From e34f55231d9c904d93863112348fc9513e761958 Mon Sep 17 00:00:00 2001
From: Edward Givelberg <edward.givelberg@noaa.gov>
Date: Thu, 6 Jun 2024 13:22:54 -0500
Subject: [PATCH] added cmake code for staging rtofs input files

---
 utils/obsproc/applications/CMakeLists.txt     |  5 +-
 .../applications/gdas_obsprovider2ioda.h      |  1 -
 utils/obsproc/rtofs/CMakeLists.txt            | 20 +------
 utils/test/CMakeLists.txt                     | 53 +++++++++++++++----
 4 files changed, 45 insertions(+), 34 deletions(-)

diff --git a/utils/obsproc/applications/CMakeLists.txt b/utils/obsproc/applications/CMakeLists.txt
index f03631855..99b517aa2 100644
--- a/utils/obsproc/applications/CMakeLists.txt
+++ b/utils/obsproc/applications/CMakeLists.txt
@@ -10,6 +10,5 @@ target_compile_features( gdas_obsprovider2ioda.x PUBLIC cxx_std_17)
 
 target_link_libraries( gdas_obsprovider2ioda.x PUBLIC oops ioda NetCDF::NetCDF_CXX)
 
-# to be used when rtofs is a static library:
-# link_directories(${CMAKE_SOURCE_DIR}/rtofs)
-# target_link_libraries( gdas_obsprovider2ioda.x PRIVATE rtofs)
+link_directories(${CMAKE_SOURCE_DIR}/rtofs)
+target_link_libraries(gdas_obsprovider2ioda.x PRIVATE rtofs)
diff --git a/utils/obsproc/applications/gdas_obsprovider2ioda.h b/utils/obsproc/applications/gdas_obsprovider2ioda.h
index eb53fce0b..ac08b19c6 100644
--- a/utils/obsproc/applications/gdas_obsprovider2ioda.h
+++ b/utils/obsproc/applications/gdas_obsprovider2ioda.h
@@ -36,7 +36,6 @@ namespace gdasapp {
         Ghrsst2Ioda conv2ioda(fullConfig, this->getComm());
         conv2ioda.writeToIoda();
       } else if (provider == "RTOFStmp") {
-        // RTOFSInSitu conv2ioda(fullConfig, this->getComm());
         RTOFSTemperature conv2ioda(fullConfig, this->getComm());
         conv2ioda.writeToIoda();
       } else if (provider == "RTOFSsal") {
diff --git a/utils/obsproc/rtofs/CMakeLists.txt b/utils/obsproc/rtofs/CMakeLists.txt
index 25f22474f..d524b22a3 100644
--- a/utils/obsproc/rtofs/CMakeLists.txt
+++ b/utils/obsproc/rtofs/CMakeLists.txt
@@ -1,13 +1,3 @@
-# message("RRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRR")
-# message("Current source directory: ${CMAKE_CURRENT_SOURCE_DIR}")
-# message("Current binary directory: ${CMAKE_CURRENT_BINARY_DIR}")
-# message("CMAKE_INCLUDE_PATH=${CMAKE_INCLUDE_PATH}")
-# message("C_INCLUDE_PATH=${C_INCLUDE_PATH}")
-# message("CPLUS_INCLUDE_PATH=${CPLUS_INCLUDE_PATH}")
-# message("RRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRR")
-
-# include_directories(${CMAKE_SOURCE_DIR})
-
 set(
 	rtofs_src_files
 	RTOFSDataFile.h
@@ -27,18 +17,10 @@ list(
 add_library(rtofs STATIC
 	${rtofs_src_files}
 )
-#  ecbuild_add_library(
-	# TARGET rtofs
-	# TYPE STATIC
-	# SOURCES ${rtofs_src_files}
-# )
 
 target_compile_features(
 	rtofs
 	PUBLIC cxx_std_17
 )
 
-target_link_libraries( rtofs PUBLIC oops ioda NetCDF::NetCDF_CXX )
-
-# target_link_libraries(rtofs PUBLIC oops)
-target_include_directories( rtofs PUBLIC ${oops_INCLUDE_DIRS} )
+target_link_libraries(rtofs PUBLIC oops ioda NetCDF::NetCDF_CXX)
diff --git a/utils/test/CMakeLists.txt b/utils/test/CMakeLists.txt
index 3eee8010d..87c8ffd00 100644
--- a/utils/test/CMakeLists.txt
+++ b/utils/test/CMakeLists.txt
@@ -70,26 +70,57 @@ ecbuild_add_test( TARGET  test_gdasapp_util_ghrsst2ioda
                   LIBS    gdas-utils
                   WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/obsproc)
 
-#TODO:
-# add binary files for the test
-# Test the RTOFS in Situ converter
-# ecbuild_add_test( TARGET  test_gdasapp_util_rtofsinsitu
-                  # COMMAND ${CMAKE_BINARY_DIR}/bin/gdas_obsprovider2ioda.x
-				  # ARGS    "../testinput/gdas_rtofsinsitu.yaml"
-                  # LIBS    gdas-utils
-                  # WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/obsproc)
-
-ecbuild_add_test( TARGET  test_gdasapp_util_rtofstmp
+
+
+# copy rtofs binary input files to the testing area
+# and generate the tests
+execute_process(
+	COMMAND hostname 
+	OUTPUT_VARIABLE HOSTNAME OUTPUT_STRIP_TRAILING_WHITESPACE
+)
+
+set(RTOFS_INPUT_FILE1 "rtofsinsitu_2024032600.profile")
+set(RTOFS_INPUT_FILE2 "rtofsinsitu_2024032700.profile")
+
+if (${HOSTNAME} MATCHES "^([Oo][rR]ion)")
+	set(RTOFS_FILES_PATH
+		"/work/noaa/da/marineda/gfs-marine/data/obs/ci/obs"
+	)
+endif()
+if (${HOSTNAME} MATCHES "^(Hera)")
+	set(RTOFS_FILES_PATH
+		"/scratch1/NCEPDEV/da/common/ci/obs"
+	)
+endif()
+
+set(RTOFS_FILE1 "${RTOFS_FILES_PATH}/${RTOFS_INPUT_FILE1}")
+set(RTOFS_FILE2 "${RTOFS_FILES_PATH}/${RTOFS_INPUT_FILE2}")
+set(DESTINATION_DIR "${CMAKE_CURRENT_BINARY_DIR}/obsproc")
+
+if (EXISTS ${RTOFS_FILE1} AND EXISTS ${RTOFS_FILE2})
+	message("Found RTOFS files; generating tests")
+
+	file(COPY ${RTOFS_FILE1} DESTINATION ${DESTINATION_DIR})
+	file(COPY ${RTOFS_FILE2} DESTINATION ${DESTINATION_DIR})
+
+	# Test the RTOFStmp to IODA converter
+	ecbuild_add_test( TARGET  test_gdasapp_util_rtofstmp
                   COMMAND ${CMAKE_BINARY_DIR}/bin/gdas_obsprovider2ioda.x
 				  ARGS    "../testinput/gdas_rtofstmp.yaml"
                   LIBS    gdas-utils
                   WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/obsproc)
 
-ecbuild_add_test( TARGET  test_gdasapp_util_rtofssal
+	# Test the RTOFSsal to IODA converter
+	ecbuild_add_test( TARGET  test_gdasapp_util_rtofssal
                   COMMAND ${CMAKE_BINARY_DIR}/bin/gdas_obsprovider2ioda.x
 				  ARGS    "../testinput/gdas_rtofssal.yaml"
                   LIBS    gdas-utils
                   WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/obsproc)
+else()
+	message("Error: RTOFS input files not found; no test generated.")
+endif()
+
+
 
 # Test the SMAP to IODA converter
 ecbuild_add_test( TARGET  test_gdasapp_util_smap2ioda