test fix

Author: vr1087

conda-recipe/meta.yaml

@@ -27,8 +27,9 @@ build:
     cmake --install build/standalone
     cd cli
     python -m pip install . --no-deps --ignore-installed --prefix=$PREFIX
-    #cd ..
-    #pytest tests/python
+    cd ..
+    export PYTHONPATH="$PREFIX:$PYTHONPATH";
+    pytest tests/python
 
 requirements:
   build:
@@ -51,6 +52,10 @@ requirements:
     - cmake
   run:
     - python >=3.9,<3.14
+    - xz          # for liblzma for htslib
+    - libcurl
+    - bzip2
+    - libzlib
 
 about:
   home:    {{ REPO_HOME }}

cpp/CMakeLists.txt

@@ -58,6 +58,8 @@ include(htslib)
 # if htslib is not in your environment, then build htslib from source
 if(NOT HTSlib_FOUND)
   add_dependencies(${PROJECT_NAME} htslib)
+  # also ensure the htslib target itself sees _GNU_SOURCE
+  target_compile_definitions(htslib PRIVATE _GNU_SOURCE)
 endif()
 
 # Link dependencies