pyproject requirements, prep for logging fixes
* remove chroma
* update project name to "doczy-field-extraction" in pyproject.toml
* update lock file
* replace print statements with logging for better traceability in process_file function
* replace print statements with logging for improved error tracking and information logging
* replace print statements with logging for improved error handling and traceability
* replace print statements with logging for improved error handling in llm_utils and string_utils
* remove unused table_utils module; supplanted by table_funcs and unreferenced
* replace capsys with caplog in test_invalid_input_type for improved logging of invalid input
Approved-by: Katon Minhas
DRAFT: Bugfix/effective date fix
* Merged in bugfix/extra-fields (pull request #500)
Do not run Exhibit level prompt if there are no exhibit level fields
* Do not run Exhibit level prompt if there are no exhibit level fields
* Update dynamic test
* Remove test from one-to-n test module
* Update test
* Fix unit test
Approved-by: Alex Galarce
* Merged in bugfix/tin-npi-prompt-fixes (pull request #499)
Bugfix/tin npi prompt fixes
* Change delimiter for other provider information from comma to pipe
* filter out invalid providers
* Update extraction and formatting instructions for provider entities in TIN_NPI_TEMPLATE
* Merged main into bugfix/tin-npi-small-bugfixes
* Refactor deduplication logic to use string_utils for checking empty provider fields
* Merge branch 'bugfix/tin-npi-small-bugfixes' of https://bitbucket.org/aarete/doczy.ai into bugfix/tin-npi-small-bugfixes
* Update deduplication logic to exclude providers with 'UNKNOWN' TIN, NPI, or NAME
* Merge remote-tracking branch 'origin/main' into bugfix/tin-npi-small-bugfixes
* Fix deduplication logic to not drop subsequent names
* Fix formatting of provider names in deduplication logic
* add payer name filtering
* reorder execution order to allow to find payer_name first
* Add handling for previously unfound group providers in identify_group_provider function
* Merge remote-trackin…
* Merged in feature/update-testbed-script (pull request #501)
Feature/update testbed script
* Update preprocessing
* Update preprocessing
* remove quit
* Update date for filename
* Merged main into feature/update-testbed-script
Approved-by: Alex Galarce
* Merged in bugfix/smart-chunks (pull request #503)
missing of text in chunks fixed
* missing of text in chunks fixed
Approved-by: Katon Minhas
* Merged in feature/rework-reimb-tin-npi (pull request #502)
Feature/rework reimb tin npi
* use LLM for reimb_[tin/npi/name]
* Merge remote-tracking branch 'origin/main' into feature/rework-reimb-tin-npi
* Merge remote-tracking branch 'origin/main' into feature/rework-reimb-tin-npi
* deduplicate tin/name/npi before adding to prompt
* Pull out prompt and llm_response in methodology_breakout_single_row for easier debugging
* Refactor reimbursement_tin_npi to handle multiple providers and update valid TIN, NPI, and NAME fields accordingly
* Reorder REIMB_PROV_NAME field in investment_prompts.json
* Update REIMB_PROV_NAME prompt to specify valid values for provider names
* Remove valid_values constraint from prov_name to raise accuracy
* Remove debugging print statements from reimbursement_tin_npi and related functions
* Remove debugging print statements from run_provider_info_fields function
* Merge remote-tracking branch 'origin/main' into feature/rework-reimb-tin-npi
* Remove debugging print statem…
* Merged in feature/preformat-single-quotes-input (pull request #506)
Replace double quotes with single quotes in context strings for parsability
* Replace double quotes with single quotes in context strings for parsability
* Merged main into feature/preformat-single-quotes-input
Approved-by: Katon Minhas
* updated sig pages fnxn
* Merge branch 'main' into bugfix/effective_date_fix
* poetry add pymupdf
* created vision funcs
* Merged main into bugfix/effective_date_fix
* fixed pipeline issue
* updated string_utils_test
* updated test values
* updated extract signature page fxn
* updated test values
* updated test values
* Merged main into bugfix/effective_date_fix
* Prompt template in all-caps
* remove debugging prints
* Merged main into bugfix/effective_date_fix
* Change vision to False by default
* Change vision to False by default
* fix tests
* fix tests
Approved-by: Katon Minhas
feature/dynamic and generalized branch
* included txt files for nltk_data
* move nltk_data to src
* Fix last upload count
* Last upload count bugfix
* Fixed B processing
* Remove client-specific postprocessing
* split consolidate_output
* Run by file
* Fix output
* Reconfigure smart_chunk fields
* Add Full Context
* Fix merge conflicts
* Regex, Smart-Chunked, and Full working - not adding smart-chunked-->full when necessary
* Modernized run_full_context_fields()
* Switched set to list in field_context
* Move fields from smart_chunked to full_context as part of 'field_context' function
* Working version with placeholders
* Update poetry and pyproject
* Update s3 output
* Remove deprecated unit test
* Updated error messages
* Updated smart chunk ac name to one to one
* Update dependencies - end-to-end test for write s3 functional
* Add basic multithreading
* Send individual output to s3/local
Approved-by: Alex Galarce
Feature/integrate standard and complex
* last edits to merge_tables_draft_v2 before moving to table_funcs
* migrate to table_utils.py
* fix typehint that caused mypy error
* fix mypy errors
* black and isort
* fix error with multi-table pages
* update poetry.lock
* add tests, fix bug when table start marker or table end marker is missing
* added more tests
* tests for get_str_dictionaries_from_text()
* fix edge case in get_str_dictionaries_from_text
* fix mypy error
* more tests
* add tests, add handling for invalid dictionaries
* add tests
* add tests for insert_column_headers()
* update requirements
* add new simple/complex logic to preprocess.py
* remove files used solely for testing
* split pages into sub-pages by tables
* add table split on end marker. Also add tests
* add docstrings, change control flow
* remove unused tests, add TODO for new tests
* get in prompt changes and intermediate decisions
* TODO for future enhancement for get_exhibit_pages
Approved-by: Katon Minhas
Task/unit tests investment and client
* move io_utils.py
* add __init__.py
* refactor: move string_funcs and update import paths to use utils namespace
* rename string_funcs to string_utils
* move and rename table_utils.py
* refactor: rename claude_funcs to llm_utils in multiple files
* update unit tests
* added unit tests for src/string_utils.py
* added unit tests for src/table_utils.py
* added unit tests for src/llm_utils.py
* added unit tests for src/io_utils.py
* Merge branch 'main' into task/unit-tests-investment-and-client; TODO: fix unit tests
* Unit tests to fix
* fix unit tests
* fix invalid references
* add unit tests for preprocessing_funcs.py
* move pytest-mock to test dependencies
* Merge remote-tracking branch 'origin/main' into task/unit-tests-investment-and-client
* add tests/string_utils_test.py
* removed filename parameters for a few functions
* save postprocessing_funcs_test midway
* save postprocessing_funcs_test
* postprocessing_funcs unit tests complete
* Merge branch 'main' into task/unit-tests-investment-and-client
Approved-by: Katon Minhas
Task/unit tests investment and client
* move io_utils.py
* add __init__.py
* refactor: move string_funcs and update import paths to use utils namespace
* rename string_funcs to string_utils
* move and rename table_utils.py
* refactor: rename claude_funcs to llm_utils in multiple files
* update unit tests
* added unit tests for src/string_utils.py
* added unit tests for src/table_utils.py
* added unit tests for src/llm_utils.py
* added unit tests for src/io_utils.py
* Merge branch 'main' into task/unit-tests-investment-and-client; TODO: fix unit tests
* Unit tests to fix
* fix unit tests
* fix invalid references
Approved-by: Alex Galarce
Refactor/split investment and client
* refactor: clean up tests
* Renamed tests/qcqa to tests/qa_qc for consistency
* comment out faulty test - see docstring note at top
* split to client/investment
* add __init__.py to investment and client to avoid mypy confusion
* fix imports
* update imports for consistency across investment module
* move back to one config
* try changing import to relative
* add init.py to src
* try relative import
* try one more sys.path.append
* fix path for client main
* fix imports in file_processing
* make prompts common
* move keywords out to `src`
* move smart_chunking_funcs to `src`
* fix mypy error
* start moving to explicit imports
* remove old keywords and fix imports for keywords and prompts
* change all imports to full paths
* fix unit tests
* add readme for new way of running things
* isort after all that import work
* remove unused sys.path.append from some tests
Approved-by: Katon Minhas
Refactor/daip2-9 code refactor
* add missing import
* refactor ac_smart_chunking.py
* update tests
* removed old and unused imports
* removed outdated import
* forgot to import re
* refactor bottom up funcs
* remove unused imports from file_processing.py
* refactor dict_operations.py
* remove unused import from conditional_funcs.py
* replace top_down_funcs with one_to_n_funcs and remove top_down_funcs.py
* remove duplicate import from one_to_n_funcs.py
* refactor all utils.py imports
* refactor error handling by removing last code in utils and integrating InvalidDateException into postprocessing_funcs
* refactor import in claude_funcs.py to use string_funcs directly and (hopefully) resolve circular import
* refactor regex_funcs.py to use postprocessing_funcs for add_hyphen_if_needed calls
* refactor hotfix_helper_funcs.py to use postprocessing_funcs for add_hyphen_if_needed calls
* refactor postprocess.py to remove unused imports
* add numpy import to string_funcs
* fix tests after utils refactor
* move adhoc from tests to scripts
* remove unused imports
* remove scripts from mypy checking
* isort
* Merged main into refactor/daip-2-9-code-refactor
Approved-by: Katon Minhas
move openpyxl from dev dependencies to general dependencies bc we use it for qaqc now
* move openpyxl from dev dependencies to general dependencies bc we use it for qaqc now
Approved-by: Katon Minhas
Bugfix/termGroupHotfix
* Minor term group fix
* Added xlsb to gitignore, updated apply_cnc_hotfix for Filename prefix, added xlsb read functionality to utils
* Date bugfix
* Fixed effective date bug
* Effective date bug fixes
* Fix agreement name field name bug
* Further bug fixes
* update poetry for pyxlsb
* Write to excel after each file is completed
* Fix for restarts
Approved-by: Alex Galarce
Feature/hotfix stitch
* Add hotfix scripts
* Merged main into feature/hotfix_stitch
* Moved stitching scripts to scripts folder
* Update for 2
* Fixed flat fee issue
* Fix payer name issue
* All hotfix updates
* Merged main into feature/hotfix_stitch
* Add rapidfuzz
Approved-by: Alex Galarce
Feature/add runtime tracking
* added return true
* added fixes and other features
* added fixes and other features
* added fixes and other features
* added fixes and other features
* added fixes and other features
* added fixes and other features
* test
* test
* test
* test
* test
* test
* added
* added
* added potential fix
* added potential fix
* functions
* added potential fix
* fixes
* Merged main into feature/add-runtime-tracking
* moved streamlit dashabord to streamlit folder
* Merge branch 'feature/add-runtime-tracking' of https://bitbucket.org/aarete/doczy.ai into feature/add-runtime-tracking
* remove src/valid.py to keep src empty
* add psutil to requirements
Approved-by: Michael McGuinness
Add cost logging
* add inspect logging
* change comment
* add simple token estimation
* rudimentary costlog
* compute cost
* float formatting
* put costlog to s3
* float formatting attempt 2
* fix formatting, remove a couple prints
* add missing comma
* add filename
* make costlog a .csv instead of a .log
* use csv library instead of from-scratch csv writing
* switch to import math, add test
* pyproject.toml Added src to pythonpath
* Merged main into feature/costlog
* add jupyter to requirements, add test path to pyproject.toml
* Merge remote-tracking branch 'refs/remotes/origin/feature/costlog' into feature/costlog
* Merge remote-tracking branch 'origin/main' into feature/costlog
* merge in main
* add TODOs
* Merged main into feature/costlog
* Merged main into feature/costlog
Approved-by: Michael McGuinness
Approved-by: Katon Minhas
Feature/add dotenv
* transferred sensitive information to .env file from src/config.py
* replace model IDs, AWS account info
* Merge remote-tracking branch 'origin/main' into feature/add-dotenv
* add explanatory comment
* Merge remote-tracking branch 'origin/main' into feature/add-dotenv
* remove tests that were just for local
Approved-by: Katon Minhas
plan state hotfix
* updated state_check function
* added a wrapper function apply_state_check_to_df function to enable state_check function to work with dataframe and also wrote unit tests for both the functions.
* Merged main into hotfix/plan_state
* append extra column with new health plan state corrected
* Merge remote-tracking branch 'refs/remotes/origin/hotfix/plan_state' into hotfix/plan_state
* fix tests
* move apply_state_check_to_df() to cnc_hotfix.py
* move all functionality out of utils and into cnc_hotfix.py
* Merge remote-tracking branch 'origin/main' into hotfix/plan_state
* remove duplicated pythonpath in pyproject.toml
* format cnc_hotfix.py
* changed to use valid.STATE_MAP to not duplicate functionality
Approved-by: Katon Minhas
grouped keywords and IRS regex chunking
* abandon old branch and rebuild
* removed print for field names, prompts
* pushing as part of leftovers
* IRS regex chunking
* Merged in feature/chunk_term_clean (pull request #262)
chunk_log_added
* chunk_log_added
* Merge remote-tracking branch 'remotes/origin/feature_ac_chunking_clean' into feature/chunk_term_clean
Approved-by: Alex Galarce
* added function for regex based IRS chunking
* shifted regex_match_chunk function to utils
* added helper functions for regex based chunking
* replaced tin_regex function to ac_funcs
* removed prompt for irs_others
* added regex chunking for irs
* removed irs group from smart chunking
* testing functionality for regex based irs fields
* updated return N/A condition
* Merged main into feature_ac_chunking_clean
* file_processing.py edited online with Bitbucket
* added back conditional prompts
* minor fixed for PR
* remove install types
* mering clean branch
* with passed test casses
* added flag for regex based tin execution
Approved-by: Michael McGuinness
Katon Minhas