move check_date_modified.py to tools/ update references to this file.

Author: David Rickett

.gitlab-ci.yml

@@ -38,6 +38,7 @@ Check-For-Black:
     - if: $CI_PIPELINE_SOURCE == 'merge_request_event'
       changes:
         - src/**/*.py
+        - tools/*.py
 
 Check-HLA-Modified-Dates:
   stage: validate
@@ -48,7 +49,7 @@ Check-HLA-Modified-Dates:
     - pip install typer
   script:
     - cd $CI_PROJECT_DIR
-    - python src/easyhla/check_date_modified.py check-dates
+    - python tools/check_date_modified.py check-dates
   allow_failure: false
   rules:
     - if: $CI_JOB_MANUAL

pyproject.toml

@@ -47,7 +47,6 @@ path = "src/easyhla/__about__.py"
 
 [tool.hatch.build]
 include = [
-  "src/entrypoint.py",
   "src/easyhla/*.py",
   "src/easyhla/*.csv",
   "src/easyhla/hla_nuc.fasta.mtime",
@@ -121,9 +120,9 @@ parallel = true
 omit = [
   "src/easyhla/__init__.py",
   "src/easyhla/__about__.py",
-  "src/easyhla/check_date_modified.py",
   "tests/__init__.py",
   "src/easyhla/entrypoint.py",
+  "tools/*.py"
 ]
 
 [tool.coverage.report]

src/easyhla/check_date_modified.py tools/check_date_modified.pysrc/easyhla/check_date_modified.py renamed to tools/check_date_modified.py

@@ -23,7 +23,7 @@
 from math import ceil
 from typing import List, Tuple
 from datetime import datetime
-from .easyhla import DATE_FORMAT
+from src.easyhla.easyhla import DATE_FORMAT
 
 app = typer.Typer()
 
@@ -34,7 +34,7 @@ def _list_files() -> List[Tuple[str, int]]:
     date as an ISO timestamp.
     """
     file_mtime: List[Tuple[str, int]] = []
-    dir = os.path.dirname(__file__)
+    dir = os.path.join(os.path.dirname(__file__), "../src/easyhla/")
     for file_name in os.listdir(dir):
         if file_name.endswith(".csv"):
             file_mtime.append(
@@ -63,7 +63,7 @@ def get_latest_mtime():
 
 
 def _get_mtime_file() -> str:
-    return os.path.join(os.path.dirname(__file__), "hla_nuc.fasta.mtime")
+    return os.path.join(os.path.dirname(__file__), "../src/easyhla/hla_nuc.fasta.mtime")
 
 
 @app.command()
@@ -118,8 +118,8 @@ def _check_dates() -> bool:
     """
     Compare the date on record to the last modified date.
     """
-    latest_file_date = int(_get_latest_mtime().strftime("%Y%m%d"))
-    last_recorded_date = int(_get_last_recorded_mtime().strftime("%Y%m%d"))
+    latest_file_date = int(_get_latest_mtime().strftime("%Y-%m-%d"))
+    last_recorded_date = int(_get_last_recorded_mtime().strftime("%Y-%m-%d"))
     print("Last Modified Date:", latest_file_date)
     print("Last Recorded Date:", last_recorded_date)
     if latest_file_date == last_recorded_date: