Change build mode to release

Author: Will-Tyler

R/SAIGE_SPATest_Marker.R

@@ -64,7 +64,7 @@ SAIGE.Marker = function(traitType,
       if (chrom == "") {
         stop("chrom needs to be specified for single-variant assoc tests when using VCZ as input\n")
       } else {
-        set_iterator_inVcz("", chrom, 1, 250000000)
+        set_iterator_inVcz(chrom, 1, 250000000)
       }
     }
 

src/CMakeLists.txt

@@ -2,7 +2,7 @@ cmake_minimum_required(VERSION 3.1...3.29)
 
 project(SAIGE)
 
-set(CMAKE_BUILD_TYPE Debug)
+set(CMAKE_BUILD_TYPE Release)
 set(CMAKE_CXX_STANDARD 17)
 set(CMAKE_CXX_STANDARD_REQUIRED True)
 set(CMAKE_CXX_EXTENSIONS OFF)
@@ -23,11 +23,6 @@ FetchContent_MakeAvailable(tensorstore)
 
 # Define a target that depends on TensorStore...
 
-target_compile_options(
-    vcz
-    PRIVATE
-    -O0
-)
 target_link_libraries(
     vcz
     PRIVATE

src/Makevars

@@ -2,8 +2,7 @@ PKG_CPPFLAGS = \
 -I ../thirdParty/cget/include \
 -I ../thirdParty/cget/lib \
 -I ../thirdParty/cget/lib64 \
--D SQLITE_ENABLE_COLUMN_METADATA -fpic -Wall -Wextra -pedantic  -DARMA_64BIT_WORD=1 -D__STDC_FORMAT_MACROS \
--g -O0 -fno-inline -fno-omit-frame-pointer
+-D SQLITE_ENABLE_COLUMN_METADATA -fpic -Wall -Wextra -pedantic  -DARMA_64BIT_WORD=1 -D__STDC_FORMAT_MACROS
 
 CXX_STD = CXX17
 
@@ -20,7 +19,7 @@ all: $(SHLIB)
 $(SHLIB): ${OBJECTS} Makevars libvcz$(SHLIB_EXT)
 
 libvcz$(SHLIB_EXT): VCZ.cpp | build
-	cmake --build ./build --parallel
+	cmake --build ./build
 	cmake --install ./build
 
 build: CMakeLists.txt