Fix build error

Signed-off-by: Sachidanand Alle <[email protected]>

.dockerignore

@@ -14,6 +14,7 @@ __pycache__
 .vscode
 .webpack
 node_modules/
+*.log
 
 # Environments
 .env

Dockerfile

@@ -36,7 +36,12 @@ RUN BUILD_OHIF=false python setup.py bdist_wheel --build-number $(date +'%Y%m%d%
 FROM ${FINAL_IMAGE}
 LABEL maintainer="[email protected]"
 WORKDIR /opt/monailabel
+COPY requirements.txt /opt/monailabel/requirements.txt
+
 RUN apt update -y && apt install -y git curl openslide-tools python3 python-is-python3 python3-pip
 RUN python -m pip install --no-cache-dir pytest torch torchvision torchaudio
+
 COPY --from=build /opt/monailabel/dist/monailabel* /opt/monailabel/dist/
-RUN python -m pip install --no-cache-dir /opt/monailabel/dist/monailabel*.whl
+RUN python -m pip install -v --no-cache-dir /opt/monailabel/dist/monailabel*.whl
+RUN python -m pip uninstall sam2 -y
+RUN python -m pip install -v --no-cache-dir -r /opt/monailabel/requirements.txt

sample-apps/endoscopy/main.py

@@ -58,9 +58,9 @@ def __init__(self, app_dir, studies, conf):
             print(f"    all, {', '.join(configs.keys())}")
             print("---------------------------------------------------------------------------------------")
             print("")
-            exit(-1)
+            # exit(-1)
 
-        models = models.split(",")
+        models = models.split(",") if models else []
         models = [m.strip() for m in models]
         invalid = [m for m in models if m != "all" and not configs.get(m)]
         if invalid:
@@ -85,7 +85,7 @@ def __init__(self, app_dir, studies, conf):
 
         logger.info(f"+++ Using Models: {list(self.models.keys())}")
 
-        self.sam = strtobool(conf.get("sam", "true"))
+        self.sam = strtobool(conf.get("sam2", "true"))
         super().__init__(
             app_dir=app_dir,
             studies=studies,

sample-apps/monaibundle/main.py

@@ -46,7 +46,7 @@ def __init__(self, app_dir, studies, conf):
             self.epistemic_simulation_size = int(conf.get("epistemic_simulation_size", "5"))
             self.epistemic_dropout = float(conf.get("epistemic_dropout", "0.2"))
 
-        self.sam = strtobool(conf.get("sam", "true"))
+        self.sam = strtobool(conf.get("sam2", "true"))
         super().__init__(
             app_dir=app_dir,
             studies=studies,

sample-apps/pathology/main.py

@@ -54,7 +54,7 @@ def __init__(self, app_dir, studies, conf):
 
         configs = {k: v for k, v in sorted(configs.items())}
 
-        models = conf.get("models", "all")
+        models = conf.get("models")
         if not models:
             print("")
             print("---------------------------------------------------------------------------------------")
@@ -63,9 +63,9 @@ def __init__(self, app_dir, studies, conf):
             print(f"    all, {', '.join(configs.keys())}")
             print("---------------------------------------------------------------------------------------")
             print("")
-            exit(-1)
+            # exit(-1)
 
-        models = models.split(",")
+        models = models.split(",") if models else []
         models = [m.strip() for m in models]
         invalid = [m for m in models if m != "all" and not configs.get(m)]
         if invalid:
@@ -90,7 +90,7 @@ def __init__(self, app_dir, studies, conf):
 
         logger.info(f"+++ Using Models: {list(self.models.keys())}")
 
-        self.sam = strtobool(conf.get("sam", "true"))
+        self.sam = strtobool(conf.get("sam2", "true"))
         super().__init__(
             app_dir=app_dir,
             studies=studies,

sample-apps/radiology/main.py

@@ -64,7 +64,7 @@ def __init__(self, app_dir, studies, conf):
             print("")
             exit(-1)
 
-        models = models.split(",")
+        models = models.split(",") if models else []
         models = [m.strip() for m in models]
         # Can be configured with --conf scribbles false or true
         self.scribbles = conf.get("scribbles", "true") == "true"
@@ -100,7 +100,7 @@ def __init__(self, app_dir, studies, conf):
         # Load models from bundle config files, local or released in Model-Zoo, e.g., --conf bundles <spleen_ct_segmentation>
         self.bundles = get_bundle_models(app_dir, conf, conf_key="bundles") if conf.get("bundles") else None
 
-        self.sam = strtobool(conf.get("sam", "true"))
+        self.sam = strtobool(conf.get("sam2", "true"))
         super().__init__(
             app_dir=app_dir,
             studies=studies,