WRFCHEM DA needs to run compile twice on intel llvm compilers

[HathewayWill]

Describe the bug
A clear and concise description of what the bug is.

certain DA lists are not compiled on a first installation, missing linkers I believe. After running compile again it finds the missing files and creates wrfchem da with intel llvm compilers.

To Reproduce
Steps to reproduce the behavior:

cd $WRFCHEM_FOLDER/Downloads
	cd $WRFCHEM_FOLDER/Downloads
	wget -c https://github.com/wrf-model/WRF/releases/download/v$WRF_VERSION/v$WRF_VERSION.tar.gz -O WRF-$WRF_VERSION.tar.gz
	mkdir $WRFCHEM_FOLDER/WRFDA
	tar -xvzf WRF-$WRF_VERSION.tar.gz -C $WRFCHEM_FOLDER/WRFDA
	# If statment for changing folder name
	if [ -d "$WRFCHEM_FOLDER/WRFDA/WRF" ]; then
		mv -f $WRFCHEM_FOLDER/WRFDA/WRF $WRFCHEM_FOLDER/WRFDA/WRFV$WRF_VERSION
	fi
	cd $WRFCHEM_FOLDER/WRFDA/WRFV$WRF_VERSION
	mv * $WRFCHEM_FOLDER/WRFDA
	cd $WRFCHEM_FOLDER/WRFDA
	rm -rf WRFV$WRF_VERSION/
	cd $WRFCHEM_FOLDER/WRFDA

	ulimit -s unlimited
	export WRF_CHEM=1
	export WRFIO_NCD_LARGE_FILE_SUPPORT=1

	./clean -a

	if [ ${auto_config} -eq 1 ]; then
		echo 78 | ./configure wrfda 2>&1 | tee configure.log #Option 78 for intel and distribunted memory
	else
		./configure wrfda 2>&1 | tee configure.log #Option 78 for intel and distribunted memory
	fi
	echo " "

	#Need to remove mpich/GNU config calls to Intel config calls
	sed -i '136s|mpif90 -f90=$(SFC)|mpiifx|g' $WRFCHEM_FOLDER/WRFDA/configure.wrf
	sed -i '137s|mpicc -cc=$(SCC)|mpiicx|g' $WRFCHEM_FOLDER/WRFDA/configure.wrf
	sed -i '144s|-ip|-ip -Wno-implicit-function-declaration -Wno-incompatible-function-pointer-types |g' $WRFCHEM_FOLDER/WRFDA/configure.wrf
	sed -i '145s|-ip|-ip -Wno-implicit-function-declaration -Wno-incompatible-function-pointer-types |g' $WRFCHEM_FOLDER/WRFDA/configure.wrf
	
	./compile -j $CPU_HALF_EVEN all_wrfvar 2>&1 | tee compile.chem.wrfvar.log
	echo " "

	# IF statement to check that all files were created.
	cd $WRFCHEM_FOLDER/WRFDA/var/da
	n=$(ls ./*.exe | wc -l)
	cd $WRFCHEM_FOLDER/WRFDA/var/obsproc/src
	m=$(ls ./*.exe | wc -l)
	if ((($n == 43) && ($m == 1))); then
		echo "All expected files created."
		read -r -t 5 -p "Finished installing WRFDA. I am going to wait for 5 seconds only ..."
	else
		echo "Missing one or more expected files."
		echo "Running compiler again"
		cd $WRFCHEM_FOLDER/WRFDA
		./compile -j $CPU_HALF_EVEN all_wrfvar 2>&1 | tee compile.chem.wrfvar2.log
		cd $WRFCHEM_FOLDER/WRFDA/var/da
		n=$(ls ./*.exe | wc -l)
		cd $WRFCHEM_FOLDER/WRFDA/var/obsproc/src
		m=$(ls ./*.exe | wc -l)
		if ((($n == 43) && ($m == 1))); then
			echo "All expected files created."
			read -r -t 5 -p "Finished installing WRFDA. I am going to wait for 5 seconds only ..."
		else
			read -r -p "Please contact script authors for assistance, press 'Enter' to exit script."
			exit
		fi
	fi
	echo " "

Expected behavior
files should all be linked on first run.

Attachments

compile.chem.wrfvar.log
compile.chem.wrfvar2.log
configure.log
configure.wrf.txt

[islas]

Could be related to #1950

[HathewayWill]

@islas Here are the log files for WRFCHEM DA without any addiontal flags added.

Failure_WRFCHEMDA.zip

[HathewayWill]

Could be related to #1950

When 4.6 comes out should i retest all this?

[HathewayWill]

wrfchemda.4.6.zip
@islas

latest changes to 4.6 allows wrfchem da to pass on intel compilers. See attached zip file and log files

wrfchem however still has the memory issue with intel llvm