Context Navigation

source: BOL/script_install/install_lmdz.sh @ 4784

Last change on this file since 4784 was 4784, checked in by idelkadi, 5 months ago
Fixed error in install_lmdz.sh script to enable Cosp simulator in LMDZ
Property svn:executable set to ``*
File size: 57.8 KB

Line
1	#!/bin/bash
2
3	#set -vx
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 : pgf90/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	echo install_lmdz.sh DEBUT `date`
39	set -e
40
41	################################################################
42	# Choice of installation options
43	################################################################
44
45	################################################################
46	# A function to fetch files either locally or on the internet
47	################################################################
48	function myget { #1st and only argument should be file name
49	# Path on local computer where to look for the datafile
50	if [ -f /u/lmdz/WWW/LMDZ/pub/$1 ] ; then
51	\cp -f -p /u/lmdz/WWW/LMDZ/pub/$1 .
52	elif [ -f ~/LMDZ/pub/$1 ] ; then
53	\cp -f -p ~/LMDZ/pub/$1 .
54	else
55	wget --no-check-certificate -nv http://lmdz.lmd.jussieu.fr/pub/$1
56	save_pub_locally=0
57	if [ $save_pub_locally = 1 ] ; then # saving wget files on ~/LMDZ/pub
58	dir=~/LMDZ/pub/`dirname $1` ; mkdir -p $dir
59	cp -r `basename $1` $dir
60	fi
61	fi
62	}
63
64	# 04_2021 : tester si r4 marche encore !
65	#real=r4
66	real=r8
67
68
69	#########################################################################
70	# Valeur par défaut des parametres
71	#########################################################################
72	svn=""
73	#version=trunk
74	version=20231022.trunk
75
76	getlmdzor=1
77	netcdf=1 # 1: for automatic installation;
78	# or 0: do not install NetCDF and look for it in standard locations;
79	# or absolute path: look for NetCDF there
80	check_linux=1
81	ioipsl=1
82	bench=1
83	pclinux=1
84	pcmac=0 # default: not on a Mac
85	compiler=gfortran
86	if [ `gfortran -dumpversion \| cut -d. -f1` -ge 10 ] ; then allow_arg_mismatch="-fallow-argument-mismatch" ; fi
87	SCM=0
88	# surface/vegetation scheme treatment
89	# controlled by the single variable veget which can have the following values
90	# - NONE: bucket scheme (default)
91	# - CMIP6: orchidee version used in CMIP exercise, rev 5661
92	# - number: orchidee version number
93	veget=NONE
94	# choose the resolution for the bench runs
95	# grid_resolution= 32x24x11 or 48x36x19 for tests (test without ORCHIDEE)
96	# 96x71x19 standard configuration
97	grid_resolution=144x142x79
98	grid_resolution=96x95x39
99	grid_resolution=48x36x19
100	grid_resolution=32x32x39
101	# choose the physiq version you want to test
102	#physiq=NPv6.0.14splith
103	physiq=
104
105	## parallel can take the values none/mpi/omp/mpi_omp
106	parallel=mpi_omp
107	parallel=none
108	idris_acct=lmd
109	trusting=testing
110	OPT_GPROF=""
111	OPT_MAKELMDZ=""
112	MODEL=""
113
114	## also compile XIOS? (and more recent NetCDF/HDF5 libraries) Default=no
115	with_xios="n"
116	opt_makelmdz_xios=""
117
118	## compile with oldrad/rrtm/ecrad radiatif code (Default=rrtm)
119	rad=rrtm
120
121	## compile_with_fcm=1 : use makelmdz_fcm (1) or makelmdz (0)
122	compile_with_fcm=1
123
124	#Compilation with Cosp (cosp=NONE/v1/v2 ; default=NONE)
125	cosp=NONE
126	opt_cosp=""
127
128	# Check if on a Mac
129	if [ `uname` = "Darwin" ]
130	then
131	pcmac=1
132	export MAKE=make
133	fi
134	#echo "pcmac="$pcmac
135
136	env_file=""
137
138	#########################################################################
139	# Options interactives
140	#########################################################################
141	while (($# > 0))
142	do
143	case $1 in
144	"-h") cat <<........fin
145	$0 [ -v version ] [ -r svn_release ]
146	[ -parallel PARA ] [ -d GRID_RESOLUTION ] [ -bench 0/1 ]
147	[-name LOCAL_MODEL_NAME] [-gprof] [-opt_makelmdz] [-rad RADIATIF]
148
149	-v "version" like 20150828.trunk
150	see http://www.lmd.jussieu.fr/~lmdz/Distrib/LISMOI.trunk
151
152	-r "svn_release" : either the svn release number or "last"
153
154	-compiler gfortran\|ifort\|pgf90 (default: gfortran)
155
156	-parallel PARA : can be mpi_omp (mpi with openMP) or none (for sequential)
157
158	-d GRID_RESOLUTION should be among the available benchs if -bench 1
159	among which : 48x36x19, 48x36x39
160	if wanting to run a bench simulation in addition to compilation
161	default : 48x36x19
162
163	-bench activating the bench or not (0/1). Default 1
164
165	-testing/unstable
166
167	-name LOCAL_MODEL_NAME : default = LMDZversion.release
168
169	-netcdf 0, 1 or PATH
170	0: do not download NetCDF, look for it in standard locations
171	1: download and compile NetCDF
172	PATH: full path to an existing installed NetCDF library
173
174	-xios also download and compile the XIOS library
175	(requires the NetCDF4-HDF5 library, also installed by default)
176	(requires to also have -parallel mpi_omp)
177
178	-gprof to compile with -pg to enable profiling with gprof
179
180	-cosp to run without our with cospv1 or cospv2 [none/v1/v2]
181
182	-rad RADIATIF can be oldrad, rrtm or ecrad radiatif code
183
184	-nofcm to compile without fcm
185
186	-SCM install 1D version automatically
187
188	-debug compile everything in debug mode
189
190	-opt_makelmdz to call makelmdz or makelmdz_fcm with additional options
191
192	-physiq to choose which physics package to use
193
194	-env_file specify an arch.env file to overwrite the existing one
195
196	-veget surface model to run [NONE/CMIP6/xxxx]
197
198	........fin
199	exit ;;
200	"-v") version=$2 ; shift ; shift ;;
201	"-r") svn=$2 ; shift ; shift ;;
202	"-compiler") compiler=$2
203	case $compiler in
204	"gfortran"\|"ifort"\|"pgf90") compiler=$2 ; shift
205	shift ;;
206	*) echo "Only gfortran , ifort or pgf90 for the " \
207	"compiler option"
208	exit
209	esac ;;
210	"-d") grid_resolution=$2 ; shift ; shift ;;
211	"-gprof") OPT_GPROF="-pg" ; shift ;;
212	"-unstable"\|"-testing") trusting=`echo $1 \| cut -c2-` ; shift ;;
213	"-cosp") cosp=$2
214	case $cosp in
215	"none"\|"v1"\|"v2") cosp=$2 ; shift ; shift ;;
216	*) echo Only none v1 v2 for cosp option ; exit
217	esac ;;
218	"-nofcm") compile_with_fcm=0 ; echo This option will be reactivated soon '(promesse du 8dec2022)' ; exit 1 ; shift ;;
219	"-SCM") SCM=1 ; shift ;;
220	"-opt_makelmdz") OPT_MAKELMDZ="$2" ; shift ; shift ;;
221	"-rrtm") rrtm="$2"
222	if [ "$2" = "false" ] ; then
223	rad="oldrad"
224	else
225	rad="rrtm"
226	fi
227	shift ; shift ;;
228	"-rad") rad=$2
229	case $rad in
230	"oldrad"\|"rrtm"\|"ecrad") rad=$2 ; shift ; shift ;;
231	*) echo Only oldrad rrtm ecrad for rad option ; exit
232	esac ;;
233	"-parallel") parallel=$2
234	case $parallel in
235	"none"\|"mpi"\|"omp"\|"mpi_omp") parallel=$2 ; shift
236	shift ;;
237	*) echo Only none mpi omp mpi_omp for the parallel \
238	option
239	exit
240	esac ;;
241	"-bench") bench=$2 ; shift ; shift ;;
242	"-debug") optim=-debug ; shift ;;
243	"-name") MODEL=$2 ; shift ; shift ;;
244	"-netcdf") netcdf=$2 ; shift ; shift ;;
245	"-physiq") physiq=$2 ; shift ; shift ;;
246	"-xios") with_xios="y" ; shift ;;
247	"-env_file") env_file=$2 ; shift ; shift ;;
248	"-veget") veget=$2 ; shift ; shift ;;
249	*) bash install_lmdz.sh -h ; exit
250	esac
251	done
252
253	# Option de compilation du rayonnement : depend de $mysvn ><= r4185,
254	# sera donc definie plus bas
255
256	#opt_rad=""
257	#case $rad in
258	# rrtm) opt_rad="-rad rrtm" ;;
259	# ecrad) opt_rad="-rad ecrad" ;;
260	#esac
261
262	# Option de compilation pour Cosp
263	opt_cosp=""
264	case $cosp in
265	v1) opt_cosp="-cosp true" ;;
266	v2) opt_cosp="-cospv2 true" ;;
267	esac
268
269	# Check on veget version
270	#if [ "$veget" != 'NONE' -a "$veget" != "CMIP6" -a "$veget" != +([0-9]) ] ; then
271	if [ $veget != 'NONE' -a $veget != "CMIP6" ] ; then
272	re='^[0-9]+$'
273	if ! [[ $veget =~ $re ]] ; then
274	echo 'Valeur de l option veget non valable'
275	exit
276	fi
277	fi
278
279	#Define veget-related suffix for gcm name
280	if [ "$veget" = 'NONE' ] ; then
281	suff_orc=''
282	#For use with tutorial, orchidee_rev is also defined (will be
283	#written in surface_env at the end of the script)
284	orchidee_rev=''
285	else
286	suff_orc='_orch'
287	fi
288
289
290	if [ $parallel = none ] ; then
291	sequential=1; suff_exe='_seq'
292	else
293	sequential=0; suff_exe='_para_mem'
294	fi
295
296	#Chemin pour placer le modele
297	if [ "$MODEL" = "" ] ; then MODEL=./LMDZ$version$svn$optim ; fi
298
299
300	arch=local
301
302
303	if [ $compiler = g95 ] ; then echo g95 is not supported anymore ; exit ; fi
304
305	################################################################
306	# Specificite des machines
307	################################################################
308
309	hostname=`hostname`
310	if [ "$pclinux" = 1 ] ; then o_ins_make="-t g95" ; else o_ins_make="" ; fi
311
312	case ${hostname:0:5} in
313
314	jean-) compiler="mpiifort" ;
315	par_comp="mpiifort" ;
316	o_ins_make="-t jeanzay" ;
317	make=gmake ;
318	module purge
319	module load intel-compilers/19.0.4 ;
320	#module load intel-mpi/19.0.4 ;
321	#module load intel-mkl/19.0.4 ;
322	module load hdf5/1.10.5-mpi ;
323	module load netcdf/4.7.2-mpi ;
324	module load netcdf-fortran/4.5.2-mpi ;
325	module load subversion/1.9.7 ;
326	module load cmake
327	export NETCDF_LIBDIR=./
328	export NETCDFFORTRAN_INCDIR=./
329	export NETCDFFORTRAN_LIBDIR=./
330	arch=X64_JEANZAY ;;
331
332	cicla\|camel) compiler="gfortran" ;
333	module purge
334	module load gnu/10.2.0
335	module load openmpi/4.0.5
336	module load hdf5/1.10.7-mpi
337	module load netcdf-c/4.7.4-mpi
338	module load netcdf-fortran/4.5.3-mpi
339	netcdf=/net/nfs/tools/PrgEnv/linux-scientific6-x86_64/gcc-10.2.0/netcdf-fortran-4.5.3-k3drgfqok3lip62hnm3tsyof4cjen5sk
340	module load svn/1.14.0
341
342	if [ $parallel != none ] ; then
343	root_mpi=/net/nfs/tools/meso-sl6/openmpi/4.0.5-gcc-10.2.0
344	path_mpi=$root_mpi/bin ;
345	par_comp=${path_mpi}/mpif90 ;
346	mpirun=${path_mpi}/mpirun ;
347	fi ;
348	arch=local ;
349	make=make ;
350	o_ins_make="-t g95" ;;
351
352	*) if [ $parallel = none -o -f /usr/bin/mpif90 ] ; then
353	path_mpi=`which mpif90 \| sed -e s:/mpif90::` ;
354	if [ -d /usr/lib64/openmpi ] ; then
355	root_mpi="/usr/lib64/openmpi"
356	else
357	root_mpi="/usr"
358	fi
359	else
360	echo "Cannot find mpif90" ;
361	if [ $parallel = none ] ; then exit ; fi ;
362	fi ;
363	if [ $parallel != none ] ; then
364	root_mpi=$(which mpif90 \| sed -e s:/bin/mpif90::)
365	path_mpi=$(which mpif90 \| sed -e s:/mpif90::)
366	export LD_LIBRARY_PATH=${root_mpi}/lib:$LD_LIBRARY_PATH
367	fi
368	par_comp=${path_mpi}/mpif90 ;
369	mpirun=${path_mpi}/mpirun ;
370	arch=local ;
371	make=make ;
372	o_ins_make="-t g95"
373	esac
374
375	# Flags for parallelism:
376	if [ $parallel != none ] ; then
377	# MPI_LD are the flags needed for linking with MPI
378	MPI_LD="-L${root_mpi}/lib -lmpi"
379	if [ "$compiler" = "gfortran" ] ; then
380	# MPI_FLAGS are the flags needed for compilation with MPI
381	MPI_FLAGS="-fcray-pointer"
382	# OMP_FLAGS are the flags needed for compilation with OpenMP
383	OMP_FLAGS="-fopenmp -fcray-pointer"
384	# OMP_LD are the flags needed for linking with OpenMP
385	OMP_LD="-fopenmp"
386	elif [ "$compiler" = "ifort" ] ; then
387	MPI_FLAGS=""
388	OMP_FLAGS="-openmp"
389	OMP_LD="-openmp"
390	else # pgf90
391	MPI_FLAGS=""
392	OMP_FLAGS="-mp"
393	OMP_LD="-mp"
394	fi
395	fi
396
397	#####################################################################
398	# Test for old gfortran compilers
399	# If the compiler is too old (older than 4.3.x) we test if the
400	# temporary gfortran44 patch is available on the computer in which
401	# case the compiler is changed from gfortran to gfortran44
402	# Must be aware than parallelism can not be activated in this case
403	#####################################################################
404
405	if [ "$compiler" = "gfortran" ] ; then
406	gfortran=gfortran
407	gfortranv=`gfortran --version \| \
408	head -1 \| awk ' { print $NF } ' \| awk -F. ' { print $1 * 10 + $2 } '`
409	if [ $gfortranv -le 43 ] ; then
410	echo ERROR : Your gfortran compiler is too old
411	echo 'Please choose a new one (ifort) and change the line'
412	echo compiler=xxx
413	echo in the install_lmdz.sh script and rerun it
414	if [ `which gfortran44 \| wc -w` -ne 0 ] ; then
415	gfortran=gfortran44
416	else
417	echo gfotran trop vieux ; exit
418	fi
419	fi
420	compiler=$gfortran
421	fi
422	#####################################################################
423
424	## if also compiling XIOS, parallel must be mpi_omp
425	if [ "$with_xios" = "y" -a "$parallel" != "mpi_omp" ] ; then
426	echo "Error, you must set -parallel mpi_omp if you want XIOS"
427	exit
428	fi
429
430	if [ "$with_xios" = "y" ] ; then
431	opt_makelmdz_xios="-io xios"
432	fi
433
434	if [ "$cosp" = "v2" -a "$with_xios" = "n" ] ; then
435	echo "Error, Cospv2 cannot run without Xios"
436	exit
437	fi
438
439	echo '################################################################'
440	echo Choix des options de compilation
441	echo '################################################################'
442
443	export FC=$compiler
444	export F90=$compiler
445	export F77=$compiler
446	export CPPFLAGS=
447	OPTIMNC=$OPTIM
448	BASE_LD="$OPT_GPROF"
449	OPTPREC="$OPT_GPROF"
450	ARFLAGS="rs"
451	if [ "`lsb_release -i -s`" = "Ubuntu" ] ; then
452	if [ "`lsb_release -r -s \| cut -d. -f1`" -ge 16 ] ; then
453	ARFLAGS="rU"
454	fi
455	fi
456
457	if [ "$compiler" = "$gfortran" ] ; then
458	OPTIM="-O3 $allow_arg_mismatch"
459	OPTDEB="-g3 -Wall -fbounds-check -ffpe-trap=invalid,zero,overflow -O0 -fstack-protector-all -fbacktrace -finit-real=snan $allow_arg_mismatch"
460	OPTDEV="-Wall -fbounds-check $allow_arg_mismatch"
461	fmod='I '
462	OPTPREC="$OPTPREC -cpp -ffree-line-length-0"
463	if [ $real = r8 ] ; then OPTPREC="$OPTPREC -fdefault-real-8 -DNC_DOUBLE" ; fi
464	export F90FLAGS=" -ffree-form $OPTIMNC"
465	export FFLAGS=" $OPTIMNC"
466	export CC=gcc
467	export CXX=g++
468	export fpp_flags="-P -C -traditional -ffreestanding"
469
470	elif [ $compiler = mpif90 ] ; then
471	OPTIM='-O3'
472	OPTDEB="-g3 -Wall -fbounds-check -ffpe-trap=invalid,zero,overflow -O0 -fstack-protector-all"
473	OPTDEV="-Wall -fbounds-check"
474	BASE_LD="$BASE_LD -lblas"
475	fmod='I '
476	if [ $real = r8 ] ; then
477	OPTPREC="$OPTPREC -fdefault-real-8 -DNC_DOUBLE -fcray-pointer"
478	fi
479	export F90FLAGS=" -ffree-form $OPTIMNC"
480	export FFLAGS=" $OPTIMNC"
481	export CC=gcc
482	export CXX=g++
483
484	elif [ $compiler = pgf90 ] ; then
485	OPTIM='-O2 -Mipa -Munroll -Mnoframe -Mautoinline -Mcache_align'
486	OPTDEB='-g -Mdclchk -Mbounds -Mchkfpstk -Mchkptr -Minform=inform -Mstandard -Ktrap=fp -traceback'
487	OPTDEV='-g -Mbounds -Ktrap=fp -traceback'
488	fmod='module '
489	if [ $real = r8 ] ; then OPTPREC="$OPTPREC -r8 -DNC_DOUBLE" ; fi
490	export CPPFLAGS="-DpgiFortran"
491	export CC=pgcc
492	export CFLAGS="-O2 -Msignextend"
493	export CXX=pgCC
494	export CXXFLAGS="-O2 -Msignextend"
495	export FFLAGS="-O2 $OPTIMNC"
496	export F90FLAGS="-O2 $OPTIMNC"
497	compile_with_fcm=1
498
499	elif [[ $compiler = ifort \|\| $compiler = mpiifort ]] ; then
500	OPTIM="-O2 -fp-model strict -ip -align all "
501	OPTDEV="-p -g -O2 -traceback -fp-stack-check -ftrapuv -check"
502	OPTDEB="-g -no-ftz -traceback -ftrapuv -fp-stack-check -check"
503	fmod='module '
504	if [ $real = r8 ] ; then OPTPREC="$OPTPREC -real-size 64 -DNC_DOUBLE" ; fi
505	export CPP="icc -E"
506	export FFLAGS="-O2 -ip -fpic -mcmodel=large"
507	export FCFLAGS="-O2 -ip -fpic -mcmodel=large"
508	export CC=icc
509	export CFLAGS="-O2 -ip -fpic -mcmodel=large"
510	export CXX=icpc
511	export CXXFLAGS="-O2 -ip -fpic -mcmodel=large"
512	export fpp_flags="-P -traditional"
513	# Pourquoi forcer la compilation fcm. Marche mieux sans
514	#compile_with_fcm=1
515	else
516	echo unexpected compiler $compiler ; exit
517	fi
518
519	OPTIMGCM="$OPTIM $OPTPREC"
520
521	hostname=`hostname`
522
523	##########################################################################
524	# If installing on known machines such as Jean-Zay at IDRIS,
525	# don't check for available software and don't install netcdf
526	if [ ${hostname:0:5} = jean- ] ; then
527	netcdf=0 # no need to recompile netcdf, alreday available
528	check_linux=0
529	pclinux=0
530	ioipsl=0 # no need to recompile ioipsl, already available
531	#netcdf="/smplocal/pub/NetCDF/4.1.3"
532	compiler="mpiifort"
533	fmod='module '
534	if [ $real = r8 ] ; then OPTPREC="$OPTPREC -i4 -r8 -DNC_DOUBLE" ; fi
535	OPTIM="-auto -align all -O2 -fp-model strict -xHost "
536	OPTIMGCM="$OPTIM $OPTPREC"
537	fi
538	##########################################################################
539
540
541	mkdir -p $MODEL
542	echo $MODEL
543	MODEL=`( cd $MODEL ; pwd )` # to get absolute path, if necessary
544
545
546	if [ "$check_linux" = 1 ] ; then
547	echo '################################################################'
548	echo Check if required software is available
549	echo '################################################################'
550
551	#### Ehouarn: test if the required shell is available
552	#### Maj FH-LF-AS 2021-04 : default=bash ; if bash missing, use ksh
553	use_shell="bash" # default
554	if [ "`which bash`" = "" ] ; then
555	echo "no bash ; we will use ksh"
556	use_shell="ksh"
557	if [ "`which ksh`" = "" ] ; then
558	echo "bash (or ksh) needed!! Install it!"
559	exit
560	fi
561	fi
562
563	for logiciel in wget tar gzip make $compiler gcc cmake m4 c++ ; do
564	if [ "`which $logiciel`" = "" ] ; then
565	echo You must first install $logiciel on your system
566	exit
567	fi
568	done
569
570	if [ $pclinux = 1 ] ; then
571	cd $MODEL
572	cat <<eod > tt.f90
573	print*,'coucou'
574	end
575	eod
576	$compiler tt.f90 -o a.out
577	./a.out >\| tt
578	if [ "`cat tt \| sed -e 's/ //g' `" != "coucou" ] ; then
579	echo problem installing with compiler $compiler ; exit ; fi
580	\rm tt a.out tt.f90
581	fi
582	fi
583
584	###########################################################################
585	if [ $getlmdzor = 1 -a ! -d $MODEL/modipsl ] ; then
586	###########################################################################
587	echo '##########################################################'
588	echo Download a slightly modified version of LMDZ
589	echo '##########################################################'
590	cd $MODEL
591	getlog=`pwd`/get.log
592	echo logfile : $getlog
593	myget src_archives/$trusting/modipsl.$version.tar.gz >> get.log 2>&1
594	echo install_lmdz.sh wget_OK `date`
595	gunzip modipsl.$version.tar.gz >> get.log 2>&1
596	tar xf modipsl.$version.tar >> get.log 2>&1
597	\rm modipsl.$version.tar
598	fi
599
600	###########################################################################
601	echo Installing Netcdf
602	###########################################################################
603
604	if [ $netcdf = 0 ] ; then
605	ncdfdir=/usr
606
607	else
608	cd $MODEL
609
610	case $compiler in
611	gfortran) opt1="-compiler gnu" ; opt2="-CC gcc -FC gfortran -CXX g++" ;;
612	ifort) opt1="-compiler intel" ; opt2="-CC icc -FC ifort -CXX icpc" ;;
613	pgf90) opt1="-compiler pgf90" ; opt2="-CC pgcc -FC pgf90 -CXX pgCC" ;;
614	*) echo "unexpected compiler $compiler" for netcdf ; exit 1
615	esac
616
617	case $with_xios in
618	n) script_install_netcdf=install_netcdf4_hdf5_seq.bash
619	ncdfdir=netcdf4_hdf5_seq
620	opt_=$opt1 ;;
621	y) script_install_netcdf=install_netcdf4_hdf5.bash
622	ncdfdir=netcdf4_hdf5
623	opt_="$opt2 -MPI $root_mpi" ;;
624	*) echo with_xios=$with_xios, should be n or y ; exit 1
625	esac
626	if [ $netcdf = 1 ] ; then
627	ncdfdir=$MODEL/$ncdfdir
628	else
629	mkdir -p $netcdf ; ncdfdir=$netcdf/$ncdfdir
630	fi
631
632	echo Repertoire netcdf $ncdfdir
633	if [ ! -d $ncdfdir ] ; then
634	netcdflog=`pwd`/netcdf.log
635	echo '----------------------------------------------------------'
636	echo Compiling the Netcdf library
637	echo '----------------------------------------------------------'
638	echo log file : $netcdflog
639	myget script_install/$script_install_netcdf >> $netcdflog 2>&1
640	chmod u=rwx $script_install_netcdf
641	./$script_install_netcdf -prefix $ncdfdir $opt_ >> $netcdflog 2>&1
642	fi
643
644	#----------------------------------------------------------------------------
645	# LF rajout d'une verrue, pour une raison non encore expliquee,
646	# la librairie est parfois rangée dans lib64 et non dans lib
647	# par certains compilateurs
648	if [ ! -e lib -a -d lib64 ] ; then ln -s lib64 lib; fi
649	#----------------------------------------------------------------------------
650
651	echo install_lmdz.sh netcdf_OK `date`
652
653	fi
654
655	cat >test_netcdf90.f90 <<EOF
656	use netcdf
657	print *, "NetCDF library version: ", nf90_inq_libvers()
658	end
659	EOF
660
661	$compiler -I$ncdfdir/include test_netcdf90.f90 -L$ncdfdir/lib -lnetcdff \
662	-lnetcdf -Wl,-rpath=$ncdfdir/lib && ./a.out
663
664	if (($? == 0))
665	then
666	rm test_netcdf90.f90 a.out
667	else
668	echo "Failed test program using NetCDF-Fortran."
669	echo "You can:"
670	echo "- check that you have NetCDF-Fortran installed in your system"
671	echo "- or specify an installation directory with option -netcdf of" \
672	"install_lmdz.sh"
673	echo "- or download and compile NetCDF-Fortran with option -netcdf 1 of" \
674	"install_lmdz.sh"
675	exit 1
676	fi
677
678	#=========================================================================
679	if [[ ! -f $MODEL/modipsl/lib/libioipsl.a ]]
680	then
681	if [ $ioipsl = 1 ] ; then
682	#=====================================================================
683	echo OK ioipsl=$ioipsl
684	echo '##########################################################'
685	echo 'Installing MODIPSL, the installation package manager for the '
686	echo 'IPSL models and tools'
687	echo '##########################################################'
688	echo `date`
689
690	cd $MODEL/modipsl
691	\rm -rf lib/*
692	cd util
693	cp AA_make.gdef AA_make.orig
694	F_C="$compiler -c "
695	if [ "$compiler" = "$gfortran" -o "$compiler" = "mpif90" ]
696	then
697	F_C="$compiler -c -cpp "
698	fi
699	if [ "$compiler" = "pgf90" ] ; then F_C="$compiler -c -Mpreprocess" ; fi
700	sed -e 's/^\#..g95..\#.*.$/\#/' AA_make.gdef > tmp
701	sed -e "s:F_L = g95:F_L = $compiler:" \
702	-e "s:F_C = g95 -c -cpp:F_C = $F_C": \
703	-e 's/g95..w_w..(F_D)/g95 w_w = '"$OPTIMGCM"'/' \
704	-e 's:g95..NCDF_INC..$:g95 NCDF_INC= '"$ncdfdir"'/include:' \
705	-e 's:g95..NCDF_LIB..$:g95 NCDF_LIB= -L'"$ncdfdir"'/lib -lnetcdff -lnetcdf:' \
706	-e 's:g95 L_O =:g95 L_O = -Wl,-rpath='"$ncdfdir"'/lib:' \
707	-e "s:-fmod=:-$fmod:" -e 's/-fno-second-underscore//' \
708	-e 's:#-Q- g95 M_K = gmake:#-Q- g95 M_K = make:' \
709	tmp >\| AA_make.gdef
710
711	if [ $pcmac == 1 ]
712	then
713	cp AA_make.gdef tmp
714	sed -e 's/rpath=/rpath,/g' tmp > AA_make.gdef
715	fi
716
717
718	# We use lines for g95 even for the other compilers to run ins_make
719	if [ "$use_shell" = "ksh" ] ; then
720	./ins_make $o_ins_make
721	else # bash
722	sed -e s:/bin/ksh:/bin/bash:g ins_make > ins_make.bash
723	if [ "`grep jeanzay AA_make.gdef`" = "" ] ; then
724	# Bidouille pour compiler sur ada des vieux modipsl.tar
725	echo 'Warning jean-zay not in AA_make.gdef'
726	echo 'Think about updating'
727	exit 1
728	fi
729
730	chmod u=rwx ins_make.bash
731	./ins_make.bash $o_ins_make
732	fi # of if [ "$use_shell" = "ksh" ]
733
734	echo install_lmdz.sh MODIPSL_OK `date`
735
736	cd $MODEL/modipsl/modeles/IOIPSL/src
737	ioipsllog=`pwd`/ioipsl.log
738	echo '##########################################################'
739	echo 'Compiling IOIPSL, the interface library with Netcdf'
740	echo '##########################################################'
741	echo `date`
742	echo log file : $ioipsllog
743
744	if [ "$use_shell" = "bash" ] ; then
745	cp Makefile Makefile.ksh
746	sed -e s:/bin/ksh:/bin/bash:g Makefile.ksh > Makefile
747	fi
748	### if [ "$pclinux" = 1 ] ; then
749	# Build IOIPSL modules and library
750	$make clean
751	$make > $ioipsllog 2>&1
752	if [ "$compiler" = "$gfortran" -o "$compiler" = "mpif90" ] ; then
753	# copy module files to lib
754	cp -f *.mod ../../../lib
755	fi
756	# Build IOIPSL tools (ie: "rebuild", if present)
757	# For IOIPSLv_2_2_2, "rebuild" files are in IOIPSL/tools
758	rebuild_dir=""
759	if [ -f $MODEL/modipsl/modeles/IOIPSL/tools/rebuild ] ; then
760	rebuild_dir=$MODEL/modipsl/modeles/IOIPSL/tools
761	elif [ -d $MODEL/modipsl/modeles/IOIPSL/rebuild ] ; then
762	rebuild_dir=$MODEL/modipsl/modeles/IOIPSL/rebuild
763	fi
764	if [ $rebuild_dir != "" ] ; then
765	cd $rebuild_dir
766	# adapt Makefile & rebuild script if in bash
767	if [ "$use_shell" = "bash" ] ; then
768	cp Makefile Makefile.ksh
769	sed -e s:/bin/ksh:/bin/bash:g Makefile.ksh > Makefile
770	cp rebuild rebuild.ksh
771	sed -e 's:/bin/ksh:/bin/bash:g' \
772	-e 's:print -u2:echo:g' \
773	-e 's:print:echo:g' rebuild.ksh > rebuild
774	fi
775	$make clean
776	$make > $ioipsllog 2>&1
777	fi
778	### fi # of if [ "$pclinux" = 1 ] which is commented out
779
780	else # of if [ $ioipsl = 1 ]
781	if [ ${hostname:0:5} = jean- ] ; then
782	cd $MODEL/modipsl
783	cd util
784	if [ "`grep jeanzay AA_make.gdef`" = "" ] ; then
785	echo 'Warning jean-zay not in AA_make.gdef'
786	echo 'Think about updating'
787	exit 1
788	fi
789	./ins_make $o_ins_make
790	# Compile IOIPSL on jean-zay
791	cd $MODEL/modipsl/modeles/IOIPSL/src
792	gmake > ioipsl.log
793	# For IOIPSLv_2_2_2, "rebuild" files are in IOIPSL/tools, so "gmake" in IOIPSL/tools is enough
794	# For IOIPSLv_2_2_5, "rebuild" files are in a separate IOIPSL/rebuild folder , while "tools" only contains "FCM"
795	if [ -f $MODEL/modipsl/modeles/IOIPSL/tools/Makefile ] ; then
796	cd $MODEL/modipsl/modeles/IOIPSL/tools
797	gmake > ioipsl.log
798	fi
799	if [ -d $MODEL/modipsl/modeles/IOIPSL/rebuild ] ; then
800	cd $MODEL/modipsl/modeles/IOIPSL/rebuild
801	gmake > ioipsl.log
802	fi
803
804	fi
805	echo install_lmdz.sh ioipsl_OK `date`
806	fi # of if [ $ioipsl = 1 ]
807	fi # of if [[ ! -f $MODEL/modipsl/lib/libioipsl.a ]]
808
809	#=========================================================================
810	if [ "$with_xios" = "y" ] ; then
811	echo '##########################################################'
812	echo 'Compiling XIOS'
813	echo '##########################################################'
814	cd $MODEL/modipsl/modeles
815	xioslog=`pwd`/xios.log
816	#wget http://www.lmd.jussieu.fr/~lmdz/Distrib/install_xios.bash
817	myget script_install/install_xios.bash
818	chmod u=rwx install_xios.bash
819	# following will be recalculated later on once LMDZ is updated
820	# mysvn=`svnversion LMDZ \| egrep -o "[0-9]+" 2>/dev/null`
821	mysvn=`grep 'Revision: [0-9]' $MODEL/Read*.md \| awk ' { print $2 } ' 2>/dev/null`
822	if [ "$svn" != "" ] ; then mysvn=$svn ; fi
823	echo mysvn $mysvn
824
825	if [ ${hostname:0:5} = jean- ] ; then
826	if [ $mysvn -ge 4619 ] ; then
827	svn co http://forge.ipsl.jussieu.fr/ioserver/svn/XIOS2/branches/xios-2.6 \
828	XIOS
829	else
830	svn co http://forge.ipsl.jussieu.fr/ioserver/svn/XIOS2/branches/xios-2.5 \
831	XIOS
832	fi
833	cd XIOS/arch
834	svn update
835	cd ..
836	echo "Compiling XIOS, start" `date` \
837	"(it takes about 20 min on Jean-Zay)"
838	echo "log file: $xioslog"
839	./make_xios --prod --arch $arch --job 4 > xios.log 2>&1
840	else
841	./install_xios.bash -prefix $MODEL/modipsl/modeles \
842	-netcdf ${ncdfdir} -hdf5 ${ncdfdir} \
843	-MPI $root_mpi -arch $arch > xios.log 2>&1
844	fi # of case Jean-Zay
845	if [ -f XIOS/lib/libxios.a ] ; then
846	echo "XIOS library successfully generated"
847	echo install_lmdz.sh XIOS_OK `date`
848	fi
849	fi
850
851	#============================================================================
852	veget_version=false
853	if [ "$veget" != 'NONE' ] ; then
854	cd $MODEL/modipsl/modeles/ORCHIDEE
855	set +e ; svn upgrade ; set -e
856	if [ "$veget" = "CMIP6" ] ; then
857	veget_version=orchidee2.0
858	orchidee_rev=6592
859	else # specific orchidee revision newer than CMIP6, on 2_1 or 2_2 branches
860	veget_version=orchidee2.1
861	orchidee_rev=$veget
862	if [ $veget -lt 4465 ] ; then
863	echo 'Stopping, ORCHIDEE version too old, script needs work on ' \
864	'the CPP flags to pass to makelmdz'
865	exit 1
866	fi
867	set +e
868	# which branch is my version on?
869	orcbranch=`svn log -v -q svn://forge.ipsl.jussieu.fr/orchidee/ -r $veget \|grep ORCHIDEE \|head -1\| sed -e 's:ORCHIDEE/.*$:ORCHIDEE:' \| awk '{print $2}'`
870	# switch to that branch
871	echo IF YOU INSTALL ORCHIDEE THE VERY FIRST TIME, ASK for PASSWORD at \
872	orchidee-help@listes.ipsl.fr
873	svn switch -r $veget --accept theirs-full \
874	svn://forge.ipsl.jussieu.fr/orchidee/$orcbranch
875	svn log -r $veget \| grep $veget
876	if [ $? -gt 0 ] ; then
877	echo 'Cannot update ORCHIDEE as not on the right branch for ' \
878	'ORCHIDEE'
879	exit
880	fi
881	set -e
882	set +e ; svn update -r $veget ; set -e
883	fi
884	# Correctif suite debug Jean-Zay
885	sed -i -e 's/9010 FORMAT(A52,F17.14)/9010 FORMAT(A52,F20.14)/' \
886	src_stomate/stomate.f90
887	opt_orc="-prod" ; if [ "$optim" = "-debug" ] ; then opt_orc="-debug" ; fi
888
889	orchideelog=`pwd`/orchidee.log
890	echo '########################################################'
891	echo 'Compiling ORCHIDEE, the continental surface model '
892	echo '########################################################'
893	echo Start of the first compilation of orchidee, in sequential mode: `date`
894	echo log file : $orchideelog
895
896	export ORCHPATH=`pwd`
897	xios_orchid="-noxios"
898	if [ "$with_xios" = "y" ] ; then
899	xios_orchid="-xios"
900	fi
901	if [ -d tools ] ; then
902	###################################################################
903	# Pour les experts qui voudraient changer de version d'orchidee.
904	# Attention : necessite d'avoir le password pour orchidee
905
906	# Correctif suite debug Jean-Zay
907	if [ -f src_global/time.f90 ] ; then
908	sed -i -e 's/CALL tlen2itau/\!CALL tlen2itau/' src_global/time.f90
909	fi
910	###################################################################
911	if [ "$veget_version" == "false" ] ; then
912	veget_version=orchidee2.0
913	fi
914	cd arch
915	sed -e s:"%COMPILER .*.$":"%COMPILER $compiler":1 \
916	-e s:"%LINK .*.$":"%LINK $compiler":1 \
917	-e s:"%FPP_FLAGS .*.$":"%FPP_FLAGS $fpp_flags":1 \
918	-e s:"%PROD_FFLAGS .*.$":"%PROD_FFLAGS $OPTIM":1 \
919	-e s:"%DEV_FFLAGS .*.$":"%DEV_FFLAGS $OPTDEV":1 \
920	-e s:"%DEBUG_FFLAGS .*.$":"%DEBUG_FFLAGS $OPTDEB":1 \
921	-e s:"%BASE_FFLAGS .*.$":"%BASE_FFLAGS $OPTPREC":1 \
922	-e s:"%BASE_LD .*.$":"%BASE_LD $BASE_LD":1 \
923	-e s:"%ARFLAGS .*.$":"%ARFLAGS $ARFLAGS":1 \
924	arch-gfortran.fcm > arch-local.fcm
925	echo "NETCDF_LIBDIR=\"-L${ncdfdir}/lib -lnetcdff -lnetcdf\"" \
926	> arch-local.path
927	echo "NETCDF_INCDIR=${ncdfdir}/include" >> arch-local.path
928	echo "IOIPSL_INCDIR=$ORCHPATH/../../lib" >> arch-local.path
929	echo "IOIPSL_LIBDIR=$ORCHPATH/../../lib" >> arch-local.path
930	echo 'XIOS_INCDIR=${ORCHDIR}/../XIOS/inc' >> arch-local.path
931	echo 'XIOS_LIBDIR="${ORCHDIR}/../XIOS/lib -lxios"' >> arch-local.path
932	cd ../
933
934	echo ./makeorchidee_fcm -j $xios_orchid $opt_orc -parallel none \
935	-arch $arch
936	./makeorchidee_fcm -j 8 $xios_orchid $opt_orc -parallel none \
937	-arch $arch > $orchideelog 2>&1
938	pwd
939	else # of "if [ -d tools ]"
940	if [ -d src_parallel ] ; then
941	liste_src="parallel parameters global stomate sechiba driver"
942	if [ "$veget_version" == "false" ] ; then
943	veget_version=orchidee2.0
944	fi
945	fi
946	for d in $liste_src ; do
947	src_d=src_$d
948	echo src_d $src_d
949	echo ls ; ls
950	if [ ! -d $src_d ] ; then
951	echo Problem orchidee : no $src_d ; exit
952	fi
953	cd $src_d ; \rm -f *.mod make ; $make clean
954	$make > $orchideelog 2>&1
955	if [ "$compiler" = "$gfortran" -o "$compiler" = "mpif90" ] ; then
956	cp -f *.mod ../../../lib
957	fi
958	cd ..
959	done
960	fi # of "if [ -d tools ]"
961	echo install_lmdz.sh orchidee_compil_seq_OK `date`
962	fi # of if [ "$veget" != 'NONE' ]
963
964
965	#============================================================================
966	# Ehouarn: the directory name LMDZ* depends on version/tar file...
967	if [ -d $MODEL/modipsl/modeles/LMD* ] ; then
968	echo '###############################################################'
969	echo 'Preparing LMDZ compilation : arch file, svn switch if needed...'
970	echo '###############################################################'
971	cd $MODEL/modipsl/modeles/LMD*
972	LMDZPATH=`pwd`
973	else
974	echo "ERROR: No LMD* directory !!!"
975	exit
976	fi
977
978	###########################################################
979	# For those who want to use fcm to compile via :
980	# makelmdz_fcm -arch local .....
981	############################################################
982
983
984
985	cd $MODEL/modipsl/modeles/LMDZ*
986	lmdzlog=`pwd`/lmdz.log
987
988	##################################################################
989	# Possibly update LMDZ if a specific svn release is requested
990	##################################################################
991
992	set +e ; svn upgrade ; set -e
993
994	if [ "$svn" = "last" ] ; then svnopt="" ; else svnopt="-r $svn" ; fi
995	if [ "$svn" != "" ] ; then
996	set +e ; svn info \| grep -q 'https:'
997	if [ $? = 0 ] ; then
998	svn switch --relocate https://svn.lmd.jussieu.fr/LMDZ \
999	http://svn.lmd.jussieu.fr/LMDZ
1000	fi
1001	svn update $svnopt
1002	set -e
1003	fi
1004
1005	#---------------------------------------------------------------------
1006	# Retrieve the final svn release number, and adjust compilation
1007	# options accordingly
1008	# If svn not available, will use the svn writen in $MODEL/Readm*md
1009	# For old version it assumes that it is before 4185 (the version
1010	# for which the test was introduced
1011	#---------------------------------------------------------------------
1012
1013	set +e ; mysvn=`svnversion . \| egrep -o "[0-9]+" 2>/dev/null` ; set -e
1014	if [ "$mysvn" = "" ] ; then mysvn=`grep 'Revision: [0-9]' $MODEL/Read*.md \| awk ' { print $2 } ' 2>/dev/null` ; fi
1015	if [ "$mysvn" = "" ] ; then mysvn=4190 ; fi
1016
1017	if [[ "$pclinux" = "1" && ! -f arch/arch-local.path ]] ; then
1018
1019	# create local 'arch' files (if on Linux PC):
1020	cd arch
1021	# arch-local.path file
1022	# test for version as arch.pth file changed format with rev 4426
1023	if [ "$mysvn" -gt 4425 ] ; then
1024	echo "NETCDF_LIBDIR=\"-L${ncdfdir}/lib \"" > arch-local.path
1025	echo "NETCDF_LIB=\"-lnetcdff -lnetcdf\"" >> arch-local.path
1026	echo "NETCDF_INCDIR=-I${ncdfdir}/include" >> arch-local.path
1027	echo 'NETCDF95_INCDIR=-I$LMDGCM/../../include' >> arch-local.path
1028	echo 'NETCDF95_LIBDIR=-L$LMDGCM/../../lib' >> arch-local.path
1029	echo 'NETCDF95_LIB=-lnetcdf95' >> arch-local.path
1030	echo 'IOIPSL_INCDIR=-I$LMDGCM/../../lib' >> arch-local.path
1031	echo 'IOIPSL_LIBDIR=-L$LMDGCM/../../lib' >> arch-local.path
1032	echo 'IOIPSL_LIB=-lioipsl' >> arch-local.path
1033	echo 'XIOS_INCDIR=-I$LMDGCM/../XIOS/inc' >> arch-local.path
1034	echo 'XIOS_LIBDIR=-L$LMDGCM/../XIOS/lib' >> arch-local.path
1035	echo "XIOS_LIB=\"-lxios -lstdc++\"" >> arch-local.path
1036	echo 'ORCH_INCDIR=-I$LMDGCM/../../lib' >> arch-local.path
1037	echo 'ORCH_LIBDIR=-L$LMDGCM/../../lib' >> arch-local.path
1038	else
1039	echo "NETCDF_LIBDIR=\"-L${ncdfdir}/lib -lnetcdff -lnetcdf\"" \
1040	> arch-local.path
1041	echo "NETCDF_INCDIR=-I${ncdfdir}/include" >> arch-local.path
1042	echo 'NETCDF95_INCDIR=$LMDGCM/../../include' >> arch-local.path
1043	echo 'NETCDF95_LIBDIR=$LMDGCM/../../lib' >> arch-local.path
1044	echo 'IOIPSL_INCDIR=$LMDGCM/../../lib' >> arch-local.path
1045	echo 'IOIPSL_LIBDIR=$LMDGCM/../../lib' >> arch-local.path
1046	echo 'XIOS_INCDIR=$LMDGCM/../XIOS/inc' >> arch-local.path
1047	echo 'XIOS_LIBDIR=$LMDGCM/../XIOS/lib' >> arch-local.path
1048	echo 'ORCH_INCDIR=$LMDGCM/../../lib' >> arch-local.path
1049	echo 'ORCH_LIBDIR=$LMDGCM/../../lib' >> arch-local.path
1050	fi
1051
1052	if [ $pcmac == 1 ] ; then
1053	BASE_LD="$BASE_LD -Wl,-rpath,${ncdfdir}/lib"
1054	else
1055	BASE_LD="$BASE_LD -Wl,-rpath=${ncdfdir}/lib"
1056	fi
1057	# Arch-local.fcm file (adapted from arch-linux-32bit.fcm)
1058
1059	if [ $real = r8 ] ; then FPP_DEF=NC_DOUBLE ; else FPP_DEF="" ; fi
1060	sed -e s:"%COMPILER .*.$":"%COMPILER $compiler":1 \
1061	-e s:"%LINK .*.$":"%LINK $compiler":1 \
1062	-e s:"%PROD_FFLAGS .*.$":"%PROD_FFLAGS $OPTIM":1 \
1063	-e s:"%DEV_FFLAGS .*.$":"%DEV_FFLAGS $OPTDEV":1 \
1064	-e s:"%DEBUG_FFLAGS .*.$":"%DEBUG_FFLAGS $OPTDEB":1 \
1065	-e s:"%BASE_FFLAGS .*.$":"%BASE_FFLAGS $OPTPREC":1 \
1066	-e s:"%FPP_DEF .*.$":"%FPP_DEF $FPP_DEF":1 \
1067	-e s:"%BASE_LD .*.$":"%BASE_LD $BASE_LD":1 \
1068	-e s:"%ARFLAGS .*.$":"%ARFLAGS $ARFLAGS":1 \
1069	arch-linux-32bit.fcm > arch-local.fcm
1070
1071	cd ..
1072	### Adapt "bld.cfg" (add the shell):
1073	#whereisthatshell=$(which ${use_shell})
1074	#echo "bld::tool::SHELL $whereisthatshell" >> bld.cfg
1075
1076	fi # of if [ "$pclinux" = 1 ]
1077	#---------------------------------------------------------------------
1078	# Option de compilation du rayonnement : depend de $mysvn ><= r4185
1079	#---------------------------------------------------------------------
1080	opt_rad=""
1081
1082	case $rad in
1083	oldrad) iflag_rrtm=0 ; NSW=2 ; opt_rad="" ;;
1084	rrtm) iflag_rrtm=1 ; NSW=6
1085	if [ $mysvn -le 4185 ] ; then
1086	opt_rad="-rrtm true"
1087	else
1088	opt_rad="-rad rrtm"
1089	fi ;;
1090	ecrad) iflag_rrtm=2 ; NSW=6 ; opt_rad="-rad ecrad" ;;
1091	*) echo Only oldrad rrtm ecrad for rad option ; exit
1092	esac
1093
1094	if [ $mysvn -le 4185 -a $rad = "ecrad" ] ; then
1095	echo "ecrad only available for LMDZ rev starting with 4186 " ; exit
1096	fi
1097
1098	##################################################################
1099
1100
1101	if [[ ! -f libf/misc/netcdf95.F90 && ! -d $MODEL/NetCDF95-0.3 ]]
1102	then
1103	cd $MODEL
1104	myget src_archives/netcdf/NetCDF95-0.3.tar.gz
1105	tar -xf NetCDF95-0.3.tar.gz
1106	rm NetCDF95-0.3.tar.gz
1107	cd NetCDF95-0.3
1108	mkdir build
1109	cd build
1110	cmake .. -DCMAKE_BUILD_TYPE=Release -DCMAKE_PREFIX_PATH=$ncdfdir \
1111	-DCMAKE_INSTALL_PREFIX=$MODEL/modipsl
1112	make install
1113	cd $MODEL/modipsl/modeles/LMDZ*
1114	fi
1115
1116	echo '##################################################################'
1117	echo "Preparing script compile.sh for LMDZ compilation"
1118	echo "It will only be run automatically if bench=1/tuto"
1119	echo Here bench=$bench
1120	echo '##################################################################'
1121
1122	if [ "$env_file" != "" ] ; then
1123	mv arch/arch-${arch}.env arch/arch-${arch}.orig
1124	\cp -f $env_file arch/arch-${arch}.env
1125	fi
1126
1127	if [ $compile_with_fcm = 1 ] ; then
1128	makelmdz="makelmdz_fcm $optim -arch $arch -j 8 "
1129	else
1130	makelmdz="makelmdz $optim -arch $arch"
1131	fi
1132
1133	# sequential compilation
1134	if [ "$sequential" = 1 ] ; then
1135	echo Sequential compilation command, saved in compile.sh:
1136	echo "./$makelmdz $optim $OPT_MAKELMDZ $optim $opt_rad $opt_cosp " \
1137	"-d ${grid_resolution} -v $veget_version gcm "
1138	echo "./$makelmdz $optim $OPT_MAKELMDZ $optim $opt_rad $opt_cosp " \
1139	"-d ${grid_resolution} -v $veget_version gcm " > compile.sh
1140	chmod +x ./compile.sh
1141	if [ $bench = 1 ] ; then
1142	echo install_lmdz.sh start_lmdz_seq_compilation `date`
1143	echo log file: $lmdzlog
1144	./compile.sh > $lmdzlog 2>&1
1145	echo install_lmdz.sh end_lmdz_seq_compilation `date`
1146	fi
1147	fi # fin sequential
1148
1149	# compiling in parallel mode
1150	if [ $parallel != "none" ] ; then
1151	echo '##########################################################'
1152	echo ' Parallel compile '
1153	echo '##########################################################'
1154	echo "(after saving the sequential libs and binaries)"
1155	cd $MODEL/modipsl
1156	tar cf sequential.tar bin/ lib/
1157	#
1158	# Orchidee
1159	#
1160	cd $ORCHPATH
1161	if [ -d src_parallel -a $veget != 'NONE' ] ; then
1162	cd arch
1163	sed \
1164	-e s:"%COMPILER.*.$":"%COMPILER $par_comp":1 \
1165	-e s:"%LINK.*.$":"%LINK $par_comp":1 \
1166	-e s:"%MPI_FFLAG.*.$":"%MPI_FFLAGS $MPI_FLAGS":1 \
1167	-e s:"%OMP_FFLAG.*.$":"%OMP_FFLAGS $OMP_FLAGS":1 \
1168	-e s:"%MPI_LD.*.$":"%MPI_LD $MPI_LD":1 \
1169	-e s:"%OMP_LD.*.$":"%OMP_LD $OMP_LD":1 \
1170	arch-local.fcm > tmp.fcm
1171
1172	mv tmp.fcm arch-local.fcm
1173	cd ../
1174	echo Compiling ORCHIDEE in parallel mode `date`
1175	echo logfile $orchideelog
1176	echo "NOTE : to recompile it when necessary, use ./compile_orc.sh " \
1177	"in modipsl/modeles/ORCHIDEE"
1178	echo ./makeorchidee_fcm -j 8 -clean $xios_orchid $opt_orc \
1179	-parallel $parallel -arch $arch > compile_orc.sh
1180	echo ./makeorchidee_fcm -j 8 $xios_orchid $opt_orc \
1181	-parallel $parallel -arch $arch >> compile_orc.sh
1182	echo echo Now you must also recompile LMDZ, by running ./compile.sh \
1183	in modeles/LMDZ >> compile_orc.sh
1184	chmod u+x compile_orc.sh
1185	./makeorchidee_fcm -j 8 -clean $xios_orchid $opt_orc \
1186	-parallel $parallel -arch $arch > $orchideelog 2>&1
1187	./makeorchidee_fcm -j 8 $xios_orchid $opt_orc -parallel $parallel \
1188	-arch $arch >> $orchideelog 2>&1
1189	echo End of ORCHIDEE compilation in parallel mode `date`
1190	elif [ $veget != 'NONE' ] ; then
1191	echo '##########################################################'
1192	echo ' Orchidee version too old '
1193	echo ' Please update to new version '
1194	echo '##########################################################'
1195	exit
1196	fi # of [ -d src_parallel -a $veget != 'NONE' ]
1197
1198	# LMDZ
1199	cd $LMDZPATH
1200	if [ $arch = local ] ; then
1201	cd arch
1202	sed -e s:"%COMPILER.*.$":"%COMPILER $par_comp":1 \
1203	-e s:"%LINK.*.$":"%LINK $par_comp":1 \
1204	-e s:"%MPI_FFLAG.*.$":"%MPI_FFLAGS $MPI_FLAGS":1 \
1205	-e s:"%OMP_FFLAG.*.$":"%OMP_FFLAGS $OMP_FLAGS":1 \
1206	-e s:"%ARFLAGS.*.$":"%ARFLAGS $ARFLAGS":1 \
1207	-e s@"%BASE_LD.*.$"@"%BASE_LD -Wl,-rpath=${root_mpi}/lib:${ncdfdir}/lib"@1 \
1208	-e s:"%MPI_LD.*.$":"%MPI_LD $MPI_LD":1 \
1209	-e s:"%OMP_LD.*.$":"%OMP_LD $OMP_LD":1 \
1210	arch-local.fcm > tmp.fcm
1211	mv tmp.fcm arch-local.fcm
1212	cd ../
1213	fi
1214	rm -f compile.sh
1215	echo resol=${grid_resolution} >> compile.sh
1216	if [ ${hostname:0:5} = jean- -a "$cosp" = "v2" ] ; then
1217
1218	echo LMDZ compilation command in parallel mode, saved in compile.sh, \
1219	is :
1220	echo "(ATTENTION le probleme de cospv2 sur jean-zay en mode prod " \
1221	"n est pas corrige ! )"
1222	# ATTENTION le probleme de cospv2 sur jean-zay en mode prod n
1223	# est pas corrige
1224	echo ./$makelmdz -dev $optim $OPT_MAKELMDZ $opt_rad $opt_cosp \
1225	$opt_makelmdz_xios -d \$resol -v $veget_version -mem \
1226	-parallel $parallel gcm >> compile.sh
1227	echo ./$makelmdz -dev $optim $OPT_MAKELMDZ $opt_rad $opt_cosp \
1228	$opt_makelmdz_xios -d \$resol -v $veget_version -mem \
1229	-parallel $parallel gcm
1230	else
1231	echo ./$makelmdz $optim $OPT_MAKELMDZ $opt_rad $opt_cosp \
1232	$opt_makelmdz_xios -d \$resol -v $veget_version -mem \
1233	-parallel $parallel gcm >> compile.sh
1234	echo ./$makelmdz $optim $OPT_MAKELMDZ $opt_rad $opt_cosp \
1235	$opt_makelmdz_xios -d \$resol -v $veget_version -mem \
1236	-parallel $parallel gcm
1237	fi
1238	chmod +x ./compile.sh
1239
1240	if [ $bench = 1 ] ; then
1241	echo Compiling LMDZ in parallel mode `date`, LMDZ log file: $lmdzlog
1242	./compile.sh > $lmdzlog 2>&1
1243	fi
1244
1245	fi # of if [ $parallel != "none" ]
1246
1247
1248	##################################################################
1249	# Verification du succes de la compilation
1250	##################################################################
1251
1252	# Recherche de l'executable dont le nom a change au fil du temps ...
1253	# suffix contains radiative option starting with revision 4186
1254	if [ $mysvn -ge 4186 ] ; then suff_exe=_${rad}${suff_exe} ; fi
1255	gcm=""
1256
1257	for exe in gcm.e bin/gcm_${grid_resolution}_phylmd${suff_exe}${suff_orc}.e
1258	do
1259	if [ -f $exe ] ; then gcm=$exe ; fi
1260	done
1261
1262	if [ "$gcm" = "" ] ; then
1263	if [ $bench = 1 ] ; then
1264	echo 'Compilation failed !! Cannot run the benchmark;'
1265	exit
1266	else
1267	echo 'Compilation not done (only done when bench=1)'
1268	fi
1269	else
1270	echo '##########################################################'
1271	echo 'Compilation successfull !! ' `date`
1272	echo '##########################################################'
1273	echo The executable is $gcm
1274	fi
1275
1276	##################################################################
1277	# Below, we run a benchmark if bench=1 or tuto
1278	##################################################################
1279
1280	if [ $bench = tuto ] ; then
1281	myget Training/tutorial.tar ; tar xf tutorial.tar ; cd TUTORIAL
1282	./init.sh
1283
1284	elif [[ $bench = 1 && ! -d BENCH${grid_resolution} ]] ; then
1285	# TOUTE CETTE SECTION DEVRAIT DISPARAITRE POUR UNE COMMANDE
1286	# OU DES BENCHS PAR MOTS CLES COMME tuto
1287
1288	echo '##########################################################'
1289	echo ' Running a test run '
1290	echo '##########################################################'
1291
1292	\rm -rf BENCH${grid_resolution}
1293	bench=bench_lmdz_${grid_resolution}
1294	echo install_lmdz.sh before bench download `date`
1295	#wget http://www.lmd.jussieu.fr/~lmdz/Distrib/$bench.tar.gz
1296	myget 3DBenchs/$bench.tar.gz
1297	echo install_lmdz.sh after bench download `date`
1298	tar xf $bench.tar.gz
1299
1300	if [ "$cosp" = "v1" -o "$cosp" = "v2" ] ; then
1301	cd BENCH${grid_resolution}
1302	# copier les fichiers namelist input et output our COSP
1303	cp ../DefLists/cosp*_input_nl.txt .
1304	cp ../DefLists/cosp*_output_nl.txt .
1305	# Activer la cles ok_cosp pour tourner avec COSP
1306	sed -e 's@ok_cosp=n@ok_cosp=y@' config.def > tmp
1307	\mv -f tmp config.def
1308	cd ..
1309	fi
1310
1311	if [ -n "$physiq" ]; then
1312	cd BENCH${grid_resolution}
1313	if [ -f physiq.def_${physiq} ]; then
1314	cp physiq.def_${physiq} physiq.def
1315	echo using physiq.def_${physiq}
1316	else
1317	echo using standard physiq.def
1318	fi
1319	cd ..
1320	else
1321	echo using standard physiq.def
1322	fi
1323
1324	if [ "$with_xios" = "y" ] ; then
1325	cd BENCH${grid_resolution}
1326	cp ../DefLists/iodef.xml .
1327	cp ../DefLists/context_lmdz.xml .
1328	cp ../DefLists/field_def_lmdz.xml .
1329	# A raffiner par la suite
1330	echo A FAIRE : Copier les *xml en fonction de l option cosp
1331	cp ../DefLists/field_def_cosp*.xml .
1332	cp ../DefLists/file_def_hist*xml .
1333	# adapt iodef.xml to use attached mode
1334	sed -e 's@"using_server" type="bool">true@"using_server" type="bool">false@' \
1335	iodef.xml > tmp
1336	\mv -f tmp iodef.xml
1337
1338	# and convert all the enabled="_AUTO_" (for libIGCM) to enabled=.FALSE.
1339	# except for histday
1340	for histfile in file_def_hist*xml
1341	do
1342	if [ "$histfile" = "file_def_histday_lmdz.xml" ] ; then
1343	sed -e 's@enabled="_AUTO_"@type="one_file" enabled=".TRUE."@' \
1344	$histfile > tmp
1345	\mv -f tmp $histfile
1346	sed -e 's@output_level="_AUTO_"@output_level="5"@' $histfile \
1347	> tmp
1348	\mv -f tmp $histfile
1349	sed -e 's@compression_level="2"@compression_level="0"@' \
1350	$histfile > tmp
1351	\mv -f tmp $histfile
1352	else
1353	sed -e 's@enabled="_AUTO_"@type="one_file" enabled=".FALSE."@' \
1354	$histfile > tmp
1355	\mv -f tmp $histfile
1356	fi
1357	done
1358	# and add option "ok_all_xml=y" in config.def
1359	echo "### XIOS outputs" >> config.def
1360	echo 'ok_all_xml=.true.' >> config.def
1361
1362	#activer les sorties pour Cosp
1363	if [ "$cosp" = "v1" ] ; then
1364	histfile=file_def_histdayCOSP_lmdz.xml
1365	sed -e 's@enabled=".FALSE."@enabled=".TRUE."@' $histfile > tmp
1366	\mv -f tmp $histfile
1367	sed -e 's@output_level="_AUTO_"@output_level="5"@' $histfile > tmp
1368	\mv -f tmp $histfile
1369	sed -e 's@compression_level="2"@compression_level="0"@' \
1370	$histfile > tmp
1371	\mv -f tmp $histfile
1372	fi
1373	if [ "$cosp" = "v2" ] ; then
1374	histfile=file_def_histdayCOSPv2_lmdz.xml
1375	sed -e 's@compression_level="2"@compression_level="0"@' \
1376	$histfile > tmp
1377	\mv -f tmp $histfile
1378	contextfile=context_lmdz.xml
1379	sed -e 's@src="./file_def_histdayCOSP_lmdz.xml"@src="./file_def_histdayCOSPv2_lmdz.xml"@' \
1380	$contextfile > tmp
1381	\mv -f tmp $contextfile
1382	sed -e 's@src="./file_def_histmthCOSP_lmdz.xml"@src="./file_def_histmthCOSPv2_lmdz.xml"@' \
1383	$contextfile > tmp
1384	\mv -f tmp $contextfile
1385	sed -e 's@src="./file_def_histhfCOSP_lmdz.xml"@src="./file_def_histhfCOSPv2_lmdz.xml"@' \
1386	$contextfile > tmp
1387	\mv -f tmp $contextfile
1388	fieldfile=field_def_lmdz.xml
1389	sed -e 's@field_def_cosp1.xml@field_def_cospv2.xml@' $fieldfile \
1390	> tmp
1391	\mv -f tmp $fieldfile
1392	fi
1393
1394	cd ..
1395	fi
1396
1397	# Cas Bensh avec ecrad
1398	if [ "$rad" = "ecrad" ] ; then
1399	cd BENCH${grid_resolution}
1400	cp ../DefLists/namelist_ecrad .
1401	cp -r ../libf/phylmd/ecrad/data .
1402	cd ..
1403	fi
1404
1405	# Adjusting bench physiq.def to radiative code chosen
1406	cd BENCH${grid_resolution}
1407	sed -e 's/iflag_rrtm=.*.$/iflag_rrtm='$iflag_rrtm'/' \
1408	-e 's/NSW=.*.$/NSW='$NSW'/' physiq.def > tmpdef
1409	\mv tmpdef physiq.def
1410	cd ..
1411
1412	cp $gcm BENCH${grid_resolution}/gcm.e
1413
1414	cd BENCH${grid_resolution}
1415	# On cree le fichier bench.sh au besoin
1416	# Dans le cas 48x36x39 le bench.sh existe deja en parallele
1417
1418	if [ "$grid_resolution" = "48x36x39" ] ; then
1419	echo On ne touche pas au bench.sh
1420	# But we have to adapt "run_local.sh" for $mpirun
1421	sed -e "s@mpirun@$mpirun@g" run_local.sh > tmp
1422	mv -f tmp run_local.sh
1423	chmod u=rwx run_local.sh
1424	elif [ "${parallel:0:3}" = "mpi" ] ; then
1425	# Lancement avec deux procs mpi et 2 openMP
1426	echo "export OMP_STACKSIZE=800M" > bench.sh
1427	if [ "${parallel:4:3}" = "omp" ] ; then
1428	echo "export OMP_NUM_THREADS=2" >> bench.sh
1429	fi
1430	if [ "$cosp" = "v1" -o "$cosp" = "v2" ] ; then
1431	if [ ${hostname:0:5} = jean- ] ; then
1432	chmod +x ../arch.env
1433	../arch.env
1434	echo "ulimit -s 2000000" >> bench.sh
1435	else
1436	echo "ulimit -s 200000" >> bench.sh
1437	fi
1438	else
1439	echo "ulimit -s unlimited" >> bench.sh
1440	fi
1441	if [ ${hostname:0:5} = jean- ] ; then
1442	. ../arch/arch-${arch}.env
1443	echo "srun -n 2 -A $idris_acct@cpu gcm.e > listing 2>&1" \
1444	>> bench.sh
1445	else
1446	echo "$mpirun -np 2 gcm.e > listing 2>&1" >> bench.sh
1447	fi
1448	# Add rebuild, using reb.sh if it is there
1449	echo 'if [ -f reb.sh ] ; then' >> bench.sh
1450	echo ' ./reb.sh histday ; ./reb.sh histmth ; ./reb.sh histhf ; ' \
1451	'./reb.sh histins ; ./reb.sh stomate_history ; ' \
1452	'./reb.sh sechiba_history ; ./reb.sh sechiba_out_2 ' >> bench.sh
1453	echo 'fi' >> bench.sh
1454	else
1455	echo "./gcm.e > listing 2>&1" > bench.sh
1456	fi
1457	# Getting orchidee stuff
1458	if [ $veget == 'CMIP6' ] ; then
1459	#echo 'myget 3DBenchs/BENCHorch11.tar.gz'
1460	#myget 3DBenchs/BENCHorch11.tar.gz
1461	#tar xvzf BENCHorch11.tar.gz
1462	echo 'myget 3DBenchs/BENCHCMIP6.tar.gz'
1463	myget 3DBenchs/BENCHCMIP6.tar.gz
1464	tar xvzf BENCHCMIP6.tar.gz
1465	sed -e "s:VEGET=n:VEGET=y:" config.def > tmp
1466	mv -f tmp config.def
1467	if [ "$with_xios" = "y" ] ; then
1468	cp ../../ORCHIDEE/src_xml/context_orchidee.xml .
1469	echo '<context id="orchidee" src="./context_orchidee.xml"/>' \
1470	> add.tmp
1471	cp ../../ORCHIDEE/src_xml/field_def_orchidee.xml .
1472	cp ../../ORCHIDEE/src_xml/file_def_orchidee.xml .
1473	cp ../../ORCHIDEE/src_xml/file_def_input_orchidee.xml .
1474	if [ -f ../../ORCHIDEE/src_xml/context_input_orchidee.xml ] ; then
1475	cp ../../ORCHIDEE/src_xml/context_input_orchidee.xml .
1476	echo '<context id="orchidee" ' \
1477	'src="./context_input_orchidee.xml"/>' >> add.tmp
1478	fi
1479	sed -e '/id="LMDZ"/r add.tmp' iodef.xml > tmp
1480	mv tmp iodef.xml
1481	sed -e'{/sechiba1/ s/enabled="_AUTO_"/type="one_file" enabled=".TRUE."/}' \
1482	file_def_orchidee.xml > tmp
1483	\mv -f tmp file_def_orchidee.xml
1484	sed -e 's@enabled="_AUTO_"@type="one_file" enabled=".FALSE."@' \
1485	file_def_orchidee.xml > tmp
1486	\mv -f tmp file_def_orchidee.xml
1487	sed -e 's@output_level="_AUTO_"@output_level="1"@' \
1488	file_def_orchidee.xml > tmp
1489	\mv -f tmp file_def_orchidee.xml
1490	sed -e 's@output_freq="_AUTO_"@output_freq="1d"@' \
1491	file_def_orchidee.xml > tmp
1492	\mv -f tmp file_def_orchidee.xml
1493	sed -e 's@compression_level="4"@compression_level="0"@' \
1494	file_def_orchidee.xml > tmp
1495	\mv -f tmp file_def_orchidee.xml
1496	sed -e 's@XIOS_ORCHIDEE_OK = n@XIOS_ORCHIDEE_OK = y@' \
1497	orchidee.def > tmp
1498	\mv -f tmp orchidee.def
1499	fi
1500	fi
1501
1502	if [[ -f ../arch.env ]]
1503	then
1504	source ../arch.env
1505	fi
1506
1507	echo EXECUTION DU BENCH
1508	set +e
1509	date ; ./bench.sh > out.bench 2>&1 ; date
1510	set -e
1511	tail listing
1512
1513
1514	echo '##########################################################'
1515	echo 'Simulation finished in' `pwd`
1516	echo 'You have compiled with:'
1517	cat ../compile.sh
1518	if [ $parallel = "none" ] ; then
1519	echo 'You may re-run it with : cd ' `pwd` ' ; gcm.e'
1520	echo 'or ./bench.sh'
1521	else
1522	echo 'You may re-run it with : '
1523	echo 'cd ' `pwd` '; ./bench.sh'
1524	# echo 'ulimit -s unlimited'
1525	# echo 'export OMP_NUM_THREADS=2'
1526	# echo 'export OMP_STACKSIZE=800M'
1527	# echo "$mpirun -np 2 gcm.e "
1528	fi
1529	echo '##########################################################'
1530
1531	fi # bench
1532
1533
1534	#################################################################
1535	# Installation eventuelle du 1D
1536	#################################################################
1537
1538	if [ $SCM = 1 ] ; then
1539	cd $MODEL
1540	myget 1D/1D.tar.gz
1541	tar xf 1D.tar.gz
1542	cd 1D
1543	if [ $rad = oldrad ] ; then
1544	sed -i'' -e 's/^rad=.*$/rad=oldrad/' run.sh
1545	sed -i'' -e 's/^rad=.*$/rad=oldrad/' bin/compile
1546	fi
1547	echo Running 1D/run.sh, log in `pwd`/run1d.log
1548	./run.sh > `pwd`/run1d.log 2>&1
1549	fi
1550
1551
1552	#################################################################
1553	# sauvegarde des options veget pour utilisation eventuelle tutorial_prod
1554	#################################################################
1555	cd $MODEL/modipsl/modeles
1556	#echo surface_env file created in $MODEL
1557	echo 'veget='$veget > surface_env
1558	#opt_veget="-v $veget_version"
1559	#echo 'opt_veget="'$opt_veget\" >> surface_env
1560	echo 'opt_veget="'-v $veget_version\" >> surface_env
1561	echo 'orchidee_rev='$orchidee_rev >> surface_env
1562	echo 'suforch='$suff_orc >> surface_env

Note: See TracBrowser for help on using the repository browser.

Download in other formats: