From 72f6891d4fa3039c2ee173728b6694945304e42b Mon Sep 17 00:00:00 2001
From: Joeran Bosma <joeran@bosma.co>
Date: Mon, 28 Oct 2024 11:59:30 +0100
Subject: [PATCH] Cleanup AVL PI-RADS score notation (#7)

---
 build.sh                       | 2 +-
 setup.py                       | 2 +-
 src/dragon_prep/prepare_avl.py | 3 +++
 tests/development-README.md    | 2 +-
 4 files changed, 6 insertions(+), 3 deletions(-)

diff --git a/build.sh b/build.sh
index 921d982..7fa60ce 100755
--- a/build.sh
+++ b/build.sh
@@ -1 +1 @@
-docker build . --tag dragon_prep:latest --tag dragon_prep:v0.2.4
+docker build . --tag dragon_prep:latest --tag dragon_prep:v0.2.5
diff --git a/setup.py b/setup.py
index 6f08f40..6d6a101 100644
--- a/setup.py
+++ b/setup.py
@@ -5,7 +5,7 @@
         long_description = fh.read()
 
     setuptools.setup(
-        version='0.2.4',
+        version='0.2.5',
         author_email='Joeran.Bosma@radboudumc.nl',
         long_description=long_description,
         long_description_content_type="text/markdown",
diff --git a/src/dragon_prep/prepare_avl.py b/src/dragon_prep/prepare_avl.py
index 520ddbc..c95fb77 100644
--- a/src/dragon_prep/prepare_avl.py
+++ b/src/dragon_prep/prepare_avl.py
@@ -53,6 +53,9 @@ def prepare_avl_radiology_reports(input_dir: Path) -> pd.DataFrame:
     # merge with radiology reports
     df["text"] = df["uid"].map(df_reports["text"].to_dict())
 
+    # cleanup pirads lesions notation
+    df["pirads_lesions"] = df["pirads_lesions"].str.replace(".", ",")
+
     return df
 
 
diff --git a/tests/development-README.md b/tests/development-README.md
index 76515c4..11c4389 100644
--- a/tests/development-README.md
+++ b/tests/development-README.md
@@ -33,4 +33,4 @@ AutoPEP8 for formatting (this can be done automatically on save, see e.g. https:
 # Push release to PyPI
 1. Increase version in setup.py, and set below
 2. Build: `python -m build`
-3. Distribute package to PyPI: `python -m twine upload dist/*0.2.4*`
+3. Distribute package to PyPI: `python -m twine upload dist/*0.2.5*`