nci-cidc-api-modules 1.2.56__tar.gz → 1.2.57__tar.gz

{nci_cidc_api_modules-1.2.56/nci_cidc_api_modules.egg-info → nci_cidc_api_modules-1.2.57}/PKG-INFO

@@ -1,49 +1,48 @@
 Metadata-Version: 2.4
 Name: nci_cidc_api_modules
-Version: 1.2.56
+Version: 1.2.57
 Summary: SQLAlchemy data models and configuration tools used in the NCI CIDC API
 Home-page: https://github.com/NCI-CIDC/cidc-api-gae
 License: MIT license
 Requires-Python: >=3.13
 Description-Content-Type: text/markdown
 License-File: LICENSE
-Requires-Dist: cachetools>=6.2.4
-Requires-Dist: certifi>=2026.1.4
-Requires-Dist: cloud-sql-python-connector[pg8000]>=1.20.0
-Requires-Dist: flask>=3.1.2
-Requires-Dist: flask-migrate>=4.1.0
-Requires-Dist: flask-sqlalchemy>=3.1.1
-Requires-Dist: flask-talisman>=0.7.0
+Requires-Dist: cachetools~=7.0.0
+Requires-Dist: certifi~=2026.1.4
+Requires-Dist: cloud-sql-python-connector[pg8000]~=1.20.0
+Requires-Dist: flask~=3.1.2
+Requires-Dist: flask-migrate~=4.1.0
+Requires-Dist: flask-sqlalchemy~=3.1.1
+Requires-Dist: flask-talisman~=0.7.0
 Requires-Dist: gcloud-aio-storage~=9.6.1
-Requires-Dist: google-api-python-client>=2.188.0
-Requires-Dist: google-auth==2.47.0
-Requires-Dist: google-cloud-bigquery>=3.40.0
-Requires-Dist: google-cloud-pubsub>=2.34.0
-Requires-Dist: google-cloud-secret-manager>=2.26.0
-Requires-Dist: google-cloud-storage>=3.8.0
-Requires-Dist: jinja2>=3.1.6
-Requires-Dist: joserfc>=1.6.1
-Requires-Dist: marshmallow>=4.2.0
-Requires-Dist: marshmallow-sqlalchemy>=1.4.2
-Requires-Dist: numpy>=2.4.1
-Requires-Dist: packaging>=25.0
-Requires-Dist: pandas>=2.3.3
-Requires-Dist: pyarrow>=22.0.0
+Requires-Dist: google-api-python-client~=2.188.0
+Requires-Dist: google-auth==2.48.0
+Requires-Dist: google-cloud-bigquery~=3.40.0
+Requires-Dist: google-cloud-pubsub~=2.34.0
+Requires-Dist: google-cloud-secret-manager~=2.26.0
+Requires-Dist: google-cloud-storage~=3.9.0
+Requires-Dist: jinja2~=3.1.6
+Requires-Dist: joserfc~=1.6.1
+Requires-Dist: marshmallow~=4.2.1
+Requires-Dist: marshmallow-sqlalchemy~=1.4.2
+Requires-Dist: numpy~=2.4.2
+Requires-Dist: pandas~=3.0.0
+Requires-Dist: pyarrow~=23.0.0
 Requires-Dist: pydantic~=2.12.5
-Requires-Dist: python-dotenv>=1.2.1
-Requires-Dist: requests>=2.32.5
-Requires-Dist: sqlalchemy>=2.0.45
+Requires-Dist: python-dotenv~=1.2.1
+Requires-Dist: requests~=2.32.5
+Requires-Dist: sqlalchemy~=2.0.45
 Requires-Dist: sqlalchemy-mixins~=2.0.5
-Requires-Dist: werkzeug>=3.1.5
-Requires-Dist: opentelemetry-api>=1.39.1
-Requires-Dist: opentelemetry-exporter-otlp-proto-grpc>=1.39.1
-Requires-Dist: opentelemetry-sdk>=1.39.1
-Requires-Dist: opentelemetry-instrumentation-flask>=0.59b0
-Requires-Dist: opentelemetry-instrumentation-requests>=0.59b0
-Requires-Dist: opentelemetry-instrumentation-sqlalchemy>=0.59b0
-Requires-Dist: opentelemetry-exporter-gcp-trace>=1.11.0
-Requires-Dist: opentelemetry-propagator-gcp>=1.11.0
-Requires-Dist: nci-cidc-schemas==0.28.12
+Requires-Dist: werkzeug~=3.1.5
+Requires-Dist: opentelemetry-api~=1.39.1
+Requires-Dist: opentelemetry-exporter-otlp-proto-grpc~=1.39.1
+Requires-Dist: opentelemetry-sdk~=1.39.1
+Requires-Dist: opentelemetry-instrumentation-flask~=0.59b0
+Requires-Dist: opentelemetry-instrumentation-requests~=0.59b0
+Requires-Dist: opentelemetry-instrumentation-sqlalchemy~=0.59b0
+Requires-Dist: opentelemetry-exporter-gcp-trace~=1.11.0
+Requires-Dist: opentelemetry-propagator-gcp~=1.11.0
+Requires-Dist: nci-cidc-schemas==0.28.13
 Dynamic: description
 Dynamic: description-content-type
 Dynamic: home-page

nci_cidc_api_modules-1.2.57/cidc_api/__init__.py

@@ -0,0 +1 @@
+__version__ = "1.2.57"

nci_cidc_api_modules-1.2.57/cidc_api/code_systems/app.py

@@ -0,0 +1,126 @@
+from pathlib import Path
+from typing import Iterable
+from time import perf_counter
+
+from textual import on
+from textual.app import App, ComposeResult
+from textual.containers import Container
+from textual.widgets import Button, DirectoryTree, Footer, Header, Log, Select
+
+from cidc_api.code_systems.importer import delete_data, import_data, load_app
+
+
+class FilteredDirectoryTree(DirectoryTree):
+    def filter_paths(self, paths: Iterable[Path]) -> Iterable[Path]:
+        return [path for path in paths if path.name.endswith(".csv")]
+
+    def on_directory_tree_file_selected(self, event: DirectoryTree.FileSelected) -> None:
+        """Called when a file is selected in the directory tree."""
+        # log = self.app.query_one(Log)
+        # log.write_line(f"Selected file: {event.path.parent.name}/{event.path.name}")
+
+
+class CodeSystems(App):
+    """A Textual app to manage code systems."""
+
+    CSS = """
+    Select { width: 40%; margin: 1;}
+    FilteredDirectoryTree { margin-left: 2; }
+    Button, Log { margin: 1 2; }
+    Container { height: 10; }
+    #results { margin: 1; text-style: bold; }
+    """
+
+    BINDINGS = [("d", "toggle_dark", "Toggle dark mode"), ("q", "quit", "Quit the app")]
+    SELECT_OPTIONS = [(code, code) for code in ["Ctcae60", "Icdo3"]]
+
+    def compose(self) -> ComposeResult:
+        """Create child widgets for the app."""
+        yield Header()
+        yield Select(self.SELECT_OPTIONS, prompt="Select code system")
+        with Container(id="tree-container"):
+            yield FilteredDirectoryTree(Path(__file__).resolve().parent / "data")
+        yield Button("Import data", variant="primary", disabled=True)
+        yield Log()
+        yield Footer()
+
+    @on(Select.Changed)
+    async def check_select(self, event: Select.Changed):
+
+        old_tree = self.query_one(FilteredDirectoryTree)
+        await old_tree.remove()
+
+        folder_name = event.value
+        new_path = Path(__file__).resolve().parent / "data" / folder_name
+        new_tree = FilteredDirectoryTree(str(new_path))
+        await self.query_one("#tree-container").mount(new_tree)
+        new_tree.focus()  # optional: set focus to the new tree
+
+        self.maybe_enable_button()
+
+    @on(DirectoryTree.FileSelected)
+    def check_tree(self, _event: DirectoryTree.FileSelected):
+        self.maybe_enable_button()
+
+    def maybe_enable_button(self):
+        button_widget = self.query_one(Button)
+        code_system_widget = self.query_one(Select)
+        file_path_widget = self.query_one(FilteredDirectoryTree)
+        button_widget.disabled = not (
+            code_system_widget.value != Select.BLANK and file_path_widget.cursor_node.data.path.is_file()
+        )
+
+    # def on_ready(self) -> None:
+    #     log = self.query_one(Log)
+    #     log.write_line("Hello!")
+
+    def action_toggle_dark(self) -> None:
+        """An action to toggle dark mode."""
+        self.theme = "textual-dark" if self.theme == "textual-light" else "textual-light"
+
+    async def on_button_pressed(self, event: Button.Pressed) -> None:
+        """Event handler called when the button is pressed."""
+        code_system_widget = self.query_one(Select)
+        file_path_widget = self.query_one(FilteredDirectoryTree)
+        log_widget = self.query_one(Log)
+
+        log_widget.clear()
+        code_system = code_system_widget.value
+        file_path = file_path_widget.cursor_node.data.path
+
+        button = event.button
+        button.disabled = True
+        old_label = button.label
+        button.label = "Running task, please wait..."
+        await self.run_task(log_widget, code_system, file_path)
+        button.disabled = False
+        button.label = old_label
+
+    async def run_task(self, log_widget: Log, code_system: str, file_path: Path) -> None:
+        log_widget.write_line("Loading app ...")
+        start = perf_counter()
+
+        flask_app, db, model = await load_app(code_system)
+        table_name = model.__tablename__
+        schema = model.__table__.schema
+        log_widget.write_line(f"{perf_counter() - start:.3f} seconds to load app.\n\n")
+
+        with flask_app.app_context():
+            engine = db.engine
+
+            log_widget.write_line("Deleting data ...")
+            start = perf_counter()
+            msg = await delete_data(engine, f"{schema}.{table_name}")
+            log_widget.write_line(msg)
+            log_widget.write_line(f"{perf_counter() - start:.3f} seconds to delete data.\n\n")
+
+            log_widget.write_line("Importing data ...")
+            start = perf_counter()
+            msg = await import_data(engine, file_path, f"{schema}.{table_name}")
+            log_widget.write_line(msg)
+            log_widget.write_line(f"{perf_counter() - start:.3f} seconds to import data.")
+
+
+if __name__ == "__main__":
+    app = CodeSystems()
+    app.run()

nci_cidc_api_modules-1.2.57/cidc_api/code_systems/ctcae.py

@@ -0,0 +1,34 @@
+# Stubbed to accept any string
+def is_ctcae_event_term(v):
+    if not isinstance(v, str):
+        raise TypeError("Value must be a string")
+    return v
+
+
+# Stubbed to accept any string
+def is_ctcae_event_code(v):
+    if not isinstance(v, str):
+        raise TypeError("Value must be a string")
+    return v
+
+
+# Stubbed to accept any string
+def is_ctcae_severity_grade(v):
+    if not isinstance(v, str):
+        raise TypeError("Value must be a string")
+    return v
+
+
+# Stubbed to accept any string
+def is_ctcae_system_organ_class(v):
+    if not isinstance(v, str):
+        raise TypeError("Value must be a string")
+    return v
+
+
+# Determines if the CTCAE term is one of the "Other, specify" types of terms for which we include
+# additional data about the AE.
+def is_ctcae_other_term(v):
+    if isinstance(v, str):
+        return "Other, specify" in v
+    return False

nci_cidc_api_modules-1.2.57/cidc_api/code_systems/gvhd.py

@@ -0,0 +1,6 @@
+# Stubbed to accept any string
+# Should support MAGIC and Modified Glucksberg
+def is_gvhd_organ(v):
+    if not isinstance(v, str):
+        raise TypeError("Value must be a string")
+    return v

nci_cidc_api_modules-1.2.57/cidc_api/code_systems/icd10cm.py

@@ -0,0 +1,12 @@
+# Stubbed to accept any string
+def is_ICD10CM_code(v):
+    if not isinstance(v, str):
+        raise TypeError("Value must be a string")
+    return v
+
+
+# Stubbed to accept any string
+def is_ICD10CM_term(v):
+    if not isinstance(v, str):
+        raise TypeError("Value must be a string")
+    return v

nci_cidc_api_modules-1.2.57/cidc_api/code_systems/icdo3.py

@@ -0,0 +1,12 @@
+# Stubbed to accept any string
+def is_ICDO3_code(v):
+    if not isinstance(v, str):
+        raise TypeError("Value must be a string")
+    return v
+
+
+# Stubbed to accept any string
+def is_ICDO3_term(v):
+    if not isinstance(v, str):
+        raise TypeError("Value must be a string")
+    return v

nci_cidc_api_modules-1.2.57/cidc_api/code_systems/importer.py

@@ -0,0 +1,108 @@
+# pylint: disable=import-outside-toplevel,broad-except,invalid-name,redefined-outer-name
+
+from os import environ
+from pathlib import Path
+import asyncio
+import importlib
+
+
+async def load_app(model):
+    print("Loading app ...")
+
+    # async load to allow reporting progress in UI
+    flask_app_mod = await asyncio.to_thread(importlib.import_module, "cidc_api.app")
+    db_mod = await asyncio.to_thread(importlib.import_module, "cidc_api.config.db")
+    code_systems = await asyncio.to_thread(importlib.import_module, "cidc_api.models.code_systems")
+
+    return flask_app_mod.app, db_mod.db, getattr(code_systems, model)
+
+
+async def import_data(engine, file_path, table_name):
+    print("Importing data ...")
+
+    conn = engine.raw_connection()
+    cursor = conn.cursor()
+
+    try:
+        with open(file_path, "r", encoding="utf-8") as file:
+            # define the COPY command, specifying STDIN for the file-like object
+            sql = f"COPY {table_name} FROM STDIN WITH CSV HEADER"
+
+            # execute the copy operation
+            cursor.copy_expert(sql, file)
+
+        msg = f"Number of rows copied: {cursor.rowcount}"
+        conn.commit()
+
+    except Exception as exc:
+        conn.rollback()
+        msg = f"Error during COPY command: {exc}"
+
+    finally:
+        cursor.close()
+        conn.close()
+
+    return msg
+
+
+async def delete_data(engine, table_name):
+    print("Deleting data ...")
+
+    conn = engine.raw_connection()
+    cursor = conn.cursor()
+
+    try:
+        cursor.execute(f"TRUNCATE TABLE {table_name} RESTART IDENTITY")
+        msg = "Table truncated successfully."
+        conn.commit()
+
+    except Exception as exc:
+        conn.rollback()
+        msg = f"Error during TRUNCATE command: {exc}"
+
+    finally:
+        cursor.close()
+        conn.close()
+
+    return msg
+
+
+async def call_local(table_name, file_path):
+    from dotenv import load_dotenv
+    from sqlalchemy import create_engine
+
+    load_dotenv()
+
+    engine = create_engine(environ.get("POSTGRES_URI"))
+    msg = await import_data(engine, file_path, table_name)
+
+    return msg
+
+
+if __name__ == "__main__":
+    model = "Ctcae60"
+    file_path = Path(__file__).resolve().parent / "data/ctcae_6.0.csv"
+
+    # model = "Icdo3"
+    # file_path = Path(__file__).resolve().parent / "data/icdo3.csv"
+
+    # direct connection with conn string from env
+    # from dotenv import load_dotenv
+    # from sqlalchemy import create_engine
+    # load_dotenv()
+    # engine = create_engine(environ.get("POSTGRES_URI"))
+    # msg = asyncio.run(import_data(engine, file_path, table_name))
+
+    app, db, model = asyncio.run(load_app(model))
+    table_name = model.__tablename__
+    schema = model.__table__.schema
+    table_name = f"{schema}.{table_name}"
+
+    with app.app_context():
+        engine = db.engine
+
+        msg = asyncio.run(delete_data(engine, table_name))
+        print(msg)
+
+        msg = asyncio.run(import_data(engine, file_path, table_name))
+        print(msg)

nci_cidc_api_modules-1.2.57/cidc_api/code_systems/uberon.py

@@ -0,0 +1,5 @@
+# Stubbed to accept any string
+def is_uberon_term(v):
+    if not isinstance(v, str):
+        raise TypeError("Value must be a string")
+    return v

{nci_cidc_api_modules-1.2.56 → nci_cidc_api_modules-1.2.57}/cidc_api/models/dataset.py

@@ -11,7 +11,6 @@ from cidc_api.models.db.stage2 import all_models as stage2_all_db_models
 from cidc_api.models.db.stage1 import TrialORM as s1TrialORM
 from cidc_api.models.db.stage2 import TrialORM as s2TrialORM
 
-
 standard_data_categories = [
     model.__data_category__ for model in stage1_all_models if hasattr(model, "__data_category__")
 ]

{nci_cidc_api_modules-1.2.56 → nci_cidc_api_modules-1.2.57}/cidc_api/models/db/stage1/__init__.py

@@ -24,7 +24,6 @@ from .therapy_agent_dose_orm import TherapyAgentDoseORM
 from .treatment_orm import TreatmentORM
 from .trial_orm import TrialORM
 
-
 __all__ = [
     "AdditionalTreatmentORM",
     "AdverseEventORM",

{nci_cidc_api_modules-1.2.56 → nci_cidc_api_modules-1.2.57}/cidc_api/models/db/stage2/__init__.py

@@ -35,7 +35,6 @@ from .therapy_agent_dose_orm import TherapyAgentDoseORM
 from .treatment_orm import TreatmentORM
 from .trial_orm import TrialORM
 
-
 __all__ = [
     "AdditionalTreatmentORM",
     "AdministrativePersonORM",

{nci_cidc_api_modules-1.2.56 → nci_cidc_api_modules-1.2.57}/cidc_api/models/files/details.py

@@ -1,7 +1,6 @@
 from typing import NamedTuple
 from typing_extensions import Literal
 
-
 FilePurpose = Literal["source", "analysis", "clinical", "miscellaneous"]
 
 

{nci_cidc_api_modules-1.2.56 → nci_cidc_api_modules-1.2.57}/cidc_api/models/pydantic/stage1/__init__.py

@@ -24,7 +24,6 @@ from .therapy_agent_dose import TherapyAgentDose
 from .treatment import Treatment
 from .trial import Trial
 
-
 __all__ = [
     "AdditionalTreatment",
     "AdverseEvent",

{nci_cidc_api_modules-1.2.56 → nci_cidc_api_modules-1.2.57}/cidc_api/models/pydantic/stage1/response_by_system.py

@@ -8,7 +8,6 @@ from cidc_api.models.pydantic.base import Base
 from cidc_api.models.pydantic.stage1.response import Response
 from cidc_api.models.types import ResponseSystem, ResponseSystemVersion, BestOverallResponse, YNUNA, YN
 
-
 negative_response_values = [
     "Progressive Disease",
     "Stable Disease",

{nci_cidc_api_modules-1.2.56 → nci_cidc_api_modules-1.2.57}/cidc_api/models/pydantic/stage2/__init__.py

@@ -35,7 +35,6 @@ from .therapy_agent_dose import TherapyAgentDose
 from .treatment import Treatment
 from .trial import Trial
 
-
 __all__ = [
     "AdditionalTreatment",
     "AdministrativePerson",

{nci_cidc_api_modules-1.2.56 → nci_cidc_api_modules-1.2.57}/cidc_api/models/pydantic/stage2/response_by_system.py

@@ -8,7 +8,6 @@ from cidc_api.models.pydantic.base import Base
 from cidc_api.models.pydantic.stage1.response import Response
 from cidc_api.models.types import ResponseSystem, ResponseSystemVersion, BestOverallResponse, YNUNA, YN
 
-
 negative_response_values = [
     "Progressive Disease",
     "Stable Disease",

{nci_cidc_api_modules-1.2.56 → nci_cidc_api_modules-1.2.57}/cidc_api/shared/gcloud_client.py

@@ -70,7 +70,6 @@ from ..config.settings import (
 )
 from ..shared.utils import strip_whitespaces
 
-
 os.environ["TZ"] = "UTC"
 logger = get_logger(__name__)
 

{nci_cidc_api_modules-1.2.56 → nci_cidc_api_modules-1.2.57}/cidc_api/shared/jose.py

@@ -8,7 +8,6 @@ from cachetools import cached, TTLCache
 # loacal modules
 from ..config.settings import AUTH0_DOMAIN, AUTH0_CLIENT_ID
 
-
 ALGORITHMS = ["RS256"]
 TIMEOUT_IN_SECONDS = 20
 PUBLIC_KEYS_CACHE = TTLCache(maxsize=3600, ttl=1024)  # 1 hour, 1 MB

{nci_cidc_api_modules-1.2.56 → nci_cidc_api_modules-1.2.57/nci_cidc_api_modules.egg-info}/PKG-INFO

@@ -1,49 +1,48 @@
 Metadata-Version: 2.4
 Name: nci_cidc_api_modules
-Version: 1.2.56
+Version: 1.2.57
 Summary: SQLAlchemy data models and configuration tools used in the NCI CIDC API
 Home-page: https://github.com/NCI-CIDC/cidc-api-gae
 License: MIT license
 Requires-Python: >=3.13
 Description-Content-Type: text/markdown
 License-File: LICENSE
-Requires-Dist: cachetools>=6.2.4
-Requires-Dist: certifi>=2026.1.4
-Requires-Dist: cloud-sql-python-connector[pg8000]>=1.20.0
-Requires-Dist: flask>=3.1.2
-Requires-Dist: flask-migrate>=4.1.0
-Requires-Dist: flask-sqlalchemy>=3.1.1
-Requires-Dist: flask-talisman>=0.7.0
+Requires-Dist: cachetools~=7.0.0
+Requires-Dist: certifi~=2026.1.4
+Requires-Dist: cloud-sql-python-connector[pg8000]~=1.20.0
+Requires-Dist: flask~=3.1.2
+Requires-Dist: flask-migrate~=4.1.0
+Requires-Dist: flask-sqlalchemy~=3.1.1
+Requires-Dist: flask-talisman~=0.7.0
 Requires-Dist: gcloud-aio-storage~=9.6.1
-Requires-Dist: google-api-python-client>=2.188.0
-Requires-Dist: google-auth==2.47.0
-Requires-Dist: google-cloud-bigquery>=3.40.0
-Requires-Dist: google-cloud-pubsub>=2.34.0
-Requires-Dist: google-cloud-secret-manager>=2.26.0
-Requires-Dist: google-cloud-storage>=3.8.0
-Requires-Dist: jinja2>=3.1.6
-Requires-Dist: joserfc>=1.6.1
-Requires-Dist: marshmallow>=4.2.0
-Requires-Dist: marshmallow-sqlalchemy>=1.4.2
-Requires-Dist: numpy>=2.4.1
-Requires-Dist: packaging>=25.0
-Requires-Dist: pandas>=2.3.3
-Requires-Dist: pyarrow>=22.0.0
+Requires-Dist: google-api-python-client~=2.188.0
+Requires-Dist: google-auth==2.48.0
+Requires-Dist: google-cloud-bigquery~=3.40.0
+Requires-Dist: google-cloud-pubsub~=2.34.0
+Requires-Dist: google-cloud-secret-manager~=2.26.0
+Requires-Dist: google-cloud-storage~=3.9.0
+Requires-Dist: jinja2~=3.1.6
+Requires-Dist: joserfc~=1.6.1
+Requires-Dist: marshmallow~=4.2.1
+Requires-Dist: marshmallow-sqlalchemy~=1.4.2
+Requires-Dist: numpy~=2.4.2
+Requires-Dist: pandas~=3.0.0
+Requires-Dist: pyarrow~=23.0.0
 Requires-Dist: pydantic~=2.12.5
-Requires-Dist: python-dotenv>=1.2.1
-Requires-Dist: requests>=2.32.5
-Requires-Dist: sqlalchemy>=2.0.45
+Requires-Dist: python-dotenv~=1.2.1
+Requires-Dist: requests~=2.32.5
+Requires-Dist: sqlalchemy~=2.0.45
 Requires-Dist: sqlalchemy-mixins~=2.0.5
-Requires-Dist: werkzeug>=3.1.5
-Requires-Dist: opentelemetry-api>=1.39.1
-Requires-Dist: opentelemetry-exporter-otlp-proto-grpc>=1.39.1
-Requires-Dist: opentelemetry-sdk>=1.39.1
-Requires-Dist: opentelemetry-instrumentation-flask>=0.59b0
-Requires-Dist: opentelemetry-instrumentation-requests>=0.59b0
-Requires-Dist: opentelemetry-instrumentation-sqlalchemy>=0.59b0
-Requires-Dist: opentelemetry-exporter-gcp-trace>=1.11.0
-Requires-Dist: opentelemetry-propagator-gcp>=1.11.0
-Requires-Dist: nci-cidc-schemas==0.28.12
+Requires-Dist: werkzeug~=3.1.5
+Requires-Dist: opentelemetry-api~=1.39.1
+Requires-Dist: opentelemetry-exporter-otlp-proto-grpc~=1.39.1
+Requires-Dist: opentelemetry-sdk~=1.39.1
+Requires-Dist: opentelemetry-instrumentation-flask~=0.59b0
+Requires-Dist: opentelemetry-instrumentation-requests~=0.59b0
+Requires-Dist: opentelemetry-instrumentation-sqlalchemy~=0.59b0
+Requires-Dist: opentelemetry-exporter-gcp-trace~=1.11.0
+Requires-Dist: opentelemetry-propagator-gcp~=1.11.0
+Requires-Dist: nci-cidc-schemas==0.28.13
 Dynamic: description
 Dynamic: description-content-type
 Dynamic: home-page

{nci_cidc_api_modules-1.2.56 → nci_cidc_api_modules-1.2.57}/nci_cidc_api_modules.egg-info/SOURCES.txt

@@ -7,6 +7,14 @@ requirements.modules.txt
 setup.py
 cidc_api/__init__.py
 cidc_api/telemetry.py
+cidc_api/code_systems/__init__.py
+cidc_api/code_systems/app.py
+cidc_api/code_systems/ctcae.py
+cidc_api/code_systems/gvhd.py
+cidc_api/code_systems/icd10cm.py
+cidc_api/code_systems/icdo3.py
+cidc_api/code_systems/importer.py
+cidc_api/code_systems/uberon.py
 cidc_api/config/__init__.py
 cidc_api/config/db.py
 cidc_api/config/logging.py

nci_cidc_api_modules-1.2.57/nci_cidc_api_modules.egg-info/requires.txt

@@ -0,0 +1,36 @@
+cachetools~=7.0.0
+certifi~=2026.1.4
+cloud-sql-python-connector[pg8000]~=1.20.0
+flask~=3.1.2
+flask-migrate~=4.1.0
+flask-sqlalchemy~=3.1.1
+flask-talisman~=0.7.0
+gcloud-aio-storage~=9.6.1
+google-api-python-client~=2.188.0
+google-auth==2.48.0
+google-cloud-bigquery~=3.40.0
+google-cloud-pubsub~=2.34.0
+google-cloud-secret-manager~=2.26.0
+google-cloud-storage~=3.9.0
+jinja2~=3.1.6
+joserfc~=1.6.1
+marshmallow~=4.2.1
+marshmallow-sqlalchemy~=1.4.2
+numpy~=2.4.2
+pandas~=3.0.0
+pyarrow~=23.0.0
+pydantic~=2.12.5
+python-dotenv~=1.2.1
+requests~=2.32.5
+sqlalchemy~=2.0.45
+sqlalchemy-mixins~=2.0.5
+werkzeug~=3.1.5
+opentelemetry-api~=1.39.1
+opentelemetry-exporter-otlp-proto-grpc~=1.39.1
+opentelemetry-sdk~=1.39.1
+opentelemetry-instrumentation-flask~=0.59b0
+opentelemetry-instrumentation-requests~=0.59b0
+opentelemetry-instrumentation-sqlalchemy~=0.59b0
+opentelemetry-exporter-gcp-trace~=1.11.0
+opentelemetry-propagator-gcp~=1.11.0
+nci-cidc-schemas==0.28.13