Mercurial > repos > siwaa > redelac_stics_g

comparison redelacSticsInputGenerator.bash @ 10:f707c2fb725b draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://forgemia.inra.fr/redelac commit af2d1fcb63a2ae897e02f11e82cc76c4f6e8ca5e"
author siwaa
date Mon, 02 Oct 2023 13:49:57 +0000
parents 2a6d7d053ba7
children 3db1f57029a7
comparison
equal deleted inserted replaced
9:2a6d7d053ba7 10:f707c2fb725b
4 unzip -q $5 -d TMP && 4 unzip -q $5 -d TMP &&
5 export WSname=$(ls TMP) && 5 export WSname=$(ls TMP) &&
6 mv TMP/* JavaSTICS-1.5.1-STICS-10.0.0/WS && 6 mv TMP/* JavaSTICS-1.5.1-STICS-10.0.0/WS &&
7 cp JavaSTICS-1.5.1-STICS-10.0.0/config/param_gen.xml JavaSTICS-1.5.1-STICS-10.0.0/WS && 7 cp JavaSTICS-1.5.1-STICS-10.0.0/config/param_gen.xml JavaSTICS-1.5.1-STICS-10.0.0/WS &&
8 cp JavaSTICS-1.5.1-STICS-10.0.0/config/param_newform.xml JavaSTICS-1.5.1-STICS-10.0.0/WS && 8 cp JavaSTICS-1.5.1-STICS-10.0.0/config/param_newform.xml JavaSTICS-1.5.1-STICS-10.0.0/WS &&
9 unzip -q $6 -d TMPbis && 9 /usr/bin/time -p -o ./bashlog unzip -q $6 -d TMPbis &&
10 echo "Step 0, time to unzip the Workspace:" &&
11 echo "====================================" &&
12 cat ./bashlog &&
13 echo "====================================" &&
10 mv TMPbis/*/* JavaSTICS-1.5.1-STICS-10.0.0/WS && 14 mv TMPbis/*/* JavaSTICS-1.5.1-STICS-10.0.0/WS &&
11 cp $7 JavaSTICS-1.5.1-STICS-10.0.0/WS/USMs.csv && 15 cp $7 JavaSTICS-1.5.1-STICS-10.0.0/WS/USMs.csv &&
12 cp $8 JavaSTICS-1.5.1-STICS-10.0.0/WS/Tec.csv && 16 cp $8 JavaSTICS-1.5.1-STICS-10.0.0/WS/Tec.csv &&
13 cp $9 JavaSTICS-1.5.1-STICS-10.0.0/WS/Ini.csv && 17 cp $9 JavaSTICS-1.5.1-STICS-10.0.0/WS/Ini.csv &&
14 cp ${10} JavaSTICS-1.5.1-STICS-10.0.0/WS/Station.csv && 18 cp ${10} JavaSTICS-1.5.1-STICS-10.0.0/WS/Station.csv &&
15 cd JavaSTICS-1.5.1-STICS-10.0.0 && 19 cd JavaSTICS-1.5.1-STICS-10.0.0 &&
16 Rscript --verbose $4/redelacSticsInputGenerator.R $1 $2 $3 && 20 if [[ "$11" != "noAdditionalPlantOrConfig" ]]
21 then
22 unzip -o ${10}
23 fi
24 /usr/bin/time -p -o ./bashlog Rscript --verbose $4/redelacSticsInputGenerator.R $1 $2 $3 &&
25 echo "Step 1, time to run the R script:" &&
26 echo "=================================" &&
27 cat ./bashlog &&
28 echo "=================================" &&
17 rm WS/1* && 29 rm WS/1* &&
18 mv WS $WSname && 30 mv WS $WSname &&
19 zip -q -r $WSname $WSname && 31 /usr/bin/time -p -o ./bashlog zip -q -r $WSname $WSname &&
20 cp $WSname.zip ${11} 32 echo "Step 2, time to zip the Workspace:" &&
33 echo "==================================" &&
34 cat ./bashlog &&
35 echo "==================================" &&
36 cp $WSname.zip ${12}