From 6894407610e58cf5220f02558e0f82a30ed88702 Mon Sep 17 00:00:00 2001
From: Michael Boniface <m.j.boniface@soton.ac.uk>
Date: Thu, 6 Mar 2025 09:48:01 +0000
Subject: [PATCH] (fix) changed concept-set to concept-sets as more intuitive
due to the plural nature of concept sets. Closes #51
---
acmc/phen.py | 2 +-
docs/index.md | 4 ++--
2 files changed, 3 insertions(+), 3 deletions(-)
diff --git a/acmc/phen.py b/acmc/phen.py
index d4a95d0..f2111ac 100644
--- a/acmc/phen.py
+++ b/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]
diff --git a/docs/index.md b/docs/index.md
index fd3ad67..910d1f8 100644
--- a/docs/index.md
+++ b/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
--
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