Mercurial > repos > siwaa > redelac_stics_g

annotate redelacSticsInputGenerator.bash @ 5:4f8d87b9c246 draft

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"planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
author siwaa
date Tue, 04 Jul 2023 16:37:44 +0000
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children fb6f7d60508d
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4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
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1 cp -r /home/rstudio/JavaSTICS-1.5.1-STICS-10.0.0/JavaSTICS-1.5.1-STICS-10.0.0 . &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
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2 rm -rf JavaSTICS-1.5.1-STICS-10.0.0/config &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
parents:
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3 cp -r $1/config JavaSTICS-1.5.1-STICS-10.0.0 &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
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4 unzip $2 -d TMP &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
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5 export WSname=$(ls TMP) &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
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6 mv TMP/* JavaSTICS-1.5.1-STICS-10.0.0/WS &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
parents:
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7 cp JavaSTICS-1.5.1-STICS-10.0.0/config/param_gen.xml JavaSTICS-1.5.1-STICS-10.0.0/WS &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
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8 cp JavaSTICS-1.5.1-STICS-10.0.0/config/param_newform.xml JavaSTICS-1.5.1-STICS-10.0.0/WS &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
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9 unzip $3 -d TMPbis &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
parents:
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10 mv TMPbis/*/* JavaSTICS-1.5.1-STICS-10.0.0/WS &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
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11 cp $4 JavaSTICS-1.5.1-STICS-10.0.0/WS/USMs.csv &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
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12 cp $5 JavaSTICS-1.5.1-STICS-10.0.0/WS/Tec.csv &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
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13 cp $6 JavaSTICS-1.5.1-STICS-10.0.0/WS/Ini.csv &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
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14 cp $7 JavaSTICS-1.5.1-STICS-10.0.0/WS/Station.csv &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
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15 cd JavaSTICS-1.5.1-STICS-10.0.0 &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
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16 Rscript --verbose $1/redelacSticsInputGenerator.R &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
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17 rm WS/1* &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
parents:
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18 mv WS $WSname &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
parents:
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19 zip -r $WSname $WSname &&
4f8d87b9c246 "planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
siwaa
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20 cp $WSname.zip $8