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source: BOL/script_install/install_lmdz.sh @ 5399

Last change on this file since 5399 was 5399, checked in by Laurent Fairhead, 2 days ago
forgot a test on the installation directory
Property svn:executable set to ``*
File size: 42.0 KB

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1	#!/bin/bash
2	set -eu # error on command failure, and on unset variables
3	export LC_ALL=C # standardize awk format
4
5	###########################################################################
6	# Author : Laurent Fairhead et Frédéric Hourdin
7	# Usage : install_lmdz.sh -help
8	#
9	# bash installation script of the LMDZ model on different computer types :
10	# Linux PC, "mesocentre" (IPSL-UPMC, IPSL-X), super-computer (IDRIS)
11	#
12	# The model is downloaded in the following directory tree
13	# $MODEL/modipsl/modeles/...
14	# using the "modipsl" infrastructure created by the "IPSL"
15	# for coupled (atmosphere/ocean/vegetation/chemistry) climate modeling
16	# activities.
17	# Here we only download atmospheric (LMDZ) and vegetation (ORCHIDEE)
18	# components.
19	#
20	# The sources of the models can be found in the "modeles" directory.
21	# In the present case, LMDZ, ORCHIDEE, and IOIPSL or XIOS (handling of
22	# input-outputs using the NetCDF library).
23	#
24	# The script downloads various source files (including a version of NetCDF)
25	# and utilities, compiles the model, and runs a test simulation in a
26	# minimal configuration.
27	#
28	# Prerequisites : gfortran, bash or ksh, wget, gunzip, tar, ...
29	#
30	# Modif 18/11/2011
31	# changes for option real 8.
32	# We compile with -r8 (or equivalent) and -DNC_DOUBLE for the GCM
33	# but with -r4 for netcdf. Variable real must be set to
34	# r4 or r8 at the beginning of the script below.
35	#
36	###########################################################################
37
38	### Functions
39
40	function myget {
41	# Get a file from LMDZ repository, make it executable if .(ba)sh
42	local url=$1
43
44	local filename
45	filename=$(basename "$url")
46
47	wget --no-check-certificate -nv "http://lmdz.lmd.jussieu.fr/pub/$url"
48	if [[ $filename =~ .*\.(ba)?sh ]]; then chmod +x "$filename"; fi
49	}
50
51	function do_compile_sh {
52	local component=$1
53	local command=$2
54	local log
55
56	log="$(pwd)/$component.log"
57	printf "#!/bin/bash\n%s\n" "$command" > compile.sh
58	echo "Compiling $component using $command (log: $log) $(date)"
59	chmod +x ./compile.sh
60	if ! ./compile.sh &> "$log"; then
61	echo "STOP: $component compilation failed, exiting"; exit 1
62	fi
63	echo "Finished $component compilation $(date)"
64	}
65
66	function get_svn_branch {
67	local url=$1
68	local rev=$2
69	local res
70
71	res=$(svn log -v -q "$url" -r "$rev" -l 1 \| cut -d "/" -f -4)
72	if echo "$res" \| grep -q "/trunk/"; then
73	res=$(echo "$res" \| grep "/trunk/" \| head -1 \| cut -d "/" -f 2-3)
74	elif echo "$res" \| grep -q "/branches/"; then
75	res=$(echo "$res" \| grep "/branches/" \| head -1 \| cut -d "/" -f 2-4)
76	else
77	echo "Could not determine svn branch for $url, r=$rev"
78	fi
79	echo "$res"
80	}
81
82	function set_default_params {
83	# Valeur par défaut des parametres
84	svn_lmdz=""
85	version="20241018.trunk"
86
87	netcdf=1
88	bench=1
89	SCM=0
90	veget="none"
91	grid_resolution="32x32x39"
92	benchphysiq=""
93	compphysiq="lmd"
94	is_1D="n"
95	fortran_file="gcm"
96
97	parallel="none"
98	trusting="testing"
99	MODEL=""
100
101	with_xios=0
102	opt_makelmdz_xios=""
103
104	icolmdz=0
105	dynamico_commit="11001689"
106
107	rad="rrtm"
108
109	compile_with_fcm=1
110
111	cosp="none"
112	aerosols=0
113	strataer=0
114	inlandsis=0
115
116	make_j=8
117	clean_install=1
118	local="$(pwd)"
119
120	# Check if on a Mac /!\ Probably doesn't work anymore, to fix one day...
121	if [[ $(uname) = "Darwin" ]]; then
122	export MAKE="make"
123	fi
124
125	optim_flag="-prod"
126	arch="local"
127
128	arch="local-gfortran"
129	arch_dir=""
130
131	jobcmd=""
132	verbose=0
133	}
134
135	function read_cmdline_args {
136	while (($# > 0)); do
137	case $1 in
138	"-v") version=$2; shift; shift;;
139	"-r") svn_lmdz=$2; shift; shift;;
140	"-d") grid_resolution=$2; shift; shift;;
141	"-unstable") trusting="unstable"; shift;;
142	"-cosp") cosp=$2
143	case $cosp in
144	"none"\|"v1"\|"v2") cosp=$2; shift; shift;;
145	*) echo "Only none v1 v2 for cosp option"; exit 1
146	esac;;
147	"-nofcm") compile_with_fcm=0; echo "This option will be reactivated soon (promesse du 8dec2022)"; exit 1; shift;;
148	"-SCM") SCM=1; shift;;
149	"-rad") rad=$2
150	case $rad in
151	"oldrad"\|"rrtm"\|"ecrad") rad=$2; shift; shift;;
152	*) echo "Only oldrad rrtm ecrad for rad option"; exit 1
153	esac;;
154	"-parallel") parallel=$2
155	case $parallel in
156	"none"\|"mpi"\|"omp"\|"mpi_omp") parallel=$2; shift; shift;;
157	*) echo "Only none mpi omp mpi_omp for the parallel option"; exit 1
158	esac;;
159	"-bench") bench=$2; shift; shift;;
160	"-debug") optim_flag="-debug"; shift;;
161	"-name") MODEL=$2; shift; shift;;
162	"-netcdf") netcdf=$2; shift; shift;;
163	"-benchphysiq") benchphysiq=$2; shift; shift;;
164	"-compilephysiq") compphysiq=$2; shift; shift;;
165	"-xios") with_xios=1; shift;;
166	"-arch") arch=$2; shift; shift;;
167	"-arch_dir") arch_dir=$2; shift; shift;;
168	"-veget") veget=$2; shift; shift;;
169	"-spla") aerosols=1; shift;;
170	"-strataer") strataer=1; shift;;
171	"-inlandsis") inlandsis=1; shift;;
172	"-make_j") make_j=$2; shift; shift;;
173	"-jobcmd") jobcmd=$2; shift; shift;;
174	"-noclean") clean_install=0; shift;;
175	"-icolmdz") icolmdz=1; shift;;
176	"-verbose") verbose=1; shift;;
177	"-h" \| *) cat <<........fin
178	$0 [ -v version ] [ -r svn_release ]
179	[ -parallel PARA ] [ -d GRID_RESOLUTION ] [ -bench 0/1 ]
180	[-name LOCAL_MODEL_NAME] [-rad RADIATIF]
181
182	-v "version" like 20150828.trunk, see http://www.lmd.jussieu.fr/~lmdz/Distrib/LISMOI.trunk (default <$version>)
183
184	-r "svn_release" : either the svn release number or "last" (default <$svn_lmdz>)
185
186	-parallel parallel support: mpi, omp, mpi_omp (mpi with openMP) or none (default: <$parallel>)
187
188	-d "grid resolution": should be among the available benchs if -bench 1 (valid values: 48x36x19, 48x36x39) (default : <$grid_resolution>)
189
190	-bench activating the bench or not (0/1) (default: <$bench>)
191
192	-unstable use unstable tar instead of testing
193
194	-name name of the folder to install to (default <$MODEL>)
195
196	-netcdf 0, 1 or PATH. 0: do not download NetCDF, look for it in standard locations (/usr); 1: download and compile NetCDF; PATH: full path to an existing installed NetCDF library (default: <$netcdf>)
197
198	-xios use (download and compile) the XIOS library (will compile the parallel NetCDF4-HDF5 library) (requires to also have -parallel mpi_omp)
199
200	-cosp to run with cospv1 or cospv2 [none/v1/v2] (default <$cosp>)
201
202	-rad radiative code: oldrad, rrtm or ecrad (default <$rad>)
203
204	-nofcm to compile without fcm
205
206	-SCM install 1D version automatically
207
208	-debug compile everything in debug mode
209
210	-benchphysiq to choose which physics.def package to use in the bench (default <$benchphysiq>)
211
212	-compilephysiq physics to compile the model with (default <$compphysiq>)
213
214	-veget surface/vegetation scheme treatment controlled by the single variable veget which can have the following values: none: bucket scheme (default); CMIP6 \| veget2.0: orchidee version used in CMIP exercise, rev 5661; veget2.2: orchidee branch 2.2, rev 8529 (bundled); number: orchidee version number [only orch>2.0] (default $veget)
215
216	-spla activate interactive aerosols
217
218	-inlandsis activate new snow scheme
219
220	-arch name of the arch to use (default <$arch>)
221
222	-arch_dir where to find the arch files (default <$arch_dir>)
223
224	-make_j number of processes to parallelize installations (default <$make_j>)
225
226	-jobcmd command prepended to fcm compile jobs, e.g. "srun" (default <$jobcmd>)
227
228	-noclean will only download necessary files (but no thorough check is made on the integrity of existing files), and will recompile everything (very quick if it's already been compiled before)
229
230	-icolmdz to compile the icolmdz executable as well as the lonlat one
231
232	-verbose to print every executed command
233
234	........fin
235	exit 0;;
236	esac
237	done
238
239	# Isotopes : Compile and run with isotopes if lmdz_phys="lmdiso" in main.sh
240	if [[ $compphysiq = "lmdiso" ]]; then isotopes=1; else isotopes=0; fi
241
242	# Option de compilation pour Cosp
243	case $cosp in
244	v1) opt_cosp="-cosp true";;
245	v2) opt_cosp="-cospv2 true";;
246	*) opt_cosp=""
247	esac
248
249	#Define veget-related suffix for gcm name
250	if [[ $veget = 'none' ]]; then
251	suff_orc=''
252	else
253	suff_orc='_orch'
254	fi
255
256
257	if [[ $parallel = "none" ]]; then
258	suff_para='_seq'
259	else
260	suff_para='_para_mem'
261	fi
262
263	if [[ $with_xios = 1 ]]; then opt_makelmdz_xios="-io xios"; fi
264
265	if [[ $aerosols = 1 ]]; then
266	opt_aer="-dust true"; suff_aer="_spla"
267	else
268	opt_aer=""; suff_aer=""
269	fi
270
271	if [[ $strataer = 1 ]]; then
272	opt_strataer="-strataer true"
273	else
274	opt_strataer=""
275	fi
276
277	if [[ $inlandsis = 1 ]]; then
278	opt_inlandsis="-inlandsis true"
279	else
280	opt_inlandsis=""
281	fi
282
283	if [[ $isotopes = 1 ]]; then
284	opt_isotopes="-isotopes true"; suff_iso="_iso"
285	else
286	opt_isotopes="" ; suff_iso=""
287	fi
288
289	# set default arch if parallel
290	if [[ $arch = "local-gfortran" && $parallel != "none" ]]; then
291	arch="local-gfortran-parallel"
292	echo "Switching default arch to $arch"
293	fi
294
295	# Name of the model's folder. The convention taken here is that models that requires different compilation sources should have a different names.
296	local xios_name=""
297	if [[ $with_xios = 1 ]]; then xios_name="XIOS"; fi
298	if [[ $MODEL = "" ]]; then MODEL="./LMDZ$version${svn_lmdz}OR$veget$xios_name"; fi
299
300	if [[ $arch_dir = "" ]]; then
301	arch_dir="$MODEL/modipsl/config/IPSLCM7/ARCH/";
302	elif ! readlink -fe "$arch_dir" >/dev/null; then
303	echo "STOP: no arch dir <$arch_dir>"; exit 1
304	fi
305
306	if ! (echo "$grid_resolution" \| grep -q "x"); then
307	is_1D="y"
308	fortran_file="lmdz1d"
309	fi
310
311	if [[ $verbose = 1 ]]; then set -vx; fi
312	}
313
314	function ensure_correct_option_combinations {
315	# Check on veget version
316	if [[ $veget != 'none' && $veget != "CMIP6" && $veget != "orch2.0" && $veget != "orch2.2" ]]; then
317	re='^[0-9]+$'
318	if ! [[ $veget =~ $re ]]; then
319	echo 'Valeur de l option veget non valable'; exit 1
320	fi
321	fi
322
323	## if compiling icolmdz, XIOS must be set
324	if [[ $icolmdz = 1 && $with_xios = 0 ]]; then
325	echo "Error, you must set -xios to compile the icolmdz executable"; exit 1
326	fi
327	## if also compiling XIOS, parallel must be mpi_omp
328	if [[ $with_xios = 1 && $parallel != "mpi_omp" ]]; then
329	echo "Error, you must set -parallel mpi_omp if you want XIOS"; exit 1
330	fi
331
332	if [[ $cosp = "v2" && $with_xios = 0 ]]; then
333	echo "Error, Cospv2 cannot run without Xios"; exit 1
334	fi
335
336	# STOP if trying to use both ORCHIDEE and Isotopes :
337	if [[ $isotopes = 1 && $veget != "none" ]]; then
338	echo "STOP: You cannot run LMDZ with ORCHIDEE and ISOtopes at the same time"; exit 1
339	fi
340
341	# STOP if trying to use both SPLA and Isotopes :
342	if [[ $isotopes = 1 && $aerosols = 1 ]]; then
343	echo "STOP: You cannot run LMDZ with Isotopes and aerosols=spla at the same time"; exit 1
344	fi
345
346	# (Temporary) STOP if trying to use Isotopes with XIOS :
347	if [[ $isotopes = 1 && $with_xios = 1 ]]; then
348	echo "STOP: Isotopes cannont yet be run with XIOS"; exit 1
349	fi
350
351	if [[ $aerosols = 1 && $rad != "rrtm" ]]; then
352	echo "STOP: For the time being, <aerosols=spla> requires <rad=rrtm>"; exit 1
353	fi
354	}
355
356	function check_available_software {
357	local required_soft=("wget" "tar" "gzip" "make" "gcc" "cmake" "m4" "c++")
358	echo "Checking if required software is available (${required_soft[*]})"
359	for logiciel in "${required_soft[@]}"; do
360	if [[ $(which "$logiciel") = "" ]]; then
361	echo "You must first install $logiciel on your system"; exit 1
362	fi
363	done
364	}
365
366	function download_modipsl_tar {
367	if [[ $clean_install = 1 && -d $MODEL ]]; then
368	local ans
369	echo "$MODEL already exists. Do you want to erase it and proceed (Y/n) ? You can also rerun with \`-noclean\` to only recompile the necessary components."
370	read -r ans
371	ans="${ans,,}" # to lowercase
372	if [[ $ans != "y" ]]; then exit 0; fi
373	rm -rf "$MODEL"
374	fi
375
376	mkdir -p "$MODEL"
377	MODEL=$(readlink -e -f "$MODEL"); echo "MODEL: $MODEL" # absolute path
378	if [[ ! -d "$MODEL/modipsl" ]]; then
379	echo "Downloading a slightly modified version of modipsl+LMDZ"
380	cd "$MODEL"
381	getlog="$(pwd)/get.log"
382	echo "logfile : $getlog"
383	set +e; myget "src_archives/$trusting/modipsl.$version.tar.gz" &>> "$getlog"; set -e
384	if [[ ! -f "modipsl.$version.tar.gz" ]]; then
385	echo "STOP: failed to download modipsl. $getlog: <$(tail "$getlog")>"; exit 1
386	fi
387	echo "install_lmdz.sh wget_OK $(date)"
388
389	gunzip "modipsl.$version.tar.gz" &>> get.log
390	tar xf "modipsl.$version.tar" &>> get.log
391	rm "modipsl.$version.tar"
392	fi
393	}
394
395	function init_arch {
396	cd "$local"
397	set +e; arch_dir=$(readlink -f "$arch_dir"); set -e # full path. readlink must be called after the path is created
398
399	# Check where default fcm, path, env are located - by default in $arch_path, instead in $MODEL/modipsl/modeles/LMDZ/arch/
400	local i fcm_path path_path env_path
401	for i in "path" "fcm" "env"; do
402	local varname=${i}_path
403	if [[ -f $arch_dir/arch-$arch.$i ]]; then
404	declare $varname="$arch_dir/arch-$arch.$i"
405	else
406	declare $varname="$MODEL/modipsl/modeles/LMDZ/arch/arch-$arch.$i"
407	if [[ ! -f ${!varname} ]]; then
408	echo "STOP: no ${!varname}"; exit 1
409	fi
410	fi
411	done
412	default_fcm_path=$fcm_path
413	default_path_path=$path_path
414	default_env_path=$env_path
415
416	# check compiler
417	compiler=$(< "$default_fcm_path" grep "%COMPILER" \| sed -e "s/%COMPILER\s*//")
418
419	# load env
420	if [[ -f $default_env_path ]]; then source "$default_env_path"; fi
421
422	local mpi_file # can't be done before as it depends on sourcing the env
423	if [[ $parallel != "none" ]]; then
424	if [[ $(which "mpif90") = "" ]]; then
425	echo "STOP: parallel=$parallel but <mpif90> could not be found"; exit 1
426	fi
427	mpi_file=$(readlink -e -f "$(which mpif90)")
428	path_mpi=$(dirname "$mpi_file")
429	root_mpi=$(dirname "$path_mpi")
430	fi
431	}
432
433	function check_compiler {
434	# Must be called after init_arch to know which compiler to use
435	cat <<eod > tt.f90
436	print*,'coucou'
437	end
438	eod
439	$compiler tt.f90 \|\| a.out
440	./a.out >\| tt
441	if [[ $(< tt sed -e 's/ //g' ) != "coucou" ]]; then
442	echo "problem installing with compiler $compiler"; exit 1
443	fi
444	rm tt a.out tt.f90
445	}
446
447	function install_arch {
448	local component=$1
449
450	# Use same .env for all components (for module compatibility)
451	cp -f "$default_env_path" "$MODEL/modipsl/modeles/$component/arch" &> /dev/null \|\| true # allow failure if we're copying the file to itself
452
453	# Use local .path and .fcm if available, otherwise default
454	if [[ ! -f "$MODEL/modipsl/modeles/$component/arch/arch-$arch.path" ]]; then
455	cp -f "$default_path_path" "$MODEL/modipsl/modeles/$component/arch"
456
457	if [[ $component = "ORCHIDEE" ]]; then
458	if [[ $orcbranch = "/tags/ORCHIDEE_2_0/ORCHIDEE" ]]; then # 2.0 and before have a different fcm convention
459	sed -i'' -e "s/-I//" -e "s/-L//" "$MODEL/modipsl/modeles/ORCHIDEE/arch/arch-$arch.path" # /!\ we only replace first occurence on purpose
460	fi
461	fi
462	fi
463	if [[ ! -f "$MODEL/modipsl/modeles/$component/arch/arch-$arch.fcm" ]]; then
464	cp -f "$default_fcm_path" "$MODEL/modipsl/modeles/$component/arch"
465
466	if [[ $component = "XIOS" ]]; then
467	# Adapt for XIOS, which uses different naming conventions
468	sed -i'' -e "s/%COMPILER/%FCOMPILER/" -e "s/%LINK/%LINKER/" -e "s/-fdefault-real-8//" "$MODEL/modipsl/modeles/XIOS/arch/arch-$arch.fcm"
469	fi
470	fi
471	}
472
473	function install_netcdf {
474	echo "Installing Netcdf"
475	local ncdf_compiler="$compiler"
476
477	if [[ $netcdf = 0 ]]; then
478	ncdfdir=$(nf-config --prefix)
479	else
480	cd "$MODEL"
481
482	# Convert non-basic compiler
483	case $compiler in
484	mpif90) ncdf_compiler=$($compiler --version \| head -n 1 \| cut -d " " -f -1)
485	esac
486
487	case $ncdf_compiler in
488	gfortran \| GNU) ncdf_compiler="gfortran"; opt1="-compiler gnu"; opt2="-CC gcc -FC gfortran -CXX g++";;
489	*) echo "unexpected compiler $ncdf_compiler for netcdf"; exit 1
490	esac
491
492	case $with_xios in
493	0) script_install_netcdf="install_netcdf4_hdf5_seq.bash"
494	ncdfdir="netcdf4_hdf5_seq"
495	opt_="$opt1";;
496	1) script_install_netcdf="install_netcdf4_hdf5.bash"
497	ncdfdir="netcdf4_hdf5"
498	opt_="$opt2 -MPI $root_mpi";;
499	*) echo "with_xios=$with_xios, should be 0 or 1"; exit 1
500	esac
501	if [[ $netcdf = 1 ]]; then
502	ncdfdir="$MODEL/$ncdfdir"
503	else
504	mkdir -p "$netcdf"; ncdfdir="$netcdf/$ncdfdir"
505	fi
506
507	echo "Repertoire netcdf $ncdfdir"
508	if [[ ! -d $ncdfdir ]]; then
509	netcdflog=$(pwd)/netcdf.log
510	echo "----------------------------------------------------------"
511	echo "Compiling the Netcdf library"
512	echo "----------------------------------------------------------"
513	echo "log file : $netcdflog"
514	myget script_install/$script_install_netcdf &>> "$netcdflog"
515	chmod u=rwx $script_install_netcdf
516	# shellcheck disable=SC2086
517	./$script_install_netcdf -prefix "$ncdfdir" $opt_ &>> "$netcdflog"
518	fi
519
520	# Add to path
521	export PATH="$ncdfdir/bin:$PATH"
522	echo "Bin PATH" $PATH
523
524	#----------------------------------------------------------------------------
525	# LF rajout d'une verrue, pour une raison non encore expliquee,
526	# la librairie est parfois rangée dans lib64 et non dans lib
527	# par certains compilateurs
528	if [[ ! -e lib && -d lib64 ]]; then ln -s lib64 lib; fi
529	#----------------------------------------------------------------------------
530
531	echo "install_lmdz.sh netcdf_OK $(date)"
532	fi
533
534	# add exported netcdf path to .env if not already the case. This ensures we always use the same netcdf library as during the first install.
535	if [[ $(nf-config --prefix) = "" \|\| $(nc-config --prefix) = "" ]]; then
536	echo "STOP: missing nf-config or nc-config in \$PATH"; exit 1
537	fi
538	local nc_path nf_path env_msg env_msg_tail
539	nc_path=$(nc-config --prefix)
540	nf_path=$(nf-config --prefix)
541	env_msg="export PATH=\"$nc_path/bin:\$PATH\""
542	if [[ $nf_path != "$nc_path" ]]; then
543	env_msg="export PATH=\"$nf_path/bin:$env_msg\""
544	fi
545	env_msg_tail="# netcdf bin path auto-added by install_lmdz.sh"
546	env_msg="$env_msg $env_msg_tail"
547	if ! < "$default_env_path" grep -q "$env_msg"; then
548	sed -i "1s@^@$env_msg\n@" "$default_env_path"
549	fi
550
551	# Test if netcdf works fine on a simple program
552	cat >test_netcdf90.f90 <<EOF
553	use netcdf
554	print *, "NetCDF library version: ", nf90_inq_libvers()
555	end
556	EOF
557
558	if $ncdf_compiler -I"$ncdfdir"/include test_netcdf90.f90 -L"$ncdfdir"/lib -lnetcdff -lnetcdf -Wl,-rpath="$ncdfdir"/lib && ./a.out; then
559	rm test_netcdf90.f90 a.out
560	else
561	cat <<EOF
562	Failed test program using NetCDF-Fortran. You can:
563	- check that you have NetCDF-Fortran installed in your system
564	- or specify an installation directory with option -netcdf of install_lmdz.sh
565	- or download and compile NetCDF-Fortran with option -netcdf 1 of install_lmdz.sh
566	EOF
567	exit 1
568	fi
569
570	# Compile NetCDF95
571	cd "$MODEL/modipsl/modeles/LMD"*
572	echo "Installing NetCDF95"
573	cd "$MODEL"
574	if [[ ! -d "NetCDF95-0.3" ]]; then
575	myget src_archives/netcdf/NetCDF95-0.3.tar.gz
576	tar -xf NetCDF95-0.3.tar.gz
577	rm NetCDF95-0.3.tar.gz
578	cd NetCDF95-0.3
579	mkdir -p build && cd build
580	netCDF_INCLUDE_DIR=$(nc-config --includedir) netCDF_LIBRARY=$(nc-config --libdir) cmake .. -DCMAKE_BUILD_TYPE=Release -DCMAKE_PREFIX_PATH="$ncdfdir" -DCMAKE_INSTALL_PREFIX="$MODEL/modipsl"
581	make install
582	fi
583	}
584
585	function install_IOIPSL {
586	install_arch "IOIPSL"
587
588	cd "$MODEL/modipsl/modeles/IOIPSL"
589	ioipsllog="$(pwd)/ioipsl.log"
590	echo "Compiling IOIPSL, the interface library with Netcdf $(date) (log: $ioipsllog)"
591	# in case ksh is not installed on the pc
592	if [[ ! -x /bin/ksh ]]; then
593	sed -i'' -e 's/ksh/bash/' ins_m_prec
594	fi
595	do_compile_sh "IOIPSL" "$jobcmd ./makeioipsl_fcm -j $make_j -arch $arch $optim_flag"
596
597	# Link to modipsl/bin
598	cp -f bin/* ../../bin
599
600	echo "IOIPSL compiled $(date)"
601	}
602
603	function install_XIOS {
604	if [[ $with_xios = 1 ]]; then
605	cd "$MODEL/modipsl/modeles"
606	xioslog="$(pwd)/XIOS/xios.log"
607	echo "##########################################################"
608	echo "Compiling XIOS (log $xioslog) $(date)"
609	echo "##########################################################"
610
611	# Download XIOS
612	local xios_http="http://forge.ipsl.fr/ioserver/svn/XIOS2/branches/xios-2.6"
613	local xios_rev="2568"
614
615	cd "$MODEL/modipsl/modeles"
616	set +e; svn co -r $xios_rev $xios_http XIOS; set -e
617
618	cd XIOS
619
620	install_arch "XIOS"
621	do_compile_sh "XIOS" "$jobcmd ./make_xios --job $make_j --arch $arch"
622	fi
623	}
624
625	function get_orchidee_version { # Set / Check ORCHIDEE version
626	echo "Checking Orchidee source version"
627	local fetch_rev=""
628	orcbranch=""
629	case $veget in
630	"none") fcm_veget_version="false";;
631	"orch2.0" \| "CMIP6") fcm_veget_version=orchidee2.0; fetch_rev=7906;; # in previous tar we used 6592 but with some modifications to xios_orchidee.f90, which got integrated in 7906
632	"orch2.2") fcm_veget_version=orchidee2.1; orcbranch="/branches/ORCHIDEE_2_2/ORCHIDEE" ;; # the bundled version
633	*) fetch_rev=$veget; fcm_veget_version=orchidee2.1;; # /!\ arbitary rev only works for orch>=2.1
634	# /!\ Note: for orch>=4, we should be using fcm_vegt_version="orchideetrunk". Below copied comment by Adriana in LMDZ_Setup docs:
635	# Avec orchidee2.1, on va compiler LMDZ avec le cle cpp ORCHIDEE_NOLIC. On ne va donc pas prendre en compte les avancements fait dans le trunk qui permet que les fractions lic soitent traité par ORCHIDEE. Ca marche très bien sans cela puisque dans tout façon c'est en cours de développement et ce n'est pas activé par default. En fait on devrait compiler le trunk avec -v orchideetrunk mais avec landice_opt>2, ce qui ne change rien par rapport à orchidee2.1
636	#Si on voudrait activer landice_opt=2 , il faut compiler avec -v orchideetrunk.
637
638	esac
639
640	if [[ -n $fetch_rev ]]; then
641	echo "IF YOU INSTALL ORCHIDEE THE VERY FIRST TIME, ASK for PASSWORD at orchidee-help@listes.ipsl.fr"
642	local curr_rev
643	curr_rev=$(svn info "$MODEL/modipsl/modeles/ORCHIDEE" \| grep Revision: \| cut -d ":" -f 2 \| cut -c 2-)
644	orcbranch=$(svn log -v -q svn://forge.ipsl.fr/orchidee/ -r "$fetch_rev" \| grep ORCHIDEE \| head -1 \| sed -e 's:ORCHIDEE/.*$:ORCHIDEE:' \| awk '{print $2}')
645	if [[ $fetch_rev != "$curr_rev" ]]; then
646	echo "Fetching orch $fetch_rev from the repository (curr: $curr_rev)"
647	echo "branch is $orcbranch"
648	if [[ $fetch_rev -lt 4465 ]]; then echo 'ORCHIDEE version must be >=4465, exiting'; exit 1; fi
649	cd "$MODEL/modipsl/modeles"
650	rm -rf ORCHIDEE
651	svn co -r "$fetch_rev" "svn://forge.ipsl.fr/orchidee/$orcbranch"
652	cd - > /dev/null
653	fi
654	fi
655
656	# Check parallel LMDZ+ORCH
657	if [[ (! $veget = "none") && $parallel = "none" && ($used_lmdz_rev -lt 4894) ]]; then
658	echo "LMDZ revision must be >=4894 for orchidee without parallel support. Upgrade lmdz or use -parallel mpi_omp."; exit 1
659	fi
660	}
661
662	function compile_orchidee {
663	install_arch "ORCHIDEE"
664
665	if [[ $veget != "none" ]]; then
666	cd "$MODEL/modipsl/modeles/ORCHIDEE"
667
668	local xios_orchid
669	if [[ $with_xios = 1 ]]; then
670	xios_orchid="-xios";
671	else
672	xios_orchid="-noxios"
673	fi
674
675	if [[ $parallel != "none" && ! -d src_parallel ]]; then
676	echo "STOP: Orchidee version too old for parallel support"; exit 1
677	fi
678	do_compile_sh "ORCHIDEE" "$jobcmd ./makeorchidee_fcm -j $make_j $xios_orchid $optim_flag -parallel $parallel -arch $arch"
679	fi
680	}
681
682	function get_lmdz_version {
683	echo "Checking LMDZ source version"
684	LMDZPATH=$(readlink -e -f "$MODEL/modipsl/modeles/LMD"*)
685	cd "$LMDZPATH"
686
687	if [[ -n $svn_lmdz ]]; then
688	local curr_rev
689	curr_rev=$(svn info "$MODEL/modipsl/modeles/LMD"* \| grep Revision: \| cut -d ":" -f 2 \| cut -c 2-)
690	if [[ $svn_lmdz != "$curr_rev" ]]; then
691	local lmdzbranch
692	echo "Fetching LMDZ $svn_lmdz from the repository"
693	# lmdzbranch=$(get_svn_branch "https://svn.lmd.jussieu.fr/LMDZ" "$svn_lmdz")
694	lmdzbranch=$(get_svn_branch "http://svn.lmd.jussieu.fr/LMDZ" "$svn_lmdz")
695	echo "branch is $lmdzbranch"
696	cd "$MODEL/modipsl/modeles"
697	rm -rf LMD*
698	# svn co -r "$svn_lmdz" "https://svn.lmd.jussieu.fr/LMDZ/$lmdzbranch" LMDZ
699	svn co -r "$svn_lmdz" "http://svn.lmd.jussieu.fr/LMDZ/$lmdzbranch" LMDZ
700	cd - > /dev/null
701	fi
702	used_lmdz_rev=$svn_lmdz
703	else # get svn from info
704	set +e; used_lmdz_rev=$(svn info \| grep "Last Changed Rev" \| cut -c 19-); set -e
705	if [[ -z $used_lmdz_rev ]]; then # svn info failed
706	used_lmdz_rev=$(grep 'Revision: [0-9]' "$MODEL"/Read*.md \| awk ' { print $2 } ' 2>/dev/null)
707	if [[ -z $used_lmdz_rev ]]; then echo "Could not determine lmdz version. This is likely an issue with the .tar itself, please report to LMDZ team."; exit 1; fi
708	fi
709	fi
710	}
711
712	function compile_lmdz {
713	install_arch "LMDZ"
714	cd "$LMDZPATH"
715
716	if [[ $used_lmdz_rev -le 4185 ]]; then
717	exe_name="bin/${fortran_file}_${grid_resolution}_phy${compphysiq}_${suff_para}${suff_orc}${suff_aer}${suff_iso}.e"
718	else
719	exe_name="bin/${fortran_file}_${grid_resolution}_phy${compphysiq}_${rad}${suff_para}${suff_orc}${suff_aer}${suff_iso}.e"
720	fi
721
722	local opt_rad
723	case $rad in
724	oldrad) iflag_rrtm=0; NSW=2; opt_rad="";;
725	rrtm) iflag_rrtm=1; NSW=6
726	if [[ $used_lmdz_rev -le 4185 ]]; then
727	opt_rad="-rrtm true"
728	else
729	opt_rad="-rad rrtm"
730	fi;;
731	ecrad) iflag_rrtm=2; NSW=6; opt_rad="-rad ecrad";;
732	*) echo "Only oldrad rrtm ecrad for rad option"; exit 1
733	esac
734	if [[ $used_lmdz_rev -le 4185 && $rad = "ecrad" ]]; then
735	echo "ecrad only available for LMDZ rev starting with 4186 "; exit 1
736	fi
737
738	# Compile
739	local makelmdz="makelmdz_fcm $optim_flag -arch $arch -j $make_j"
740	local para_compile_opt="-mem -parallel $parallel"; if [[ $parallel = "none" ]]; then para_compile_opt=""; fi
741	do_compile_sh "LMDZ" "$jobcmd ./$makelmdz $opt_rad $opt_cosp $opt_makelmdz_xios $opt_aer $opt_inlandsis $opt_strataer $opt_isotopes -p $compphysiq -d ${grid_resolution} -v $fcm_veget_version $para_compile_opt $fortran_file"
742
743	# Check executable
744	if [[ ! -f $exe_name ]]; then
745	echo "STOP: Compilation failed, can't find the executable"; exit 1
746	else
747	echo "Compilation successful, the executable is $exe_name $(date)"
748	fi
749	}
750
751	function get_dynamico_icosa_version {
752	if [[ $icolmdz = 1 ]]; then
753	echo "Checking DYNAMICO source version"
754	cd "$MODEL/modipsl/modeles"
755	if [[ ! -d DYNAMICO ]]; then
756	git clone https://gitlab.in2p3.fr/ipsl/projets/dynamico/dynamico.git DYNAMICO
757	fi
758	cd DYNAMICO
759	git checkout master && git checkout $dynamico_commit
760	cd - > /dev/null
761
762	echo "Checking ICOSA_LMDZ source version"
763	if [[ ! -d ICOSA_LMDZ ]]; then
764	svn checkout http://svn.lmd.jussieu.fr/LMDZ/ICOSA_LMDZ
765	fi
766	cd ICOSA_LMDZ
767	svn up -r 5320
768	fi
769	}
770
771	function compile_icolmdzor {
772	if [[ $icolmdz = 1 ]]; then
773	install_arch "ICOSA_LMDZ"
774	local para_compile_opt="-parallel $parallel"; if [[ $parallel = "none" ]]; then para_compile_opt=""; fi
775
776	# LMDZ physics package library already available in LMDZ/config/lib directory
777
778	# Compile DYNAMICO
779	cd "$MODEL/modipsl/modeles/DYNAMICO"
780
781	# Need to get rather than install the archs as DYNAMICO uses FCMv2 that does not understand the makefile syntax ($shell)
782	cd arch
783	wget "http://lmdz.lmd.jussieu.fr/pub/src_archives/misc/arch/DYNAMICO/arch-$arch.env"
784	wget "http://lmdz.lmd.jussieu.fr/pub/src_archives/misc/arch/DYNAMICO/arch-$arch.fcm"
785	wget "http://lmdz.lmd.jussieu.fr/pub/src_archives/misc/arch/DYNAMICO/arch-$arch.path"
786	cd ..
787
788	do_compile_sh "DYNAMICO" "$jobcmd ./make_icosa $optim_flag -arch $arch -job $make_j $para_compile_opt -external_ioipsl -with_xios"
789
790	# Compile icosa_lmdz
791	echo "Bin PATH before icosalmdz" "$PATH"
792	cd "$MODEL/modipsl/modeles/ICOSA_LMDZ"
793	do_compile_sh "ICOSA_LMDZ" "$jobcmd ./make_icosa_lmdz -arch $arch -j $make_j -nodeps -p lmd $optim_flag $para_compile_opt -with_orchidee"
794	echo "# Running environment for icosa_lmdz" > icosalmdz.env
795	echo "# " >> icosalmdz.env
796	if [[ -v LD_LIBRARY_PATH ]]; then
797	echo "export LD_LIBRARY_PATH=$ncdfdir/lib:$LD_LIBRARY_PATH" >> icosalmdz.env
798	else
799	echo "export LD_LIBRARY_PATH=$ncdfdir/lib" >> icosalmdz.env
800	fi
801	fi
802	}
803
804	function run_bench {
805	local bench_cmd="./bench.sh"
806
807	cd "$MODEL/modipsl/modeles/LMDZ"*
808
809	if [[ $bench = "tuto" ]]; then
810	myget "Training/tutorial.tar"; tar xf tutorial.tar; cd TUTORIAL
811	./init.sh
812	elif [[ $bench = 1 ]]; then
813	rm -rf "BENCH${grid_resolution}"
814	local bench=bench_lmdz_${grid_resolution}
815	if [[ $compphysiq = "lmdiso" ]]; then bench=bench_lmdz_iso_${grid_resolution}; fi
816
817	if [[ $is_1D = "y" ]] ; then # 1D
818	myget "1D/1D.tar.gz"
819	mkdir -p "BENCH${grid_resolution}"
820	tar xf "1D.tar.gz" -C "BENCH${grid_resolution}" --strip-components=1
821	cd "BENCH${grid_resolution}"
822	# Below: ugly, but until we rewrite the 1D case...
823	sed -i'' -e "s:^listecas=.*$:listecas=ARMCU/REF:" -e "s:cd \$local/bin ; ./compile -L \$L:#cd \$local/bin ; ./compile -L \$L:" \
824	-e "s:./compile -L \$llm:#./compile -L \$llm:" -e "s:ln -sf \$bin/\\\\\${main}\${suffixe}.e .:ln -sf ../../../../../$exe_name \\\\\${main}\${suffixe}.e:" -e "s:gzip listing:cp listing restartphy.nc ../../../../; exit 0:" \
825	run.sh
826	cp "../$exe_name" bin/
827	bench_cmd="./run.sh -rad $rad" # suppress ferret commands that launch after bench is "over"
828	else
829	myget "3DBenchs/$bench.tar.gz"
830	mkdir "BENCH${grid_resolution}"
831	tar xf "$bench.tar.gz" -C "BENCH${grid_resolution}" --strip-components=1
832
833	if [[ $cosp = "v1" \|\| $cosp = "v2" ]]; then
834	cd "BENCH${grid_resolution}"
835	# copier les fichiers namelist input et output our COSP
836	cp ../DefLists/cosp*_input_nl.txt .
837	cp ../DefLists/cosp*_output_nl.txt .
838	# Activer la cles ok_cosp pour tourner avec COSP
839	sed -e 's@ok_cosp=n@ok_cosp=y@' config.def > tmp
840	\mv -f tmp config.def
841	cd ..
842	fi
843
844	if [[ -n "$benchphysiq" ]]; then
845	cd "BENCH${grid_resolution}"
846	if [[ -f "physiq.def_${benchphysiq}" ]]; then
847	cp "physiq.def_${benchphysiq}" benchphysiq.def
848	echo "using physiq.def_${benchphysiq}"
849	else
850	echo "using standard physiq.def"
851	fi
852	cd ..
853	else
854	echo "using standard physiq.def"
855	fi
856
857	if [[ $with_xios = 1 ]]; then
858	cd "BENCH${grid_resolution}"
859	cp ../DefLists/iodef.xml .
860	cp ../DefLists/context_lmdz.xml .
861	cp ../DefLists/field_def_lmdz.xml .
862	# A raffiner par la suite
863	echo "A FAIRE : Copier les *xml en fonction de l option cosp"
864	cp ../DefLists/field_def_cosp*.xml .
865	cp ../DefLists/file_def_hist*xml .
866	# adapt iodef.xml to use attached mode
867	sed -e 's@"using_server" type="bool">true@"using_server" type="bool">false@' \
868	iodef.xml > tmp
869	\mv -f tmp iodef.xml
870
871	# and convert all the enabled="_AUTO_" (for libIGCM) to enabled=.FALSE.
872	# except for histday
873	for histfile in file_def_hist*xml; do
874	if [[ "$histfile" = "file_def_histday_lmdz.xml" ]]; then
875	sed -e 's@enabled="_AUTO_"@type="one_file" enabled=".TRUE."@' \
876	"$histfile" > tmp
877	\mv -f tmp "$histfile"
878	sed -e 's@output_level="_AUTO_"@output_level="5"@' "$histfile" \
879	> tmp
880	\mv -f tmp "$histfile"
881	sed -e 's@compression_level="2"@compression_level="0"@' \
882	"$histfile" > tmp
883	\mv -f tmp "$histfile"
884	else
885	sed -e 's@enabled="_AUTO_"@type="one_file" enabled=".FALSE."@' \
886	"$histfile" > tmp
887	\mv -f tmp "$histfile"
888	fi
889	done
890	# and add option "ok_all_xml=y" in config.def
891	echo "### XIOS outputs" >> config.def
892	echo 'ok_all_xml=.true.' >> config.def
893
894	#activer les sorties pour Cosp
895	if [[ "$cosp" = "v1" ]]; then
896	sed -i'' -e 's@enabled=".FALSE."@enabled=".TRUE."@' \
897	-e 's@output_level="_AUTO_"@output_level="5"@' \
898	-e 's@compression_level="2"@compression_level="0"@' \
899	file_def_histdayCOSP_lmdz.xml
900	fi
901	if [[ "$cosp" = "v2" ]]; then
902	sed -i'' -e 's@compression_level="2"@compression_level="0"@' file_def_histdayCOSPv2_lmdz.xml
903	for type_ in hf day mth; do
904	file=file_def_hist${type_}COSP
905	sed -i'' -e 's@src="./'${file}'_lmdz.xml"@src="./'${file}'v2_lmdz.xml"@' context_lmdz.xml
906	done
907	sed -i'' -e 's@field_def_cosp1.xml@field_def_cospv2.xml@' field_def_lmdz.xml
908	fi
909
910	cd ..
911	fi
912
913	# Cas Bench avec ecrad
914	if [[ $rad = "ecrad" ]]; then
915	cd "BENCH${grid_resolution}"
916	cp ../DefLists/namelist_ecrad .
917	cp -r ../libf/phylmd/ecrad/data .
918	cd ..
919	fi
920
921	# Adjusting bench physiq.def to radiative code chosen
922	cd "BENCH${grid_resolution}"
923	sed -e 's/iflag_rrtm=.*.$/iflag_rrtm='$iflag_rrtm'/' \
924	-e 's/NSW=.*.$/NSW='$NSW'/' physiq.def > tmpdef
925	\mv tmpdef physiq.def
926	cd ..
927
928	cp "$exe_name" "BENCH${grid_resolution}/gcm.e"
929	cd "BENCH${grid_resolution}"
930
931	if [[ ${parallel:0:3} = "mpi" ]]; then
932	# Lancement avec deux procs mpi et 2 openMP
933	echo "export OMP_STACKSIZE=800M" > bench.sh
934	if [[ "${parallel:4:3}" = "omp" ]]; then
935	echo "export OMP_NUM_THREADS=2" >> bench.sh
936	fi
937	if [[ $cosp = "v1" \|\| $cosp = "v2" ]]; then
938	echo "ulimit -s 200000" >> bench.sh
939	else
940	echo "ulimit -s unlimited" >> bench.sh
941	fi
942	if [[ $(which "mpirun") != "" ]]; then
943	echo "mpirun -np 2 gcm.e &> listing" >> bench.sh
944	elif grep -q "Adastra" /etc/motd; then
945	local account
946	account=$(/usr/sbin/my_project.py -l 2>&1 \| head -1 \| cut -d " " -f 3- \| cut -c 5-)
947	bench_cmd="srun --nodes=1 --ntasks=1 --cpus-per-task=2 --threads-per-core=2 --time=0:10:00 --constraint=GENOA --account=$account bash bench.sh"
948	echo "./gcm.e &> listing" >> bench.sh
949	else
950	echo "Error: No command found to run parallel bench"; exit 1
951	fi
952	if [[ $(hostname \| cut -c -6) = "spirit" ]]; then # ulimit unlimited segfaults on Spirit
953	sed -i'' "s/ulimit -s unlimited/ulimit -Ss 8000/" bench.sh
954	fi
955	# Add rebuild, using reb.sh if it is there
956	cat <<EOF >> bench.sh
957	if [[ -f reb.sh ]]; then
958	./reb.sh histday; ./reb.sh histmth; ./reb.sh histhf;
959	./reb.sh histins; ./reb.sh stomate_history;
960	./reb.sh sechiba_history; ./reb.sh sechiba_out_2
961	fi
962	EOF
963	else
964	echo "./gcm.e &> listing" > bench.sh
965	fi
966	chmod +x bench.sh
967	# Getting orchidee stuff
968	if [[ $veget = 'CMIP6' \|\| $veget = "orch2.0" ]]; then # TODO once we have a 2.2 bench, add it here (or in planned separate bench script)
969	echo 'myget 3DBenchs/BENCHCMIP6.tar.gz'
970	myget 3DBenchs/BENCHCMIP6.tar.gz
971	tar xvzf BENCHCMIP6.tar.gz
972	sed -e "s:VEGET=n:VEGET=y:" config.def > tmp
973	mv -f tmp config.def
974	if [[ $with_xios = 1 ]]; then
975	cp ../../ORCHIDEE/src_xml/context_orchidee.xml .
976	echo '<context id="orchidee" src="./context_orchidee.xml"/>' > add.tmp
977	cp ../../ORCHIDEE/src_xml/field_def_orchidee.xml .
978	cp ../../ORCHIDEE/src_xml/file_def_orchidee.xml .
979	cp ../../ORCHIDEE/src_xml/file_def_input_orchidee.xml .
980	if [[ -f ../../ORCHIDEE/src_xml/context_input_orchidee.xml ]]; then
981	cp ../../ORCHIDEE/src_xml/context_input_orchidee.xml .
982	echo '<context id="orchidee" src="./context_input_orchidee.xml"/>' >> add.tmp
983	fi
984	sed -e '/id="LMDZ"/r add.tmp' iodef.xml > tmp
985	mv tmp iodef.xml
986	sed -e'{/sechiba1/ s/enabled="_AUTO_"/type="one_file" enabled=".TRUE."/}' \
987	file_def_orchidee.xml > tmp
988	\mv -f tmp file_def_orchidee.xml
989	sed -e 's@enabled="_AUTO_"@type="one_file" enabled=".FALSE."@' \
990	file_def_orchidee.xml > tmp
991	\mv -f tmp file_def_orchidee.xml
992	sed -e 's@output_level="_AUTO_"@output_level="1"@' \
993	file_def_orchidee.xml > tmp
994	\mv -f tmp file_def_orchidee.xml
995	sed -e 's@output_freq="_AUTO_"@output_freq="1d"@' \
996	file_def_orchidee.xml > tmp
997	\mv -f tmp file_def_orchidee.xml
998	sed -e 's@compression_level="4"@compression_level="0"@' \
999	file_def_orchidee.xml > tmp
1000	\mv -f tmp file_def_orchidee.xml
1001	sed -e 's@XIOS_ORCHIDEE_OK = n@XIOS_ORCHIDEE_OK = y@' \
1002	orchidee.def > tmp
1003	\mv -f tmp orchidee.def
1004	fi
1005	fi
1006
1007	fi
1008
1009	if [[ -f ../arch.env ]]; then source ../arch.env; fi
1010
1011	echo "STARTING BENCH"
1012	date
1013	if (! $bench_cmd &> out.bench) \|\| ! (tail -n 1 listing \| grep "Everything is cool"); then
1014	tail listing
1015	echo "Bench FAILED, exiting"; exit 1
1016	fi
1017	date
1018	tail listing
1019	fi
1020
1021	# 1D case
1022	if [[ $SCM = 1 ]]; then
1023	cd "$MODEL"
1024	myget 1D/1D.tar.gz
1025	tar xf 1D.tar.gz
1026	cd 1D
1027	for e in "fcm" "env" "path"; do
1028	cp "$MODEL/modipsl/modeles/LMDZ/arch/arch-$arch.$e" "$MODEL/modipsl/modeles/LMDZ/arch/arch-local.$e"
1029	done
1030	if [[ $rad = "oldrad" ]]; then
1031	sed -i'' -e 's/^rad=.*$/rad=oldrad/' run.sh
1032	sed -i'' -e 's/^rad=.*$/rad=oldrad/' bin/compile
1033	elif [[ $rad = ecrad ]] ; then
1034	sed -i'' -e 's/^rad=.*$/rad=ecrad/' run.sh
1035	sed -i'' -e 's/^rad=.*$/rad=ecrad/' bin/compile
1036	fi
1037	sed -i -e "s:^fcm=0:fcm=1:" bin/compile
1038	echo "Running 1D/run.sh, log in $(pwd)/run1d.log"
1039	./run.sh &> "$(pwd)/run1d.log"
1040	fi
1041	}
1042
1043	function run_bench_icosa {
1044	local bench_cmd="./bench.sh"
1045
1046	if [[ $icolmdz = 1 ]]; then
1047	cd "$MODEL/modipsl/modeles/ICOSA_LMDZ"
1048	if [[ $bench = 1 ]]; then
1049	namebench="bench_icolmdz_nbp10_79"
1050	rm -rf $namebench
1051	myget "3DBenchs/$namebench.tar.gz"
1052	mkdir -p $namebench
1053	tar xf "$namebench.tar.gz" -C "$namebench" --strip-components=1
1054	cd $namebench
1055	# copy executables
1056	if [[ ! -x ../bin/icosa_lmdz.exe ]]; then
1057	echo "STOP in icosa_lmdz bench, icosa_lmdz.exe executable not present"; exit 1
1058	fi
1059	cp ../bin/icosa_lmdz.exe .
1060	if [[ ! -x ../../XIOS/bin/xios_server.exe ]]; then
1061	echo "STOP in icosa_lmdz bench, XIOS executable not present"; exit 1
1062	fi
1063	cp ../../XIOS/bin/xios_server.exe .
1064	echo "STARTING ICOSA_LMDZ BENCH"
1065	date
1066	if (! $bench_cmd &> out.bench) \|\| ! ( grep "Time elapsed" listing); then
1067	tail listing
1068	echo "ICOSA_LMDZ bench FAILED, exiting"; exit 1
1069	fi
1070	date
1071	echo "ICOSA_LMDZ bench finished"
1072	fi
1073	fi
1074
1075	}
1076	# If sourced: returns, else run setup
1077	if [[ ! "${BASH_SOURCE[0]}" = "$0" ]]; then return 0; fi
1078
1079	echo "install_lmdz.sh DEBUT $(date)"
1080
1081	function wrapper_run_all() {
1082	# This is a wrapper to catch any "unexpected" error due to set -e and avoid abrupt stoppage which may confuse the user
1083	set_default_params
1084	read_cmdline_args "$@"
1085	ensure_correct_option_combinations
1086	download_modipsl_tar
1087	get_lmdz_version
1088	get_dynamico_icosa_version
1089	get_orchidee_version
1090	init_arch
1091	check_available_software
1092	check_compiler
1093	install_netcdf
1094	install_IOIPSL
1095	install_XIOS
1096	compile_orchidee
1097	compile_lmdz
1098	compile_icolmdzor
1099	run_bench
1100	run_bench_icosa
1101	}
1102
1103	set +e; (set -e && wrapper_run_all "$@"); err_status=$?; set -e # workaround to make sure set -e is propagated to wrapper_run_all & check the result
1104	if (($err_status)); then
1105	echo "EXIT (error)"
1106	echo "install_lmdz.sh failed"
1107	set +u
1108	if [[ $verbose != 1 ]]; then
1109	echo "Consider using the \`-verbose\` flag to see precisely where it stopped."
1110	fi
1111	fi

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