Changeset 4997


Ignore:
Timestamp:
Jun 27, 2024, 11:43:01 AM (6 months ago)
Author:
abarral
Message:

add <jobcm> arg
fix lmdz version variable when specifying svn rev
fix default orcbranch

File:
1 edited

Legend:

Unmodified
Added
Removed

  • BOL/script_install_amaury/install_lmdz.sh

    r4994 r4997  
    9595    arch="local-gfortran"
    9696    arch_dir=""
     97
     98    jobcmd=""
    9799}
    98100
    … …  
    148150
    149151        -make_j     number of processes to parallelize installations (default <$make_j>)
     152
     153        -jobcmd     command prepended to fcm compile jobs, e.g. "srun" (default <$jobcmd>)
    150154
    151155        -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)
    … …  
    187191            "-inlandsis") inlandsis=1; shift;;
    188192            "-make_j") make_j=$2; shift; shift;;
     193            "-jobcmd") jobcmd=$2; shift; shift;;
    189194            "-noclean") clean_install=0; shift;;
    190195            *)  bash install_lmdz.sh -h; exit 1
    … …  
    319324        getlog="$(pwd)/get.log"
    320325        echo "logfile : $getlog"
    321         myget "src_archives/$trusting/modipsl.$version.tar.gz" >> get.log 2>&1
     326        myget "src_archives/$trusting/modipsl.$version.tar.gz" &>> get.log
    322327        echo "install_lmdz.sh wget_OK $(date)"
    323         gunzip "modipsl.$version.tar.gz" >> get.log 2>&1
    324         tar xf "modipsl.$version.tar" >> get.log 2>&1
     328        gunzip "modipsl.$version.tar.gz" &>> get.log
     329        tar xf "modipsl.$version.tar" &>> get.log
    325330        \rm "modipsl.$version.tar"
    326331    fi
    … …  
    447452            echo "----------------------------------------------------------"
    448453            echo "log file : $netcdflog"
    449             myget script_install/$script_install_netcdf >> "$netcdflog" 2>&1
     454            myget script_install/$script_install_netcdf &>> "$netcdflog"
    450455            chmod u=rwx $script_install_netcdf
    451456            # shellcheck disable=SC2086
    452             ./$script_install_netcdf -prefix "$ncdfdir" $opt_ >> "$netcdflog" 2>&1
     457            ./$script_install_netcdf -prefix "$ncdfdir" $opt_ &>> "$netcdflog"
    453458        fi
    454459
    … …  
    506511    echo "Compiling IOIPSL, the interface library with Netcdf $(date) (log: $ioipsllog)"
    507512
    508     if ! ./makeioipsl_fcm -arch "$arch" -job 8 > "$ioipsllog" 2>&1; then
    509         echo "IOIPSL compile failed, exiting"; exit 1
     513    echo "$jobcmd ./makeioipsl_fcm -j $make_j -arch $arch" > compile.sh
     514    chmod +x compile.sh
     515    echo "Compiling IOIPSL using $(\cat compile.sh)"
     516    if ! ./compile.sh &> "$ioipsllog"; then
     517        echo "STOP: IOIPSL compile failed, exiting"; exit 1
    510518    fi
    511519
    … …  
    536544
    537545        echo "Starting XIOS compilation"
    538         if ! ./make_xios --arch "$arch" --job 8 > "$xioslog" 2>&1; then
    539             echo "XIOS compilation failed, exiting"; exit 1
     546        if ! ./make_xios --arch "$arch" --job 8 &> "$xioslog"; then
     547            echo "STOP: XIOS compilation failed, exiting"; exit 1
    540548        fi
    541549
    … …  
    550558        "none") fcm_veget_version="false";;
    551559        "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
    552         "orch2.2") fcm_veget_version=orchidee2.1; orcbranch="ORCHIDEE_2_2" ;; # the bundled version
     560        "orch2.2") fcm_veget_version=orchidee2.1; orcbranch="/branches/ORCHIDEE_2_2/ORCHIDEE" ;; # the bundled version
    553561        *) fetch_rev=$veget; fcm_veget_version=orchidee2.1;;  # /!\ arbitary rev only works for orch>=2.1
    554562    esac
    … …  
    597605        fi
    598606
    599         if [[ $parallel = "none" ]]; then
    600             echo "./makeorchidee_fcm $xios_orchid $opt_orc -parallel none -arch $arch -j $make_j" > compile.sh
    601         else
    602             if [[ ! -d src_parallel ]]; then
    603                echo "Orchidee version too old for parallel support"; exit 1
    604             fi
    605             {
    606                 echo "./makeorchidee_fcm -j $make_j $xios_orchid $opt_orc -parallel $parallel -arch $arch"
    607             } > compile.sh
    608         fi
     607        if [[ $parallel != "none" && ! -d src_parallel ]]; then
     608           echo "STOP: Orchidee version too old for parallel support"; exit 1
     609        fi
     610        echo "$jobcmd ./makeorchidee_fcm -j $make_j $xios_orchid $opt_orc -parallel $parallel -arch $arch" > compile.sh
    609611        chmod +x compile.sh
    610612        echo "Compiling ORCHIDEE using $(\cat compile.sh)"
    611         if ! ./compile.sh > "$orchideelog" 2>&1; then
    612             echo "ORCHIDEE compilation failed, exiting"; exit 1
     613        if ! ./compile.sh &> "$orchideelog"; then
     614            echo "STOP: ORCHIDEE compilation failed, exiting"; exit 1
    613615        fi
    614616        echo "Compiled ORCHIDEE $(date)"
    … …  
    622624
    623625    if [[ -n $svn_lmdz ]]; then
    624       local curr_rev
    625       curr_rev=$(svn info "$MODEL/modipsl/modeles/LMD"* | grep Revision: | cut -d ":" -f 2)
    626       if [[ $svn_lmdz != "$curr_rev" ]]; then
    627           local lmdzbranch
    628           echo "Fetching LMDZ $svn_lmdz from the repository"
    629           lmdzbranch=$(svn log -v -q https://svn.lmd.jussieu.fr/LMDZ -r "$svn_lmdz" | grep LMDZ | head -1 | sed -e 's:trunk/.*$:trunk:' | awk '{print $2}')
    630           cd "$MODEL/modipsl/modeles"
    631           rm -rf LMD*
    632           svn co -r "$svn_lmdz" "https://svn.lmd.jussieu.fr/LMDZ$lmdzbranch" LMDZ
    633           cd - > /dev/null
    634       fi
     626        local curr_rev
     627        curr_rev=$(svn info "$MODEL/modipsl/modeles/LMD"* | grep Revision: | cut -d ":" -f 2)
     628        if [[ $svn_lmdz != "$curr_rev" ]]; then
     629            local lmdzbranch
     630            echo "Fetching LMDZ $svn_lmdz from the repository"
     631            lmdzbranch=$(svn log -v -q https://svn.lmd.jussieu.fr/LMDZ -r "$svn_lmdz" | grep LMDZ | head -1 | sed -e 's:trunk/.*$:trunk:' | awk '{print $2}')
     632            cd "$MODEL/modipsl/modeles"
     633            rm -rf LMD*
     634            svn co -r "$svn_lmdz" "https://svn.lmd.jussieu.fr/LMDZ$lmdzbranch" LMDZ
     635            cd - > /dev/null
     636        fi
     637        used_lmdz_rev=$svn_lmdz
    635638    else  # get svn from info
    636          set +e; used_lmdz_rev=$(svn info | grep "Last Changed Rev" | cut -c 19-); set -e
    637          if [[ -z $used_lmdz_rev ]]; then  # svn info failed
     639        set +e; used_lmdz_rev=$(svn info | grep "Last Changed Rev" | cut -c 19-); set -e
     640        if [[ -z $used_lmdz_rev ]]; then  # svn info failed
    638641            used_lmdz_rev=$(grep 'Revision: [0-9]' "$MODEL"/Read*.md | awk ' { print $2 } ' 2>/dev/null)
    639642            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
    640          fi
     643        fi
    641644    fi
    642645}
    … …  
    671674    makelmdz="makelmdz_fcm $optim_debug -arch $arch -j $make_j"
    672675    local para_compile_opt="-mem -parallel $parallel"; if [[ $parallel = "none" ]]; then para_compile_opt=""; fi
    673     echo "./$makelmdz $opt_rad $opt_cosp $opt_makelmdz_xios $opt_aer $opt_inlandsis $opt_isotopes -p $compphysiq -d ${grid_resolution} -v $fcm_veget_version $para_compile_opt gcm" > compile.sh
     676    echo "$jobcmd ./$makelmdz $opt_rad $opt_cosp $opt_makelmdz_xios $opt_aer $opt_inlandsis $opt_isotopes -p $compphysiq -d ${grid_resolution} -v $fcm_veget_version $para_compile_opt gcm" > compile.sh
    674677    echo "Compiling lmdz using $(\cat compile.sh) (log: $lmdzlog) $(date)"
    675678    chmod +x ./compile.sh
    676     if ! ./compile.sh > "$lmdzlog" 2>&1; then
    677         echo "LMDZ compilation failed, exiting"; exit 1
     679    if ! ./compile.sh &> "$lmdzlog"; then
     680        echo "STOP: LMDZ compilation failed, exiting"; exit 1
    678681    fi
    679682    echo "Finished LMDZ compilation $(date)"
    … …  
    681684    # Check executable
    682685    if [[ ! -f $exe_name ]]; then
    683         echo "Compilation failed, can't find the executable"; exit 1
     686        echo "STOP: Compilation failed, can't find the executable"; exit 1
    684687    else
    685688        echo "Compilation successfull, the executable is $exe_name $(date)"
    … …  
    809812                echo "ulimit -s unlimited" >> bench.sh
    810813            fi
    811             if which mpirun > /dev/null 2>&1; then
    812                 echo "mpirun -np 2 gcm.e > listing 2>&1" >> bench.sh
     814            if which mpirun &> /dev/null; then
     815                echo "mpirun -np 2 gcm.e &> listing" >> bench.sh
    813816            elif grep -q "Adastra" /etc/motd; then
    814817                local account
    815818                account=$(/usr/sbin/my_project.py -l 2>&1 | head -1 | cut -d " " -f 3- | cut -c 5-)
    816819                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"
    817                 echo "./gcm.e > listing 2>&1" >> bench.sh
     820                echo "./gcm.e &> listing" >> bench.sh
    818821            else
    819822                echo "Error: No command found to run parallel bench"; exit 1
    … …  
    831834EOF
    832835        else
    833             echo "./gcm.e > listing 2>&1" > bench.sh
     836            echo "./gcm.e &> listing" > bench.sh
    834837        fi
    835838        # Getting orchidee stuff
    … …  
    877880        echo "EXECUTION DU BENCH"
    878881        date
    879         if (! $bench_cmd > out.bench 2>&1) || ! (tail -n 1 listing | grep "Everything is cool"); then
     882        if (! $bench_cmd &> out.bench) || ! (tail -n 1 listing | grep "Everything is cool"); then
    880883            tail listing
    881884            echo "Bench FAILED, exiting"; exit 1
    … …  
    899902                    fi
    900903        echo "Running 1D/run.sh, log in $(pwd)/run1d.log"
    901         ./run.sh > "$(pwd)/run1d.log" 2>&1
     904        ./run.sh &> "$(pwd)/run1d.log"
    902905    fi
    903906}
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