Merge branch '53-fix-make-concept-set-directory-plural-as-more-intuitive' into 'dev'

(fix) changed concept-set to concept-sets as more intuitive due to the plural...

Closes #53 and #51

See merge request meldb/concepts-processing!29

acmc/phen.py

@@ -32,7 +32,7 @@ DEFAULT_PHEN_PATH = Path("./workspace") / PHEN_DIR
 
 CONCEPTS_DIR = "concepts"
 MAP_DIR = "map"
-CONCEPT_SET_DIR = "concept-set"
+CONCEPT_SET_DIR = "concept-sets"
 CSV_PATH = Path(CONCEPT_SET_DIR) / "csv"
 OMOP_PATH = Path(CONCEPT_SET_DIR) / "omop"
 DEFAULT_PHEN_DIR_LIST = [CONCEPTS_DIR, MAP_DIR, CONCEPT_SET_DIR]

docs/index.md

@@ -45,8 +45,8 @@ The tool supports verification and mapping across diagnostic coding formats belo
 ```
 workspace/                          # Default workspace directory
 ├── phen/                           # Default phenotype directory
-│   ├── codes/                      # Phenotype source concept code lists directory
-│   ├── concept-set/                # Processed phenotype concept sets
+│   ├── concepts/                   # Phenotype source concept code lists directory
+│   ├── concept-sets/               # Processed phenotype concept sets
 │   │   ├── csv/                    # Processed phenotype concept sets in ACMC CSV format
 │   │   ├── omop/                   # Processed phenotype concept sets in OMOP CDM database exported as CSV files
 │   ├── map/                        # Process mapping from source to target code types