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"planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 2d336eae127279c9c61fc66d73da5d356ac95286"
author siwaa
date Tue, 03 Jan 2023 16:07:49 +0000
parents 6a77442a3598
children
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f1070dc2446c "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 79ec610c8fada89b587b48d008738ec75770d40a"
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1 echo "Stics4CarSolEl Job starting:"
f1070dc2446c "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 79ec610c8fada89b587b48d008738ec75770d40a"
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2 date;
f1070dc2446c "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 79ec610c8fada89b587b48d008738ec75770d40a"
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f1070dc2446c "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 79ec610c8fada89b587b48d008738ec75770d40a"
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4 n_slots=${1};
f1070dc2446c "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 79ec610c8fada89b587b48d008738ec75770d40a"
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5 csv_plan=${2};
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5e581bfc5341 "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit c44e3ffa39b80279cb3226522f2b4f95f737e061"
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6 meteo_archive=${4};
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6a77442a3598 "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 7298c614ca40b1e5bffb2a0bc6a6ea8b16b7fc37"
siwaa
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7 station_archive=${5};
6a77442a3598 "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 7298c614ca40b1e5bffb2a0bc6a6ea8b16b7fc37"
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8 sol_archive=${6};
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f1070dc2446c "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 79ec610c8fada89b587b48d008738ec75770d40a"
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9 sim_number=$(($(cat ${csv_plan} | wc -l) - 1));
f1070dc2446c "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 79ec610c8fada89b587b48d008738ec75770d40a"
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f1070dc2446c "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 79ec610c8fada89b587b48d008738ec75770d40a"
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11 b_size=1
f1070dc2446c "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 79ec610c8fada89b587b48d008738ec75770d40a"
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f1070dc2446c "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 79ec610c8fada89b587b48d008738ec75770d40a"
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13 echo "number of GALAXY_SLOTS: ${1}"
f1070dc2446c "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 79ec610c8fada89b587b48d008738ec75770d40a"
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f1070dc2446c "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 79ec610c8fada89b587b48d008738ec75770d40a"
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15 echo "expected simulations: ${sim_number}"
f1070dc2446c "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 79ec610c8fada89b587b48d008738ec75770d40a"
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16 echo "cvle block size : ${b_size}"
f1070dc2446c "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 79ec610c8fada89b587b48d008738ec75770d40a"
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5e581bfc5341 "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit c44e3ffa39b80279cb3226522f2b4f95f737e061"
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18 if [ "$OMPI_COMM_WORLD_RANK" == "0" ]; then
5e581bfc5341 "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit c44e3ffa39b80279cb3226522f2b4f95f737e061"
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5e581bfc5341 "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit c44e3ffa39b80279cb3226522f2b4f95f737e061"
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20 cp -r /data/vle-2001/pkgs/CarSolEl_data/data .
5e581bfc5341 "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit c44e3ffa39b80279cb3226522f2b4f95f737e061"
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21 rm -rf data/meteo
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6a77442a3598 "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 7298c614ca40b1e5bffb2a0bc6a6ea8b16b7fc37"
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22 rm -rf data/station
6a77442a3598 "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 7298c614ca40b1e5bffb2a0bc6a6ea8b16b7fc37"
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23 rm -rf data/sol
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5e581bfc5341 "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit c44e3ffa39b80279cb3226522f2b4f95f737e061"
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24 cd data
5e581bfc5341 "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit c44e3ffa39b80279cb3226522f2b4f95f737e061"
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25 unzip ${meteo_archive}
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6a77442a3598 "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 7298c614ca40b1e5bffb2a0bc6a6ea8b16b7fc37"
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26 unzip ${station_archive}
6a77442a3598 "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 7298c614ca40b1e5bffb2a0bc6a6ea8b16b7fc37"
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27 unzip ${sol_archive}
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5e581bfc5341 "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit c44e3ffa39b80279cb3226522f2b4f95f737e061"
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28 cd ..
5e581bfc5341 "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit c44e3ffa39b80279cb3226522f2b4f95f737e061"
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29 fi
5e581bfc5341 "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit c44e3ffa39b80279cb3226522f2b4f95f737e061"
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ad767c79a776 "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 2d336eae127279c9c61fc66d73da5d356ac95286"
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31 cvle -b $b_size -i ${2} -w work -P Stics4AgFlow -P CarSolEl_sim siwaaCarSolEl.vpz
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f1070dc2446c "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 79ec610c8fada89b587b48d008738ec75770d40a"
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bf2d7f74d5ba "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 8e31109ca8b9104e8f66b9bf56c08cd0bfc1136f"
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33 if [ "$OMPI_COMM_WORLD_RANK" == "0" ]; then
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f1070dc2446c "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 79ec610c8fada89b587b48d008738ec75770d40a"
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bf2d7f74d5ba "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 8e31109ca8b9104e8f66b9bf56c08cd0bfc1136f"
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35 ls work_*/*_byUsm.txt | \
bf2d7f74d5ba "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 8e31109ca8b9104e8f66b9bf56c08cd0bfc1136f"
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36 xargs -t -i tail -n +2 {} | \
bf2d7f74d5ba "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 8e31109ca8b9104e8f66b9bf56c08cd0bfc1136f"
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37 sort -n -k 1 -t ';' > resWithoutHeader.csv
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ad767c79a776 "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 2d336eae127279c9c61fc66d73da5d356ac95286"
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39 head -1 work_0/*_byUsm.txt > header.cvs
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bf2d7f74d5ba "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 8e31109ca8b9104e8f66b9bf56c08cd0bfc1136f"
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bf2d7f74d5ba "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 8e31109ca8b9104e8f66b9bf56c08cd0bfc1136f"
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41 cat header.cvs resWithoutHeader.csv > res.csv
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bf2d7f74d5ba "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 8e31109ca8b9104e8f66b9bf56c08cd0bfc1136f"
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43 mv res.csv ${3}
bf2d7f74d5ba "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 8e31109ca8b9104e8f66b9bf56c08cd0bfc1136f"
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bf2d7f74d5ba "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 8e31109ca8b9104e8f66b9bf56c08cd0bfc1136f"
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45 fi
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f1070dc2446c "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 79ec610c8fada89b587b48d008738ec75770d40a"
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47 echo "Stics4AgGlob Job ending:"
f1070dc2446c "planemo upload for repository https://forgemia.inra.fr/record/carsolel/-/tree/master/tools commit 79ec610c8fada89b587b48d008738ec75770d40a"
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48 date;