Apr 28, 2023
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  4. Now we are on track

    kbonney committed Apr 28, 2023
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  5. Trying html unordered lists

    kbonney committed Apr 28, 2023
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Commits on May 3, 2023

  1. testing a new table format

    kbonney committed May 3, 2023
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  2. try again

    kbonney committed May 3, 2023
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Commits on Jun 13, 2023

  1. Adding JOSS status

    kbonney authored Jun 13, 2023
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  2. Merge pull request sandialabs#45 from kbonney/patch-1

    Adding JOSS status
    kbonney authored Jun 13, 2023
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Commits on Jun 23, 2023

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  2. Merge pull request sandialabs#43 from kbonney/contributing

    Updating contributing page in documentation
    kbonney authored Jun 23, 2023
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Commits on Jul 7, 2023

  1. Keyword search in text from reference dictionary (sandialabs#46)

    * init file and pull sample data
    
    * add helper functions and reference dict
    
    * clean up text, tokenize, add new labels from regex function
    
    * move example into its own file, seperate out functions to use
    
    * clean functions and make generic names
    
    * clean up example
    
    * move reference dict to example_data
    
    * remove pdb
    
    * move dict out of functions file
    
    * missed import
    
    * add metrics to measure accuracy
    
    * rename other category to unknown for fair comparison
    
    * move keyword search to preprocess step, util
    
    * move add label fucntion to classify
    
    * fix imports, add comment for viz
    
    * remove temp file
    
    * change arg to dict
    
    * add keyword util
    
    * update formating
    
    * whitespace
    
    * update args to match
    
    * remove whitespace
    
    * function rename
    
    * clean up dict
    
    * add sample data
    
    * update docstring and change col dict name
    
    * clean up and use sample data in examples
    
    * add plot function
    
    * add in visualization function for confusion matrix
    
    * add more detail to dox string
    
    * clean up function to expect predicted_col
    
    * clean up example
    
    * remove whitespace
    
    * change col name from new to predicted
    
    * clean up sample data
    
    * add notebook example
    
    * add functionality to replace text in preprocessing
    
    * add text replacement step
    
    * linter
    
    * remove example .py file in favor of jupyter notebook
    
    * remove reference dict
    
    * add new csv mapping rfiles
    
    * add csv
    
    * update jupyternotebook example
    
    * use df instead of dict
    
    * remove dict
    
    * remove unused imports and functions
    
    * update jupyter notebook and remove module
    
    * remove plot
    
    * update docstrings
    
    * linter
    
    * remove whitespace
    charity-kwha authored Jul 7, 2023
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Commits on Aug 9, 2023

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Commits on Aug 28, 2023

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Commits on Aug 29, 2023

  1. Merge pull request sandialabs#48 from kbonney/workflows

    Workflows and linting fixes
    tgunda authored Aug 29, 2023
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  2. Merge pull request sandialabs#53 from kbonney/issue-49

    Addressing issue 49: Adding links to code in user guide
    tgunda authored Aug 29, 2023
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  3. Merge pull request sandialabs#54 from kbonney/issue-51

    Addressing issue 51
    tgunda authored Aug 29, 2023
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Commits on Aug 30, 2023

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Commits on Oct 5, 2023

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  2. [JOSS review] Updates to the documentation (sandialabs#74)

    * Update index.rst
    
    * Remove boilerplate info (not useful)
    
    * Update .gitignore
    AdamRJensen authored Oct 5, 2023
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  4. Addressing various JOSS review comments

    * removing unneccesary min requirements file
    
    * Updating RTD docs requirements pins and updated python version used in RTD
    
    * adding additional docs requirements to setup.py variable
    
    * adding python version in req.txt note
    
    * removing docs req txt file
    
    * adding doc pins to setup py
    
    * updaing rtd yaml to use new doc reqirements location
    
    * adding pins to req.txt
    
    * adding version, copyright, and license to __init__.py
    
    * fix citation file
    
    * add version to setup.py
    
    * remove unnecessary init file
    
    * update version to 0.2.0
    
    * removing vestigial files
    
    * remove notice folder
    
    * troubleshooting GH tests
    
    * fixing setup.py bug
    
    * replacing package name
    
    * adding missing commas
    
    * correcting "doc" extra requirement for RTD
    
    * updating author, copyright, and version in conf.py and setup.py
    
    * pacakge->module
    
    * Renaming examples to tutorials
    
    * changing examples->tutorials
    kbonney authored Oct 5, 2023
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Commits on Oct 16, 2023

  1. [JOSS review] Update tested versions in documentation (sandialabs#58)

    * Update tested versions in documentation
    
    * adding 3.11 to supported versions in docs
    
    ---------
    
    Co-authored-by: Kirk Bonney <[email protected]>
    AdamRJensen and kbonney authored Oct 16, 2023
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Commits on Oct 17, 2023

  1. Docs updates (sandialabs#81)

    * Adding statement of need and accompanying bib items
    
    * moving statement of need to landing page
    
    * renaming documentation file examples->tutorials
    
    * updating readme to reflect examples->tutorials
    
    * fixing image embedd
    
    * remove reference to  statement of need page
    
    * Adding patch notes
    kbonney authored Oct 17, 2023
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  2. Update .readthedocs.yml

    kbonney authored Oct 17, 2023
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Commits on Oct 18, 2023

  1. troubleshooting rtd

    kbonney authored Oct 18, 2023
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  2. rtd

    kbonney authored Oct 18, 2023
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Commits on Oct 19, 2023

  1. Docs updates (sandialabs#82)

    * Adding statement of need and accompanying bib items
    
    * moving statement of need to landing page
    
    * renaming documentation file examples->tutorials
    
    * updating readme to reflect examples->tutorials
    
    * fixing image embedd
    
    * remove reference to  statement of need page
    
    * Adding patch notes
    
    * removing WIP docs pages
    
    * Remvoing reference to undefined reference "reqs"
    
    * Fix image embed warnings
    
    * adding noxfile for taskrunning
    
    * Expanding temrinology page
    
    * Adding structure to user guide toctree
    
    * restructuring index
    
    * Adding gallery to tutorials page
    
    * updating doc pins
    
    * fixing linting issues with noxfile
    kbonney authored Oct 19, 2023
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  2. Update builddocs.yml

    kbonney authored Oct 19, 2023
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Commits on Oct 24, 2023

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  2. attempting latex table

    kbonney committed Oct 24, 2023
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  3. adding dependencies

    kbonney committed Oct 24, 2023
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  5. adding missing italics

    kbonney committed Oct 24, 2023
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Commits on Nov 6, 2023

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