diff --git a/compose.yaml b/compose.yaml index 1cf9853..353ede8 100644 --- a/compose.yaml +++ b/compose.yaml @@ -80,10 +80,6 @@ services: ctakes-covid: extends: ctakes-covid-base profiles: - # chart-review is a deprecated alias for upload-notes since Jan 2024. - # Remove when you feel like it. - - chart-review - - chart-review-gpu - covid-symptom - covid-symptom-gpu - upload-notes @@ -93,9 +89,6 @@ services: extends: common-base image: smartonfhir/cnlp-transformers:negation-0.6.1-cpu profiles: - # chart-review is a deprecated alias for upload-notes since Jan 2024. - # Remove when you feel like it. - - chart-review - covid-symptom - upload-notes networks: @@ -105,9 +98,6 @@ services: extends: common-base image: smartonfhir/cnlp-transformers:negation-0.6.1-gpu profiles: - # chart-review-gpu is a deprecated alias for upload-notes-gpu since Jan 2024. - # Remove when you feel like it. - - chart-review-gpu - covid-symptom-gpu - upload-notes-gpu networks: diff --git a/cumulus_etl/__init__.py b/cumulus_etl/__init__.py index c45782d..edeb3f4 100644 --- a/cumulus_etl/__init__.py +++ b/cumulus_etl/__init__.py @@ -1,3 +1,3 @@ """Turns FHIR data into de-identified & aggregated records""" -__version__ = "1.5.0" +__version__ = "2.0.0" diff --git a/cumulus_etl/cli.py b/cumulus_etl/cli.py index 02c2395..acc93ae 100644 --- a/cumulus_etl/cli.py +++ b/cumulus_etl/cli.py @@ -16,10 +16,6 @@ class Command(enum.Enum): """Subcommand strings""" - # chart-review is a deprecated alias of upload-notes since Jan 2024. - # Keep as long as you like. - # It's a low-usage feature, but it's not a maintenance burden to keep this around. - CHART_REVIEW = "chart-review" CONVERT = "convert" ETL = "etl" EXPORT = "export" @@ -65,7 +61,7 @@ async def main(argv: list[str]) -> None: prog += f" {subcommand}" # to make --help look nicer parser = argparse.ArgumentParser(prog=prog) - if subcommand in {Command.CHART_REVIEW.value, Command.UPLOAD_NOTES.value}: + if subcommand == Command.UPLOAD_NOTES.value: run_method = upload_notes.run_upload_notes elif subcommand == Command.CONVERT.value: run_method = convert.run_convert